YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24346142, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	768 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|24346142, gi|....

Description	E-value	Query Range	Subject Range
gi\|77461013, gi\|... - gi\|77461013\|ref\|YP_350520.1\| penicillin-binding protein 1B [Pseudomonas fluorescens Pf0-1], gi\|77385...	645.0	[0..1]	[765..1]
gi\|24986432, gi\|... - gi\|26991367\|ref\|NP_746792.1\| penicillin-binding protein 1B [Pseudomonas putida KT2440], gi\|24986432\|...	641.0	[0..1]	[765..1]
gi\|148549749, gi... - gi\|82739463\|ref\|ZP_00902265.1\| Penicillin-binding protein 1B [Pseudomonas putida F1], gi\|82713470\|gb...	639.0	[0..1]	[765..1]
tr\|Q888P0\|Q888P0... - Penicillin-binding protein OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=PSPTO_0977 PE=4 SV=... gi\|213970134, gi... - gi\|213970134\|ref\|ZP_03398265.1\| penicillin-binding protein [Pseudomonas syringae pv. tomato T1], gi\|... gi\|28851434, gi\|... - gi\|28868197\|ref\|NP_790816.1\| penicillin-binding protein [Pseudomonas syringae pv. tomato str. DC3000...	638.0	[0..1]	[766..1]
gi\|70732567, gi\|... - gi\|70732567\|ref\|YP_262330.1\| penicillin-binding protein 1B [Pseudomonas fluorescens Pf-5], gi\|683468...	638.0	[0..1]	[765..1]
gi\|71557331, gi\|... - gi\|71736778\|ref\|YP_273149.1\| penicillin-binding protein 1B [Pseudomonas syringae pv. phaseolicola 14...	635.0	[0..1]	[766..1]
gi\|82720931, gi\|... - gi\|82741697\|ref\|ZP_00904412.1\| Penicillin-binding protein 1B [Shewanella sp. W3-18-1], gi\|82720931\|g... gi\|77811658, gi\|... - gi\|77813210\|ref\|ZP_00812488.1\| Peptidoglycan glycosyltransferase [Shewanella putrefaciens CN-32], gi... gi\|124545585, gi... - gi\|124545585\|ref\|ZP_01704778.1\| penicillin-binding protein 1B [Shewanella putrefaciens 200], gi\|1245...	634.0	[0..10]	[766..23]
gi\|95112648, gi\|... - gi\|95112648\|emb\|CAK17376.1\| penicillin-binding protein 1B [Pseudomonas entomophila L48], gi\|10478366... gi\|95112648 - gi\|95112648\|emb\|CAK17376.1\| penicillin-binding protein 1B [Pseudomonas]	632.0	[0..1]	[765..1]
gi\|66044097, gi\|... - gi\|66044097\|ref\|YP_233938.1\| peptidoglycan glycosyltransferase [Pseudomonas syringae pv. syringae B7...	632.0	[0..1]	[766..1]
gi\|226946281, gi... - gi\|67159488\|ref\|ZP_00420006.1\| Glycosyl transferase, family 51:Penicillin-binding protein, transpept... gi\|67159488 - gi\|67159488\|ref\|ZP_00420006.1\| Glycosyl transferase, family 51:Penicillin-binding protein, transpept...	630.0	[0..1]	[765..1]

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Predicted Domain #1

Region A:
Residues: [1-161]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTTHTTKKAP AQRKAKRSRG LFGHIWSLTW KLALIGLAVV TFYGIYLDQI IARKFEGQKW  60
   61 HLPAQVFSRS MALYPGAAVS HPQLMAELKL LGYRKVANPR EVGEFSASST KIELWRRPFL 120
  121 HPEGDQPEQR VMITFDSEGV SAIARMEDKR QLAVFHLEPV L

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.0
Match:	1t5lA
Description:	Crystal structure of the DNA repair protein UvrB point mutant Y96A revealing a novel fold for domain 2
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [162-768]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LDRMITGDGE DRLFVSTEEM PKPIVQALLL VEDRSFYEHH GVNPFAILRA AFVNITAGRT  60
   61 VQGGSTLTQQ LAKNFFLSSE RSLLRKVREA LMAVIIDFRY SKDEILEAYL NEVYMGQDKS 120
  121 RAVHGMGLAS QFYFGRPIGE LTTAQQAFLV AAIKGPSYYN PWRYPERSLE RRDLVLRLLM 180
  181 ESGELNTAQY KVAVESPLGL RNANKPVHQK LPSFYALVKQ EVNQRYGDAL LKQSGVKIYT 240
  241 TLDPMAQEAA EIAVTQTFKS LDKGNKSLQI GMVVTDKYTG GIAAMVGDKT PGFDGYNRAV 300
  301 EIRRPIGSLI KPFVYATALA PNSQFTLASP LKDQPITLKN EQGKTWSPQN FDKTFSGQVS 360
  361 LLTALKKSMN VPTVNLGIAV GVDAVVTTLA KSGWEEPLNE YPSMLLGAVN GSPLMVAQVY 420
  421 QTLADSGAYR KLTTVTAVLD SDNQPLPVTR SAKEQAITPD TDFLVQYAMQ QVVRSGTATR 480
  481 LGNAFPGVAL AGKTGTSNDS RDSWFAGFDE RNVAAIWVGR DDNGKTSLYG SSGAMAVYQA 540
  541 FLKERPPIGL RSIPPSGVIK GYFDRDTGEA KEAGCSNTEA LPALRGTYNP AKNCGEPLQW 600
  601 WQKILGQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	103.0
Match:	2oluA
Description:	No description for 2oluA was found.

Predicted functions:

Term	Confidence	Notes
serine-type D-Ala-D-Ala carboxypeptidase activity	3.37745387761459	bayes_pls_golite062009
penicillin binding	3.16077730467133	bayes_pls_golite062009
serine-type carboxypeptidase activity	3.02516915958448	bayes_pls_golite062009
serine-type exopeptidase activity	2.98959517344587	bayes_pls_golite062009
carboxypeptidase activity	2.34154596924818	bayes_pls_golite062009
catalytic activity	2.2253600206851	bayes_pls_golite062009
drug binding	2.00354593744547	bayes_pls_golite062009
exopeptidase activity	1.66768404710194	bayes_pls_golite062009
hydrolase activity, acting on glycosyl bonds	1.16054683174437	bayes_pls_golite062009
hydrolase activity, hydrolyzing O-glycosyl compounds	1.07226857049823	bayes_pls_golite062009
peptidase activity	0.0621279448114327	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: