PaperBLAST – Find papers about a protein or its homologs

 

PaperBLAST

PaperBLAST Hits for SwissProt::D3DFP8 Putative phosphoserine phosphatase 2; PSP 2; PSPase 2; Metal-independent phosphoserine phosphatase 2; iPSP2; O-phosphoserine phosphohydrolase 2; EC 3.1.3.3 (Hydrogenobacter thermophilus (strain DSM 6534 / IAM 12695 / TK-6)) (203 a.a., MKRLYLVRHA...)

Other sequence analysis tools:

Find functional residues: SitesBLAST

Search for conserved domains

Find the best match in UniProt

Compare to protein structures

Predict transmenbrane helices: Phobius

Predict protein localization: PSORTb

Find homologs in fast.genomics

Fitness BLAST: loading...

Found 259 similar proteins in the literature:

PSPB_HYDTT / D3DFP8 Putative phosphoserine phosphatase 2; PSP 2; PSPase 2; Metal-independent phosphoserine phosphatase 2; iPSP2; O-phosphoserine phosphohydrolase 2; EC 3.1.3.3 from Hydrogenobacter thermophilus (strain DSM 6534 / IAM 12695 / TK-6) (see paper)
D3DFP8 phosphoserine phosphatase (EC 3.1.3.3) from Hydrogenobacter thermophilus (see paper)
100% identity, 100% coverage

PSPA_HYDTT / D3DFG8 Phosphoserine phosphatase 1; PSP 1; PSPase 1; Metal-independent phosphoserine phosphatase 1; iPSP1; O-phosphoserine phosphohydrolase 1; EC 3.1.3.3 from Hydrogenobacter thermophilus (strain DSM 6534 / IAM 12695 / TK-6) (see paper)
D3DFG8 phosphoserine phosphatase (EC 3.1.3.3) from Hydrogenobacter thermophilus (see 3 papers)
37% identity, 94% coverage

4ij6A / D3DFG8 Crystal structure of a novel-type phosphoserine phosphatase mutant (h9a) from hydrogenobacter thermophilus tk-6 in complex with l-phosphoserine (see paper)
37% identity, 96% coverage

Cthe_0707 Phosphoglycerate mutase from Clostridium thermocellum ATCC 27405
35% identity, 97% coverage

Cthe_0707 histidine phosphatase family protein from Acetivibrio thermocellus ATCC 27405
35% identity, 88% coverage

O67797 Phosphoglycerate mutase from Aquifex aeolicus (strain VF5)
aq_1990 phosphoglycerate mutase from Aquifex aeolicus VF5
32% identity, 95% coverage

CAETHG_1462 alpha-ribazole phosphatase from Clostridium autoethanogenum DSM 10061
32% identity, 89% coverage

CRIB_1223 histidine phosphatase family protein from Romboutsia ilealis
30% identity, 93% coverage

Cthe_0946 Phosphoglycerate mutase from Clostridium thermocellum ATCC 27405
Cthe_0946 histidine phosphatase family protein from Acetivibrio thermocellus ATCC 27405
29% identity, 84% coverage

CTN_RS06075 histidine phosphatase family protein from Thermotoga neapolitana DSM 4359
32% identity, 97% coverage

Cthe_3153 alpha-Ribazole phosphatase from Clostridium thermocellum ATCC 27405
30% identity, 96% coverage

cobC / D1BMI5 adenosylcobamide phosphatase (EC 3.1.3.73) from Veillonella parvula (strain ATCC 10790 / DSM 2008 / CCUG 5123 / JCM 12972 / NCTC 11810 / Te3) (see paper)
31% identity, 94% coverage

cg2581 putative fructose-2,6-bisphosphatase from Corynebacterium glutamicum ATCC 13032
34% identity, 67% coverage

slr1748 hypothetical protein from Synechocystis sp. PCC 6803
31% identity, 75% coverage

B5X54_RS07490 histidine phosphatase family protein from Caldicellulosiruptor bescii
35% identity, 81% coverage

DET0693 alpha-ribazole-5-phosphate phosphatase, putative from Dehalococcoides ethenogenes 195
DET0659 alpha-ribazole-5-phosphate phosphatase, putative from Dehalococcoides ethenogenes 195
33% identity, 97% coverage

H16_A0493 phosphoglycerate mutase 2 protein from Ralstonia eutropha H16
29% identity, 89% coverage

PhpB / b0638 putative adenosylcobalamin phosphatase/α-ribazole phosphatase (EC 3.1.3.73) from Escherichia coli K-12 substr. MG1655 (see 4 papers)
cobC / P52086 putative adenosylcobalamin phosphatase/α-ribazole phosphatase (EC 3.1.3.73) from Escherichia coli (strain K12) (see 2 papers)
b0638 predicted alpha-ribazole-5'-P phosphatase from Escherichia coli str. K-12 substr. MG1655
31% identity, 95% coverage

Rmet_0420 histidine phosphatase family protein from Cupriavidus metallidurans CH34
Rmet_0420 Phosphoglycerate mutase from Ralstonia metallidurans CH34
29% identity, 89% coverage

all4906 phosphoglycerate mutase from Nostoc sp. PCC 7120
31% identity, 76% coverage

C4IFQ5 Phosphoglycerate mutase family protein from Clostridium butyricum E4 str. BoNT E BL5262
34% identity, 73% coverage

NATL1_05721 possible alpha-ribazole-5'-P phosphatase from Prochlorococcus marinus str. NATL1A
31% identity, 45% coverage

Ccel_0619 histidine phosphatase family protein from Ruminiclostridium cellulolyticum H10
Ccel_0619 Phosphoglycerate mutase from Clostridium cellulolyticum H10
29% identity, 82% coverage

tlr1532 phosphoglycerate mutase from Thermosynechococcus elongatus BP-1
33% identity, 38% coverage

CA_C3021 histidine phosphatase family protein from Clostridium acetobutylicum ATCC 824
31% identity, 89% coverage

ML1637 conserved hypothetical protein from Mycobacterium leprae TN
32% identity, 50% coverage

SSO2236 Phosphoglycerate mutase, putative from Sulfolobus solfataricus P2
33% identity, 83% coverage

TTHA0368 phosphoglycerate mutase from Thermus thermophilus HB8
32% identity, 86% coverage

KPN_01784 phosphoglycerate mutase from Klebsiella pneumoniae subsp. pneumoniae MGH 78578
26% identity, 98% coverage

Synpcc7942_0485 phosphoglycerate mutase from Synechococcus elongatus PCC 7942
29% identity, 40% coverage

YtjC / b4395 putative phosphatase from Escherichia coli K-12 substr. MG1655 (see 7 papers)
gpmB / RF|NP_418812 PGAM from Escherichia coli K12 (see paper)
P0A7A2 Probable phosphoglycerate mutase GpmB from Escherichia coli (strain K12)
b4395 phosphoglycerate mutase from Escherichia coli str. K-12 substr. MG1655
DR76_2507 2,3-diphosphoglycerate-dependent phosphoglycerate mutase GpmB from Escherichia coli ATCC 25922
30% identity, 84% coverage

CA1P_ARATH / Q9FNJ9 Probable 2-carboxy-D-arabinitol-1-phosphatase; EC 3.1.3.63 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT5G22620 phosphoglycerate/bisphosphoglycerate mutase family protein from Arabidopsis thaliana
29% identity, 41% coverage

CA1P_WHEAT / W5EP13 2-carboxy-D-arabinitol-1-phosphatase; EC 3.1.3.63 from Triticum aestivum (Wheat) (see paper)
XP_044374330 2-carboxy-D-arabinitol-1-phosphatase from Triticum aestivum
30% identity, 40% coverage

bhn_I1780 histidine phosphatase family protein from Butyrivibrio hungatei
30% identity, 90% coverage

Cthe_2449 Phosphoglycerate mutase from Clostridium thermocellum ATCC 27405
29% identity, 82% coverage

MSMEG_4579 phosphoglycerate mutase family protein from Mycobacterium smegmatis str. MC2 155
30% identity, 80% coverage

Synpcc7942_2078 phosphoglycerate mutase from Synechococcus elongatus PCC 7942
30% identity, 77% coverage

PMM0515 possible alpha-ribazole-5'-P phosphatase from Prochlorococcus marinus sp. MED4
29% identity, 41% coverage

PA1280 hypothetical protein from Pseudomonas aeruginosa PAO1
28% identity, 87% coverage

SACE_3448 phosphoglycerate mutase family protein from Saccharopolyspora erythraea NRRL 2338
27% identity, 85% coverage

t2224 alpha-ribazole-5'-phosphate phosphatase from Salmonella enterica subsp. enterica serovar Typhi Ty2
28% identity, 95% coverage

A5VM95 Phosphoglycerate mutase from Limosilactobacillus reuteri (strain DSM 20016)
33% identity, 77% coverage

DET1422 phosphoglycerate mutase family protein from Dehalococcoides ethenogenes 195
28% identity, 94% coverage

SHALO_1514, SJPD1_1527, SMN_1536, SMUL_1550 histidine phosphatase family protein from Sulfurospirillum multivorans DSM 12446
27% identity, 94% coverage

MSMEG_4305 bifunctional RNase H/acid phosphatase from Mycolicibacterium smegmatis MC2 155
MSMEG_4305 phosphoglycerate mutase from Mycobacterium smegmatis str. MC2 155
30% identity, 54% coverage

CE2133 conserved hypothetical protein from Corynebacterium efficiens YS-314
28% identity, 45% coverage

Pro0515 Phosphoglycerate mutase from Prochlorococcus marinus str. SS120
29% identity, 44% coverage

SYNPCC7002_A2560 phosphoglycerate mutase from Synechococcus sp. PCC 7002
29% identity, 43% coverage

ML1452 possible phosphoglycerate mutase from Mycobacterium leprae TN
29% identity, 83% coverage

cobC / P39701 adenosylcobalamin/α-ribazole phosphatase (EC 3.1.3.73) from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 2 papers)
COBC_SALTY / P39701 Adenosylcobalamin/alpha-ribazole phosphatase; Adenosylcobalamin phosphatase; Alpha-ribazole-5'-phosphate phosphatase; EC 3.1.3.73 from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see 2 papers)
P39701 adenosylcobalamin/alpha-ribazole phosphatase (EC 3.1.3.73) from Salmonella enterica subsp. enterica serovar Typhimurium (see paper)
cobC / RF|NP_459635.1 alpha-ribazole phosphatase; EC 3.1.3.73 from Salmonella typhimurium LT2 (see 2 papers)
NP_459635 alpha ribazole-5'-P phosphatase in cobalamin synthesis from Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
28% identity, 95% coverage

SPy0598, SPy_0598 putative phosphoglycerate mutase from Streptococcus pyogenes M1 GAS
Spy49_0505c Phosphoglycerate mutase from Streptococcus pyogenes NZ131
34% identity, 86% coverage

BCAL3342 putative phosphoglycerate mutase from Burkholderia cenocepacia J2315
27% identity, 89% coverage

MAB_1905 Putative phosphoglycerate mutase from Mycobacterium abscessus ATCC 19977
31% identity, 51% coverage

OCU_RS45375 histidine phosphatase family protein from Mycobacterium intracellulare ATCC 13950
29% identity, 77% coverage

y3724 phosphoglyceromutase 2 from Yersinia pestis KIM
28% identity, 84% coverage

Smlt0963 putative phosphoglycerate mutase from Stenotrophomonas maltophilia K279a
27% identity, 92% coverage

XAC1028 phosphoglycerate mutase from Xanthomonas axonopodis pv. citri str. 306
28% identity, 92% coverage

SCO2299 hypothetical protein from Streptomyces coelicolor A3(2)
26% identity, 39% coverage

alr3338 phosphoglycerate mutase from Nostoc sp. PCC 7120
28% identity, 40% coverage

GPGP_MYCVP / A1TC01 Glucosyl-3-phosphoglycerate phosphatase; EC 3.1.3.85 from Mycolicibacterium vanbaalenii (strain DSM 7251 / JCM 13017 / BCRC 16820 / KCTC 9966 / NRRL B-24157 / PYR-1) (Mycobacterium vanbaalenii) (see paper)
Mvan_3924 Phosphoglycerate mutase from Mycobacterium vanbaalenii PYR-1
41% identity, 40% coverage

WP_014476350 phosphatase PhoE from Bacillus subtilis
29% identity, 92% coverage

MMAR_3747 phosphoglycerate mutase, Gpm_1 from Mycobacterium marinum M
31% identity, 67% coverage

DIP1678 Conserved hypothetical protein from Corynebacterium diphtheriae NCTC 13129
27% identity, 50% coverage

MUL_3691 phosphoglycerate mutase, Gpm_1 from Mycobacterium ulcerans Agy99
42% identity, 40% coverage

GPGP_MYCTU / P9WIC7 Glucosyl-3-phosphoglycerate phosphatase; Mannosyl-3-phosphoglycerate phosphatase; EC 3.1.3.85; EC 3.1.3.70 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see 2 papers)
P9WIC6 glucosyl-3-phosphoglycerate phosphatase (EC 3.1.3.85) from Mycobacterium tuberculosis (see paper)
P9WIC7 glucosyl-3-phosphoglycerate phosphatase (EC 3.1.3.85) from Mycobacterium tuberculosis (see paper)
Rv2419c PROBABLE PHOSPHOGLYCERATE MUTASE (PHOSPHOGLYCEROMUTASE) from Mycobacterium tuberculosis H37Rv
NP_216935 glucosyl-3-phosphoglycerate phosphatase from Mycobacterium tuberculosis H37Rv
31% identity, 67% coverage

MAP3481 LpqD from Mycobacterium avium subsp. paratuberculosis str. k10
28% identity, 73% coverage

SSA_1528 Phosphoglycerate mutase, putative from Streptococcus sanguinis SK36
32% identity, 86% coverage

4pzaB / P9WIC6 The complex structure of mycobacterial glucosyl-3-phosphoglycerate phosphatase rv2419c with inorganic phosphate (see paper)
31% identity, 69% coverage

PHOE_BACSU / O07617 Uncharacterized phosphatase PhoE; EC 3.1.3.- from Bacillus subtilis (strain 168) (see 2 papers)
WP_003233157 phosphatase PhoE from Bacillus subtilis
29% identity, 92% coverage

MAV_4339 phosphoglycerate mutase family protein from Mycobacterium avium 104
28% identity, 77% coverage

DIP1773 Phosphoglycerate mutase family protein from Corynebacterium diphtheriae NCTC 13129
31% identity, 68% coverage

GPM_THEAC / Q9HIJ2 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase; BPG-dependent PGAM; PGAM; Phosphoglyceromutase; dPGM; EC 5.4.2.11 from Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165) (see paper)
WP_048162417 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Thermoplasma acidophilum DSM 1728
30% identity, 91% coverage

GL50803_135885 Histidine phosphatase superfamily protein from Giardia intestinalis
25% identity, 96% coverage

BTH_I1243 phosphoglycerate mutase, putative from Burkholderia thailandensis E264
Q2SZ59 Phosphoglycerate mutase, putative from Burkholderia thailandensis (strain ATCC 700388 / DSM 13276 / CCUG 48851 / CIP 106301 / E264)
27% identity, 86% coverage

BPSL2902 putative phosphoglycerate mutase from Burkholderia pseudomallei K96243
26% identity, 86% coverage

Ta1347 hypothetical protein from Thermoplasma acidophilum DSM 1728
30% identity, 86% coverage

LIC13358 phosphoglycerate mutase from Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130
29% identity, 94% coverage

SERP_RS02470 histidine phosphatase family protein from Staphylococcus epidermidis RP62A
33% identity, 92% coverage

OG1RF_12264 histidine phosphatase family protein from Enterococcus faecalis OG1RF
EF2982 phosphoglycerate mutase family protein from Enterococcus faecalis V583
26% identity, 87% coverage

DSY1979 alpha-ribazole-5-phosphate phosphatase from Desulfitobacterium hafniense Y51
31% identity, 84% coverage

STM4585 putative phosphoglyceromutase 2 from Salmonella typhimurium LT2
SG4407 probable phosphoglycerate mutase 2 from Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91
28% identity, 84% coverage

BAS1929 phosphoglycerate mutase family protein from Bacillus anthracis str. Sterne
AW20_728 histidine phosphatase family protein from Bacillus anthracis str. Sterne
27% identity, 97% coverage

MAB_1623 Probable phosphoglycerate mutase from Mycobacterium abscessus ATCC 19977
42% identity, 41% coverage

FAD_1350 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Ferroplasma acidiphilum
28% identity, 89% coverage

YQGD_SCHPO / O94420 Probable phosphatase C1620.13; EC 3.1.3.- from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
43% identity, 31% coverage

LEPBI_I2940 putative phosphoglycerate/bisphosphoglycerate mutase from Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)'
30% identity, 89% coverage

Glov_3084 alpha-ribazole phosphatase from Geobacter lovleyi SZ
28% identity, 96% coverage

WP_019293168 histidine phosphatase family protein from Lactococcus petauri
30% identity, 76% coverage

LSA0131 Phosphoglycerate mutase from Lactobacillus sakei subsp. sakei 23K
31% identity, 90% coverage

PG1513 phosphoribosyltransferase, putative/phosphoglycerate mutase family protein from Porphyromonas gingivalis W83
29% identity, 42% coverage

5zr2C / N9V397 Crystal structure of phosphoserine phosphatase mutant (h9a) from entamoeba histolytica in complex with phosphoserine (see paper)
31% identity, 88% coverage

ST2120 231aa long conserved hypothetical protein from Sulfolobus tokodaii str. 7
28% identity, 80% coverage

PMI_RS18490 2,3-diphosphoglycerate-dependent phosphoglycerate mutase GpmB from Proteus mirabilis HI4320
PMI3716 probable phosphoglycerate mutase from Proteus mirabilis HI4320
26% identity, 84% coverage

SERCL_ARATH / F4KI56 Metal-independent phosphoserine phosphatase; iPSP; Phosphoglycerate mutase-like protein 3; EC 3.1.3.3 from Arabidopsis thaliana (Mouse-ear cress) (see paper)
AT5G04120 phosphoglycerate/bisphosphoglycerate mutase family protein from Arabidopsis thaliana
26% identity, 82% coverage

A5VJ49 Phosphoglycerate mutase from Limosilactobacillus reuteri (strain DSM 20016)
30% identity, 77% coverage

KIQ_009610 histidine phosphatase family protein from Corynebacterium glutamicum ATCC 14067
27% identity, 85% coverage

Arch_1063 histidine phosphatase family protein from Arcanobacterium haemolyticum DSM 20595
28% identity, 88% coverage

Smlt0586 putative phosphoglycerate mutase family from Stenotrophomonas maltophilia K279a
26% identity, 93% coverage

MAB_0133 Probable phosphoglycerate mutase from Mycobacterium abscessus ATCC 19977
29% identity, 73% coverage

tll0390 ORF_ID:tll0390~hypothetical protein from Thermosynechococcus elongatus BP-1
31% identity, 53% coverage

BL1656 phosphoglyceromutase from Bifidobacterium longum NCC2705
29% identity, 68% coverage

PGUG_05024 uncharacterized protein from Meyerozyma guilliermondii ATCC 6260
30% identity, 60% coverage

SSU05_0520 Fructose-2,6-bisphosphatase from Streptococcus suis 05ZYH33
29% identity, 85% coverage

BBMN68_1687 phosphoglyceromutase from Bifidobacterium longum subsp. longum BBMN68
P59159 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Bifidobacterium longum (strain NCC 2705)
Blon_2152 phosphoglycerate mutase 1 family from Bifidobacterium longum subsp. infantis ATCC 15697
29% identity, 71% coverage

DU507_13760 histidine phosphatase family protein from Lacticaseibacillus rhamnosus GG
31% identity, 66% coverage

1h2eA / Q9ALU0 Bacillus stearothermophilus phoe (previously known as yhfr) in complex with phosphate (see paper)
27% identity, 88% coverage

BBMN68_727 histidine phosphatase family protein from Bifidobacterium longum subsp. longum BBMN68
28% identity, 70% coverage

XP_445966 hypothetical protein from Candida glabrata CBS 138
32% identity, 66% coverage

ABIE51_RS06160 phosphoserine phosphatase (EC 3.1.3.3) from Lysobacter sp. OAE881
26% identity, 79% coverage

F9UT12 Phosphoglycerate mutase family protein from Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
28% identity, 95% coverage

SAS020 hypothetical protein from Staphylococcus aureus subsp. aureus N315
32% identity, 86% coverage

SAR0856 phosphoglycerate mutase family protein from Staphylococcus aureus subsp. aureus MRSA252
32% identity, 86% coverage

PAS_chr3_0826 Tetrameric phosphoglycerate mutase from Komagataella phaffii GS115
30% identity, 70% coverage

Bbr_1574 phosphoglyceromutase from Bifidobacterium breve UCC2003
28% identity, 71% coverage

LOC103828089 phosphoglycerate mutase-like protein 4 from Brassica rapa
28% identity, 67% coverage

BB341_RS18990, SCLAV_1867 histidine phosphatase family protein from Streptomyces clavuligerus
27% identity, 95% coverage

Q2YJN6 phosphoglycerate mutase (2,3-diphosphoglycerate-dependent) (EC 5.4.2.11) from Brucella abortus (see paper)
Q576R3 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Brucella abortus biovar 1 (strain 9-941)
BAB2_1013 Phosphoglycerate/bisphosphoglycerate mutase:Phosphoglycerate mutase 1 from Brucella melitensis biovar Abortus 2308
BruAb2_0992 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Brucella abortus bv. 1 str. 9-941
28% identity, 92% coverage

MSMEG_1926 phosphoglycerate mutase family protein from Mycobacterium smegmatis str. MC2 155
33% identity, 73% coverage

BMEII0248 PHOSPHOGLYCERATE MUTASE from Brucella melitensis 16M
28% identity, 88% coverage

cce_2454 phosphoglycerate mutase from Cyanothece sp. ATCC 51142
28% identity, 45% coverage

A1S_1661 Fructose-26-bisphosphatase from Acinetobacter baumannii ATCC 17978
29% identity, 59% coverage

cgd7_4270 glycolytic phosphoglycerate mutase from Cryptosporidium parvum Iowa II
27% identity, 70% coverage

BL0966 hypothetical protein from Bifidobacterium longum NCC2705
27% identity, 70% coverage

BBPR_1487 phosphoglyceromutase from Bifidobacterium bifidum PRL2010
28% identity, 71% coverage

Entcl_3728 2,3-diphosphoglycerate-dependent phosphoglycerate mutase GpmB from [Enterobacter] lignolyticus SCF1
26% identity, 84% coverage

AT3G50520 phosphoglycerate/bisphosphoglycerate mutase family protein from Arabidopsis thaliana
27% identity, 67% coverage

PP1680, PP_1680 alpha-ribazole-5'-phosphate phosphatase from Pseudomonas putida KT2440
24% identity, 90% coverage

YFFL_SCHPO / O94461 Probable phosphatase C1687.21; EC 3.1.3.- from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
27% identity, 74% coverage

BHWA1_01353 Fructose-2,6-bisphosphatase from Brachyspira hyodysenteriae WA1
30% identity, 76% coverage

slr1124 phosphoglycerate mutase from Synechocystis sp. PCC 6803
27% identity, 40% coverage

MONOS_5832 phosphoserine phosphatase from Monocercomonoides exilis
28% identity, 84% coverage

lmo0268 similar to phosphoglycerate mutase from Listeria monocytogenes EGD-e
28% identity, 71% coverage

MA3008 phosphoglycerate mutase family protein from Methanosarcina acetivorans C2A
28% identity, 78% coverage

LSEI_1293 Phosphoglycerate mutase family protein from Lactobacillus casei ATCC 334
26% identity, 88% coverage

LMRG_02608 hypothetical protein from Listeria monocytogenes 10403S
28% identity, 71% coverage

C0P3B4 Pentatricopeptide repeat-containing protein from Zea mays
29% identity, 61% coverage

KLMA_20098 phosphoglycerate mutase 1 from Kluyveromyces marxianus DMKU3-1042
31% identity, 63% coverage

NP_216651 hypothetical protein from Mycobacterium tuberculosis H37Rv
Rv2135c hypothetical protein from Mycobacterium tuberculosis H37Rv
23% identity, 81% coverage

AHA_2360 phosphoglycerate mutase from Aeromonas hydrophila subsp. hydrophila ATCC 7966
27% identity, 87% coverage

OG1RF_12034 histidine phosphatase family protein from Enterococcus faecalis OG1RF
28% identity, 78% coverage

PMGY_CANAL / P82612 Phosphoglycerate mutase; PGAM; BPG-dependent PGAM; MPGM; Phosphoglyceromutase; EC 5.4.2.11 from Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast) (see paper)
GPM1 phosphoglycerate mutase; EC 5.4.2.1 from Candida albicans (see 6 papers)
XP_721022 phosphoglycerate mutase from Candida albicans SC5314
29% identity, 70% coverage

EF2664 phosphoglycerate mutase family protein from Enterococcus faecalis V583
28% identity, 78% coverage

SMc02838 PROBABLE PHOSPHOGLYCERATE MUTASE 1 PROTEIN from Sinorhizobium meliloti 1021
27% identity, 89% coverage

LEP1GSC185_3352 histidine phosphatase family protein from Leptospira licerasiae serovar Varillal str. VAR 010
28% identity, 75% coverage

RHECIAT_CH0000213 phosphoglycerate mutase protein from Rhizobium etli CIAT 652
30% identity, 74% coverage

lmo0557 similar to phosphoglycerate mutase from Listeria monocytogenes EGD-e
26% identity, 84% coverage

SUB0594 phosphoglycerate mutase family protein from Streptococcus uberis 0140J
27% identity, 79% coverage

SSA_0422 Phosphoglycerate mutase family protein, putative from Streptococcus sanguinis SK36
28% identity, 91% coverage

XP_845028 phosphoglycerate mutase protein, putative from Trypanosoma brucei brucei TREU927
32% identity, 74% coverage

spr0887 Phosphoglycerate mutase from Streptococcus pneumoniae R6
SPD_0870 phosphoglycerate mutase family protein from Streptococcus pneumoniae D39
31% identity, 78% coverage

E3D976 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Gardnerella vaginalis (strain ATCC 14019 / 317)
HMPREF0424_0394 phosphoglycerate mutase 1 family protein from Gardnerella vaginalis 409-05
28% identity, 71% coverage

SCO6218 phosphatase from Streptomyces coelicolor A3(2)
30% identity, 74% coverage

LEUM_0251 Phosphoglycerate mutase family protein from Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293
26% identity, 86% coverage

APA386B_1895 histidine phosphatase family protein from Acetobacter pasteurianus 386B
30% identity, 80% coverage

FAD_1169 histidine phosphatase family protein from Ferroplasma acidiphilum
24% identity, 90% coverage

SAOUHSC_00827 hypothetical protein from Staphylococcus aureus subsp. aureus NCTC 8325
31% identity, 84% coverage

RNHPH_MYCTU / P9WLH5 Bifunctional protein Rv2228c; EC 3.1.26.4; EC 3.1.3.73 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see paper)
P9WLH5 ribonuclease H (EC 3.1.26.4); adenosylcobalamin/alpha-ribazole phosphatase (EC 3.1.3.73) from Mycobacterium tuberculosis (see paper)
Rv2228c hypothetical protein from Mycobacterium tuberculosis H37Rv
NP_216744 multifunctional RNASE H/alpha-ribazole phosphatase/acid phosphatase from Mycobacterium tuberculosis H37Rv
30% identity, 51% coverage

HSISS4_00092 histidine phosphatase family protein from Streptococcus salivarius
27% identity, 85% coverage

GPM1 / P00950 phosphoglycerate mutase (EC 5.4.2.11) from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (see paper)
PMG1_YEAST / P00950 Phosphoglycerate mutase 1; PGAM 1; BPG-dependent PGAM 1; MPGM 1; Phosphoglyceromutase 1; EC 5.4.2.11 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 12 papers)
NP_012770 phosphoglycerate mutase GPM1 from Saccharomyces cerevisiae S288C
YKL152C Gpm1p from Saccharomyces cerevisiae
28% identity, 66% coverage

BRADO4917 putative Alpha-ribazole phosphatase (anaerobic pathway of cobalamin biosynthesis, cobC) from Bradyrhizobium sp. ORS278
28% identity, 84% coverage

MSMEG_0935 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Mycobacterium smegmatis str. MC2 155
27% identity, 70% coverage

PGN_1973 probable phosphoglycerate mutase from Porphyromonas gingivalis ATCC 33277
29% identity, 65% coverage

Rv3390 PROBABLE CONSERVED LIPOPROTEIN LPQD from Mycobacterium tuberculosis H37Rv
26% identity, 62% coverage

Alvin_2702 Phosphoglycerate mutase from Allochromatium vinosum DSM 180
26% identity, 78% coverage

SUB0839 phosphoglycerate mutase family protein from Streptococcus uberis 0140J
29% identity, 92% coverage

Q6CFX7 Phosphoglycerate mutase from Yarrowia lipolytica (strain CLIB 122 / E 150)
30% identity, 68% coverage

LOC100691625 phosphoglycerate mutase 2 from Oreochromis niloticus
27% identity, 71% coverage

Synpcc7942_1516 phosphoglycerate mutase from Synechococcus elongatus PCC 7942
24% identity, 86% coverage

AL01_07655 histidine phosphatase family protein from Bombella intestini
27% identity, 75% coverage

PMGY_SCHPO / P36623 Phosphoglycerate mutase; PGAM; BPG-dependent PGAM; MPGM; Phosphoglyceromutase; EC 5.4.2.11 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast) (see paper)
gpm1 / RF|NP_594889.1 monomeric 2,3-bisphosphoglycerate (BPG)-dependent phosphoglycerate mutase (PGAM), Gpm1; EC 5.4.2.1 from Schizosaccharomyces pombe (see paper)
27% identity, 76% coverage

PECL_1361 histidine phosphatase family protein from Pediococcus claussenii ATCC BAA-344
27% identity, 86% coverage

blr0686 phosphoglycerate mutase from Bradyrhizobium japonicum USDA 110
28% identity, 80% coverage

CA_C2741 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Clostridium acetobutylicum ATCC 824
29% identity, 79% coverage

MUL_5010 phosphoglycerate mutase from Mycobacterium ulcerans Agy99
26% identity, 76% coverage

cg0482 phosphoglyceromutase from Corynebacterium glutamicum ATCC 13032
NCgl0390 phosphoglyceromutase from Corynebacterium glutamicum ATCC 13032
25% identity, 76% coverage

R4GIZ6 Fructose-2,6-bisphosphatase TIGAR from Gallus gallus
30% identity, 47% coverage

A5VI87 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Limosilactobacillus reuteri (strain DSM 20016)
28% identity, 75% coverage

1qhfA / P00950 Yeast phosphoglycerate mutase-3pg complex structure to 1.7 a (see paper)
28% identity, 67% coverage

DR_0602 phosphoglycerate mutase-related protein from Deinococcus radiodurans R1
A2G07_RS10465 histidine phosphatase family protein from Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539
28% identity, 78% coverage

AL01_07435 histidine phosphatase family protein from Bombella intestini
28% identity, 85% coverage

BP0607 phosphoglycerate mutase 1 from Bordetella pertussis Tohama I
27% identity, 69% coverage

CSP5_0806 histidine phosphatase family protein from Cuniculiplasma divulgatum
27% identity, 88% coverage

MAB_3936c Probable phosphoglycerate mutase from Mycobacterium abscessus ATCC 19977
30% identity, 75% coverage

CPAR2_211810 uncharacterized protein from Candida parapsilosis
28% identity, 75% coverage

Cbei_3168 phosphoglycerate mutase from Clostridium beijerincki NCIMB 8052
25% identity, 83% coverage

LT988_13795 histidine phosphatase family protein from Thiocapsa bogorovii
27% identity, 69% coverage

LIMLP_18450 histidine phosphatase family protein from Leptospira interrogans serovar Manilae
28% identity, 61% coverage

TWT755 phosphoglycerate mutase from Tropheryma whipplei str. Twist
33% identity, 73% coverage

CNA05980 cytoplasm protein from Cryptococcus neoformans var. neoformans JEC21
24% identity, 30% coverage

blr2630 phosphoglycerate mutase from Bradyrhizobium japonicum USDA 110
28% identity, 81% coverage

C7W88_RS04095 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Novosphingobium sp. THN1
30% identity, 74% coverage

LB149 phosphoglycerate mutase from Leptospira interrogans serovar lai str. 56601
LIC20119 phosphoglycerate mutase from Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130
LB_149 histidine phosphatase family protein from Leptospira interrogans serovar Lai str. 56601
27% identity, 61% coverage

lmo1244 weakly similar to phosphoglycerate mutase 1 from Listeria monocytogenes EGD-e
29% identity, 74% coverage

RL0179 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase (phosphoglyceromutase) (pgam) (bpg-dependent pgam) (dpgm) from Rhizobium leguminosarum bv. viciae 3841
28% identity, 81% coverage

PITG_13749 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Phytophthora infestans T30-4
29% identity, 56% coverage

PGM / AAA26800.1 phosphoglycerate mutase from Streptomyces coelicolor (see paper)
SCO4209 phosphoglyceromutase from Streptomyces coelicolor A3(2)
28% identity, 64% coverage

Rv3837c PROBABLE PHOSPHOGLYCERATE MUTASE (PHOSPHOGLYCEROMUTASE) (PHOSPHOGLYCERATE PHOSPHOMUTASE) from Mycobacterium tuberculosis H37Rv
P96241 Probable phosphoglycerate mutase (Phosphoglyceromutase) (Phosphoglycerate phosphomutase) from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
25% identity, 75% coverage

PAP_04825 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Palaeococcus pacificus DY20341
25% identity, 83% coverage

APY09_03840 phosphoglyceromutase from Schaalia odontolytica
26% identity, 70% coverage

F1N2F2 Phosphoglycerate mutase from Bos taurus
28% identity, 64% coverage

MUL_2536 phosphoglycerate mutase Gpm2 from Mycobacterium ulcerans Agy99
32% identity, 57% coverage

NE1780 Phosphoglycerate mutase family from Nitrosomonas europaea ATCC 19718
26% identity, 69% coverage

3lg2A / P36136 A ykr043c/ fructose-1,6-bisphosphate product complex following ligand soaking (see paper)
25% identity, 61% coverage

SHB17_YEAST / P36136 Sedoheptulose 1,7-bisphosphatase; EC 3.1.3.37 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) (see 4 papers)
P36136 fructose-bisphosphatase (EC 3.1.3.11) from Saccharomyces cerevisiae (see paper)
YKR043C Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus from Saccharomyces cerevisiae
25% identity, 61% coverage

W5PVY5 Phosphoglycerate mutase from Ovis aries
29% identity, 63% coverage

SPD_1468 phosphoglycerate mutase from Streptococcus pneumoniae D39
C1C8P5 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Streptococcus pneumoniae (strain 70585)
Q04JB4 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466)
SP_1655 phosphoglyceromutase from Streptococcus pneumoniae TIGR4
spr1499 Phosphoglyceromutase from Streptococcus pneumoniae R6
26% identity, 76% coverage

B5KJG2 phosphoglycerate mutase (2,3-diphosphoglycerate-dependent) (EC 5.4.2.11) from Sus scrofa (see paper)
NP_001128440 phosphoglycerate mutase 2 from Sus scrofa
28% identity, 64% coverage

STER_1172, STER_RS05785, T303_06885 phosphoglycerate mutase from Streptococcus thermophilus ASCC 1275
26% identity, 76% coverage

PSPPH_A0112 phosphoglycerate mutase family protein from Pseudomonas syringae pv. phaseolicola 1448A
26% identity, 70% coverage

BT1660 phosphoglycerate mutase from Bacteroides thetaiotaomicron VPI-5482
26% identity, 71% coverage

MMAR_1343 phosphoglycerate mutase Gpm2 from Mycobacterium marinum M
32% identity, 60% coverage

VC1240 alpha-ribazole-5`-phosphate phosphatase CobC, putative from Vibrio cholerae O1 biovar eltor str. N16961
25% identity, 97% coverage

F1613_RS00620 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Staphylococcus epidermidis
SE1995 phosphoglycerate mutase from Staphylococcus epidermidis ATCC 12228
26% identity, 74% coverage

Q7T3G4 Phosphoglycerate mutase from Danio rerio
28% identity, 61% coverage

C4R2M0 Sedoheptulose 1,7-bisphosphatase from Komagataella phaffii (strain GS115 / ATCC 20864)
21% identity, 73% coverage

B7GEI2 Phosphoglycerate mutase from Phaeodactylum tricornutum (strain CCAP 1055/1)
XP_002185492 phosphoglycerate mutase from Phaeodactylum tricornutum CCAP 1055/1
29% identity, 54% coverage

TGME49_273030 phosphoglycerate mutase family protein from Toxoplasma gondii ME49
26% identity, 57% coverage

P50201 Agropine synthesis reductase from Rhizobium rhizogenes
28% identity, 40% coverage

RL0954 putative phosphoglycerate mutase from Rhizobium leguminosarum bv. viciae 3841
36% identity, 43% coverage

WP_010371458 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Weissella cibaria
28% identity, 74% coverage

BCAM2488 putative Phosphoglycerate/bisphosphoglycerate mutase from Burkholderia cenocepacia J2315
23% identity, 76% coverage

lmo0907 similar to phosphoglycerate mutase from Listeria monocytogenes EGD-e
28% identity, 88% coverage

PGAM1_CHICK / Q5ZLN1 Phosphoglycerate mutase 1; BPG-dependent PGAM 1; EC 5.4.2.11; EC 5.4.2.4 from Gallus gallus (Chicken) (see paper)
NP_001026727 phosphoglycerate mutase 1 from Gallus gallus
28% identity, 67% coverage

Lreu_0146 2,3-diphosphoglycerate-dependent phosphoglycerate mutase from Limosilactobacillus reuteri subsp. reuteri
Lreu_0146 phosphoglycerate mutase from Lactobacillus reuteri DSM 20016
28% identity, 76% coverage

TWT655 phosphoglycerate mutase from Tropheryma whipplei str. Twist
28% identity, 71% coverage

LLNZ_01860 phosphoglycerate mutase from Lactococcus cremoris subsp. cremoris NZ9000
LACR_0382 Phosphoglycerate mutase 1 from Lactococcus lactis subsp. cremoris SK11
26% identity, 75% coverage

PGAM2_MOUSE / O70250 Phosphoglycerate mutase 2; BPG-dependent PGAM 2; Muscle-specific phosphoglycerate mutase; Phosphoglycerate mutase isozyme M; PGAM-M; EC 5.4.2.11; EC 5.4.2.4 from Mus musculus (Mouse) (see 2 papers)
O70250 phosphoglycerate mutase (2,3-diphosphoglycerate-dependent) (EC 5.4.2.11) from Mus musculus (see paper)
NP_061358 phosphoglycerate mutase 2 from Mus musculus
29% identity, 64% coverage

G1U7S4 Phosphoglycerate mutase from Oryctolagus cuniculus
28% identity, 64% coverage

M3WYZ8 Phosphoglycerate mutase from Felis catus
28% identity, 64% coverage

LMOf2365_2238 phosphoglycerate mutase from Listeria monocytogenes str. 4b F2365
Q71XG0 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Listeria monocytogenes serotype 4b (strain F2365)
25% identity, 75% coverage

ABO_1769 Phosphoglycerate mutase from Alcanivorax borkumensis SK2
28% identity, 67% coverage

3gp5A / Q3JWH7 Crystal structure of phosphoglyceromutase from burkholderia pseudomallei with 3-phosphoglyceric acid and vanadate (see paper)
27% identity, 71% coverage

GPMA_BURP1 / Q3JWH7 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase; BPG-dependent PGAM; PGAM; Phosphoglyceromutase; dPGM; EC 5.4.2.11 from Burkholderia pseudomallei (strain 1710b) (see paper)
Q3JWH7 phosphoglycerate mutase (2,3-diphosphoglycerate-dependent) (EC 5.4.2.11) from Burkholderia pseudomallei (see paper)
YP_332076 phosphoglycerate mutase from Burkholderia pseudomallei 1710b
27% identity, 71% coverage

NCDO2118_0399 phosphoglycerate mutase from Lactococcus lactis subsp. lactis NCDO 2118
26% identity, 75% coverage

MT3310 phosphoglycerate mutase family protein from Mycobacterium tuberculosis CDC1551
30% identity, 65% coverage

SUGPH_MYCTU / Q6MWZ7 Acid phosphatase; Broad-specificity phosphatase; Fructose-1,6-bisphosphatase; FBPase; EC 3.1.3.2; EC 3.1.3.11 from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) (see 2 papers)
Rv3214 POSSIBLE PHOSPHOGLYCERATE MUTASE GPM2 (PHOSPHOGLYCEROMUTASE) (PGAM) (BPG-DEPENDENT PGAM) from Mycobacterium tuberculosis H37Rv
BCG_3241 putative phosphoglycerate mutase gpm2 from Mycobacterium bovis BCG str. Pasteur 1173P2
BCG_3334 putative phosphoglycerate mutase gpm2 from Mycobacterium bovis BCG str. Pasteur 1173P2
Mb3240 POSSIBLE PHOSPHOGLYCERATE MUTASE GPM2 (PHOSPHOGLYCEROMUTASE) (PGAM) (BPG-DEPENDENT PGAM) from Mycobacterium bovis AF2122/97
YP_177944 phosphoglycerate mutase from Mycobacterium tuberculosis H37Rv
29% identity, 76% coverage

UMAG_02407 thymidylate synthase from Ustilago maydis 521
26% identity, 32% coverage

P16290 Phosphoglycerate mutase 2 from Rattus norvegicus
28% identity, 64% coverage

LSA0803 Phosphoglycerate mutase from Lactobacillus sakei subsp. sakei 23K
26% identity, 77% coverage

SPD_0222 phosphoglycerate mutase family protein from Streptococcus pneumoniae D39
27% identity, 72% coverage

SP_0240 phosphoglycerate mutase family protein from Streptococcus pneumoniae TIGR4
27% identity, 72% coverage

OG1RF_10217 histidine phosphatase family protein from Enterococcus faecalis OG1RF
28% identity, 72% coverage

spr0219 Phosphoglycerate mutase 2 paralog from Streptococcus pneumoniae R6
27% identity, 66% coverage

Q8Y2I3 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Ralstonia nicotianae (strain ATCC BAA-1114 / GMI1000)
25% identity, 71% coverage

SYNW0746 putative phosphoglycerate mutase family protein from Synechococcus sp. WH 8102
23% identity, 93% coverage

Q6AAU8 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Cutibacterium acnes (strain DSM 16379 / KPA171202)
27% identity, 69% coverage

B1745_06170 histidine phosphatase family protein from Lactobacillus amylolyticus
28% identity, 72% coverage

NP_956485 fructose-2,6-bisphosphatase TIGAR B from Danio rerio
27% identity, 60% coverage

LOC111359970 phosphoglycerate mutase 1 from Spodoptera litura
26% identity, 63% coverage

A3CLS0 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase from Streptococcus sanguinis (strain SK36)
SSA_0688 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase, putative from Streptococcus sanguinis SK36
26% identity, 76% 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 784,739 different protein sequences to 1,253,012 scientific articles. Searches against EuropePMC were last performed on November 25 2024.

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