YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24350644, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	583 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 gi|24350644, gi|....

Description	E-value	Query Range	Subject Range
gi\|114045890, gi... - gi\|78691041\|ref\|ZP_00855673.1\| Peptidoglycan glycosyltransferase [Shewanella sp. MR-7], gi\|78509565\|...	542.0	[0..1]	[583..1]
gi\|78686894, gi\|... - gi\|78686894\|ref\|ZP_00851655.1\| Peptidoglycan glycosyltransferase [Shewanella sp. ANA-3], gi\|78505404... gi\|113886588, gi... - gi\|82495634\|ref\|ZP_00881208.1\| Peptidoglycan glycosyltransferase [Shewanella sp. MR-4], gi\|82406226\|...	541.0	[0..1]	[583..1]
gi\|124545992, gi... - gi\|124545992\|ref\|ZP_01705142.1\| penicillin-binding protein, transpeptidase [Shewanella putrefaciens ... gi\|120557308, gi... - gi\|82742150\|ref\|ZP_00904852.1\| Peptidoglycan glycosyltransferase [Shewanella sp. W3-18-1], gi\|827204... gi\|145563278, gi... - gi\|77814552\|ref\|ZP_00813810.1\| Peptidoglycan glycosyltransferase [Shewanella putrefaciens CN-32], gi...	540.0	[0..1]	[583..1]
gi\|217496762, gi... - gi\|217971627\|ref\|YP_002356378.1\| Peptidoglycan glycosyltransferase [Shewanella baltica OS223], gi\|21... gi\|113907048, gi... - gi\|160873532\|ref\|YP_001552848.1\| peptidoglycan glycosyltransferase [Shewanella baltica OS195], gi\|16... gi\|126172648, gi... - gi\|68543494\|ref\|ZP_00583197.1\| Peptidoglycan glycosyltransferase [Shewanella baltica OS155], gi\|6851...	530.0	[0..1]	[580..1]
gi\|126639682, gi... - gi\|78368238\|ref\|ZP_00838479.1\| Peptidoglycan glycosyltransferase [Shewanella sp. PV-4], gi\|78359695\|...	527.0	[0..6]	[576..1]
gi\|11761329 - gi\|11761329\|dbj\|BAB19196.1\| FtsI [Shewanella violacea]	523.0	[0..4]	[583..1]
gi\|31296635 - gi\|31296635\|gb\|AAP46610.1\| penicillin binding protein 2 [Neisseria meningitidis]	518.0	[0..3]	[577..8]

Back

Predicted Domain #1

Region A:
Residues: [1-583]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIRQAKTKQA SKKQKPQLIH WRLYVVVGFV FAMFTCLVGR AAYIQIIEPD KLRHESDMRT  60
   61 LRTTSREVQR GLITDRNGDM LAVSVPVRAV WADPKQVNDN NGFADMRRWQ ALADVLHEPV 120
  121 EDVLDKVRSN PTKRFTYLKR QVTPAVADYI TQLKLPGVFL KSESRRYYPG GEITAQLIGI 180
  181 TNIDDVGIEG VENAYNSWLT GTPSKQKVRK SRDGHVVERL DIVQEGESPN DLVLSIDHRI 240
  241 QQLAYRELKR TTEMNQATSG SIVVLDIHTG EVLAMVNTPS FNPNSRDNFQ TFRMRNRAMT 300
  301 DTFEPGSTIK PFVVAAALEA GTVKSTDVIP TSPGWMRLGG RQVRDASNYG DMTLARILAK 360
  361 SSNVGISKLA LSIPVQQLLG TYQSMGLGSF SGINLTGESA GLIQDRHRWS DFERATLSFG 420
  421 YGLTATTLQL ARMYATLGNG GTLFPVSILK LKKPPEGERV ISEAVAKDVL QMMVSVTEKG 480
  481 GTGTLAHIDG YPVAGKSGTS RKAVAGGYGD DYVALFAGVA PVNNPKLAIV VVVNEPKGDL 540
  541 YYGGSVAGPA FAKVMSGALQ MLNVEPISDK EQVQLAGLAG RAE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	100.0
Match:	1rp5A
Description:	PBP2x from Streptococcus pneumoniae strain 5259 with reduced susceptibility to beta-lactam antibiotics
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
drug binding	3.43867028493374	bayes_pls_golite062009
serine-type D-Ala-D-Ala carboxypeptidase activity	3.12650314537616	bayes_pls_golite062009
penicillin binding	2.89507018520983	bayes_pls_golite062009
serine-type carboxypeptidase activity	2.70174066798582	bayes_pls_golite062009
serine-type exopeptidase activity	2.69091897402517	bayes_pls_golite062009
carboxypeptidase activity	1.96547160092829	bayes_pls_golite062009
catalytic activity	1.85492008367309	bayes_pls_golite062009
exopeptidase activity	1.44522375970439	bayes_pls_golite062009
binding	1.11566650386305	bayes_pls_golite062009
peptidase activity	0.376767771035659	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	0.163657050466595	bayes_pls_golite062009
protein binding	0.0666688846338231	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: