YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24345701, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	839 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|24345701, gi|....

Description	E-value	Query Range	Subject Range
gi\|78508679, gi\|... - gi\|78691926\|ref\|ZP_00856512.1\| Penicillin-binding protein 1A [Shewanella sp. MR-7], gi\|78508679\|gb\|E...	743.0	[0..1]	[839..1]
gi\|113886715, gi... - gi\|82497276\|ref\|ZP_00882833.1\| Penicillin-binding protein 1A [Shewanella sp. MR-4], gi\|82404745\|gb\|E...	740.0	[0..1]	[839..1]
gi\|78504189, gi\|... - gi\|78688069\|ref\|ZP_00852793.1\| Penicillin-binding protein 1A [Shewanella sp. ANA-3], gi\|78504189\|gb\|...	740.0	[0..1]	[839..1]
gi\|146294795, gi... - gi\|77816472\|ref\|ZP_00815657.1\| Glycosyl transferase, family 51:Penicillin-binding protein, transpept... gi\|124548508, gi... - gi\|124548508\|ref\|ZP_01707149.1\| penicillin-binding protein, 1A family [Shewanella putrefaciens 200],...	733.0	[0..1]	[839..1]
gi\|125999509, gi... - gi\|68540920\|ref\|ZP_00580668.1\| Glycosyl transferase, family 51:Penicillin-binding protein, transpept...	723.0	[0..1]	[839..1]
gi\|68545225, gi\|... - gi\|68545225\|ref\|ZP_00584776.1\| Glycosyl transferase, family 51:Penicillin-binding protein, transpept...	715.0	[0..1]	[839..1]
gi\|46911915, gi\|... - gi\|54307495\|ref\|YP_128515.1\| putative penicillin-binding protein 1A [Photobacterium profundum SS9], ...	714.0	[0..1]	[838..1]
gi\|126636436, gi... - gi\|78367663\|ref\|ZP_00837928.1\| Glycosyl transferase, family 51:Penicillin-binding protein, transpept...	709.0	[0..1]	[839..1]
gi\|45434863, gi\|... - gi\|45440008\|ref\|NP_991547.1\| penicillin-binding protein [Yersinia pestis biovar Microtus str. 91001]... gi\|25297703 - pir\|\|AF0018 penicillin-binding protein (EC 2.4.2.-) [imported] - Yersinia pestis (strain CO92) gi\|115345967, gi... - gi\|218927356\|ref\|YP_002345231.1\| peptidoglycan synthetase [Yersinia pestis CO92], gi\|16120488\|ref\|NP... gi\|166205621, gi... - gi\|166213323\|ref\|ZP_02239358.1\| penicillin-binding protein 1A [Yersinia pestis biovar Antiqua str. B... gi\|229013118 - gi\|229013118\|ref\|NP_671217.2\| peptidoglycan synthetase [Yersinia pestis KIM] gi\|167418975, gi... - gi\|167418975\|ref\|ZP_02310728.1\| penicillin-binding protein 1A [Yersinia pestis biovar Orientalis str... gi\|229706443, gi... - gi\|229836375\|ref\|ZP_04456542.1\| Multimodular transpeptidase-transglycosylase [Yersinia pestis Pestoi... gi\|167425717, gi... - gi\|167425717\|ref\|ZP_02317470.1\| penicillin-binding protein 1A [Yersinia pestis biovar Mediaevalis st... gi\|170022480, gi... - gi\|170022480\|ref\|YP_001718985.1\| peptidoglycan synthetase [Yersinia pseudotuberculosis YPIII], gi\|16... gi\|153950440, gi... - gi\|153950440\|ref\|YP_001402920.1\| peptidoglycan synthetase [Yersinia pseudotuberculosis IP 31758], gi... gi\|149290235, gi... - gi\|150260827\|ref\|ZP_01917555.1\| penicillin-binding protein [Yersinia pestis CA88-4125], gi\|149290235... gi\|162420282, gi... - gi\|162420282\|ref\|YP_001608049.1\| peptidoglycan synthetase [Yersinia pestis Angola], gi\|162353097\|gb\|... gi\|145597394, gi... - gi\|145597394\|ref\|YP_001161469.1\| peptidoglycan synthetase [Yersinia pestis Pestoides F], gi\|14520909... gi\|165936123, gi... - gi\|165936123\|ref\|ZP_02224692.1\| penicillin-binding protein 1A [Yersinia pestis biovar Orientalis str... gi\|229696366, gi... - gi\|229840000\|ref\|ZP_04460159.1\| Multimodular transpeptidase-transglycosylase [Yersinia pestis biovar... gi\|165990687, gi... - gi\|166010597\|ref\|ZP_02231495.1\| penicillin-binding protein 1A [Yersinia pestis biovar Antiqua str. E... gi\|229690391, gi... - gi\|229842081\|ref\|ZP_04462236.1\| Multimodular transpeptidase-transglycosylase [Yersinia pestis biovar... gi\|229559845, gi... - gi\|229904618\|ref\|ZP_04519729.1\| Multimodular transpeptidase-transglycosylase [Yersinia pestis Nepal5... gi\|108809316, gi... - gi\|229358041\|ref\|YP_653232.3\| peptidoglycan synthetase [Yersinia pestis Antiqua], gi\|108809316\|ref\|Y...	709.0	[0..1]	[838..1]
Q664L3\|Q664L3_YERPS - Penicillin-binding protein - Yersinia pseudotuberculosis gi\|51591328, gi\|... - gi\|51598046\|ref\|YP_072237.1\| penicillin-binding protein (penicillin-insensitive transglyco... [Yersi... gi\|186700271, gi... - gi\|186897245\|ref\|YP_001874357.1\| peptidoglycan synthetase [Yersinia pseudotuberculosis PB1/+], gi\|18...	708.0	[0..1]	[838..1]

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Predicted Domain #1

Region A:
Residues: [1-195]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKWLKRIVIA LFSLALLGVG AIVAAYFYVL PDLPDVSTLK NVQLQTPLRI YSSDGKLISQ  60
   61 FGEKRRIPLK LEEVPKPLLQ AFLATEDARF YEHGGIDPVG VMRAATVMLT TGEKKQGAST 120
  121 ITMQVARNFF LTRDKTIIRK VKEIFISYHI EQLLTKDEIL ELYVNRIYLG QRAYGVGAAA 180
  181 QVYFGKNVQD LTLSE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	66.0
Match:	2oqoA
Description:	No description for 2oqoA was found.

Predicted Domain #2

Region A:
Residues: [196-687]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSMIAGLPKA PSTLNPITSP SRALARRNVV LMRMNEVGYI SKAEYQAALQ EPLVAKYHGA  60
   61 EIDLYAPYIS EMARDYMVQK YGEEEAYTNG YNVYTTISSD LQLLAQQALR NNVYAYDERH 120
  121 GYRGPAAALW TGAKPDNAQI QAELAKVTPV QELQPAAVLS VEGQQASVLT AKGETKVIKW 180
  181 DGLKWARKFI NDKRQGAVPK SASEILTVGE RIWIRDNGQH LQLSQVPEVA SATVSLDPEN 240
  241 GAIRTLVGGY SFSQSQYNRV TQAKRQLGSN IKPFIYAAAL EKGFTLATLI NNAPINKPDI 300
  301 SQGTAWRPKN SPDIYGGPTR LRVGLAQSIN VMSVRAMRHI GLDAAIAELT KFGFDPNDLP 360
  361 RNESLALGSP SVTPLQVATA FNVFANGGFL VEPFYIERVE DSFGNVIEKA NPTLACKSNN 420
  421 SHVQPSSDPM SFGEPTAQTD AAVAHCFEQT GRYAPQIISE QTAFLITEAL KSVIWGGGDW 480
  481 SKGTGWQGTA WR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	40.39794
Match:	1mwrA
Description:	Penicillin binding protein 2a (PBP2A), N-terminal domain; Penicillin binding protein 2a (PBP2A), middle domain; Penicillin binding protein 2a (PBP2A), C-terminal domain
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
hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides	2.14702453234629	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

Predicted Domain #3

Region A:
Residues: [688-839]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AAQLIKRHDI AGKTGTTNES RDTWFSGFGP TLTSTFWVGF DDHGRQLGRT AWNANGEKDQ  60
   61 ITGTEAGAKT AGPGWNEFMN NVLKGVPETT AIPPEGIVSV RIDLATGKLT RKTDYTSAFE 120
  121 YFISGTEPKE YISETQDENN LFIDAPADDL FQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	47.522879
Match:	2c5wB
Description:	PENICILLIN-BINDING PROTEIN 1A (PBP-1A) ACYL-ENZYME COMPLEX ( CEFOTAXIME) FROM STREPTOCOCCUS PNEUMONIAE
Matching Structure (courtesy of the PDB):

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: