YRC Public Data Repository - Protein Structure Prediction

Protein:	YCJD_ECOLI
Organism:	Escherichia coli
Length:	117 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 YCJD_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|53805208, gi\|... - gi\|53805208\|ref\|YP_113069.1\| DNA methyltransferase [Methylococcus capsulatus str. Bath], gi\|53758969...	139.0	[0..1]	[117..626]
gi\|110548396, gi... - gi\|222054770\|ref\|YP_002537132.1\| protein of unknown function DUF559 [Geobacter sp. FRC-32], gi\|22156...	137.0	[0..1]	[117..3]
gi\|194417923, gi... - gi\|83569486\|ref\|ZP_00920939.1\| COG2852: Uncharacterized protein conserved in bacteria [Shigella dyse...	132.0	[0..1]	[117..1]
gi\|11280093 - pir\|\|A81035 conserved hypothetical protein NMB1852 [imported] - Neisseria meningitidis (strain MC58 ... gi\|7227108, gi\|1... - gi\|7227108\|gb\|AAF42186.1\| conserved hypothetical protein [Neisseria meningitidis MC58], gi\|15677687\|...	131.0	[0..5]	[114..15]
gi\|24051605, gi\|... - gi\|24112688\|ref\|NP_707198.1\| hypothetical protein SF1294 [Shigella flexneri 2a str. 301], gi\|2405160... gi\|30041058, gi\|... - gi\|30062810\|ref\|NP_836981.1\| hypothetical protein S1376 [Shigella flexneri 2a str. 2457T], gi\|300410... gi\|81245665, gi\|... - gi\|82544254\|ref\|YP_408201.1\| hypothetical protein SBO_1773 [Shigella boydii Sb227], gi\|81245665\|gb\|A...	131.0	[0..1]	[117..1]
gi\|21647740, gi\|... - gi\|21674545\|ref\|NP_662610.1\| DNA methylase, putative [Chlorobium tepidum TLS], gi\|21647740\|gb\|AAM729...	130.0	[0..1]	[115..709]
gi\|239998181 - gi\|239998181\|ref\|ZP_04718105.1\| hypothetical protein Ngon3_01665 [Neisseria gonorrhoeae 35/02] gi\|240112153 - gi\|240112153\|ref\|ZP_04726643.1\| hypothetical protein NgonM_00967 [Neisseria gonorrhoeae MS11] gi\|194097652, gi... - gi\|194097652\|ref\|YP_002000690.1\| hypothetical protein NGK_0065 [Neisseria gonorrhoeae NCCP11945], gi... gi\|240079945 - gi\|240079945\|ref\|ZP_04724488.1\| hypothetical protein NgonF_01323 [Neisseria gonorrhoeae FA19] gi\|240015807 - gi\|240015807\|ref\|ZP_04722347.1\| hypothetical protein NgonFA_01330 [Neisseria gonorrhoeae FA6140] gi\|240013364 - gi\|240013364\|ref\|ZP_04720277.1\| hypothetical protein NgonD_01717 [Neisseria gonorrhoeae DGI18] gi\|240122737 - gi\|240122737\|ref\|ZP_04735693.1\| hypothetical protein NgonP_02108 [Neisseria gonorrhoeae PID332] gi\|59800517, gi\|... - gi\|59800517\|ref\|YP_207229.1\| hypothetical protein NGO0050 [Neisseria gonorrhoeae FA 1090], gi\|597174... gi\|240120437 - gi\|240120437\|ref\|ZP_04733399.1\| hypothetical protein NgonPI_01402 [Neisseria gonorrhoeae PID24-1] gi\|240117102 - gi\|240117102\|ref\|ZP_04731164.1\| hypothetical protein NgonPID_01340 [Neisseria gonorrhoeae PID1] gi\|240114900 - gi\|240114900\|ref\|ZP_04728962.1\| hypothetical protein NgonPID1_01365 [Neisseria gonorrhoeae PID18] gi\|226511997, gi... - gi\|254492957\|ref\|ZP_05106128.1\| conserved hypothetical protein [Neisseria gonorrhoeae 1291], gi\|2265... gi\|3893841 - gi\|3893841\|gb\|AAC78450.1\| similar to E. coli ORF, encoded by GenBank Accession Number X97282; and to... gi\|240127440 - gi\|240127440\|ref\|ZP_04740101.1\| hypothetical protein NgonS_02122 [Neisseria gonorrhoeae SK-93-1035] gi\|240124930 - gi\|240124930\|ref\|ZP_04737816.1\| hypothetical protein NgonSK_01672 [Neisseria gonorrhoeae SK-92-679]	129.0	[0..3]	[117..13]
gi\|73855818, gi\|... - gi\|74312341\|ref\|YP_310760.1\| hypothetical protein SSON_1851 [Shigella sonnei Ss046], gi\|73855818\|gb\|...	128.0	[0..1]	[117..1]
gi\|110805292, gi... - gi\|110805292\|ref\|YP_688812.1\| hypothetical protein SFV_1303 [Shigella flexneri 5 str. 8401], gi\|1106...	128.0	[0..3]	[117..2]
gi\|114339554, gi... - gi\|114569092\|ref\|YP_755772.1\| hypothetical protein Mmar10_0541 [Maricaulis maris MCS10], gi\|11433955...	127.0	[0..7]	[115..45]

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Predicted Domain #1

Region A:
Residues: [1-117]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIDKIKSNAR DLRRNLTLQE RKLWRYLRSR RFSDFKFRRQ HPVGSYILDF ACCSARVVVE  60
   61 LDGGQHDLAV AYDSRRTSWL ESQGWTVLRF WNNEIDCNEE TVLENILQEL NRRSPSP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	14.045757
Match:	1cw0A
Description:	Very short patch repair (VSR) endonuclease
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	0.286388432783973	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: