YRC Public Data Repository - Protein Structure Prediction

Protein:	RIR1_ECOLI
Organism:	Escherichia coli
Length:	761 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 RIR1_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|56412826, gi\|... - gi\|56412826\|ref\|YP_149901.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella enterica... gi\|62128483, gi\|... - gi\|62180850\|ref\|YP_217267.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella enterica... gi\|197361759, gi... - gi\|197361759\|ref\|YP_002141395.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella ente... gi\|205344941, gi... - gi\|205344941\|gb\|EDZ31705.1\| ribonucleoside-diphosphate reductase, alpha subunit [Salmonella enterica... gi\|168466026, gi... - gi\|195631245\|gb\|EDX49805.1\| ribonucleoside-diphosphate reductase, alpha subunit [Salmonella enterica... gi\|205349577, gi... - gi\|205349577\|gb\|EDZ36208.1\| ribonucleoside-diphosphate reductase, alpha subunit [Salmonella enterica...	865.0	[0..1]	[761..1]
lcl\|NC_016856.1_... - [gene=nrdA] [protein=ribonucleotide-diphosphate reductase subunit alpha] [protein_id=YP_005238348.1]... gi\|205329161, gi... - gi\|205329161\|gb\|EDZ15925.1\| ribonucleoside-diphosphate reductase, alpha subunit [Salmonella enterica... RIR1_SALTY - Ribonucleoside-diphosphate reductase 1 subunit alpha OS=Salmonella typhimurium GN=nrdA PE=3 SV=1 RIR1_SALTY - Ribonucleoside-diphosphate reductase 1 subunit alpha OS=Salmonella typhimurium GN=nrdA PE=3 SV=1 RIR1_SALTY - Ribonucleoside-diphosphate reductase 1 subunit alpha OS=Salmonella typhimurium (strain LT2 / SGSC141...	865.0	[0..1]	[761..1]
gi\|218361565, gi... - gi\|218554797\|ref\|YP_002387710.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia col... gi\|75259700, gi\|... - gi\|75259700\|ref\|ZP_00731002.1\| COG0209: Ribonucleotide reductase, alpha subunit [Escherichia coli E2... gi\|193068151, gi... - gi\|75238025\|ref\|ZP_00722030.1\| COG0209: Ribonucleotide reductase, alpha subunit [Escherichia coli E1... gi\|75230376, gi\|... - gi\|75230376\|ref\|ZP_00716866.1\| COG0209: Ribonucleotide reductase, alpha subunit [Escherichia coli B7... gi\|194427206, gi... - gi\|75211645\|ref\|ZP_00711724.1\| COG0209: Ribonucleotide reductase, alpha subunit [Escherichia coli B1... gi\|209919686, gi... - gi\|209919686\|ref\|YP_002293770.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia col...	865.0	[0..1]	[761..1]
gi\|188492275, gi... - gi\|75512710\|ref\|ZP_00735212.1\| COG0209: Ribonucleotide reductase, alpha subunit [Escherichia coli 53...	863.0	[0..1]	[761..1]
gi\|187731504, gi... - gi\|75177970\|ref\|ZP_00698032.1\| COG0209: Ribonucleotide reductase, alpha subunit [Shigella boydii BS5...	862.0	[0..1]	[761..1]
gi\|24113614, gi\|... - gi\|24113614\|ref\|NP_708124.1\| ribonucleotide-diphosphate reductase subunit alpha [Shigella flexneri 2... gi\|30041923, gi\|... - gi\|30063668\|ref\|NP_837839.1\| ribonucleotide-diphosphate reductase subunit alpha [Shigella flexneri 2...	862.0	[0..1]	[761..1]
gi\|15802781, gi\|... - gi\|15802781\|ref\|NP_288808.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia coli O1... gi\|218690397, gi... - gi\|218690397\|ref\|YP_002398609.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia col... gi\|15832371, gi\|... - gi\|15832371\|ref\|NP_311144.1\| ribonucleotide-diphosphate reductase alpha subunit [Escherichia coli O1... gi\|218352572, gi... - gi\|218695840\|ref\|YP_002403507.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia col... gi\|218370691, gi... - gi\|218700705\|ref\|YP_002408334.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia col... gi\|218705764, gi... - gi\|218705764\|ref\|YP_002413283.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia col... gi\|226901076, gi... - gi\|237704710\|ref\|ZP_04535191.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia sp. ... gi\|227887292, gi... - gi\|227887292\|ref\|ZP_04005097.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia coli... gi\|168761334, gi... - gi\|189368234\|gb\|EDU86650.1\| ribonucleoside-diphosphate reductase, alpha subunit [Escherichia coli O1... gi\|168787140, gi... - gi\|189372942\|gb\|EDU91358.1\| ribonucleoside-diphosphate reductase, alpha subunit [Escherichia coli O1... gi\|170519980, gi... - gi\|170682262\|ref\|YP_001744430.1\| ribonucleoside-diphosphate reductase, alpha subunit [Escherichia co... gi\|217320335, gi... - gi\|217327968\|ref\|ZP_03444051.1\| ribonucleoside-diphosphate reductase, alpha subunit [Escherichia col... gi\|218365920, gi... - gi\|218559151\|ref\|YP_002392064.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia col... gi\|157078736, gi... - gi\|75187023\|ref\|ZP_00700290.1\| COG0209: Ribonucleotide reductase, alpha subunit [Escherichia coli E2... gi\|115513552, gi... - gi\|117624428\|ref\|YP_853341.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia coli A... gi\|91211527, gi\|... - gi\|91211527\|ref\|YP_541513.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia coli UT... gi\|26248622, gi\|... - gi\|26248622\|ref\|NP_754662.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia coli CF... gi\|15832371, gi\|... - gi\|15832371\|ref\|NP_311144.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia coli O1... gi\|209765530, gi... - pir\|\|G85862 hypothetical protein nrdA [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|190909741, gi... - gi\|75243049\|ref\|ZP_00726755.1\| COG0209: Ribonucleotide reductase, alpha subunit [Escherichia coli F1... gi\|110642442, gi... - gi\|110642442\|ref\|YP_670172.1\| ribonucleotide-diphosphate reductase subunit alpha [Escherichia coli 5...	862.0	[0..1]	[761..1]
gi\|213646445 - gi\|213646445\|ref\|ZP_03376498.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella enter... gi\|25285839, gi\|... - gi\|25285839\|pir\|\|AC0791 ribonucleoside-diphosphate reductase (EC 1.17.4.1) - Salmonella enterica sub... gi\|213612728 - gi\|213612728\|ref\|ZP_03370554.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella enter... gi\|213424146 - gi\|213424146\|ref\|ZP_03357024.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella enter... gi\|213161594 - gi\|213161594\|ref\|ZP_03347304.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella enter... gi\|29136728, gi\|... - gi\|29141102\|ref\|NP_804444.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella enterica... gi\|16761203 - gi\|16761203\|ref\|NP_456820.1\| ribonucleotide-diphosphate reductase subunit alpha [Salmonella enterica...	862.0	[0..1]	[761..1]
gi\|2914238, gi\|2... - gi\|2914238\|pdb\|4R1R\|C Chain C, Ribonucleotide Reductase R1 Protein With Substrate, Gdp And Effector ...	861.0	[0..1]	[761..1]
gi\|110615752, gi... - gi\|110806204\|ref\|YP_689724.1\| ribonucleotide-diphosphate reductase subunit alpha [Shigella flexneri ...	861.0	[0..1]	[761..1]

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Predicted Domain #1

Region A:
Residues: [1-761]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNQNLLVTKR DGSTERINLD KIHRVLDWAA EGLHNVSISQ VELRSHIQFY DGIKTSDIHE  60
   61 TIIKAAADLI SRDAPDYQYL AARLAIFHLR KKAYGQFEPP ALYDHVVKMV EMGKYDNHLL 120
  121 EDYTEEEFKQ MDTFIDHDRD MTFSYAAVKQ LEGKYLVQNR VTGEIYESAQ FLYILVAACL 180
  181 FSNYPRETRL QYVKRFYDAV STFKISLPTP IMSGVRTPTR QFSSCVLIEC GDSLDSINAT 240
  241 SSAIVKYVSQ RAGIGINAGR IRALGSPIRG GEAFHTGCIP FYKHFQTAVK SCSQGGVRGG 300
  301 AATLFYPMWH LEVESLLVLK NNRGVEGNRV RHMDYGVQIN KLMYTRLLKG EDITLFSPSD 360
  361 VPGLYDAFFA DQEEFERLYT KYEKDDSIRK QRVKAVELFS LMMQERASTG RIYIQNVDHC 420
  421 NTHSPFDPAI APVRQSNLCL EIALPTKPLN DVNDENGEIA LCTLSAFNLG AINNLDELEE 480
  481 LAILAVRALD ALLDYQDYPI PAAKRGAMGR RTLGIGVINF AYYLAKHGKR YSDGSANNLT 540
  541 HKTFEAIQYY LLKASNELAK EQGACPWFNE TTYAKGILPI DTYKKDLDTI ANEPLHYDWE 600
  601 ALRESIKTHG LRNSTLSALM PSETSSQISN ATNGIEPPRG YVSIKASKDG ILRQVVPDYE 660
  661 HLHDAYELLW EMPGNDGYLQ LVGIMQKFID QSISANTNYD PSRFPSGKVP MQQLLKDLLT 720
  721 AYKFGVKTLY YQNTRDGAED AQDDLVPSIQ DDGCESGACK I

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	2r1rA
Description:	R1 subunit of ribonucleotide reductase, N-terminal domain; R1 subunit of ribonucleotide reductase, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor	14.6351774763867	bayes_pls_golite062009
ribonucleoside-diphosphate reductase activity	14.1611243981741	bayes_pls_golite062009
oxidoreductase activity, acting on CH or CH2 groups	13.9924528137471	bayes_pls_golite062009
class I ribonucleotide reductase activity	8.57315924653024	bayes_pls_golite062009
catalytic activity	1.95058695475279	bayes_pls_golite062009
binding	1.06379703329768	bayes_pls_golite062009
protein binding	0.34900723085369	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: