YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|29142354, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. Ty2
Length:	446 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|29142354, gi|....

Description	E-value	Query Range	Subject Range
gi\|16764365, gi\|... - gi\|16764365\|ref\|NP_459980.1\| integrase [Salmonella typhimurium LT2], gi\|16419518\|gb\|AAL19939.1\| Gifs... gi\|194444835, gi... - gi\|194444835\|ref\|YP_002040207.1\| integrase [Salmonella enterica subsp. enterica serovar Newport str.... gi\|195630891, gi... - gi\|195630891\|gb\|EDX49477.1\| integrase [Salmonella enterica subsp. enterica serovar Newport str. SL31... gi\|169257268 - gi\|169257268\|ref\|YP_001700644.1\| bacteriophage integrase [Phage Gifsy-2]	8.0E-75	[17..446]	[1..430]
gi\|62127166, gi\|... - gi\|62179533\|ref\|YP_215950.1\| Gifsy-2 prophage integrase [Salmonella enterica subsp. enterica serovar...	3.0E-71	[17..439]	[1..423]
gi\|188492593, gi... - gi\|75513013\|ref\|ZP_00735475.1\| COG0582: Integrase [Escherichia coli 53638], gi\|188492593\|ref\|ZP_0299...	1.0E-67	[17..441]	[1..424]
gi\|75209455, gi\|... - gi\|75209455\|ref\|ZP_00709683.1\| COG0582: Integrase [Escherichia coli B171], gi\|194429305\|ref\|ZP_03061...	1.0E-67	[17..441]	[1..424]
gi\|30910915, gi\|... - gi\|49523586\|emb\|CAD88804.1\| putative integrase [Phage BP-4795], gi\|31044226\|ref\|NP_851940.1\| putativ...	2.0E-67	[17..443]	[1..427]
gi\|168771590, gi... - gi\|189359693\|gb\|EDU78112.1\| Int protein [Escherichia coli O157:H7 str. EC4486], gi\|168771590\|ref\|ZP_... gi\|189365748, gi... - gi\|189365748\|gb\|EDU84164.1\| Int protein [Escherichia coli O157:H7 str. EC4501], gi\|168764215\|ref\|ZP_... gi\|189355343, gi... - gi\|189355343\|gb\|EDU73762.1\| Int protein [Escherichia coli O157:H7 str. EC4401], gi\|168757698\|ref\|ZP_... gi\|168750496, gi... - gi\|188015313\|gb\|EDU53435.1\| Int protein [Escherichia coli O157:H7 str. EC4113], gi\|168750496\|ref\|ZP_... gi\|195935496 - gi\|195935496\|ref\|ZP_03080878.1\| putative integrase [Escherichia coli O157:H7 str. EC4024] gi\|168801195, gi... - gi\|189376649\|gb\|EDU95065.1\| Int protein [Escherichia coli O157:H7 str. EC508], gi\|168801195\|ref\|ZP_0... gi\|188999025, gi... - gi\|188999025\|gb\|EDU68011.1\| Int protein [Escherichia coli O157:H7 str. EC4076], gi\|168783694\|ref\|ZP_... gi\|187767430, gi... - gi\|187767430\|gb\|EDU31274.1\| Int protein [Escherichia coli O157:H7 str. EC4196], gi\|168777298\|ref\|ZP_... gi\|11875147\|dbj\|... - integrase [Escherichia coli O157:H7] gi\|13362482, gi\|... - gi\|15832267\|ref\|NP_311040.1\| putative integrase [Escherichia coli O157:H7 str. Sakai], gi\|13362482\|d... gi\|13362482, gi\|... - gi\|15832267\|ref\|NP_311040.1\| putative integrase [Escherichia coli O157:H7], gi\|13362482\|dbj\|BAB36436... gi\|209157328, gi... - gi\|209395928\|ref\|YP_002271528.1\| Int protein [Escherichia coli O157:H7 str. EC4115], gi\|209157328\|gb... gi\|25323728, gi\|... - pir\|\|F85849 probable integrase for prophage CP-933V intV [imported] - Escherichia coli (strain O157:... gi\|208821835, gi... - gi\|208821835\|ref\|ZP_03262155.1\| Int protein [Escherichia coli O157:H7 str. EC4042], gi\|208741958\|gb\|... gi\|254794018, gi... - gi\|254794018\|ref\|YP_003078855.1\| putative integrase for prophage CP-933V [Escherichia coli O157:H7 s... gi\|208734931, gi... - gi\|208813654\|ref\|ZP_03254983.1\| Int protein [Escherichia coli O157:H7 str. EC4045], gi\|208734931\|gb\|... gi\|15802676, gi\|... - gi\|15802676\|ref\|NP_288703.1\| putative integrase for prophage CP-933V [Escherichia coli O157:H7 EDL93... gi\|208726838, gi... - gi\|208807037\|ref\|ZP_03249374.1\| Int protein [Escherichia coli O157:H7 str. EC4206], gi\|208726838\|gb\|... gi\|217327317, gi... - gi\|217327317\|ref\|ZP_03443400.1\| Int protein [Escherichia coli O157:H7 str. TW14588], gi\|217319684\|gb...	3.0E-67	[17..442]	[1..426]
gi\|18249865, gi\|... - gi\|18249865\|ref\|NP_543053.1\| putative integrase [Enterobacteria phage phiP27], gi\|18152332\|emb\|CAC83...	8.0E-67	[17..441]	[1..424]
gi\|81301988, gi\|... - gi\|81301988\|gb\|ABB70738.1\| Int protein [Phage 258-320], gi\|81301986\|gb\|ABB70737.1\| Int protein [Phag...	7.0E-63	[17..440]	[1..424]
gi\|28803669 - gi\|28803669\|emb\|CAD24081.1\| putative integrase [Escherichia coli phage EH297]	1.0E-62	[17..440]	[1..424]

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Predicted Domain #1

Region A:
Residues: [1-93]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKSSTLVNAP GRQEGLMANA SYPTGVENHG GSLRIWFLYK GKRVRENLGI PDTAKNRKIA  60
   61 GELRSSVCFA IRMGNFNYVE KFPNSTNLAR FGQ

[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.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.872	0.120	DNA integration	b.40.2	Bacterial enterotoxins

Predicted Domain #2

Region A:
Residues: [94-446]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DRKEITVLEL TERWSELKRM EISSNTMSRY ESIIKNMLPL IGENKMVSAV TTEDLLYVRK  60
   61 ELLTGFQVMK KDHRTQVKGR KSSTVNNYMM LMAEIFQFGT DNGYAKENPF SGINRLKKAK 120
  121 GEPDPLTTDE FIRFIQACGH QQMRNLWSLA VYTGMRHGEL CGLAWEDIDL HAGTIIVKRN 180
  181 LTQTDEFTLP KTDAGTDRVI YLIQPAIDAL RNQAQLTRLG RQFEVEVKLR EYGQSVIQPC 240
  241 TFVFSPQCVK RGPRTGYHYA VNSINKIWAP IIKRAGIRYR NAYQSRHTYA CWSLSAGANP 300
  301 NFIATQMGHT DAQMVYKVYG KWMSEKSAEQ VSLLNQALSR YAPSLPQSMV AAQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	43.522879
Match:	1a0pA
Description:	SITE-SPECIFIC RECOMBINASE, XERD
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
site-specific recombinase activity	4.99325011803106	bayes_pls_golite062009
integrase activity	3.60695091575172	bayes_pls_golite062009
catalytic activity	2.22520758916604	bayes_pls_golite062009
structure-specific DNA binding	0.11292854906722	bayes_pls_golite062009
DNA binding	0.10970863758177	bayes_pls_golite062009
nucleic acid binding	0.06580979261817	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: