YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|45440762, gi\|...
Organism:	Yersinia pestis biovar Microtus str. 91001
Length:	762 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 gi|45440762, gi|....

Description	E-value	Query Range	Subject Range
gi\|51588880, gi\|... - gi\|51595598\|ref\|YP_069789.1\| ribonucleotide-diphosphate reductase subunit alpha [Yersinia pseudotube... Q66CZ5\|Q66CZ5_YERPS - Ribonucleoside-diphosphate reductase 1 alpha chain - Yersinia pseudotuberculosis	0.0	[1..762]	[1..762]
gi\|238713392, gi... - gi\|77956354\|ref\|ZP_00820460.1\| COG0209: Ribonucleotide reductase, alpha subunit [Yersinia bercovieri...	0.0	[1..762]	[1..761]
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...	0.0	[1..762]	[1..761]
gi\|77960360, gi\|... - gi\|77960360\|ref\|ZP_00824235.1\| COG0209: Ribonucleotide reductase, alpha subunit [Yersinia mollaretii...	0.0	[1..762]	[1..761]
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...	0.0	[1..762]	[1..761]
gi\|77976961, gi\|... - gi\|77976961\|ref\|ZP_00832425.1\| COG0209: Ribonucleotide reductase, alpha subunit [Yersinia intermedia...	0.0	[1..762]	[1..761]
gi\|77975441, gi\|... - gi\|77975441\|ref\|ZP_00830976.1\| COG0209: Ribonucleotide reductase, alpha subunit [Yersinia frederikse...	0.0	[1..762]	[1..761]
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...	0.0	[1..762]	[1..761]
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...	0.0	[1..762]	[1..761]
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...	0.0	[1..762]	[1..761]

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Predicted Domain #1

Region A:
Residues: [1-762]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNQSLLVTKR DGSKERINLD KIHRVIDWAA EGLHNVSVSQ VELRSHIQFY DGIKTSDIHE  60
   61 TIIKAAADLI SRDAPDYQYL AARLAIFHLR KKAYGQFEPP TLFAHVSKMV EMGKYDKHLL 120
  121 EDYTAEEFEQ MDTFIDHWRD MNFSYAAVKQ LEGKYLVQNR VSGEIYESAQ FLYILVSACL 180
  181 FSGYPRETRL DYIKRFYDAI STFKISLPTP IMAGVRTPTR QFSSCVLIEC GDSLDSINAT 240
  241 SSAIVKYVSQ RAGIGINAGR IRALGSPIRG GEAFHTGCIP FYKHFQTAVK SCSQGGVRGG 300
  301 AATLFYPMWH LEVESLLVLK NNRGVEGNRV RHMDYGVQIN KLMYQRLLKG GDITLFSPSD 360
  361 VPGLYDAFFA DQDEFERLYV KYEQDSSIRK QRVKAVELFS LMMQERASTG RIYIQNVDHC 420
  421 NTHSPFDPKI APVRQSNLCL EIALPTKPLN DINDENGEIA LCTLSAFNLG AIDSLDDLED 480
  481 LAILAVRALD ALLDYQDYPI AAAQRGAMGR RTLGIGVINF AYYLAKNGVR YSDGSANNLT 540
  541 HRTFEAIQYY LLKASNALAR EQGACPWFNE TTYSQGILPI DTYKKDLDAI SNEPLHYDWE 600
  601 TLRKEIQTHG LRNSTLSALM PSETSSQISN ATNGIEPPRG YVSIKASKDG ILRQVVPEYE 660
  661 RLKGAYELLW EMPNNDGYLQ LVGLMQKFVD QAISANTNYD PTRFPSGKVP MKQLLKDLLT 720
  721 TYKFGVKTLY YQNTRDGADD VQEDIQSSLP GDDDCEGGAC KI

[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: