YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24374363, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	705 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|24374363, gi|....

Description	E-value	Query Range	Subject Range
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...	1049.0	[0..2]	[705..3]
gi\|62182877, gi\|... - gi\|62182877\|ref\|YP_219294.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica su...	1049.0	[0..2]	[705..3]
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...	1048.0	[0..2]	[705..3]
gi\|213053330 - gi\|213053330\|ref\|ZP_03346208.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica... gi\|213427660 - gi\|213427660\|ref\|ZP_03360410.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica... gi\|213612406 - gi\|213612406\|ref\|ZP_03370232.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica... gi\|29140370, gi\|... - gi\|29144731\|ref\|NP_808073.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica su... gi\|16505560, gi\|... - gi\|25285854\|pir\|\|AC1058 ribonucleoside-triphosphate reductase (EC 1.17.4.2) - Salmonella enterica su... gi\|16763252 - gi\|16763252\|ref\|NP_458869.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica su... gi\|213645913 - gi\|213645913\|ref\|ZP_03375966.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica... gi\|213855089 - gi\|213855089\|ref\|ZP_03383329.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica... gi\|214001783 - gi\|214001783\|ref\|ZP_03412518.1\| anaerobic ribonucleoside triphosphate reductase [Salmonella enterica...	1047.0	[0..2]	[705..3]
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]...	1043.0	[0..2]	[705..3]
gi\|194433892, gi... - gi\|83569389\|ref\|ZP_00920843.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Shig...	1043.0	[0..2]	[705..3]
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]...	1043.0	[0..2]	[705..3]
gi\|157157950, gi... - gi\|75188951\|ref\|ZP_00702218.1\| COG1328: Oxygen-sensitive ribonucleoside-triphosphate reductase [Esch...	1042.0	[0..2]	[705..3]
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...	1042.0	[0..2]	[705..3]
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...	1042.0	[0..2]	[705..3]

Back

Predicted Domain #1

Region A:
Residues: [1-100]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPVVIKRDGC RTPFDETRIR DAVIAAANSV GIEDTDYAAT VAACVSARVA NMAEVEIHHL  60
   61 QDVVENLLME GPYKSLARVY IEYRHDRDIC RDATSKLNLE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.221849
Match:	6r1rA
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: [101-705]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IRGLVEQSNA ALLNENANKD SKVIPTQRDL LAGIVAKHYA KSHILPKDVV AAHEMGEIHY  60
   61 HDLDYSPFFP MFNCMLIDLA GMLTHGFKMG NAEIETPKSI STATAVTAQI IAQVASHIYG 120
  121 GTTINRIDEV LAPFVAKSYD KHYQVALNWQ IKDAKAYATA QTEKECHDAF QSLEYEVNTL 180
  181 HTANGQTPFV TFGFGLGTSW ESRLIQQSML KVRMAGLGKN RKTAVFPKLV FAIRDGINHK 240
  241 VGDCNYDVKQ LALKCATMRM YPDILNYEQV EKVTGSFKTP MGCRSFLGSY KENGELVHEG 300
  301 RNNLGVVSLN LPRVALEAKG DEAEFYRILD ERLLLARRAL DTRIERLNGV KARVAPILYM 360
  361 EGACGVRLRA DDDIAQIFKN GRASISLGYI GLHETINALY GTETHVFDNA QLREKAVAIV 420
  421 AYLKAATDAW KAETGYGFSL YSTPSESLCS RFCKLDARQF GVVTGVTDKG YYTNSFHLDV 480
  481 EKRVNPYDKI DFEQPYPAIA NGGFICYGEY PNMQHNIEAL ENVWDYSYSR VPYYGTNTPI 540
  541 DECYDCGFTG EFSCTSKGFT CPKCGNHEPS RVSVTRRVCG YLGSPDARPF NHGKQEEVKR 600
  601 RIKHL

[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: