PaperBLAST – Find papers about a protein or its homologs

 

PaperBLAST

PaperBLAST Hits for CharProtDB::CH_121570 alginate biosynthesis protein AlgA; EC 2.7.7.13; EC 5.3.1.8 (Pseudomonas fluorescens) (483 a.a., MIPVILSGGS...)

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 134 similar proteins in the literature:

algA / GI|31296823 alginate biosynthesis protein AlgA; EC 2.7.7.13; EC 5.3.1.8 from Pseudomonas fluorescens (see 2 papers)
100% identity, 100% coverage

GIB64_10205 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas lactis
97% identity, 100% coverage

GIB65_14920 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas lactis
97% identity, 100% coverage

ELZ14_25350 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas brassicacearum
94% identity, 100% coverage

BLU14_RS00825, K659_RS0107135 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas corrugata
94% identity, 100% coverage

BV82_4701 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas donghuensis
90% identity, 100% coverage

PP1277, PP_1277 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas putida KT2440
89% identity, 100% coverage

Psyr_1052 Mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas syringae pv. syringae B728a
90% identity, 100% coverage

PSPTO_1232 alginate biosynthesis protein AlgA from Pseudomonas syringae pv. tomato str. DC3000
89% identity, 100% coverage

algA / P07874 phosphomannose isomerase (EC 5.3.1.8; EC 2.7.7.13) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see 2 papers)
ALGA_PSEAE / P07874 Alginate biosynthesis protein AlgA; EC 5.3.1.8; EC 2.7.7.13 from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1) (see paper)
P07874 mannose-1-phosphate guanylyltransferase (EC 2.7.7.13) from Pseudomonas aeruginosa (see 2 papers)
PA3551 phosphomannose isomerase / guanosine 5'-diphospho-D-mannose pyrophosphorylase from Pseudomonas aeruginosa PAO1
NP_252241 bifunctional mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas aeruginosa PAO1
79% identity, 97% coverage

Avin_10860 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Azotobacter vinelandii AvOP
74% identity, 100% coverage

xanB / AAK53463.1 phosphomannose isomerase/GDP-D-mannose pyrophosphorylase from Xanthomonas campestris pv. campestris (see 4 papers)
58% identity, 97% coverage

XFF4834R_chr34740 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Xanthomonas citri pv. fuscans
57% identity, 97% coverage

XAUB_05850 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Xanthomonas citri pv. aurantifolii str. ICPB 11122
57% identity, 97% coverage

E2P69_RS22825 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Xanthomonas perforans
58% identity, 97% coverage

PXO_RS21065 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Xanthomonas oryzae pv. oryzae PXO99A
PXO_03173 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Xanthomonas oryzae pv. oryzae PXO99A
57% identity, 97% coverage

XAC3580 phosphomannose isomerase from Xanthomonas axonopodis pv. citri str. 306
57% identity, 97% coverage

XHV734_4229 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Xanthomonas hortorum pv. vitians
58% identity, 97% coverage

NBC2815_00824 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Xanthomonas fragariae
57% identity, 97% coverage

PD0212 phosphomannose isomerase-GDP-mannose pyrophosphorylase from Xylella fastidiosa Temecula1
55% identity, 97% coverage

ZP_01218698 mannose-1-phosphate guanylyltransferase from Photobacterium profundum 3TCK
54% identity, 97% coverage

CDW43_06820 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Methylophaga nitratireducenticrescens
54% identity, 97% coverage

YP_002413091 Mannose-1-phosphate guanylyltransferase [GDP] (GDP-mannose pyrophosphorylase) (GMP) from Escherichia coli UMN026
54% identity, 97% coverage

XALc_2693 probable mannose-6-phosphate isomerase protein from Xanthomonas albilineans
56% identity, 97% coverage

YPK_3181 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Yersinia pseudotuberculosis YPIII
53% identity, 96% coverage

YPTB1011 mannose-1-phosphate guanylyltransferase from Yersinia pseudotuberculosis IP 32953
51% identity, 96% coverage

YPO3099 mannose-1-phosphate guanylyltransferase from Yersinia pestis CO92
51% identity, 96% coverage

YE3073 mannose-1-phosphate guanylyltransferase from Yersinia enterocolitica subsp. enterocolitica 8081
52% identity, 96% coverage

ACIAD0086 bifunctional protein [Includes: Mannose-6-phosphate isomerase (Phosphomannose isomerase) (Pmi) (Phosphohexomutase); Mannose-1-phosphate guanylyl transferase (Gdp) (GDP-mannose pyrophosphorylase) (Gmp)] from Acinetobacter sp. ADP1
51% identity, 97% coverage

Q43941 mannose-1-phosphate guanylyltransferase from Acinetobacter calcoaceticus
51% identity, 97% coverage

epsQ / BAC55145.1 GDP-mannose pyrophosphorylase EpsQ from Methylobacillus sp. 12S (see paper)
54% identity, 97% coverage

I5G01_08515 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Klebsiella pneumoniae
50% identity, 97% coverage

VK055_5027 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Klebsiella pneumoniae subsp. pneumoniae
Q48462 Mannose-1-phosphate guanylyltransferase from Klebsiella pneumoniae
50% identity, 97% coverage

rfbM / BAA07745.1 GDP-mannose pyrophosphorylase from Escherichia coli (see 2 papers)
Q59427 mannose-1-phosphate guanylyltransferase from Escherichia coli
50% identity, 97% coverage

KP1_RS17280 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044
KP1_3703 mannose-1-phosphate guanylyltransferase from Klebsiella pneumoniae NTUH-K2044
50% identity, 97% coverage

Q07024 Putative mannose-1-phosphate guanylyltransferase from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
VC0241 mannose-1-phosphate guanylyltransferase from Vibrio cholerae O1 biovar eltor str. N16961
52% identity, 96% coverage

ESA_01169 hypothetical protein from Enterobacter sakazakii ATCC BAA-894
53% identity, 97% coverage

c2575 Mannose-1-phosphate guanylyltransferase from Escherichia coli CFT073
52% identity, 97% coverage

BTH_I1324 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia thailandensis E264
53% identity, 97% coverage

MANC1_ECO57 / Q8X7P1 Mannose-1-phosphate guanylyltransferase 1; GDP-mannose pyrophosphorylase 1; GMP 1; GMPP 1; EC 2.7.7.13 from Escherichia coli O157:H7
Z3213 mannose-1-phosphate guanyltransferase from Escherichia coli O157:H7 EDL933
52% identity, 97% coverage

Q5A_007950 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Serratia inhibens PRI-2C
51% identity, 97% coverage

RfbM / b2049 mannose-1-phosphate guanylyltransferase (EC 2.7.7.13) from Escherichia coli K-12 substr. MG1655 (see 11 papers)
cpsB / P24174 mannose-1-phosphate guanylyltransferase (EC 2.7.7.13) from Escherichia coli (strain K12) (see 11 papers)
P24174 Mannose-1-phosphate guanylyltransferase from Escherichia coli (strain K12)
b2049 mannose-1-phosphate guanyltransferase from Escherichia coli str. K-12 substr. MG1655
52% identity, 97% coverage

A4U42_06115 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Dickeya solani
51% identity, 95% coverage

Dda3937_00442 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Dickeya dadantii 3937
51% identity, 95% coverage

Dd586_1250 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Dickeya dadantii Ech586
50% identity, 97% coverage

STM2105.S mannose-1-phosphate guanylyltransferase from Salmonella typhimurium LT2
51% identity, 97% coverage

BCAL3246 putative GDP-mannose pyrophosphorylase from Burkholderia cenocepacia J2315
52% identity, 97% coverage

t0789 mannose-1-phosphate guanylyltransferase from Salmonella enterica subsp. enterica serovar Typhi Ty2
49% identity, 97% coverage

RFBM_SALTY / P26404 Mannose-1-phosphate guanylyltransferase RfbM; GDP-mannose pyrophosphorylase; GMP; GMPP; GTP--mannose-1-phosphate guanylyltransferase; EC 2.7.7.13 from Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (see paper)
manC / CAA40128.1 mannose-1-phosphate guanylyltransferase (GDP) from Salmonella enterica (see 6 papers)
STM2084 LPS side chain defect: mannose-1-phosphate guanylyltransferase from Salmonella typhimurium LT2
49% identity, 97% coverage

BPSL2810 putative GDP-mannose pyrophosphorylase from Burkholderia pseudomallei K96243
51% identity, 97% coverage

B4EMQ6 mannose-1-phosphate guanylyltransferase (EC 2.7.7.13) from Burkholderia cenocepacia (see paper)
BCAM0854 bifunctional exopolysaccharide biosynthesis protein (phosphomannose isomerase and GDP-D-mannose pyrophosphorylase) from Burkholderia cenocepacia J2315
49% identity, 91% coverage

ECA1438 mannose-1-phosphate guanylyltransferase from Erwinia carotovora subsp. atroseptica SCRI1043
ECA1438 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pectobacterium atrosepticum SCRI1043
49% identity, 97% coverage

AWY96_RS17195 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Serratia plymuthica
50% identity, 97% coverage

ZMO1233 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Zymomonas mobilis subsp. mobilis ZM4
49% identity, 96% coverage

BPSS1835 putative LPS biosynthesis mannose-1-phosphate guanylyltransferase from Burkholderia pseudomallei K96243
47% identity, 96% coverage

V8V93_16175 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudodesulfovibrio sp. 5S69
51% identity, 96% coverage

Bphy_1056 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Paraburkholderia phymatum STM815
Bphy_1056 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia phymatum STM815
48% identity, 92% coverage

Bphy_2475 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Paraburkholderia phymatum STM815
Bphy_2475 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia phymatum STM815
48% identity, 93% coverage

ABD05_RS29500 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia pyrrocinia
47% identity, 89% coverage

manC / AAC27538.1 ManC from Escherichia coli (see 6 papers)
48% identity, 96% coverage

BCAM1340 mannose-1-phosphate guanylyltransferase from Burkholderia cenocepacia J2315
48% identity, 93% coverage

I35_RS22410 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia cenocepacia H111
48% identity, 93% coverage

AL01_07360 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Bombella intestini
46% identity, 97% coverage

Rmet_5843 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Ralstonia metallidurans CH34
Rmet_5843 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Cupriavidus metallidurans CH34
48% identity, 94% coverage

BTH_I0522 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia thailandensis E264
48% identity, 89% coverage

lpg2887 phosphomannose isomerase GDP mannose pyrophosphorylase from Legionella pneumophila subsp. pneumophila str. Philadelphia 1
48% identity, 94% coverage

MANC2_ECO57 / O85342 Mannose-1-phosphate guanylyltransferase 2; GDP-mannose pyrophosphorylase 2; GMP 2; GMPP 2; EC 2.7.7.13 from Escherichia coli O157:H7 (see paper)
ECs2836 mannose-1-P guanosyltransferase from Escherichia coli O157:H7 str. Sakai
Z3195 mannose-1-P guanosyltransferase from Escherichia coli O157:H7 EDL933
48% identity, 96% coverage

KW89_2960 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Piscirickettsia salmonis
46% identity, 96% coverage

Bcen2424_4206 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia cenocepacia HI2424
48% identity, 89% coverage

Bphy_2283 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia phymatum STM815
Bphy_2283 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Paraburkholderia phymatum STM815
49% identity, 91% coverage

BMA0029 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Burkholderia mallei ATCC 23344
47% identity, 89% coverage

BPSL0605 putative mannose-1-phosphate guanylyltransferase from Burkholderia pseudomallei K96243
47% identity, 89% coverage

Q2YMQ9 mannose-1-phosphate guanylyltransferase from Brucella abortus (strain 2308)
BAB1_0561 Mannose-6-phosphate isomerase, type II:Nucleotidyl transferase:Mannose-1-phosphate guanylyltransferase/mannose-6-phosphate is... from Brucella melitensis biovar Abortus 2308
BR0538 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Brucella suis 1330
44% identity, 97% coverage

BMEI1395 MANNOSE-1-PHOSPHATE GUANYLYLTRANSFERASE from Brucella melitensis 16M
44% identity, 97% coverage

Gdia_1182 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Gluconacetobacter diazotrophicus PAl 5
47% identity, 96% coverage

FTN_1418 mannose-1-phosphate guanylyltransferase from Francisella tularensis subsp. novicida U112
45% identity, 96% coverage

BAB2_0856 Mannose-6-phosphate isomerase, type II:ATP/GTP-binding site motif A (P-loop):Nucleotidyl transferase:Mannose-1-phosphate guan... from Brucella melitensis biovar Abortus 2308
Q2YK24 mannose-1-phosphate guanylyltransferase from Brucella abortus (strain 2308)
46% identity, 97% coverage

BMEII0900 MANNOSE-6-PHOSPHATE ISOMERASE / MANNOSE-1-PHOSPHATE GUANYLYL TRANSFERASE (GDP) from Brucella melitensis 16M
46% identity, 97% coverage

RHECIAT_CH0003488 mannose-1-phosphate guanylyltransferase (GDP) protein from Rhizobium etli CIAT 652
44% identity, 97% coverage

BRA0347 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Brucella suis 1330
45% identity, 97% coverage

Psyr_3302 Mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas syringae pv. syringae B728a
45% identity, 96% coverage

Atu3353 mannose-1-phosphate guanylyltransferase (GDP) from Agrobacterium tumefaciens str. C58 (Cereon)
ATU_RS15505 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Agrobacterium fabrum str. C58
45% identity, 97% coverage

CBU_0671 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Coxiella burnetii RSA 493
44% identity, 97% coverage

HZ99_RS00120 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas fluorescens
44% identity, 97% coverage

PA14_71970 GDP-mannose pyrophosphorylase from Pseudomonas aeruginosa UCBPP-PA14
46% identity, 97% coverage

PA5452 phosphomannose isomerase/GDP-mannose WbpW from Pseudomonas aeruginosa PAO1
46% identity, 97% coverage

O24884 mannose-1-phosphate guanylyltransferase from Helicobacter pylori (strain ATCC 700392 / 26695)
HP0043 mannose-6-phosphate isomerase (pmi) or (algA) from Helicobacter pylori 26695
42% identity, 96% coverage

V8V93_09910 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudodesulfovibrio sp. 5S69
45% identity, 96% coverage

D7FG32 mannose-1-phosphate guanylyltransferase from Helicobacter pylori (strain B8)
42% identity, 96% coverage

HPB8_1582 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Helicobacter pylori B8
42% identity, 96% coverage

YP_626781 mannose-6-phosphate isomerase from Helicobacter pylori HPAG1
42% identity, 96% coverage

DVU0697 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Desulfovibrio vulgaris Hildenborough
45% identity, 96% coverage

MPAO1_14370 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Pseudomonas aeruginosa
NP_250922 biofilm formation protein PslB from Pseudomonas aeruginosa PAO1
Q9I1N7 mannose-1-phosphate guanylyltransferase from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)
PA2232 probable phosphomannose isomerase/GDP-mannose pyrophosphorylase from Pseudomonas aeruginosa PAO1
43% identity, 96% coverage

SPV1_07961 phosphomannose isomerase / GDPmannose dehydrogenase from Mariprofundus ferrooxydans PV-1
43% identity, 96% coverage

PH0925 / O58649 GDP-D-mannose pyrophosphorylase (EC 2.7.7.13; EC 5.3.1.8) from Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) (see paper)
PH0925 mannose-1-phosphate guanylyl transferase from Pyrococcus horikoshii OT3
40% identity, 97% coverage

PF0589 mannose-6-phosphate isomerase/mannose-1-phosphate guanylyl transferase from Pyrococcus furiosus DSM 3638
41% identity, 97% coverage

HH0675 conserved hypothetical protein from Helicobacter hepaticus ATCC 51449
41% identity, 97% coverage

Dd703_3281 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Dickeya dadantii Ech703
42% identity, 94% coverage

Teth514_2275 mannose-1-phosphate guanylyltransferase (GDP) from Thermoanaerobacter ethanolicus X514
39% identity, 72% coverage

NX02_23250 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase from Sphingomonas sanxanigenens DSM 19645 = NX02
40% identity, 72% coverage

C7W88_RS03395 mannose-1-phosphate guanylyltransferase from Novosphingobium sp. THN1
42% identity, 72% coverage

CD630_27790, CDIF630erm_03042 mannose-1-phosphate guanylyltransferase from Clostridioides difficile 630
CD2779 putative mannose-1-phosphate guanylyltransferase from Clostridium difficile 630
36% identity, 72% coverage

X276_RS25120 mannose-1-phosphate guanylyltransferase from Clostridium beijerinckii NRRL B-598
36% identity, 73% coverage

A4XL18 Mannose-1-phosphate guanylyltransferase (GDP) from Caldicellulosiruptor saccharolyticus (strain ATCC 43494 / DSM 8903 / Tp8T 6331)
34% identity, 72% coverage

EHI_052810 mannose-1-phosphate guanylyltransferase, putative from Entamoeba histolytica HM-1:IMSS
36% identity, 71% coverage

CCNA_03733 mannose-1-phosphate guanylyltransferase (GDP) from Caulobacter crescentus NA1000
CC_3618 mannose-1-phosphate guanylyltransferase from Caulobacter crescentus CB15
40% identity, 73% coverage

CPE0495 probable mannose-1-phosphate guanylyltransferase from Clostridium perfringens str. 13
35% identity, 71% coverage

BC343_03170 mannose-1-phosphate guanylyltransferase from Mucilaginibacter pedocola
36% identity, 72% coverage

Q9X0C3 mannose-1-phosphate guanylyltransferase (EC 2.7.7.13) from Thermotoga maritima (see paper)
TM1033 mannose-1-phosphate guanylyltransferase from Thermotoga maritima MSB8
38% identity, 72% coverage

2x65A / Q9X0C3 Crystal structure of t. Maritima gdp-mannose pyrophosphorylase in complex with mannose-1-phosphate. (see paper)
38% identity, 72% coverage

ZPR_0538 mannose-1-phosphate guanylyltransferase (GDP) from Zunongwangia profunda SM-A87
37% identity, 72% coverage

sll1370 GDP-mannose pyrophosphorylase from Synechocystis sp. PCC 6803
37% identity, 73% coverage

Cbei_0318 mannose-1-phosphate guanylyltransferase (GDP) from Clostridium beijerincki NCIMB 8052
33% identity, 72% coverage

YP_149157 mannose-6-phosphate isomerase (phosphomannose isomerase) ; mannose-1-phosphate guanylyl transferase (GDP-mannose pyrophosphorylase) from Geobacillus kaustophilus HTA426
32% identity, 96% coverage

alr0188 GDP-mannose pyrophosphorylase from Nostoc sp. PCC 7120
35% identity, 73% coverage

PG2215 mannose-1-phosphate guanylyltransferase from Porphyromonas gingivalis W83
35% identity, 71% coverage

TTC1388 No description from Thermus thermophilus HB27
36% identity, 72% coverage

CPE2308 mannose-1-phosphate guanylyltransferase from Clostridium perfringens str. 13
30% identity, 74% coverage

Tery_1856 Mannose-1-phosphate guanylyltransferase (GDP) from Trichodesmium erythraeum IMS101
36% identity, 72% coverage

BT2781 putative mannose-1-phosphate guanylyltransferase from Bacteroides thetaiotaomicron VPI-5482
33% identity, 71% coverage

BT_0558 mannose-1-phosphate guanylyltransferase from Bacteroides thetaiotaomicron VPI-5482
34% identity, 70% coverage

BTB_RS26870, BTB_c54660 sugar phosphate nucleotidyltransferase from Bacillus thuringiensis Bt407
32% identity, 95% coverage

SYNPCC7002_A1554 mannose-1-phosphate guanylyltransferase from Synechococcus sp. PCC 7002
34% identity, 72% coverage

D8IEW7 Mannose-1-phosphate guanylyltransferase from Brachyspira pilosicoli (strain ATCC BAA-1826 / 95/1000)
30% identity, 72% coverage

WP_015708896 mannose-1-phosphate guanylyltransferase from Treponema primitia ZAS-2
31% identity, 72% coverage

all4342 mannose-6-phosphate isomerase from Nostoc sp. PCC 7120
54% identity, 27% coverage

all4538 mannose-6-phosphate isomerase from Nostoc sp. PCC 7120
49% identity, 22% coverage

FTN_0408 mannose-6-phosphate isomerase from Francisella tularensis subsp. novicida U112
43% identity, 31% coverage

WD1227 mannose-1-phosphate guanylyltransferase, interruption-C from Wolbachia endosymbiont of Drosophila melanogaster
28% identity, 56% coverage

WD1224 mannose-1-phosphate guanylyltransferase, interruption-N from Wolbachia endosymbiont of Drosophila melanogaster
40% identity, 42% coverage

AS87_RS07030 phosphomannose isomerase type II C-terminal cupin domain from Riemerella anatipestifer Yb2
40% identity, 22% coverage

SYNW0919 similar to mannose-6-phosphate isomerase WbpW from Synechococcus sp. WH 8102
41% identity, 23% coverage

RC1040 similarity to mannose-1-phosphate guanylyltransferase from Rickettsia conorii str. Malish 7
27% identity, 36% coverage

RC1039 similarity to mannose-1-phosphate guanylyltransferase from Rickettsia conorii str. Malish 7
39% identity, 24% 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