PaperBLAST – Find papers about a protein or its homologs

 

PaperBLAST

PaperBLAST Hits for BRENDA::Q8RG11 D-lactate dehydrogenase (EC 1.1.1.28) (Fusobacterium nucleatum subsp. nucleatum) (335 a.a., MQKTKIIFFD...)

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Predict transmenbrane helices: Phobius

Predict protein localization: PSORTb

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Found 250 similar proteins in the literature:

Q8RG11 D-lactate dehydrogenase (EC 1.1.1.28) from Fusobacterium nucleatum subsp. nucleatum (see 2 papers)
FN0511 D-lactate dehydrogenase from Fusobacterium nucleatum subsp. nucleatum ATCC 25586
100% identity, 100% coverage

5z21B / Q8RG11 The ternary structure of d-lactate dehydrogenase from fusobacterium nucleatum with nadh and oxamate (see paper)
100% identity, 99% coverage

BF638R_1473 2-hydroxyacid dehydrogenase from Bacteroides fragilis 638R
58% identity, 97% coverage

BT1575 putative dehydrogenase from Bacteroides thetaiotaomicron VPI-5482
BT_1575, BT_RS07965 2-hydroxyacid dehydrogenase from Bacteroides thetaiotaomicron VPI-5482
57% identity, 98% coverage

BVU_2499 2-hydroxyacid dehydrogenase from Phocaeicola vulgatus ATCC 8482
BVU_2499 putative dehydrogenase from Bacteroides vulgatus ATCC 8482
59% identity, 98% coverage

5z20F / Q9I530 The ternary structure of d-lactate dehydrogenase from pseudomonas aeruginosa with nadh and oxamate (see paper)
48% identity, 97% coverage

Q9I530 D-lactate dehydrogenase (EC 1.1.1.28) from Pseudomonas aeruginosa (see 2 papers)
PA14_52270 D-lactate dehydrogenase (fermentative) from Pseudomonas aeruginosa UCBPP-PA14
PA0927 D-lactate dehydrogenase (fermentative) from Pseudomonas aeruginosa PAO1
48% identity, 96% coverage

YPO2329 D-lactate dehydrogenase from Yersinia pestis CO92
YPTB2248 D-lactate dehydrogenase from Yersinia pseudotuberculosis IP 32953
49% identity, 97% coverage

alr0058 D-lactate dehydrogenase from Nostoc sp. PCC 7120
50% identity, 96% coverage

NMB1685 D-lactate dehydrogenase from Neisseria meningitidis MC58
52% identity, 94% coverage

swp_4333 D-lactate dehydrogenase from Shewanella piezotolerans WP3
48% identity, 98% coverage

NGO1336 putative dehydrogenase, lactate from Neisseria gonorrhoeae FA 1090
52% identity, 94% coverage

C645_RS00700, WP_005672300 2-hydroxyacid dehydrogenase from Haemophilus influenzae
50% identity, 98% coverage

ETAE_1771 D-lactate dehydrogenase from Edwardsiella tarda EIB202
47% identity, 89% coverage

BP1026B_I0581 2-hydroxyacid dehydrogenase from Burkholderia pseudomallei 1026b
47% identity, 96% coverage

Q8EI78 D-lactate dehydrogenase (EC 1.1.1.28) from Shewanella oneidensis (see paper)
SO_0968, WP_011071244 lactate dehydrogenase LdhA from Shewanella oneidensis MR-1
SO0968 D-lactate dehydrogenase from Shewanella oneidensis MR-1
49% identity, 98% coverage

THTE_3348 2-hydroxyacid dehydrogenase from Thermogutta terrifontis
50% identity, 95% coverage

BCAL3179 probable D-lactate dehydrogenase from Burkholderia cenocepacia J2315
48% identity, 96% coverage

PP1649, PP_1649 D-lactate dehydrogenase from Pseudomonas putida KT2440
46% identity, 94% coverage

WP_049588155 2-hydroxyacid dehydrogenase from Pseudomonas putida KT2440
46% identity, 96% coverage

Thicy_1457 2-hydroxyacid dehydrogenase from Thiomicrospira cyclica ALM1
50% identity, 98% coverage

L21SP2_2897 2-hydroxyacid dehydrogenase from Salinispira pacifica
50% identity, 99% coverage

HtpH / b1380 D-lactate dehydrogenase (EC 1.1.1.28) from Escherichia coli K-12 substr. MG1655 (see 4 papers)
ldhA / P52643 D-lactate dehydrogenase (EC 1.1.1.28) from Escherichia coli (strain K12) (see 22 papers)
ldhA D-lactate dehydrogenase; EC 1.1.1.28 from Escherichia coli K12 (see 7 papers)
P52643 D-lactate dehydrogenase from Escherichia coli (strain K12)
NP_415898 D-lactate dehydrogenase from Escherichia coli str. K-12 substr. MG1655
b1380 D-lactate dehydrogenase from Escherichia coli str. K-12 substr. MG1655
47% identity, 98% coverage

A0A140N893 D-lactate dehydrogenase (EC 1.1.1.28) from Escherichia coli (see 2 papers)
ECs2002 fermentative D-lactate dehydrogenase from Escherichia coli O157:H7 str. Sakai
UTI89_C1623 fermentative D-lactate dehydrogenase, NAD-dependent from Escherichia coli UTI89
Z2329 fermentative D-lactate dehydrogenase, NAD-dependent from Escherichia coli O157:H7 EDL933
ECD_01352 D-lactate dehydrogenase from Escherichia coli BL21(DE3)
47% identity, 98% coverage

SYNPCC7002_G0164 fermentative lactate dehydrogenase from Synechococcus sp. PCC 7002
48% identity, 98% coverage

M634_18815 2-hydroxyacid dehydrogenase from Vibrio parahaemolyticus O1:Kuk str. FDA_R31
47% identity, 97% coverage

C9I78_22190 2-hydroxyacid dehydrogenase from Vibrio parahaemolyticus
47% identity, 97% coverage

4cukA / Q8Z780 Structure of salmonella d-lactate dehydrogenase in complex with nadh
46% identity, 98% coverage

slr1556 2-hydroxyaciddehydrogenase from Synechocystis sp. PCC 6803
48% identity, 98% coverage

SPA1239 D-lactate dehydrogenase from Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
46% identity, 98% coverage

VPA0144 D-lactate dehydrogenase from Vibrio parahaemolyticus RIMD 2210633
47% identity, 97% coverage

CLNEO_28010 2-hydroxyacid dehydrogenase from Anaerotignum neopropionicum
50% identity, 98% coverage

VCA0192 D-lactate dehydrogenase from Vibrio cholerae O1 biovar eltor str. N16961
46% identity, 98% coverage

PN96_16785 2-hydroxyacid dehydrogenase from Vibrio natriegens NBRC 15636 = ATCC 14048 = DSM 759
45% identity, 97% coverage

PHYSODRAFT_503916 hypothetical protein from Phytophthora sojae
48% identity, 98% coverage

SPAC186.07c hydroxyacid dehydrogenase (predicted) from Schizosaccharomyces pombe
46% identity, 95% coverage

ZMO_RS05565 2-hydroxyacid dehydrogenase from Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821
ZMO1237 D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding protein from Zymomonas mobilis subsp. mobilis ZM4
46% identity, 96% coverage

MAC_03964 putative dehydrogenase tr07 from Metarhizium acridum
47% identity, 92% coverage

tlr0711 D-lactate dehydrogenase from Thermosynechococcus elongatus BP-1
45% identity, 98% coverage

H16_A1681 D-Lactate dehydrogenase from Ralstonia eutropha H16
H16_A1682 D-Lactate dehydrogenase from Ralstonia eutropha H16
H16_A1681, H16_A1682 2-hydroxyacid dehydrogenase from Cupriavidus necator H16
44% identity, 98% coverage

SPAC186.02c hydroxyacid dehydrogenase (predicted) from Schizosaccharomyces pombe
45% identity, 95% coverage

8grvA / Q54UF7 Dictyostelium discoideum lactate dehydrogenase (dicldha)with NAD
45% identity, 94% coverage

4zgsA / B0LUZ5 Identification of the pyruvate reductase of chlamydomonas reinhardtii (see paper)
45% identity, 95% coverage

J9VFV7 D-lactate dehydrogenase from Cryptococcus neoformans var. grubii serotype A (strain H99 / ATCC 208821 / CBS 10515 / FGSC 9487)
CNAG_00832 D-lactate dehydrogenase from Cryptococcus neoformans var. grubii H99
44% identity, 93% coverage

KK1H_CURCL / A0A348AXY0 D-lactate dehydrogenase kk1H; KK-1 biosynthesis cluster protein H; EC 1.1.1.- from Curvularia clavata (see 2 papers)
43% identity, 95% coverage

A1D163 D-lactate dehydrogenase, putative from Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / CBS 544.65 / FGSC A1164 / JCM 1740 / NRRL 181 / WB 181)
44% identity, 94% coverage

SCO2118 D-lactate dehydrogenase from Streptomyces coelicolor A3(2)
43% identity, 96% coverage

HADHA_ASPOR / Q2UH56 2-hydroxyacid dehydrogenase A; 2-HadhA; EC 1.1.1.272 from Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold) (see paper)
AO090023000577 No description from Aspergillus oryzae RIB40
43% identity, 94% coverage

SSIG_RS25800 2-hydroxyacid dehydrogenase from Streptomyces filamentosus NRRL 11379
41% identity, 96% coverage

F8A9V0 D-lactate dehydrogenase (EC 1.1.1.28) from Thermodesulfatator indicus (see paper)
42% identity, 95% coverage

fldH / G9EZR6 aromatic 2-oxoacid reductase (EC 1.1.1.110) from Clostridium sporogenes (strain ATCC 7955 / DSM 767 / NBRC 16411 / NCIMB 8053 / NCTC 8594 / PA 3679) (see 6 papers)
FLDH_CLOS3 / G9EZR6 Aromatic 2-oxoacid reductase; Phenyllactate dehydrogenase; EC 1.1.1.110 from Clostridium sporogenes (strain ATCC 7955 / DSM 767 / NBRC 16411 / NCIMB 8053 / NCTC 8594 / PA 3679) (see paper)
42% identity, 95% coverage

FLDH_CLOS1 / J7SHB8 Aromatic 2-oxoacid reductase; Indolelactate dehydrogenase; EC 1.1.1.110 from Clostridium sporogenes (strain ATCC 15579) (see 2 papers)
CLOSPO_00316 hypothetical protein from Clostridium sporogenes ATCC 15579
42% identity, 95% coverage

SVXNc_0992 NAD(P)-dependent oxidoreductase from Candidatus Nanohalococcus occultus
39% identity, 94% coverage

A0A0R1RJ30 D-lactate dehydrogenase (EC 1.1.1.28) from Furfurilactobacillus rossiae (see 2 papers)
38% identity, 95% coverage

CAETHG_1147, CLAU_1108, CLJU_RS15865 D-isomer specific 2-hydroxyacid dehydrogenase family protein from Clostridium autoethanogenum DSM 10061
33% identity, 96% coverage

E0NDE9 D-lactate dehydrogenase (EC 1.1.1.28) from Pediococcus acidilactici (see paper)
35% identity, 98% coverage

WP_152689015 D-2-hydroxyacid dehydrogenase from Pediococcus acidilactici
35% identity, 98% coverage

OEOE_RS01985 D-2-hydroxyacid dehydrogenase from Oenococcus oeni PSU-1
OEOE_0413 Phosphoglycerate dehydrogenase or related dehydrogenase from Oenococcus oeni PSU-1
38% identity, 90% coverage

LDHD_PEDAC / Q59642 D-lactate/D-glycerate dehydrogenase; D-LDH/GDH; D-specific 2-hydroxyacid dehydrogenase; EC 1.1.1.28; EC 1.1.1.29 from Pediococcus acidilactici (see paper)
ldhD / GI|897794 D-lactate dehydrogenase; EC 1.1.1.28; EC 1.1.1.81 from Pediococcus acidilactici (see paper)
35% identity, 98% coverage

KSF55_09370 D-2-hydroxyacid dehydrogenase from Lactiplantibacillus pentosus
36% identity, 95% coverage

ldhD / Q88VJ2 D-lactate dehydrogenase subunit (EC 1.1.1.28) from Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1) (see paper)
C0LJH4 D-lactate dehydrogenase (EC 1.1.1.28) from Lactiplantibacillus plantarum subsp. plantarum (see paper)
Q88VJ2 D-lactate dehydrogenase from Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
lp_2057 D-lactate dehydrogenase from Lactobacillus plantarum WCFS1
36% identity, 95% coverage

C4XEL0 D-lactate dehydrogenase from Mycoplasmopsis fermentans (strain ATCC 19989 / NBRC 14854 / NCTC 10117 / PG18)
40% identity, 90% coverage

GFB67_00380 D-2-hydroxyacid dehydrogenase from Lactobacillus delbrueckii
35% identity, 96% coverage

CH_091795 D-lactate dehydrogenase; EC 1.1.1.28 from Lactobacillus pentosus (see 2 papers)
P26298 D-lactate dehydrogenase from Lactiplantibacillus pentosus
35% identity, 95% coverage

EF2295 D-specific alpha-keto acid dehydrogenase from Enterococcus faecalis V583
34% identity, 94% coverage

LDHD_LACDA / P26297 D-lactate dehydrogenase; D-LDH; D-specific 2-hydroxyacid dehydrogenase; EC 1.1.1.28 from Lactobacillus delbrueckii subsp. bulgaricus (strain ATCC 11842 / DSM 20081 / BCRC 10696 / JCM 1002 / NBRC 13953 / NCIMB 11778 / NCTC 12712 / WDCM 00102 / Lb 14) (see paper)
ldhA / OMNI|NTL01LD0096 D-lactate dehydrogenase; EC 1.1.1.28 from Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 (see 3 papers)
Ldb0101 D-lactate dehydrogenase from Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842
WP_011543503 D-2-hydroxyacid dehydrogenase from Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842 = JCM 1002
35% identity, 96% coverage

1j49A / P26297 Insights into domain closure, substrate specificity and catalysis of d-lactate dehydrogenase from lactobacillus bulgaricus (see paper)
35% identity, 96% coverage

WP_005720611 D-2-hydroxyacid dehydrogenase from Lactobacillus crispatus
34% identity, 93% coverage

ldhA / Q188H7 4-methyl-2-oxopentanoate reductase (EC 1.1.1.345) from Clostridioides difficile (strain 630) (see 2 papers)
LDHA_CLODI / Q5U922 D-2-hydroxyacid dehydrogenase (NAD(+)); (R)-2-hydroxyisocaproate dehydrogenase; EC 1.1.1.345 from Clostridioides difficile (Peptoclostridium difficile) (see paper)
ldhA / GI|115249400 (R)-2-hydroxyisocaproate dehydrogenase from Clostridium difficile 630 (see paper)
CD0394 (R)-2-hydroxyisocaproate dehydrogenase from Clostridium difficile 630
CDR20291_0365 (R)-2-hydroxyisocaproate dehydrogenase from Clostridium difficile R20291
CD630_03940, CDIF630erm_00522, CDR20291_0365 D-2-hydroxyacid dehydrogenase from Clostridioides difficile 630
34% identity, 98% coverage

LEUM_1756 D-lactate dehydrogenase, LdhA from Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293
33% identity, 97% coverage

LBA0055 D-lactate dehydrogenase from Lactobacillus acidophilus NCFM
33% identity, 92% coverage

P30901 D-lactate dehydrogenase (EC 1.1.1.28) from Lactobacillus helveticus (see paper)
2dldA / P30901 D-lactate dehydrogenase complexed with nadh and oxamate
GB|CAA47255.1 D-lactate dehydrogenase; EC 1.1.1.28 from Lactobacillus helveticus (see 2 papers)
HUO_RS01270 D-2-hydroxyacid dehydrogenase from Lactobacillus helveticus
32% identity, 95% coverage

NP_964061 D-lactate dehydrogenase from Lactobacillus johnsonii NCC 533
34% identity, 93% coverage

SCO3594 D-lactate dehydrogenase from Streptomyces coelicolor A3(2)
32% identity, 90% coverage

O83080 D-lactate dehydrogenase (EC 1.1.1.28) from Treponema pallidum (see paper)
TP0037 D-specific D-2-hydroxyacid dehydrogenase from Treponema pallidum subsp. pallidum str. Nichols
31% identity, 98% coverage

OEOE_1182 D-lactate dehydrogenase from Oenococcus oeni PSU-1
OEOE_RS05695 D-2-hydroxyacid dehydrogenase from Oenococcus oeni PSU-1
37% identity, 96% coverage

WP_013456296 2-hydroxyacid dehydrogenase from Mycoplasmopsis bovis
33% identity, 95% coverage

SERP2087 D-isomer specific 2-hydroxyacid dehydrogenase family protein from Staphylococcus epidermidis RP62A
34% identity, 93% coverage

WP_047132560 D-lactate dehydrogenase from Staphylococcus condimenti
34% identity, 93% coverage

LMB90_RS06670 D-2-hydroxyacid dehydrogenase from Limosilactobacillus reuteri
37% identity, 86% coverage

AORI_1471 D-lactate dehydrogenase VanH-Ao2 from Amycolatopsis keratiniphila
31% identity, 93% coverage

MAG1490 D-lactate dehydrogenase from Mycoplasma agalactiae PG2
33% identity, 95% coverage

MMCAP2_0036 2-hydroxyacid dehydrogenase from Mycoplasma mycoides subsp. capri str. GM12
33% identity, 95% coverage

vanH / Q7B609 D-lactate dehydrogenase (EC 1.1.1.28) from Enterococcus faecium (see paper)
VANH_ENTFC / Q05709 D-specific alpha-keto acid dehydrogenase; Vancomycin resistance protein VanH; EC 1.1.1.- from Enterococcus faecium (Streptococcus faecium) (see paper)
33% identity, 96% coverage

DHD2_LACPA / P17584 D-2-hydroxyacid dehydrogenase (NAD+); D-2-hydroxyisocaproate dehydrogenase; D-HicDH; EC 1.1.1.345 from Lacticaseibacillus paracasei (Lactobacillus paracasei) (see 2 papers)
P17584 D-2-hydroxyacid dehydrogenase (NAD+) (EC 1.1.1.345) from Lacticaseibacillus paracasei (see 2 papers)
CH_091798 D-2-hydroxyisocaproate dehydrogenase; EC 1.1.1.- from Lactobacillus paracasei (see 2 papers)
32% identity, 95% coverage

1dxyA / P17584 Structure of d-2-hydroxyisocaproate dehydrogenase (see paper)
32% identity, 95% coverage

LSEI_0145 Lactate dehydrogenase from Lactobacillus casei ATCC 334
32% identity, 98% coverage

MSC_0034 D-lactate dehydrogenase from Mycoplasma mycoides subsp. mycoides SC str. PG1
33% identity, 95% coverage

Q6GDS2 D-lactate dehydrogenase from Staphylococcus aureus (strain MRSA252)
SAR2605 D-specific D-2-hydroxyacid dehydrogenase from Staphylococcus aureus subsp. aureus MRSA252
DA471_RS05580 D-lactate dehydrogenase from Staphylococcus aureus
34% identity, 93% coverage

P99116 D-lactate dehydrogenase from Staphylococcus aureus (strain N315)
34% identity, 93% coverage

CH51_RS14295 D-lactate dehydrogenase from Staphylococcus aureus
SACOL2535 D-isomer specific 2-hydroxyacid dehydrogenase family protein from Staphylococcus aureus subsp. aureus COL
34% identity, 93% coverage

SAUSA300_2463 D-lactate dehydrogenase from Staphylococcus aureus subsp. aureus USA300_FPR3757
34% identity, 89% coverage

SA2312 2-hydroxyacid dehydrogenase from Staphylococcus aureus subsp. aureus N315
SAV2524 2-hydroxyacid dehydrogenase from Staphylococcus aureus subsp. aureus Mu50
34% identity, 89% coverage

MW2444 D-specific D-2-hydroxyacid dehydrogenase from Staphylococcus aureus subsp. aureus MW2
34% identity, 89% coverage

D-ldh / P51011 D-lactate dehydrogenase subunit (EC 1.1.1.28) from Leuconostoc mesenteroides subsp. cremoris (see 3 papers)
CH_091801 D-lactate dehydrogenase; EC 1.1.1.28 from Leuconostoc mesenteroides subsp. cremoris (see paper)
32% identity, 97% coverage

HGDH_ACIFV / D2RJU7 (R)-2-hydroxyglutarate dehydrogenase; HGDH; EC 1.1.1.399 from Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / CCUG 9996 / CIP 106432 / VR4) (see paper)
WP_012938338 2-hydroxyacid dehydrogenase from Acidaminococcus fermentans
31% identity, 98% coverage

WP_047131604 D-2-hydroxyacid dehydrogenase from Staphylococcus condimenti
32% identity, 93% coverage

NWMN_2459 D-lactate dehydrogenase from Staphylococcus aureus subsp. aureus str. Newman
SACOL2574 D-isomer specific 2-hydroxyacid dehydrogenase family protein from Staphylococcus aureus subsp. aureus COL
31% identity, 96% coverage

F8RPR8 D-lactate dehydrogenase (EC 1.1.1.28) from Weizmannia coagulans (see paper)
34% identity, 95% coverage

BAST_0909 D-2-hydroxyacid dehydrogenase from Bifidobacterium asteroides PRL2011
30% identity, 96% coverage

LSEI_2156 D-2-hydroxyacid dehydrogenase from Lacticaseibacillus paracasei ATCC 334
LSEI_2156 Lactate dehydrogenase related 2-hydroxyacid dehydrogenase from Lactobacillus casei ATCC 334
30% identity, 98% coverage

SA2346 2-hydroxyacid dehydrogenase from Staphylococcus aureus subsp. aureus N315
31% identity, 96% coverage

O66939 D-lactate dehydrogenase (EC 1.1.1.28) from Aquifex aeolicus (see paper)
3kb6B / O66939 Crystal structure of d-lactate dehydrogenase from aquifex aeolicus complexed with NAD and lactic acid (see paper)
aq_727 D-lactate dehydrogenase from Aquifex aeolicus VF5
32% identity, 95% coverage

HPR_THEMA / Q9X1C1 Hydroxypyruvate reductase; HPR; EC 1.1.1.81 from Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8) (see paper)
TM1401 D-3-phosphoglycerate dehydrogenase from Thermotoga maritima MSB8
41% identity, 74% coverage

KQ76_13385 D-lactate dehydrogenase from Staphylococcus aureus
30% identity, 96% coverage

4prlA Crystal structure of d-lactate dehydrogenase with NAD+ from lactobacillus jensenii (see paper)
33% identity, 90% coverage

SAK_0821 D-lactate dehydrogenase from Streptococcus agalactiae A909
gbs0668 Unknown from Streptococcus agalactiae NEM316
33% identity, 93% coverage

SAZ172_2659 D-lactate dehydrogenase from Staphylococcus aureus subsp. aureus Z172
30% identity, 96% coverage

TRQ7_RS07315 hydroxypyruvate reductase from Thermotoga sp. RQ7
41% identity, 74% coverage

LRI_0357 D-2-hydroxyacid dehydrogenase from Limosilactobacillus reuteri I5007
31% identity, 98% coverage

SXYL_00325 D-lactate dehydrogenase from Staphylococcus xylosus
29% identity, 96% coverage

A4XJ21 D-3-phosphoglycerate dehydrogenase from Caldicellulosiruptor saccharolyticus (strain ATCC 43494 / DSM 8903 / Tp8T 6331)
34% identity, 54% coverage

PF1394 phosphoglycerate dehydrogenase from Pyrococcus furiosus DSM 3638
34% identity, 84% coverage

Athe_2125 phosphoglycerate dehydrogenase from Caldicellulosiruptor bescii DSM 6725
34% identity, 55% coverage

TEL01S_RS09140 D-2-hydroxyacid dehydrogenase from Pseudothermotoga elfii DSM 9442 = NBRC 107921
40% identity, 70% coverage

A0A0M3KL04 D-lactate dehydrogenase (EC 1.1.1.28) from Sporolactobacillus inulinus (see paper)
31% identity, 94% coverage

D805_0524 D-2-hydroxyacid dehydrogenase from Bifidobacterium thermophilum RBL67
29% identity, 96% coverage

4xkjA / A0A0M3KL04 A novel d-lactate dehydrogenase from sporolactobacillus sp
31% identity, 94% coverage

TK1966 D-3-phosphoglycerate dehydrogenase from Thermococcus kodakaraensis KOD1
34% identity, 84% coverage

SERP2133 D-isomer specific 2-hydroxyacid dehydrogenase family protein from Staphylococcus epidermidis RP62A
28% identity, 91% coverage

MMP1588 D-3-phosphoglycerate dehydrogenase from Methanococcus maripaludis S2
37% identity, 46% coverage

A4XGF7 D-isomer specific 2-hydroxyacid dehydrogenase, NAD-binding protein from Caldicellulosiruptor saccharolyticus (strain ATCC 43494 / DSM 8903 / Tp8T 6331)
34% identity, 92% coverage

Q8TYK0 D-3-phosphoglycerate dehydrogenase from Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938)
35% identity, 57% coverage

HPR_BLAHS / C0CMQ8 Hydroxypyruvate reductase; EC 1.1.1.81 from Blautia hydrogenotrophica (strain DSM 10507 / JCM 14656 / S5a33) (Ruminococcus hydrogenotrophicus) (see paper)
33% identity, 76% coverage

GKIL_0932 phosphoglycerate dehydrogenase from Gloeobacter kilaueensis JS1
29% identity, 58% coverage

Q48534 D-2-hydroxyacid dehydrogenase (NAD+) (EC 1.1.1.345) from Lactobacillus delbrueckii (see paper)
30% identity, 96% coverage

BAB1_1697 ATP/GTP-binding site motif A (P-loop):Amino acid-binding ACT:D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain:... from Brucella melitensis biovar Abortus 2308
34% identity, 48% coverage

2yq5C / Q1GAA2 Crystal structure of d-isomer specific 2-hydroxyacid dehydrogenase from lactobacillus delbrueckii ssp. Bulgaricus: NAD complexed form (see paper)
30% identity, 91% coverage

Q1GAA2 D-lactate dehydrogenase (EC 1.1.1.28); D-2-hydroxyacid dehydrogenase (NAD+) (EC 1.1.1.345) from Lactobacillus delbrueckii subsp. bulgaricus (see 2 papers)
Ldb1010 D-isomer specific 2-hydroxyacid dehydrogenase from Lactobacillus delbrueckii subsp. bulgaricus ATCC 11842
30% identity, 91% coverage

CC3215 D-3-phosphoglycerate dehydrogenase from Caulobacter crescentus CB15
CCNA_03322 D-3-phosphoglycerate dehydrogenase from Caulobacter crescentus NA1000
32% identity, 54% coverage

Dhaf_1344 D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding from Desulfitobacterium hafniense DCB-2
DSY4020 hypothetical protein from Desulfitobacterium hafniense Y51
33% identity, 91% coverage

Spy49_0919 D-lactate dehydrogenase from Streptococcus pyogenes NZ131
30% identity, 93% coverage

OEOE_1709 Lactate dehydrogenase from Oenococcus oeni PSU-1
29% identity, 97% coverage

Q8U3Y2 glyoxylate reductase (NADP+) (EC 1.1.1.79); hydroxypyruvate reductase (EC 1.1.1.81) from Pyrococcus furiosus (see paper)
PF0319 putative phosphoglycerate dehydrogenase from Pyrococcus furiosus DSM 3638
31% identity, 83% coverage

5aovA / Q8U3Y2 Ternary crystal structure of pyrococcus furiosus glyoxylate hydroxypyruvate reductase in presence of glyoxylate (see paper)
31% identity, 83% coverage

MSMEG_2378 D-3-phosphoglycerate dehydrogenase from Mycobacterium smegmatis str. MC2 155
A0QUY2 D-3-phosphoglycerate dehydrogenase from Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
MSMEG_2378, MSMEI_2318 phosphoglycerate dehydrogenase from Mycolicibacterium smegmatis MC2 155
33% identity, 46% coverage

hprA / P73821 glycerate dehydrogenase (EC 1.1.1.29) from Synechocystis sp. (strain PCC 6803 / Kazusa) (see paper)
sll1908 phosphoglycerate dehydrogenase from Synechocystis sp. PCC 6803
31% identity, 47% coverage

Dshi_3318 D-3-phosphoglycerate dehydrogenase from Dinoroseobacter shibae DFL 12
32% identity, 55% coverage

SMc00641 PUTATIVE D-3-PHOSPHOGLYCERATE DEHYDROGENASE PROTEIN from Sinorhizobium meliloti 1021
Q92MA3 D-3-phosphoglycerate dehydrogenase from Rhizobium meliloti (strain 1021)
32% identity, 55% coverage

ATU_RS17200 phosphoglycerate dehydrogenase from Agrobacterium fabrum str. C58
29% identity, 58% coverage

Dde_1681 Putative dehydrogenase from Desulfovibrio desulfuricans G20
32% identity, 80% coverage

alr1890 phosphoglycerate dehydrogenase from Nostoc sp. PCC 7120
30% identity, 53% coverage

SYNPCC7002_A1246 D-3-phosphoglycerate dehydrogenase from Synechococcus sp. PCC 7002
29% identity, 55% coverage

MAB_3304c D-3-phosphoglycerate dehydrogenase (SerA) from Mycobacterium abscessus ATCC 19977
32% identity, 47% coverage

Dhaf_2820 Glyoxylate reductase from Desulfitobacterium hafniense DCB-2
35% identity, 58% coverage

Q03V58 D-2-hydroxyacid dehydrogenase (NAD+) (EC 1.1.1.345) from Leuconostoc mesenteroides subsp. mesenteroides (see paper)
34% identity, 78% coverage

gvip294 D-3-phosphoglycerate dehydrogenase from Gloeobacter violaceus PCC 7421
29% identity, 50% coverage

EMQU_2453 NAD(P)-dependent oxidoreductase from Enterococcus mundtii QU 25
29% identity, 98% coverage

RSP_1352 D-3-phosphoglycerate dehydrogenase from Rhodobacter sphaeroides 2.4.1
27% identity, 60% coverage

A7Z657 D-3-phosphoglycerate dehydrogenase from Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / LMG 26770 / FZB42)
30% identity, 50% coverage

mru_0678 phosphoglycerate dehydrogenase SerA from Methanobrevibacter ruminantium M1
34% identity, 49% coverage

GYAR_THELN / Q9C4M5 Glyoxylate reductase; EC 1.1.1.26 from Thermococcus litoralis (strain ATCC 51850 / DSM 5473 / JCM 8560 / NS-C) (see paper)
Q9C4M5 glyoxylate reductase (EC 1.1.1.26) from Thermococcus litoralis (see paper)
OCC_02245 glyoxylate reductase from Thermococcus litoralis DSM 5473
33% identity, 85% coverage

Dhaf_2079 D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding from Desulfitobacterium hafniense DCB-2
32% identity, 76% coverage

DSY0996 hypothetical protein from Desulfitobacterium hafniense Y51
32% identity, 76% coverage

DET0599 D-3-phosphoglycerate dehydrogenase from Dehalococcoides ethenogenes 195
29% identity, 55% coverage

MA0592 phosphoglycerate dehydrogenase from Methanosarcina acetivorans C2A
30% identity, 50% coverage

C629_RS07285 phosphoglycerate dehydrogenase from Corynebacterium glutamicum SCgG2
cg1451 D-3-phosphoglycerate dehydrogenase from Corynebacterium glutamicum ATCC 13032
31% identity, 45% coverage

MPNT_20138 phosphoglycerate dehydrogenase from Candidatus Methylacidithermus pantelleriae
29% identity, 55% coverage

DVU1412 D-isomer specific 2-hydroxyacid dehydrogenase family protein from Desulfovibrio vulgaris Hildenborough
30% identity, 80% coverage

Mchl_2132 D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding from Methylobacterium chloromethanicum CM4
32% identity, 76% coverage

P35136 D-3-phosphoglycerate dehydrogenase from Bacillus subtilis (strain 168)
BSU23070 D-3-phosphoglycerate dehydrogenase from Bacillus subtilis subsp. subtilis str. 168
29% identity, 50% coverage

TK0683 glyoxylate reductase from Thermococcus kodakaraensis KOD1
34% identity, 64% coverage

Q972A9 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Sulfurisphaera tokodaii (see paper)
ST1218 313aa long hypothetical D-3-phosphoglycerate dehydrogenase from Sulfolobus tokodaii str. 7
32% identity, 84% coverage

CLJU_c03860 phosphoglycerate dehydrogenase from Clostridium ljungdahlii DSM 13528
34% identity, 74% coverage

DSY1673 hypothetical protein from Desulfitobacterium hafniense Y51
33% identity, 58% coverage

2eklA / Q972A9 Structure of st1218 protein from sulfolobus tokodaii
32% identity, 84% coverage

KSF55_04355 D-2-hydroxyacid dehydrogenase from Lactiplantibacillus pentosus
29% identity, 96% coverage

MAP3033c SerA from Mycobacterium avium subsp. paratuberculosis str. k10
33% identity, 46% coverage

MAVA5_16825 phosphoglycerate dehydrogenase from Mycobacterium avium subsp. hominissuis A5
33% identity, 46% coverage

1wwkA / O50095 Crystal structure of phosphoglycerate dehydrogenase from pyrococcus horikoshii ot3
34% identity, 81% coverage

ZMO1685 D-3-phosphoglycerate dehydrogenase from Zymomonas mobilis subsp. mobilis ZM4
30% identity, 61% coverage

hprA / Q59516 hydroxypyruvate reductase subunit (EC 1.1.1.81) from Methylorubrum extorquens (strain ATCC 14718 / DSM 1338 / JCM 2805 / NCIMB 9133 / AM1) (see 2 papers)
32% identity, 76% coverage

Ccel_3425 D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding from Clostridium cellulolyticum H10
32% identity, 79% coverage

Q608T2 hydroxypyruvate reductase (EC 1.1.1.81) from Methylococcus capsulatus (see paper)
30% identity, 85% coverage

serA / GB|AAC83943.1 phosphoglycerate dehydrogenase; EC 1.1.1.95 from Bacillus subtilis (see paper)
serA / AAC83943.1 phosphoglycerate dehydrogenase from Bacillus subtilis (see 3 papers)
29% identity, 50% coverage

MMP0870 2-hydroxyacid dehydrogenase, D-isomer specific from Methanococcus maripaludis S2
32% identity, 76% coverage

OEOE_0025 Lactate dehydrogenase related enzyme from Oenococcus oeni PSU-1
32% identity, 78% coverage

B7P3M8 D-3-phosphoglycerate dehydrogenase (Fragment) from Ixodes scapularis
28% identity, 64% coverage

XP_017888762 D-3-phosphoglycerate dehydrogenase isoform X2 from Ceratina calcarata
28% identity, 57% coverage

BL02138 D-glycerate dehydrogenase from Bacillus licheniformis DSM 13 = ATCC 14580
33% identity, 63% coverage

A0A2R6X868 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Marchantia polymorpha (see paper)
32% identity, 41% coverage

EF3141 D-isomer specific 2-hydroxyacid dehydrogenase family protein from Enterococcus faecalis V583
30% identity, 85% coverage

CNC06220 glycerate-and formate-dehydrogenase from Cryptococcus neoformans var. neoformans JEC21
37% identity, 67% coverage

SH1200 D-3-phosphoglycerate dehydrogenase from Staphylococcus haemolyticus JCSC1435
29% identity, 47% coverage

R2866_1089 2-hydroxyacid dehydrogenase from Haemophilus influenzae R2866
29% identity, 95% coverage

P9WNX3 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Mycobacterium tuberculosis (see 5 papers)
Rv2996c PROBABLE D-3-PHOSPHOGLYCERATE DEHYDROGENASE SERA1 (PGDH) from Mycobacterium tuberculosis H37Rv
MT3074 D-3-phosphoglycerate dehydrogenase from Mycobacterium tuberculosis CDC1551
BCG_3017c putative D-3-phosphoglycerate dehydrogenase serA1 from Mycobacterium bovis BCG str. Pasteur 1173P2
YP_177916 D-3-phosphoglycerate dehydrogenase from Mycobacterium tuberculosis H37Rv
32% identity, 47% coverage

3dc2A / P9WNX3 Crystal structure of serine bound d-3-phosphoglycerate dehydrogenase from mycobacterium tuberculosis (see paper)
32% identity, 47% coverage

Q9Z564 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Streptomyces coelicolor (see paper)
SCO5515 probable D-3-phosphoglycerate dehydrogenase from Streptomyces coelicolor A3(2)
31% identity, 46% coverage

F6I5Y5 D-3-phosphoglycerate dehydrogenase from Vitis vinifera
33% identity, 36% coverage

LOC101246616 D-3-phosphoglycerate dehydrogenase 3, chloroplastic-like from Solanum lycopersicum
33% identity, 41% coverage

HI1556 2-hydroxyacid dehydrogenase from Haemophilus influenzae Rd KW20
30% identity, 95% coverage

CHLNCDRAFT_56437 hypothetical protein from Chlorella variabilis
33% identity, 39% coverage

TON_0569 D-isomer specific 2-hydroxyacid dehydrogenase from Thermococcus onnurineus NA1
28% identity, 99% coverage

SMc01622 PUTATIVE OXIDOREDUCTASE PROTEIN from Sinorhizobium meliloti 1021
32% identity, 75% coverage

lmo0078 similar to phosphoglycerate dehydrogenase from Listeria monocytogenes EGD-e
30% identity, 86% coverage

SERA2_ARATH / O04130 D-3-phosphoglycerate dehydrogenase 2, chloroplastic; PGDH; EC 1.1.1.95 from Arabidopsis thaliana (Mouse-ear cress) (see 3 papers)
O04130 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Arabidopsis thaliana (see 3 papers)
NP_564034 D-3-phosphoglycerate dehydrogenase from Arabidopsis thaliana
AT1G17745 PGDH (3-PHOSPHOGLYCERATE DEHYDROGENASE); phosphoglycerate dehydrogenase from Arabidopsis thaliana
30% identity, 41% coverage

Q6AWS3 SD23260p from Drosophila melanogaster
30% identity, 85% coverage

A9PEK1 D-3-phosphoglycerate dehydrogenase from Populus trichocarpa
33% identity, 39% coverage

A0A1Z4EAX3 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Beta vulgaris (see paper)
32% identity, 38% coverage

HCBG_03370 glyoxylate reductase from Histoplasma capsulatum G186AR
32% identity, 85% coverage

SMc02045 PUTATIVE OXIDOREDUCTASE PROTEIN from Sinorhizobium meliloti 1021
29% identity, 89% coverage

PITG_00133 phosphoserine aminotransferase, putative from Phytophthora infestans T30-4
29% identity, 8% coverage

E4T4B2 D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding protein from Paludibacter propionicigenes (strain DSM 17365 / JCM 13257 / WB4)
30% identity, 91% coverage

Q0W9V5 Glyoxylate/hydroxypyruvate reductase B from Yersinia pestis
29% identity, 73% coverage

DSVG11_0256 D-2-hydroxyacid dehydrogenase from Desulfovibrio sp. G11
30% identity, 78% coverage

c3405 2-hydroxyacid dehydrogenase from Escherichia coli CFT073
27% identity, 87% coverage

A2YVQ8 D-3-phosphoglycerate dehydrogenase from Oryza sativa subsp. indica
30% identity, 42% coverage

MMAR_1715 D-3-phosphoglycerate dehydrogenase SerA1 from Mycobacterium marinum M
31% identity, 47% coverage

YPO1288 putative D-isomer specific 2-hydroxyacid dehydrogenase family protein from Yersinia pestis CO92
26% identity, 94% coverage

PAAG_05378 2-hydroxyacid dehydrogenase from Paracoccidioides lutzii Pb01
31% identity, 79% coverage

SERA_MOUSE / Q61753 D-3-phosphoglycerate dehydrogenase; 3-PGDH; A10; EC 1.1.1.95 from Mus musculus (Mouse) (see paper)
Q61753 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Mus musculus (see 2 papers)
NP_058662 D-3-phosphoglycerate dehydrogenase from Mus musculus
28% identity, 52% coverage

NE1688 D-isomer specific 2-hydroxyacid dehydrogenase from Nitrosomonas europaea ATCC 19718
28% identity, 90% coverage

O58256 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Pyrococcus horikoshii (see paper)
30% identity, 88% coverage

LOC100280688 uncharacterized protein LOC100280688 from Zea mays
30% identity, 42% coverage

GRMZM2G009323 D-3-phosphoglycerate dehydrogenase from Zea mays
34% identity, 37% coverage

Q6ZAA5 D-3-phosphoglycerate dehydrogenase from Oryza sativa subsp. japonica
30% identity, 42% coverage

SERA1_ARATH / O49485 D-3-phosphoglycerate dehydrogenase 1, chloroplastic; Protein EMBRYO SAC DEVELOPMENT ARREST 9; EC 1.1.1.95 from Arabidopsis thaliana (Mouse-ear cress) (see 2 papers)
O49485 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Arabidopsis thaliana (see 4 papers)
NP_195146 D-3-phosphoglycerate dehydrogenase from Arabidopsis thaliana
AT4G34200 EDA9 (embryo sac development arrest 9); ATP binding from Arabidopsis thaliana
32% identity, 39% coverage

B3KSC3 D-3-phosphoglycerate dehydrogenase from Homo sapiens
28% identity, 55% coverage

PHGDH / O43175 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) from Homo sapiens (see 3 papers)
SERA_HUMAN / O43175 D-3-phosphoglycerate dehydrogenase; 3-PGDH; 2-oxoglutarate reductase; Malate dehydrogenase; EC 1.1.1.95; EC 1.1.1.399; EC 1.1.1.37 from Homo sapiens (Human) (see 7 papers)
O43175 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Homo sapiens (see 8 papers)
28% identity, 51% coverage

B9RYA3 D-3-phosphoglycerate dehydrogenase from Ricinus communis
XP_002518687 D-3-phosphoglycerate dehydrogenase 1, chloroplastic from Ricinus communis
32% identity, 39% coverage

MUL_1952 D-3-phosphoglycerate dehydrogenase SerA1 from Mycobacterium ulcerans Agy99
31% identity, 47% coverage

6biiA / F8AEA4 Crystal structure of pyrococcus yayanosii glyoxylate hydroxypyruvate reductase in complex with NADP and malonate (re-refinement of 5aow) (see paper)
32% identity, 76% coverage

F8AEA4 glyoxylate reductase (NADP+) (EC 1.1.1.79); hydroxypyruvate reductase (EC 1.1.1.81) from Pyrococcus yayanosii (see paper)
PYCH_09300 glyoxylate reductase from Pyrococcus yayanosii CH1
32% identity, 76% coverage

NMA0274 glycerate dehydrogenase from Neisseria meningitidis Z2491
29% identity, 97% coverage

BPSL1577 2-ketogluconate reductase from Burkholderia pseudomallei K96243
33% identity, 73% coverage

Phgdh / O08651 3-phosphoglycerate dehydrogenase subunit (EC 1.1.1.95) from Rattus norvegicus (see paper)
SERA_RAT / O08651 D-3-phosphoglycerate dehydrogenase; 3-PGDH; EC 1.1.1.95 from Rattus norvegicus (Rat) (see paper)
O08651 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Rattus norvegicus (see paper)
NP_113808 D-3-phosphoglycerate dehydrogenase from Rattus norvegicus
27% identity, 52% coverage

BMMGA3_02750 D-2-hydroxyacid dehydrogenase from Bacillus methanolicus MGA3
28% identity, 86% coverage

XP_002283022 D-3-phosphoglycerate dehydrogenase 3, chloroplastic from Vitis vinifera
31% identity, 39% coverage

VC2504 2-hydroxyacid dehydrogenase family protein from Vibrio cholerae O1 biovar eltor str. N16961
29% identity, 76% coverage

B6SKK1 D-3-phosphoglycerate dehydrogenase from Zea mays
30% identity, 42% coverage

GOR1 / P53839 glyoxylate reductase 1 (EC 1.1.1.26) from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (see paper)
GOR1_YEAST / P53839 Glyoxylate reductase 1; EC 1.1.1.26; EC 1.1.1.79; EC 1.1.1.81 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 4 papers)
NP_014125 glyoxylate reductase from Saccharomyces cerevisiae S288C
YNL274C Glyoxylate reductase; null mutation results in increased biomass after diauxic shift; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies from Saccharomyces cerevisiae
31% identity, 73% coverage

7dkmA / O43175 Phgdh covalently linked to oridonin (see paper)
29% identity, 76% coverage

CTBP2_XENLA / Q9W758 C-terminal-binding protein 2; CtBP2; C-terminal-binding protein B; TCF-3 corepressor CtBP; XCtBP from Xenopus laevis (African clawed frog) (see paper)
30% identity, 65% coverage

Q5EAD2 D-3-phosphoglycerate dehydrogenase from Bos taurus
27% identity, 52% coverage

TM0327 phosphoglycerate dehydrogenase, putative from Thermotoga maritima MSB8
30% identity, 79% coverage

A0A1Z4EAX4 phosphoglycerate dehydrogenase (EC 1.1.1.95) from Beta vulgaris (see paper)
34% identity, 31% coverage

ML1692 D-3-phosphoglycerate dehydrogenase from Mycobacterium leprae TN
31% identity, 46% coverage

XP_018109636 C-terminal-binding protein 2 isoform X1 from Xenopus laevis
30% identity, 59% coverage

lpg0242 D-3-phosphoglycerate dehydrogenase from Legionella pneumophila subsp. pneumophila str. Philadelphia 1
31% identity, 76% coverage

LOC107808555 D-3-phosphoglycerate dehydrogenase 2, chloroplastic-like from Nicotiana tabacum
31% identity, 38% coverage

DSVG11_0961 phosphoglycerate dehydrogenase from Desulfovibrio sp. G11
34% identity, 56% coverage

NWMN_1617 D-3-phosphoglycerate dehydrogenase from Staphylococcus aureus subsp. aureus str. Newman
SACOL1773 D-3-phosphoglycerate dehydrogenase from Staphylococcus aureus subsp. aureus COL
29% identity, 47% coverage

Q66KM4 Glyoxylate reductase/hydroxypyruvate reductase from Xenopus tropicalis
29% identity, 83% coverage

HVO_2968 D-3-phosphoglycerate dehydrogenase from Haloferax volcanii DS2
29% identity, 47% coverage

XP_042922996 uncharacterized protein from Chlamydomonas reinhardtii
30% identity, 42% coverage

NP_571789 C-terminal-binding protein 1 from Danio rerio
30% identity, 57% coverage

OEOE_0701 Lactate dehydrogenase or related 2-hydroxyacid dehydrogenase from Oenococcus oeni PSU-1
33% identity, 76% coverage

7cvpA / O43175 The crystal structure of human phgdh from biortus.
30% identity, 63% coverage

SA1545 D-3-phosphoglycerate dehydrogenase from Staphylococcus aureus subsp. aureus N315
28% identity, 47% coverage

SAR1801 D-3-phosphoglycerate dehydrogenase from Staphylococcus aureus subsp. aureus MRSA252
DA471_RS00355 phosphoglycerate dehydrogenase from Staphylococcus aureus
28% identity, 47% coverage

New Search

For advice on how to use these tools together, see Interactive tools for functional annotation of bacterial genomes.

Statistics

The PaperBLAST database links 789,361 different protein sequences to 1,256,019 scientific articles. Searches against EuropePMC were last performed on January 10 2025.

How It Works

PaperBLAST builds a database of protein sequences that are linked to scientific articles. These links come from automated text searches against the articles in EuropePMC and from manually-curated information from GeneRIF, UniProtKB/Swiss-Prot, BRENDA, CAZy (as made available by dbCAN), BioLiP, CharProtDB, MetaCyc, EcoCyc, TCDB, REBASE, the Fitness Browser, and a subset of the European Nucleotide Archive with the /experiment tag. Given this database and a protein sequence query, PaperBLAST uses protein-protein BLAST to find similar sequences with E < 0.001.

To build the database, we query EuropePMC with locus tags, with RefSeq protein identifiers, and with UniProt accessions. We obtain the locus tags from RefSeq or from MicrobesOnline. We use queries of the form "locus_tag AND genus_name" to try to ensure that the paper is actually discussing that gene. Because EuropePMC indexes most recent biomedical papers, even if they are not open access, some of the links may be to papers that you cannot read or that our computers cannot read. We query each of these identifiers that appears in the open access part of EuropePMC, as well as every locus tag that appears in the 500 most-referenced genomes, so that a gene may appear in the PaperBLAST results even though none of the papers that mention it are open access. We also incorporate text-mined links from EuropePMC that link open access articles to UniProt or RefSeq identifiers. (This yields some additional links because EuropePMC uses different heuristics for their text mining than we do.)

For every article that mentions a locus tag, a RefSeq protein identifier, or a UniProt accession, we try to select one or two snippets of text that refer to the protein. If we cannot get access to the full text, we try to select a snippet from the abstract, but unfortunately, unique identifiers such as locus tags are rarely provided in abstracts.

PaperBLAST also incorporates manually-curated protein functions:

Except for GeneRIF and ENA, the curated entries include a short curated description of the protein's function. For entries from BioLiP, the protein's function may not be known beyond binding to the ligand. Many of these entries also link to articles in PubMed.

For more information see the PaperBLAST paper (mSystems 2017) or the code. You can download PaperBLAST's database here.

Changes to PaperBLAST since the paper was written:

Many of these changes are described in Interactive tools for functional annotation of bacterial genomes.

Secrets

PaperBLAST cannot provide snippets for many of the papers that are published in non-open-access journals. This limitation applies even if the paper is marked as "free" on the publisher's web site and is available in PubmedCentral or EuropePMC. If a journal that you publish in is marked as "secret," please consider publishing elsewhere.

Omissions from the PaperBLAST Database

Many important articles are missing from PaperBLAST, either because the article's full text is not in EuropePMC (as for many older articles), or because the paper does not mention a protein identifier such as a locus tag, or because of PaperBLAST's heuristics. If you notice an article that characterizes a protein's function but is missing from PaperBLAST, please notify the curators at UniProt or add an entry to GeneRIF. Entries in either of these databases will eventually be incorporated into PaperBLAST. Note that to add an entry to UniProt, you will need to find the UniProt identifier for the protein. If the protein is not already in UniProt, you can ask them to create an entry. To add an entry to GeneRIF, you will need an NCBI Gene identifier, but unfortunately many prokaryotic proteins in RefSeq do not have corresponding Gene identifers.

References

PaperBLAST: Text-mining papers for information about homologs.
M. N. Price and A. P. Arkin (2017). mSystems, 10.1128/mSystems.00039-17.

Europe PMC in 2017.
M. Levchenko et al (2017). Nucleic Acids Research, 10.1093/nar/gkx1005.

Gene indexing: characterization and analysis of NLM's GeneRIFs.
J. A. Mitchell et al (2003). AMIA Annu Symp Proc 2003:460-464.

UniProt: the universal protein knowledgebase.
The UniProt Consortium (2016). Nucleic Acids Research, 10.1093/nar/gkw1099.

BRENDA in 2017: new perspectives and new tools in BRENDA.
S. Placzek et al (2017). Nucleic Acids Research, 10.1093/nar/gkw952.

The EcoCyc database: reflecting new knowledge about Escherichia coli K-12.
I. M. Keeseler et al (2016). Nucleic Acids Research, 10.1093/nar/gkw1003.

The MetaCyc database of metabolic pathways and enzymes.
R. Caspi et al (2018). Nucleic Acids Research, 10.1093/nar/gkx935.

CharProtDB: a database of experimentally characterized protein annotations.
R. Madupu et al (2012). Nucleic Acids Research, 10.1093/nar/gkr1133.

The carbohydrate-active enzymes database (CAZy) in 2013.
V. Lombard et al (2014). Nucleic Acids Research, 10.1093/nar/gkt1178.

The Transporter Classification Database (TCDB): recent advances
M. H. Saier, Jr. et al (2016). Nucleic Acids Research, 10.1093/nar/gkv1103.

REBASE - a database for DNA restriction and modification: enzymes, genes and genomes.
R. J. Roberts et al (2015). Nucleic Acids Research, 10.1093/nar/gku1046.

Deep annotation of protein function across diverse bacteria from mutant phenotypes.
M. N. Price et al (2016). bioRxiv, 10.1101/072470.

by Morgan Price, Arkin group
Lawrence Berkeley National Laboratory