YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39654107, gi\|...
Organism:	Escherichia coli
Length:	425 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|39654107, gi|....

Description	E-value	Query Range	Subject Range
gi\|74313409, gi\|... - gi\|74313409\|ref\|YP_311828.1\| diaminopimelate decarboxylase [Shigella sonnei Ss046], gi\|73856886\|gb\|A... gi\|157079050, gi... - gi\|75187574\|ref\|ZP_00700841.1\| COG0019: Diaminopimelate decarboxylase [Escherichia coli E24377A], gi...	366.0	[0..1]	[411..1]
gi\|218690964, gi... - gi\|218690964\|ref\|YP_002399176.1\| diaminopimelate decarboxylase [Escherichia coli ED1a], gi\|218428528... gi\|218701553, gi... - gi\|218701553\|ref\|YP_002409182.1\| diaminopimelate decarboxylase [Escherichia coli IAI39], gi\|21837153... gi\|218706332, gi... - gi\|218706332\|ref\|YP_002413851.1\| diaminopimelate decarboxylase [Escherichia coli UMN026], gi\|2184334... gi\|110344598, gi... - gi\|110643006\|ref\|YP_670736.1\| diaminopimelate decarboxylase [Escherichia coli 536], gi\|110344598\|gb\|...	366.0	[0..1]	[411..1]
gi\|85675654, gi\|... - gi\|89109621\|ref\|AP_003401.1\| diaminopimelate decarboxylase, PLP-binding [Escherichia coli str. K-12 ... gi\|124500325, gi... - gi\|124528797\|ref\|ZP_01700021.1\| diaminopimelate decarboxylase [Escherichia coli B], gi\|124500325\|gb\|... gi\|194439964, gi... - gi\|83584706\|ref\|ZP_00923371.1\| COG0019: Diaminopimelate decarboxylase [Escherichia coli 101-1], gi\|1... gi\|157162291, gi... - gi\|75196806\|ref\|ZP_00706876.1\| COG0019: Diaminopimelate decarboxylase [Escherichia coli HS], gi\|1571... gi\|193071432, gi... - gi\|75215017\|ref\|ZP_00713480.1\| COG0019: Diaminopimelate decarboxylase [Escherichia coli E110019], gi... gi\|190903960, gi... - gi\|75230822\|ref\|ZP_00717280.1\| COG0019: Diaminopimelate decarboxylase [Escherichia coli B7A], gi\|191... gi\|188494453, gi... - gi\|75515370\|ref\|ZP_00737554.1\| COG0019: Diaminopimelate decarboxylase [Escherichia coli 53638], gi\|1... gi\|169753847, gi... - gi\|170018919\|ref\|YP_001723873.1\| diaminopimelate decarboxylase [Escherichia coli ATCC 8739], gi\|1697... gi\|209920286, gi... - gi\|209920286\|ref\|YP_002294370.1\| diaminopimelate decarboxylase [Escherichia coli SE11], gi\|209913545... EG10549 - diaminopimelate decarboxylase, PLP-binding / Diaminopimelate decarboxylase gi\|170082406, gi... - gi\|170082406\|ref\|YP_001731726.1\| diaminopimelate decarboxylase, PLP-binding [Escherichia coli str. K... gi\|218696434, gi... - gi\|218696434\|ref\|YP_002404101.1\| diaminopimelate decarboxylase [Escherichia coli 55989], gi\|21835316... gi\|218362155, gi... - gi\|218555387\|ref\|YP_002388300.1\| diaminopimelate decarboxylase [Escherichia coli IAI1], gi\|218362155... gi\|238901974, gi... - gi\|238901974\|ref\|YP_002927770.1\| diaminopimelate decarboxylase, PLP-binding [Escherichia coli BW2952... gi\|242378386, gi... - gi\|251786113\|ref\|YP_003000417.1\| hypothetical protein B21_02647 [Escherichia coli BL21], gi\|24237838... EG10549 - diaminopimelate decarboxylase, PLP-binding / Diaminopimelate decarboxylase DCDA_ECOLW - Diaminopimelate decarboxylase OS=Escherichia coli (strain ATCC 9637 / CCM 2024 / DSM 1116 / NCIMB 86... gi\|253772307, gi... - gi\|254289525\|ref\|YP_003055273.1\| diaminopimelate decarboxylase, PLP-binding [Escherichia coli BL21(D... gi\|254037891, gi... - gi\|254037891\|ref\|ZP_04871949.1\| diaminopimelate decarboxylase [Escherichia sp. 1_1_43], gi\|226839515... gi\|253974667, gi... - gi\|254162766\|ref\|YP_003045874.1\| diaminopimelate decarboxylase, PLP-binding [Escherichia coli B str.... DCDA_ECOLI - Diaminopimelate decarboxylase (EC 4.1.1.20) (DAP decarboxylase) - Escherichia coli	365.0	[0..1]	[411..1]
gi\|194433017, gi... - gi\|83569873\|ref\|ZP_00921321.1\| COG0019: Diaminopimelate decarboxylase [Shigella dysenteriae 1012], g...	365.0	[0..1]	[411..1]
gi\|24053253, gi\|... - gi\|24114117\|ref\|NP_708627.1\| diaminopimelate decarboxylase [Shigella flexneri 2a str. 301], gi\|24053... gi\|30064179, gi\|... - gi\|30064179\|ref\|NP_838350.1\| diaminopimelate decarboxylase [Shigella flexneri 2a str. 2457T], gi\|300... gi\|110616322, gi... - gi\|110806774\|ref\|YP_690294.1\| diaminopimelate decarboxylase [Shigella flexneri 5 str. 8401], gi\|1106...	365.0	[0..1]	[411..1]
gi\|26109677, gi\|... - gi\|26249270\|ref\|NP_755310.1\| diaminopimelate decarboxylase [Escherichia coli CFT073], gi\|26109677\|gb... gi\|215266229, gi... - gi\|215488157\|ref\|YP_002330588.1\| diaminopimelate decarboxylase [Escherichia coli O127:H6 str. E2348/... gi\|227834673, gi... - gi\|227888404\|ref\|ZP_04006209.1\| diaminopimelate decarboxylase [Escherichia coli 83972], gi\|227834673...	365.0	[0..1]	[411..1]
gi\|81242362, gi\|... - gi\|82778214\|ref\|YP_404563.1\| diaminopimelate decarboxylase [Shigella dysenteriae Sd197], gi\|81242362...	364.0	[0..1]	[411..1]
gi\|238792795, gi... - gi\|77978939\|ref\|ZP_00834362.1\| COG0019: Diaminopimelate decarboxylase [Yersinia intermedia ATCC 2990...	363.0	[0..1]	[420..1]
gi\|77359070, gi\|... - gi\|77359070\|ref\|YP_338645.1\| diaminopimelate decarboxylase [Pseudoalteromonas haloplanktis TAC125], ...	363.0	[0..1]	[422..1]
gi\|190906464, gi... - gi\|75239202\|ref\|ZP_00723175.1\| COG0019: Diaminopimelate decarboxylase [Escherichia coli F11], gi\|191...	363.0	[0..1]	[411..1]

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Predicted Domain #1

Region A:
Residues: [1-425]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPHSLFSTDT DLTAENLLRL PAEFGCPVWV YDAQIIRRQI AALKQFDVVR FAQKACSNIH  60
   61 ILRLMREQGV KVDSVSLGEI ERALAAGYNP QTHPDDIVFT ADVIDQATLE RVSELQIPVN 120
  121 AGSVDMLDQL GQVSPGHRVW LRVNPGFGHG HSQKTNTGGE NSKHGIWYTD LPAALDVIQR 180
  181 HHLQLVGIHM HIGSGVDYAH LEQVCGAMVR QVIEFGQDLQ AISAGGGLSV PYQQGEEAVD 240
  241 TEHYYGLWNA AREQIARHLG HPVKLEIEPG RFLVAQSGVL ITQVRSVKQM GSRHFVLVDA 300
  301 GFNDLMRPAM YGSYHHISAL AADGRSLEHA PTVETVVAGP LCESGDVFTQ QEGGNVETRA 360
  361 LPEVKAGDYL VLHDTGAYGA SMSSNYNSRP LLPEVLFDNG QARLIRRRQT IEELLALELL 420
  421 HHHHH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	101.0
Match:	1knwA
Description:	Crystal structure of diaminopimelate decarboxylase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
diaminopimelate decarboxylase activity	3.58479480906491	bayes_pls_golite062009
amino-acid racemase activity	2.10295722394074	bayes_pls_golite062009
racemase and epimerase activity, acting on amino acids and derivatives	1.96192295083077	bayes_pls_golite062009
catalytic activity	1.23611818854966	bayes_pls_golite062009
ornithine decarboxylase activity	0.564318776647641	bayes_pls_golite062009
lyase activity	0.320782640542698	bayes_pls_golite062009
carboxy-lyase activity	0.14065879331273	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: