YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213855089
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. M223
Length:	712 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|213855089.

Description	E-value	Query Range	Subject Range
gi\|62182877, gi\|... - gi\|62182877\|ref\|YP_219294.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica su...	0.0	[1..712]	[1..712]
NRDD_SALTY - Anaerobic ribonucleoside-triphosphate reductase OS=Salmonella typhimurium GN=nrdD PE=3 SV=1 NRDD_SALTY - Anaerobic ribonucleoside-triphosphate reductase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / A... lcl\|NC_016856.1_... - [gene=nrdD] [protein=anaerobic ribonucleoside triphosphate reductase] [protein_id=YP_005240773.1] [l... gi\|205274968, gi... - gi\|205355187\|ref\|YP_002228988.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enteric... gi\|206711382, gi... - gi\|207859579\|ref\|YP_002246230.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enteric... gi\|197242381, gi... - gi\|197264126\|ref\|ZP_03164200.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica... gi\|197938730, gi... - gi\|198244214\|ref\|YP_002218315.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enteric... gi\|199605245, gi... - gi\|200388147\|ref\|ZP_03214759.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica... gi\|204927049, gi... - gi\|204927049\|ref\|ZP_03218251.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica... gi\|195632571, gi... - gi\|195632571\|gb\|EDX51025.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica sub... gi\|205342347, gi... - gi\|205342347\|gb\|EDZ29111.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica sub... gi\|194410125, gi... - gi\|194451821\|ref\|YP_002048475.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enteric... gi\|194471484, gi... - gi\|194471484\|ref\|ZP_03077468.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica... gi\|205330264, gi... - gi\|205330264\|gb\|EDZ17028.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica sub... gi\|205332912, gi... - gi\|205332912\|gb\|EDZ19676.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica sub... NRDD_SALTY - Anaerobic ribonucleoside-triphosphate reductase OS=Salmonella typhimurium GN=nrdD PE=3 SV=1 gi\|168244067, gi... - gi\|205337077\|gb\|EDZ23841.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica sub... gi\|205348967, gi... - gi\|205348967\|gb\|EDZ35598.1\| anaerobic ribonucleoside-triphosphate reductase [Salmonella enterica sub...	0.0	[1..712]	[1..712]
gi\|197096624, gi... - gi\|197365147\|ref\|YP_002144784.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enteric... gi\|56130481, gi\|... - gi\|56416224\|ref\|YP_153299.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica su...	0.0	[1..712]	[1..712]
gi\|170021751, gi... - gi\|170021751\|ref\|YP_001726705.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli A... gi\|218368167, gi... - gi\|218561398\|ref\|YP_002394311.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli S... gi\|192956890, gi... - gi\|75235453\|ref\|ZP_00719661.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch... gi\|124500742, gi... - gi\|124528300\|ref\|ZP_01699624.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli B]...	0.0	[1..712]	[1..712]
gi\|194433892, gi... - gi\|83569389\|ref\|ZP_00920843.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Shig...	0.0	[1..712]	[1..712]
gi\|237703913, gi... - gi\|237703913\|ref\|ZP_04534394.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia sp. 3_2... gi\|190908995, gi... - gi\|75242374\|ref\|ZP_00726136.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch... gi\|115515708, gi... - gi\|117626584\|ref\|YP_859907.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli APEC... gi\|91075365, gi\|... - gi\|91213791\|ref\|YP_543777.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli UTI89... gi\|26251144, gi\|... - gi\|26251144\|ref\|NP_757184.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli CFT07... gi\|110644599, gi... - gi\|110644599\|ref\|YP_672329.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli 536]...	0.0	[1..712]	[1..712]
gi\|254037259, gi... - gi\|254037259\|ref\|ZP_04871336.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia sp. 1_1... gi\|194423287, gi... - gi\|83586733\|ref\|ZP_00925365.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch... gi\|253980224, gi... - gi\|254290915\|ref\|YP_003056665.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli B... gi\|157163713, gi... - gi\|75198089\|ref\|ZP_00708159.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch... gi\|251787487, gi... - gi\|251787487\|ref\|YP_003001791.1\| hypothetical protein B21_04070 [Escherichia coli BL21], gi\|24237976... gi\|194415364, gi... - gi\|75212207\|ref\|ZP_00712247.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch... gi\|238903341, gi... - gi\|238903341\|ref\|YP_002929137.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli B... gi\|193063742, gi... - gi\|75258340\|ref\|ZP_00729771.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch... gi\|89110956, gi\|... - gi\|89110956\|ref\|AP_004736.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli str. ... gi\|209914993, gi... - gi\|209921734\|ref\|YP_002295818.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli S... gi\|218556788, gi... - gi\|218556788\|ref\|YP_002389702.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli I... gi\|218434944, gi... - gi\|218707847\|ref\|YP_002415366.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli U... EG11417 - anaerobic ribonucleoside-triphosphate reductase / Ribonucleoside-triphosphate reductase; class III a... EG11417 - anaerobic ribonucleoside-triphosphate reductase / Ribonucleoside-triphosphate reductase; class III a... gi\|170083679, gi... - gi\|170083679\|ref\|YP_001732999.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli s... NRDD_ECOLI - Anaerobic ribonucleoside-triphosphate reductase (EC 1.17.4.2) - Escherichia coli gi\|254164165, gi... - gi\|254164165\|ref\|YP_003047275.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli B...	0.0	[1..712]	[1..712]
gi\|209749670, gi... - pir\|\|G91280 anaerobic ribonucleoside-triphosphate reductase [imported] - Escherichia coli (strain O1... gi\|12519242, gi\|... - gi\|15804828\|ref\|NP_290869.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli O157:... gi\|13364692, gi\|... - gi\|15834469\|ref\|NP_313242.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli O157:... gi\|254796258, gi... - gi\|254796258\|ref\|YP_003081095.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O... gi\|208733273, gi... - gi\|208811996\|ref\|ZP_03253325.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O1... gi\|208820712, gi... - gi\|208820712\|ref\|ZP_03261032.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O1... gi\|209157226, gi... - gi\|209395826\|ref\|YP_002273781.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O... gi\|217325941, gi... - gi\|217325941\|ref\|ZP_03442025.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O1... gi\|189374739, gi... - gi\|189374739\|gb\|EDU93155.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O157:H... gi\|189379431, gi... - gi\|189379431\|gb\|EDU97847.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O157:H... gi\|195937263 - gi\|195937263\|ref\|ZP_03082645.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli O1... gi\|208808013, gi... - gi\|208808013\|ref\|ZP_03250350.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O1... gi\|168760488, gi... - gi\|189368865\|gb\|EDU87281.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O157:H... gi\|189364193, gi... - gi\|189364193\|gb\|EDU82612.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O157:H... gi\|187770204, gi... - gi\|187770204\|gb\|EDU34048.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O157:H... gi\|188999753, gi... - gi\|188999753\|gb\|EDU68739.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O157:H... gi\|13364692, gi\|... - gi\|15834469\|ref\|NP_313242.1\| anaerobic ribonucleoside triphosphate reductase [Escherichia coli O157:... gi\|168751072, gi... - gi\|188014840\|gb\|EDU52962.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O157:H... gi\|168754815, gi... - gi\|189357853\|gb\|EDU76272.1\| anaerobic ribonucleoside-triphosphate reductase [Escherichia coli O157:H...	0.0	[1..712]	[1..712]
gi\|75515475, gi\|... - gi\|75515475\|ref\|ZP_00737632.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch... gi\|191167267, gi... - gi\|75229609\|ref\|ZP_00716148.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch...	0.0	[1..712]	[1..712]
gi\|157157950, gi... - gi\|75188951\|ref\|ZP_00702218.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch...	0.0	[1..712]	[1..712]

Back

Predicted Domain #1

Region A:
Residues: [1-108]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTPHVMKRDG CKVPFKSERI KEAILRAAKA AGVDDADYCA TVAEVVSSQM NARSQVDINE  60
   61 IQTAVENQLM SGPYKQLARA YIEYRHDRDI QREKRGRLNQ EIRGLVEQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.39794
Match:	5r1rA
Description:	R1 subunit of ribonucleotide reductase, N-terminal domain; R1 subunit of ribonucleotide reductase, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [109-712]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TNSALLNENA NKDSKVIPTQ RDLLAGIVAK HYARQHLLPR DVVQAHERGD IHYHDLDYSP  60
   61 FFPMFNCMLI DLKGMLTQGF KMGNAEIEPP KSISTATAVT AQIIAQVASH IYGGTTINRI 120
  121 DEVLAPFVTE SYNKHRKTAD EWQIPDAEGY ARSRTEKECY DAFQSLEYEV NTLHTANGQT 180
  181 PFVTFGFGLG TSWESRLIQA SILRNRIAGL GKNRKTAVFP KLVFAIRDGL NHKFGDPNYD 240
  241 IKQLALECAS KRMYPDILNY DQVVKVTGSF KTPMGCRSFL GVWENENGEQ IHDGRNNLGV 300
  301 ISLNLPRIAL EAKGDETAFW KLLDERLALA RKALMTRIAR LEGVKARVAP ILYMEGACGV 360
  361 RLKADDDVSE IFKNGRASIS LGYIGIHETI NALFGGEHLY DSEQLRAKGI AIVERLRQAV 420
  421 DQWKDETGYG FSLYSTPSEN LCDRFCRLDT AEFGVVPGVT DKGYYTNSFH LDVEKKVNPY 480
  481 DKISFEAPYP PLANGGFICY GEYPNIQHNL KALEDVWDYS YQHVPYYGTN TPIDECYECG 540
  541 FTGEFECTSK GFTCPKCGNH DAARVSVTRR VCGYLGSPDA RPFNAGKQEE VKRRVKHLGN 600
  601 GQIG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1h78A
Description:	Class III anaerobic ribonucleotide reductase NRDD subunit
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ribonucleoside-triphosphate reductase activity	9.3477327019931	bayes_pls_golite062009
oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor	8.4227686174128	bayes_pls_golite062009
ribonucleoside-diphosphate reductase activity	7.9433005176339	bayes_pls_golite062009
oxidoreductase activity, acting on CH or CH2 groups	7.80351268764356	bayes_pls_golite062009
class III ribonucleotide reductase activity	5.84425109538191	bayes_pls_golite062009
CTP reductase activity	5.84425109538191	bayes_pls_golite062009
class I ribonucleotide reductase activity	3.5217325854654	bayes_pls_golite062009
catalytic activity	1.95058695475279	bayes_pls_golite062009
oxidoreductase activity	0.610428948300511	bayes_pls_golite062009
binding	0.314904881128799	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: