YRC Public Data Repository - Protein Structure Prediction

Protein:	INTB_ECOLI
Organism:	Escherichia coli
Length:	396 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 INTB_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|187430985, gi... - gi\|75179367\|ref\|ZP_00699371.1\| COG0582: Integrase [Shigella boydii BS512], gi\|187733993\|ref\|YP_00188...	282.0	[0..1]	[391..26]
gi\|110346220, gi... - gi\|110644628\|ref\|YP_672358.1\| prophage P4 integrase [Escherichia coli 536], gi\|110346220\|gb\|ABG72457...	282.0	[0..1]	[395..26]
gi\|227836249, gi... - gi\|227886676\|ref\|ZP_04004481.1\| phage integrase [Escherichia coli 83972], gi\|227836249\|gb\|EEJ46715.1... gi\|190909011, gi... - gi\|75242340\|ref\|ZP_00726102.1\| COG0582: Integrase [Escherichia coli F11], gi\|191170787\|ref\|ZP_030323...	282.0	[0..1]	[395..26]
gi\|218697883, gi... - gi\|218697883\|ref\|YP_002405550.1\| Prophage integrase [Escherichia coli 55989], gi\|218354615\|emb\|CAV01... gi\|24114228, gi\|... - gi\|24114228\|ref\|NP_708738.1\| putative P4-type integrase [Shigella flexneri 2a str. 301], gi\|24053377... gi\|30064288, gi\|... - gi\|30064288\|ref\|NP_838459.1\| putative P4-type integrase [Shigella flexneri 2a str. 2457T], gi\|300425...	282.0	[0..1]	[395..26]
gi\|13236680 - gi\|13236680\|gb\|AAK16198.1\| Int [Escherichia coli]	281.0	[0..1]	[396..26]
gi\|12643204 - gi\|12643204\|gb\|AAK00456.1\| Int [Shigella flexneri 2a]	281.0	[0..1]	[395..1]
gi\|47600629 - gi\|47600629\|emb\|CAE55749.1\| Int (Putative P4-type integrase) [Escherichia coli Nissle 1917] gi\|47600629 - gi\|47600629\|emb\|CAE55749.1\| Int (Putative P4-type integrase) [Escherichia coli Nissle 1917]	281.0	[0..1]	[396..26]
gi\|227834794, gi... - gi\|227888525\|ref\|ZP_04006330.1\| Int (P4 family integrase) [Escherichia coli 83972], gi\|227834794\|gb\|... gi\|218561294, gi... - gi\|218561294\|ref\|YP_002394207.1\| integrase [Escherichia coli S88], gi\|218368063\|emb\|CAR05870.1\| inte... gi\|117626484, gi... - gi\|117626484\|ref\|YP_859807.1\| Int (putative P4-type integrase) [Escherichia coli APEC O1], gi\|115515...	281.0	[0..1]	[396..26]
gi\|195183321, gi... - gi\|195183321\|dbj\|BAG66860.1\| predicted integrase [Escherichia coli O111:H-], gi\|195183160\|dbj\|BAG667... gi\|215266337, gi... - gi\|215488265\|ref\|YP_002330696.1\| predicted integrase [Escherichia coli O127:H6 str. E2348/69], gi\|21... gi\|193065725, gi... - gi\|75256191\|ref\|ZP_00727879.1\| COG0582: Integrase [Escherichia coli E22], gi\|193065725\|ref\|ZP_030467... gi\|75209835, gi\|... - gi\|75212411\|ref\|ZP_00712435.1\| COG0582: Integrase [Escherichia coli B171], gi\|75209835\|ref\|ZP_007100... gi\|18140095, gi\|... - gi\|18140095\|gb\|AAL60261.1\|AF461394_1 Int-phe [Escherichia coli], gi\|18034549\|gb\|AAL57571.1\|AF453441_...	281.0	[0..1]	[396..26]

Back

Predicted Domain #1

Region A:
Residues: [1-396]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MHLLVHPNGS KYWRLQYRYE GKQKMLALGV YPEITLADAR VRRDEARKLL ANGVDPGDKK  60
   61 KNDKVEQSKA RTFKEVAIEW HGTNKKWSED HAHRVLKSLE DNLFAALGER NIAELKTRDL 120
  121 LAPIKAVEMS GRLEVAARLQ QRTTAIMRYA VQSGLIDYNP AQEMAGAVAS CNRQHRPALE 180
  181 LKRIPELLTK IDSYTGRPLT RWAIELTLLI FIRSSELRFA RWSEIDFEAS IWTIPPEREP 240
  241 IPGVKHSHRG SKMRTTHLVP LSTQALAILK QIKQFYGAHD LIFIGDHDSH KPMSENTVNS 300
  301 ALRVMGYDTK VEVCGHGFRT MACSSLVESG LWSRDAVERQ MSHMARNSVR AAYIHKAEHL 360
  361 EERRLMLQWW ADFLDVNRER FISPFEYAKI NNPLKQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	25.522879
Match:	1z1bA
Description:	Crystal structure of a lambda integrase dimer bound to a COC' core site
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
structure-specific DNA binding	2.96794540657137	bayes_pls_golite062009
chromatin binding	2.66956311972752	bayes_pls_golite062009
catalytic activity	1.85476765215403	bayes_pls_golite062009
double-stranded DNA binding	1.47056442077417	bayes_pls_golite062009
DNA binding	1.08208472364243	bayes_pls_golite062009
nucleic acid binding	1.01945666037816	bayes_pls_golite062009
sequence-specific DNA binding	0.88630365094839	bayes_pls_golite062009
binding	0.849061082531999	bayes_pls_golite062009
methyl-CpG binding	0.644006146507516	bayes_pls_golite062009
transcription regulator activity	0.433129028335043	bayes_pls_golite062009
protein binding	0.391840757563427	bayes_pls_golite062009
DNA secondary structure binding	0.32168641878414	bayes_pls_golite062009
transcription factor activity	0.135216468398819	bayes_pls_golite062009
transcription factor binding	0.0858654055973298	bayes_pls_golite062009
four-way junction DNA binding	0.0788334929658094	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: