YRC Public Data Repository - Protein Structure Prediction

Protein:	LIPA_ECOLI
Organism:	Escherichia coli
Length:	321 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 LIPA_ECOLI.

Description	E-value	Query Range	Subject Range
LIPA_SHELP - Lipoyl synthase OS=Shewanella loihica (strain ATCC BAA-1088 / PV-4) GN=lipA PE=3 SV=1	331.0	[0..1]	[321..1]
LIPA_SHEAM - Lipoyl synthase OS=Shewanella amazonensis (strain ATCC BAA-1098 / SB2B) GN=lipA PE=3 SV=1	330.0	[0..1]	[321..1]
LIPA_VIBVY - Lipoyl synthase OS=Vibrio vulnificus (strain YJ016) GN=lipA PE=3 SV=1 LIPA_VIBVU - Lipoyl synthase OS=Vibrio vulnificus GN=lipA PE=3 SV=1 LIPA_VIBVU - Lipoyl synthase OS=Vibrio vulnificus (strain CMCP6) GN=lipA PE=3 SV=1	330.0	[0..1]	[321..1]
LIPA_VIBTL - Lipoyl synthase OS=Vibrio tasmaniensis (strain LGP32) GN=lipA PE=3 SV=1 gi\|85836660, gi\|... - gi\|86145689\|ref\|ZP_01064019.1\| lipoyl synthase [Vibrio sp. MED222], gi\|85836660\|gb\|EAQ54786.1\| lipoy...	328.0	[0..1]	[321..1]
LIPA_VIBF1 - Lipoyl synthase OS=Vibrio fischeri (strain ATCC 700601 / ES114) GN=lipA PE=3 SV=1	328.0	[0..1]	[321..1]
LIPA_SHEB5 - Lipoyl synthase OS=Shewanella baltica (strain OS155 / ATCC BAA-1091) GN=lipA PE=3 SV=1 LIPA_SHEB2 - Lipoyl synthase OS=Shewanella baltica (strain OS223) GN=lipA PE=3 SV=1 LIPA_SHEB9 - Lipoyl synthase OS=Shewanella baltica (strain OS195) GN=lipA PE=3 SV=1	328.0	[0..1]	[321..1]
LIPA_VIBPA - Lipoyl synthase OS=Vibrio parahaemolyticus GN=lipA PE=3 SV=1 LIPA_VIBPA - Lipoyl synthase OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=lipA PE=3 SV=1	328.0	[0..1]	[321..1]
LIPA_SHESW - Lipoyl synthase OS=Shewanella sp. (strain W3-18-1) GN=lipA PE=3 SV=1 LIPA_SHEPC - Lipoyl synthase OS=Shewanella putrefaciens (strain CN-32 / ATCC BAA-453) GN=lipA PE=3 SV=1 gi\|124546234, gi... - gi\|124546234\|ref\|ZP_01705339.1\| lipoic acid synthetase [Shewanella putrefaciens 200], gi\|124510186\|g...	327.0	[0..1]	[321..1]
gi\|84377037, gi\|... - gi\|84388973\|ref\|ZP_00991181.1\| lipoyl synthase [Vibrio splendidus 12B01], gi\|84377037\|gb\|EAP93909.1\|...	326.0	[0..1]	[321..1]
gi\|167422569, gi... - gi\|167422569\|ref\|ZP_02314322.1\| lipoic acid synthetase [Yersinia pestis biovar Orientalis str. MG05-... gi\|167057867, gi... - gi\|167423697\|ref\|ZP_02315450.1\| lipoic acid synthetase [Yersinia pestis biovar Mediaevalis str. K197... gi\|167470781 - gi\|167470781\|ref\|ZP_02335485.1\| lipoic acid synthetase [Yersinia pestis FV-1] LIPA_YERPY - Lipoyl synthase OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=lipA PE=3 SV=1 LIPA_YERPB - Lipoyl synthase OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=lipA PE=3 SV=1 gi\|165937740, gi... - gi\|89102289\|ref\|ZP_01174934.1\| COG0320: Lipoate synthase [Yersinia pestis biovar Orientalis str. IP2... gi\|229898745, gi... - gi\|229898745\|ref\|ZP_04513890.1\| lipoate synthase [Yersinia pestis biovar Orientalis str. India 195],... LIPA_YERPA - Lipoyl synthase OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=lipA PE=3 SV=1 gi\|229895935, gi... - gi\|229895935\|ref\|ZP_04511105.1\| lipoate synthase [Yersinia pestis Pestoides A], gi\|229700858\|gb\|EEO8... gi\|229694510, gi... - gi\|229838144\|ref\|ZP_04458303.1\| lipoate synthase [Yersinia pestis biovar Orientalis str. PEXU2], gi\|... gi\|165922979, gi... - gi\|165925372\|ref\|ZP_02221204.1\| lipoic acid synthetase [Yersinia pestis biovar Orientalis str. F1991... gi\|166008051, gi... - gi\|166008051\|ref\|ZP_02228949.1\| lipoic acid synthetase [Yersinia pestis biovar Antiqua str. E1979001... LIPA_YERPE - Lipoyl synthase OS=Yersinia pestis GN=lipA PE=3 SV=1 gi\|166212564, gi... - gi\|166212564\|ref\|ZP_02238599.1\| lipoic acid synthetase [Yersinia pestis biovar Antiqua str. B4200300... LIPA_YERPN - Lipoyl synthase OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=lipA PE=3 SV=1 LIPA_YERPG - Lipoyl synthase OS=Yersinia pestis bv. Antiqua (strain Angola) GN=lipA PE=3 SV=1 LIPA_YERPS - Lipoyl synthase OS=Yersinia pseudotuberculosis GN=lipA PE=3 SV=1 LIPA_YERP3 - Lipoyl synthase OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=lipA PE=3 SV=1 LIPA_YERPS - Lipoyl synthase OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=lipA PE=3 SV=1 gi\|149291914, gi... - gi\|149365501\|ref\|ZP_01887536.1\| lipoic acid synthetase [Yersinia pestis CA88-4125], gi\|149291914\|gb\|... gi\|22125074, gi\|... - gi\|22125074\|ref\|NP_668497.1\| lipoyl synthase [Yersinia pestis KIM], gi\|21957927\|gb\|AAM84748.1\|AE0137... gi\|15980585, gi\|... - gi\|218929679\|ref\|YP_002347554.1\| lipoyl synthase [Yersinia pestis CO92], gi\|16122811\|ref\|NP_406124.1... LIPA_YERPP - Lipoyl synthase OS=Yersinia pestis (strain Pestoides F) GN=lipA PE=3 SV=1	326.0	[0..1]	[321..1]

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Predicted Domain #1

Region A:
Residues: [1-70]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKPIVMERG VKYRDADKMA LIPVKNVATE REALLRKPEW MKIKLPADST RIQGIKAAMR  60
   61 KNGLHSVCEE

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [71-321]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ASCPNLAECF NHGTATFMIL GAICTRRCPF CDVAHGRPVA PDANEPVKLA QTIADMALRY  60
   61 VVITSVDRDD LRDGGAQHFA DCITAIREKS PQIKIETLVP DFRGRMDRAL DILTATPPDV 120
  121 FNHNLENVPR IYRQVRPGAD YNWSLKLLER FKEAHPEIPT KSGLMVGLGE TNEEIIEVMR 180
  181 DLRRHGVTML TLGQYLQPSR HHLPVQRYVS PDEFDEMKAE ALAMGFTHAA CGPFVRSSYH 240
  241 ADLQAKGMEV K

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	55.154902
Match:	1r30A
Description:	The Crystal Structure of Biotin Synthase, an S-Adenosylmethionine-Dependent Radical Enzyme
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
biotin synthase activity	2.22585029668171	bayes_pls_golite062009
radical SAM enzyme activity	2.08127882819276	bayes_pls_golite062009
catalytic activity	1.85375915825216	bayes_pls_golite062009
coproporphyrinogen oxidase activity	1.27516985221578	bayes_pls_golite062009
sulfurtransferase activity	1.26112752511053	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors, oxygen as acceptor	0.604275066192139	bayes_pls_golite062009
transferase activity, transferring sulfur-containing groups	0.35292941647096	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: