YRC Public Data Repository - Protein Structure Prediction

Protein:	hpl-2
Organism:	Caenorhabditis elegans
Length:	175 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 hpl-2.

Description	E-value	Query Range	Subject Range
gi\|109067205 - gi\|109067205\|ref\|XP_001095397.1\| PREDICTED: similar to chromobox homolog 3 [Macaca mulatta]	195.0	[0..1]	[174..270]
gi\|109488886 - gi\|109488886\|ref\|XP_340886.3\| PREDICTED: similar to Chromobox protein homolog 1 (Heterochromatin pro...	177.0	[0..25]	[173..591]
gi\|114666540 - gi\|114666540\|ref\|XP_523820.2\| PREDICTED: similar to heterochromatin protein 1 beta [Pan troglodytes]	176.0	[0..25]	[173..191]
gi\|76645259 - gi\|76645259\|ref\|XP_873631.1\| PREDICTED: similar to Chromobox protein homolog 1 (Heterochromatin prot...	169.0	[0..25]	[173..127]
gi\|83699408, gi\|... - gi\|83699408\|ref\|NP_031650.2\| chromobox homolog 3 (Drosophila HP1 gamma) [Mus musculus], gi\|80474659\|...	158.0	[0..3]	[174..14]
gi\|149033378, gi... - gi\|56799436\|ref\|NP_001008314.2\| chromobox homolog 3 [Rattus norvegicus], gi\|55778344\|gb\|AAH86601.1\| ... gi\|74226967, gi\|... - gi\|94398234\|ref\|XP_001000966.1\| PREDICTED: similar to chromobox homolog 3 [Mus musculus], gi\|9439766... CBX3 - chromobox homolog 3 (HP1 gamma homolog, Drosophila) gi\|155372117, gi... - gi\|155372117\|ref\|NP_001094668.1\| chromobox homolog 3 [Bos taurus], gi\|151554829\|gb\|AAI47956.1\| CBX3 ... CBX3_PONPY - Chromobox protein homolog 3 - Pongo pygmaeus (Orangutan) CBX3_PONAB - Chromobox protein homolog 3 OS=Pongo abelii GN=CBX3 PE=2 SV=1 gi\|48249221 - gi\|48249221\|gb\|AAT40863.1\| heterochromatin protein 1 gamma [Cricetulus griseus] gi\|208965998, gi... - gi\|208965998\|dbj\|BAG73013.1\| chromobox homolog 3 [synthetic construct], gi\|190691189\|gb\|ACE87369.1\| ... ENSOCUP000000205... - pep:novel chromosome:oryCun2:17:47944687:47945238:-1 gene:ENSOCUG00000022201 transcript:ENSOCUT00000... ENSCJAT00000015514 - null tr\|M3WM73\|M3WM73... - Uncharacterized protein OS=Felis catus GN=CBX3 PE=4 SV=1 gi\|114612472, gi... - gi\|114612480\|ref\|XP_001161376.1\| PREDICTED: chromobox homolog 3 isoform 6 [Pan troglodytes], gi\|1146... gi\|73976144, gi\|... - gi\|73976144\|ref\|XP_864475.1\| PREDICTED: similar to chromobox homolog 3 isoform 5 [Canis familiaris],...	158.0	[0..3]	[174..14]
gi\|58568516 - gi\|58568516\|gb\|AAW78991.1\| GekBS145P [Gekko japonicus]	157.0	[0..11]	[174..22]

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Predicted Domain #1

Region A:
Residues: [1-175]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSKSTKRAK IEDPKDNVFM VEKVLDKRTG KAGRDEFLIQ WQGFPESDSS WEPRENLQCV  60
   61 EMLDEFEREF SKREKPIRKR HSQKPEPSED QADPEEDKDE KKETNQNDKF SLEGKQLKCI 120
  121 VGLTKGPGEL HFLCKFSDDT ARLLPAKEVN SRYPSQVIRY YESKLTIQDP KADEL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	19.045757
Match:	2b2tA
Description:	Tandem chromodomains of human CHD1 complexed with Histone H3 Tail containing trimethyllysine 4 and phosphothreonine 3
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription repressor activity	4.08500855631983	bayes_pls_golite062009
transcription regulator activity	3.64390820819794	bayes_pls_golite062009
methylated histone residue binding	3.42338304360938	bayes_pls_golite062009
chromatin binding	3.1924157640698	bayes_pls_golite062009
binding	3.06758476214113	bayes_pls_golite062009
protein binding	2.66728689880621	bayes_pls_golite062009
nucleic acid binding	2.19167058827256	bayes_pls_golite062009
DNA binding	2.05514577638135	bayes_pls_golite062009
histone binding	2.00388175060339	bayes_pls_golite062009
transcription activator activity	1.46529895769882	bayes_pls_golite062009
sequence-specific DNA binding	1.10020047862576	bayes_pls_golite062009
DNA-dependent ATPase activity	0.998957812785999	bayes_pls_golite062009
general transcriptional repressor activity	0.75184432495983	bayes_pls_golite062009
DNA helicase activity	0.726970683178132	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.494788451379878	bayes_pls_golite062009
transcription corepressor activity	0.294457188332415	bayes_pls_golite062009
catalytic activity	0.14067200158938	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: