YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24348140, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	311 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|24348140, gi|....

Description	E-value	Query Range	Subject Range
DNLI1_XENLA - DNA ligase 1 OS=Xenopus laevis GN=lig1 PE=2 SV=1	289.0	[0..6]	[309..637]
LIG1 - ligase I, DNA, ATP-dependent	288.0	[0..6]	[310..484]
gi\|109125447 - gi\|109125447\|ref\|XP_001111346.1\| PREDICTED: DNA ligase I [Macaca mulatta]	287.0	[0..6]	[310..484]
DNLI1_SCHPO - DNA ligase 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=cdc17 PE=3 SV=1 cdc17 - ATP-dependent DNA ligase Cdc17	287.0	[0..20]	[310..361]
gi\|114678168, gi... - gi\|114678168\|ref\|XP_001170212.1\| PREDICTED: DNA ligase I isoform 4 [Pan troglodytes], gi\|114678166\|r...	287.0	[0..6]	[310..484]
gi\|76641878 - gi\|76641878\|ref\|XP_582288.2\| PREDICTED: similar to DNA ligase I (Polydeoxyribonucleotide synthase [A...	286.0	[0..6]	[310..329]
gi\|68356762 - gi\|68356762\|ref\|XP_685406.1\| PREDICTED: similar to ligase I [Danio rerio]	284.0	[0..6]	[310..206]
gi\|54635399, gi\|... - gi\|54635399\|gb\|EAL24802.1\| GA18999-PA [Drosophila pseudoobscura], gi\|125807011\|ref\|XP_001360228.1\| G...	284.0	[0..18]	[310..329]
gi\|110755140 - gi\|110755140\|ref\|XP_392286.3\| PREDICTED: similar to CG5602-PA [Apis mellifera]	283.0	[0..18]	[310..455]

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Predicted Domain #1

Region A:
Residues: [1-311]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTLLRGKGMA LTTRLPFVRF TALKCLGLII GLCCVLITAS FASPAPNIQL ATEYSLDNHS  60
   61 NNDAQISTFF VSEKLDGVRG YWDGQRLFTR QGNPILAPSW FTAEFPAIAM DGELWLGRGQ 120
  121 FEAISGLIRQ ASPKDADWQN VRFMVFDLPT TKGSFEERYH KMQALIAGKS VYLQVIEQFS 180
  181 VASVEALYQT LDTLVALGAE GLILHRRTAI YTPGRNPNVM KLKPYLDAEA TVIGYIAGKG 240
  241 QFSGKMGALR VQTPDGRIFN IGTGFNLAER QHPPAIGTLI TYKYLGLTVN GLPRFASYLR 300
  301 IRTDIDPKNK E

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	77.69897
Match:	1x9nA
Description:	Crystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming phosphoric ester bonds	4.3248432594553	bayes_pls_golite062009
DNA ligase activity	4.32201730952065	bayes_pls_golite062009
DNA ligase (NAD+) activity	3.23439045843438	bayes_pls_golite062009
catalytic activity	2.52414801555837	bayes_pls_golite062009
ligase activity	1.91469215096842	bayes_pls_golite062009
DNA ligase (ATP) activity	1.83677193007569	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: