YRC Public Data Repository - Protein Structure Prediction

Protein:	PYRD_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	339 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 PYRD_SHEON.

Description	E-value	Query Range	Subject Range
gi\|94492053, gi\|... - gi\|94492053\|ref\|ZP_01299262.1\| hypothetical protein CburD_01000943 [Coxiella burnetii Dugway 7E9-12]... PYRD_COXBU - Dihydroorotate dehydrogenase (quinone) OS=Coxiella burnetii (strain RSA 493 / Nine Mile phase I) GN=... PYRD_COXBU - Dihydroorotate dehydrogenase (quinone) OS=Coxiella burnetii GN=pyrD PE=3 SV=1 PYRD_COXBR - Dihydroorotate dehydrogenase (quinone) OS=Coxiella burnetii (strain RSA 331 / Henzerling II) GN=pyrD... PYRD_COXBN - Dihydroorotate dehydrogenase (quinone) OS=Coxiella burnetii (strain Dugway 5J108-111) GN=pyrD PE=3 S... gi\|120577163, gi... - gi\|153206800\|ref\|ZP_01945641.1\| dihydroorotate oxidase [Coxiella burnetii 'MSU Goat Q177'], gi\|12057... PYRD_COXB1 - Dihydroorotate dehydrogenase (quinone) OS=Coxiella burnetii (strain CbuK_Q154) GN=pyrD PE=3 SV=1 PYRD_COXB2 - Dihydroorotate dehydrogenase (quinone) OS=Coxiella burnetii (strain CbuG_Q212) GN=pyrD PE=3 SV=1 gi\|165918575, gi... - gi\|165918575\|ref\|ZP_02218661.1\| dihydroorotate oxidase [Coxiella burnetii RSA 334], gi\|165917703\|gb\|...	273.0	[0..1]	[336..1]
PYRD_ERWCT - Dihydroorotate dehydrogenase (quinone) OS=Erwinia carotovora subsp. atroseptica GN=pyrD PE=3 SV=1 PYRD_PECAS - Dihydroorotate dehydrogenase (quinone) OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-6...	272.0	[0..1]	[336..1]
PYRD_COLP3 - Dihydroorotate dehydrogenase (quinone) OS=Colwellia psychrerythraea (strain 34H / ATCC BAA-681) GN=p...	271.0	[0..1]	[336..1]
gi\|90328567, gi\|... - gi\|90410326\|ref\|ZP_01218342.1\| dihydroorotate dehydrogenase [Photobacterium profundum 3TCK], gi\|9032...	269.0	[0..1]	[333..1]
gi\|238795877, gi... - gi\|77963117\|ref\|ZP_00826930.1\| COG0167: Dihydroorotate dehydrogenase [Yersinia mollaretii ATCC 43969...	268.0	[0..1]	[336..1]
PYRD_VIBPA - Dihydroorotate dehydrogenase (quinone) OS=Vibrio parahaemolyticus GN=pyrD PE=3 SV=1 gi\|149747126, gi... - gi\|153839355\|ref\|ZP_01992022.1\| dihydroorotate oxidase [Vibrio parahaemolyticus AQ3810], gi\|14974712... PYRD_VIBPA - Dihydroorotate dehydrogenase (quinone) OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 221063...	268.0	[0..1]	[336..1]
gi\|151937080, gi... - gi\|75854396\|ref\|ZP_00762092.1\| COG0167: Dihydroorotate dehydrogenase [Vibrio sp. Ex25], gi\|254230399...	268.0	[0..1]	[336..1]
gi\|149366672, gi... - gi\|149366672\|ref\|ZP_01888706.1\| dihydroorotate dehydrogenase [Yersinia pestis CA88-4125], gi\|1492910... PYRD_YERPP - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pestis (strain Pestoides F) GN=pyrD PE=3 SV=1 gi\|229697757, gi... - gi\|229841391\|ref\|ZP_04461550.1\| dihydro-orotate oxidase, FMN-linked [Yersinia pestis biovar Oriental... gi\|229843496, gi... - gi\|229843496\|ref\|ZP_04463642.1\| dihydro-orotate oxidase, FMN-linked [Yersinia pestis biovar Oriental... gi\|229700794, gi... - gi\|229895871\|ref\|ZP_04511041.1\| dihydro-orotate oxidase, FMN-linked [Yersinia pestis Pestoides A], g... PYRD_YERPS - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN... gi\|22126632, gi\|... - gi\|22126632\|ref\|NP_670055.1\| dihydroorotate dehydrogenase 2 [Yersinia pestis KIM], gi\|21959643\|gb\|AA... gi\|89104668, gi\|... - gi\|89104668\|ref\|ZP_01177205.1\| COG0167: Dihydroorotate dehydrogenase [Yersinia pestis biovar Orienta... gi\|165990762, gi... - gi\|166010276\|ref\|ZP_02231174.1\| dihydroorotate oxidase [Yersinia pestis biovar Antiqua str. E1979001... gi\|15979464, gi\|... - gi\|218928563\|ref\|YP_002346438.1\| dihydroorotate dehydrogenase 2 [Yersinia pestis CO92], gi\|16121695\|... PYRD_YERPA - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=pyrD PE=3 ... gi\|166207004, gi... - gi\|166211233\|ref\|ZP_02237268.1\| dihydroorotate oxidase [Yersinia pestis biovar Antiqua str. B4200300... PYRD_YERPN - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=pyrD PE=3... gi\|167050826, gi... - gi\|167400118\|ref\|ZP_02305636.1\| dihydroorotate oxidase [Yersinia pestis biovar Antiqua str. UG05-045... gi\|167419731, gi... - gi\|167419731\|ref\|ZP_02311484.1\| dihydroorotate oxidase [Yersinia pestis biovar Orientalis str. MG05-... gi\|167423892, gi... - gi\|167423892\|ref\|ZP_02315645.1\| dihydroorotate oxidase [Yersinia pestis biovar Mediaevalis str. K197... gi\|167470047 - gi\|167470047\|ref\|ZP_02334751.1\| dihydroorotate oxidase [Yersinia pestis FV-1] PYRD_YERPE - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pestis GN=pyrD PE=3 SV=1 PYRD_YERPY - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN... PYRD_YERPB - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=... PYRD_YERPG - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pestis bv. Antiqua (strain Angola) GN=pyrD PE=3 S... PYRD_YERP3 - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758... gi\|165924775, gi... - gi\|165924775\|ref\|ZP_02220607.1\| dihydroorotate oxidase [Yersinia pestis biovar Orientalis str. F1991... PYRD_YERPS - Dihydroorotate dehydrogenase (quinone) OS=Yersinia pseudotuberculosis GN=pyrD PE=3 SV=1	267.0	[0..1]	[336..1]
PYRD_PHOPR - Dihydroorotate dehydrogenase (quinone) OS=Photobacterium profundum GN=pyrD PE=3 SV=1 PYRD_PHOPR - Dihydroorotate dehydrogenase (quinone) OS=Photobacterium profundum (strain SS9) GN=pyrD PE=3 SV=1	267.0	[0..1]	[333..1]
gi\|77979210, gi\|... - gi\|77979210\|ref\|ZP_00834630.1\| COG0167: Dihydroorotate dehydrogenase [Yersinia intermedia ATCC 29909...	267.0	[0..1]	[336..1]

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Predicted Domain #1

Region A:
Residues: [1-339]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFYKIAQKVM FQMDPERAHN LAIGSLRMTG NGPLNAFYAQ NITPAPVSFM GLTFPNPVGL  60
   61 AAGMDKDGES IDAFHAMGFG HVEVGTVTPR PQPGNDLPRL FRLKPAKAII NRMGFNNKGV 120
  121 DNLVKNLIAK KTDIMVGVNI GKNKDTPVEQ GKDDYLICMD KVYLHAAYIA VNISSPNTPG 180
  181 LRSLQYGDLL DELLSAIKAK QLELADKHKK YVPIALKIAP DLTIEEIENI AQALIKNQFD 240
  241 GAIATNTTLT RDGVSGLANA NESGGLSGKP LTELSTKVIK QLATCLQGQI PIIGVGGINS 300
  301 AEDALAKFDA GATMVQIYSG FIYQGPKLIK EIVEAYRLK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	69.39794
Match:	1f76A
Description:	Dihydroorotate dehydrogenase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
dihydroorotate dehydrogenase activity	2.96830698317456	bayes_pls_golite062009
dihydroorotate oxidase activity	2.43908593807774	bayes_pls_golite062009
catalytic activity	2.31793084876503	bayes_pls_golite062009
oxidoreductase activity	1.59709503080261	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor	1.01963656484845	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: