YRC Public Data Repository - Protein Structure Prediction

Protein:	YDIJ_ECOLI
Organism:	Escherichia coli
Length:	1018 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 YDIJ_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|251785140, gi... - gi\|251785140\|ref\|YP_002999444.1\| hypothetical protein B21_01645 [Escherichia coli BL21], gi\|24237741... gi\|254161748, gi... - gi\|254161748\|ref\|YP_003044856.1\| predicted FAD-linked oxidoreductase [Escherichia coli B str. REL606... gi\|253773357, gi... - gi\|254288536\|ref\|YP_003054284.1\| predicted FAD-linked oxidoreductase [Escherichia coli BL21(DE3)], g... gi\|157066832, gi... - gi\|75195764\|ref\|ZP_00705834.1\| COG0277: FAD/FMN-containing dehydrogenases [Escherichia coli HS], gi\|...	804.0	[0..1]	[1018..1]
gi\|83585991, gi\|... - gi\|83585991\|ref\|ZP_00924629.1\| COG0277: FAD/FMN-containing dehydrogenases [Escherichia coli 101-1], ...	803.0	[0..1]	[1018..1]
gi\|115512990, gi... - gi\|117623866\|ref\|YP_852779.1\| putative FAD-linked oxidoreductase [Escherichia coli APEC O1], gi\|1155... gi\|218365325, gi... - gi\|218558556\|ref\|YP_002391469.1\| putative conserved FAD-linked oxidoreductase [Escherichia coli S88]... gi\|237705633, gi... - gi\|237705633\|ref\|ZP_04536114.1\| conserved hypothetical protein [Escherichia sp. 3_2_53FAA], gi\|22690... gi\|91210900, gi\|... - gi\|91210900\|ref\|YP_540886.1\| hypothetical protein UTI89_C1879 [Escherichia coli UTI89], gi\|91072474\|...	803.0	[0..1]	[1018..1]
gi\|75513814, gi\|... - gi\|75513814\|ref\|ZP_00736190.1\| COG0277: FAD/FMN-containing dehydrogenases [Escherichia coli 53638], ...	802.0	[0..1]	[1018..1]
gi\|208810215, gi... - gi\|208810215\|ref\|ZP_03252091.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4206], ... gi\|195937371 - gi\|195937371\|ref\|ZP_03082753.1\| putative oxidase [Escherichia coli O157:H7 str. EC4024] gi\|189377573, gi... - gi\|189377573\|gb\|EDU95989.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC508], gi\|16... gi\|168789821, gi... - gi\|189370586\|gb\|EDU89002.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC869], gi\|16... gi\|217328931, gi... - gi\|217328931\|ref\|ZP_03445012.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. TW14588],... gi\|209396798, gi... - gi\|209396798\|ref\|YP_002270756.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4115],... gi\|208740378, gi... - gi\|208820255\|ref\|ZP_03260575.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4042], ... gi\|208730880, gi... - gi\|208816537\|ref\|ZP_03257657.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4045], ... gi\|189356123, gi... - gi\|189356123\|gb\|EDU74542.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4401], gi\|1... gi\|188014141, gi... - gi\|188014141\|gb\|EDU52263.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4113], gi\|1... gi\|189000268, gi... - gi\|189000268\|gb\|EDU69254.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4076], gi\|1... gi\|168775016, gi... - gi\|187769414\|gb\|EDU33258.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4196], gi\|1... gi\|168770446, gi... - gi\|189360654\|gb\|EDU79073.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4486], gi\|1... gi\|189367481, gi... - gi\|189367481\|gb\|EDU85897.1\| oxidoreductase, FAD-binding [Escherichia coli O157:H7 str. EC4501], gi\|1... gi\|25390836, gi\|... - pir\|\|F85776 probable oxidase ydiJ [imported] - Escherichia coli (strain O157:H7, substrain EDL933),... gi\|15831648, gi\|... - gi\|15831648\|ref\|NP_310421.1\| putative oxidase [Escherichia coli O157:H7 str. Sakai], gi\|13361861\|dbj... gi\|15802099, gi\|... - gi\|15802099\|ref\|NP_288121.1\| putative oxidase [Escherichia coli O157:H7 EDL933], gi\|12515689\|gb\|AAG5... gi\|254592704, gi... - gi\|254793304\|ref\|YP_003078141.1\| predicted FAD-linked oxidoreductase [Escherichia coli O157:H7 str. ... gi\|15831648, gi\|... - gi\|15831648\|ref\|NP_310421.1\| putative oxidase [Escherichia coli O157:H7], gi\|13361861\|dbj\|BAB35817.1...	802.0	[0..1]	[1018..1]
gi\|75229002, gi\|... - gi\|75229002\|ref\|ZP_00715589.1\| COG0277: FAD/FMN-containing dehydrogenases [Escherichia coli B7A], gi...	802.0	[0..1]	[1018..1]
gi\|75236857, gi\|... - gi\|75236857\|ref\|ZP_00720928.1\| COG0277: FAD/FMN-containing dehydrogenases [Escherichia coli E110019]... gi\|75190725, gi\|... - gi\|75190725\|ref\|ZP_00703992.1\| COG0277: FAD/FMN-containing dehydrogenases [Escherichia coli E24377A]... gi\|218351980, gi... - gi\|218695248\|ref\|YP_002402915.1\| putative conserved FAD-linked oxidoreductase [Escherichia coli 5598...	802.0	[0..1]	[1018..1]
gi\|187430090, gi... - gi\|75177417\|ref\|ZP_00697506.1\| COG0277: FAD/FMN-containing dehydrogenases [Shigella boydii BS512], g...	801.0	[0..1]	[1018..1]
gi\|26108340, gi\|... - gi\|26247937\|ref\|NP_753977.1\| hypothetical protein c2082 [Escherichia coli CFT073], gi\|26108340\|gb\|AA...	800.0	[0..1]	[1018..1]
gi\|82543943, gi\|... - gi\|82543943\|ref\|YP_407890.1\| putative oxidase [Shigella boydii Sb227], gi\|81245354\|gb\|ABB66062.1\| pu...	800.0	[0..1]	[1018..1]

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Predicted Domain #1

Region A:
Residues: [1-544]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIPQISQAPG VVQLVLNFLQ ELEQQGFTGD TATSYADRLT MSTDNSIYQL LPDAVVFPRS  60
   61 TADVALIARL AAQERYSSLI FTPRGGGTGT NGQALNQGII VDMSRHMNRI IEINPEEGWV 120
  121 RVEAGVIKDQ LNQYLKPFGY FFAPELSTSN RATLGGMINT DASGQGSLVY GKTSDHVLGV 180
  181 RAVLLGGDIL DTQPLPVELA ETLGKSNTTI GRIYNTVYQR CRQQRQLIID NFPKLNRFLT 240
  241 GYDLRHVFND EMTEFDLTRI LTGSEGTLAF ITEARLDITR LPKVRRLVNV KYDSFDSALR 300
  301 NAPFMVEARA LSVETVDSKV LNLAREDIVW HSVSELITDV PDQEMLGLNI VEFAGDDEAL 360
  361 IDERVNALCA RLDELIASHQ AGVIGWQVCR ELAGVERIYA MRKKAVGLLG NAKGAAKPIP 420
  421 FAEDTCVPPE HLADYIAEFR ALLDSHGLSY GMFGHVDAGV LHVRPALDMC DPQQEILMKQ 480
  481 ISDDVVALTA KYGGLLWGEH GKGFRAEYSP AFFGEELFAE LRKVKAAFDP HNRLNPGKIC 540
  541 PPEG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	49.0
Match:	2uuuA
Description:	No description for 2uuuA was found.

Predicted Domain #2

Region A:
Residues: [545-704]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LDAPMMKVDA VKRGTFDRQI PIAVRQQWRG AMECNGNGLC FNFDARSPMC PSMKITQNRI  60
   61 HSPKGRATLV REWLRLLADR GVDPLKLEQE LPESGVSLRT LIARTRNSWH ANKGEYDFSH 120
  121 EVKEAMSGCL ACKACSTQCP IKIDVPEFRS RFLQLYHTRY

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	4.69897
Match:	1kf6B
Description:	Fumarate reductase; Fumarate reductase iron-sulfur protein, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on the CH-CH group of donors	5.01242526509414	bayes_pls_golite062009
succinate dehydrogenase activity	3.51223072046447	bayes_pls_golite062009
oxidoreductase activity	2.72328759803842	bayes_pls_golite062009
succinate dehydrogenase (ubiquinone) activity	2.13229308925208	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor	2.13229308925208	bayes_pls_golite062009
catalytic activity	1.35682608895635	bayes_pls_golite062009
binding	0.629227080432741	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [705-779]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LRPLRDHLVA TVESYAPLMA RAPKTFNFFI NQPLVRKLSE KHIGMVDLPL LSVPSLQQQM  60
   61 VGHRSANMTL EQLES

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #4

Region A:
Residues: [780-857]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LNAEQKARTV LVVQDPFTSY YDAQVVADFV RLVEKLGFQP VLLPFSPNGK AQHIKGFLNR  60
   61 FAKTAKKTAD FLNRMAKL

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #5

Region A:
Residues: [858-1018]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GMPMVGVDPA LVLCYRDEYK LALGEERGEF NVLLANEWLA SALESQPVAT VSGESWYFFG  60
   61 HCTEVTALPG APAQWAAIFA RFGAKLENVS VGCCGMAGTY GHEAKNHENS LGIYELSWHQ 120
  121 AMQRLPRNRC LATGYSCRSQ VKRVEGTGVR HPVQALLEII K

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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: