YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|226898515, gi...
Organism:	Escherichia sp. 3_2_53FAA
Length:	523 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|226898515, gi....

Description	E-value	Query Range	Subject Range
gi\|15641846, gi\|... - gi\|9656372\|gb\|AAF94992.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio cholerae O1 biovar El To... gi\|229370275, gi... - gi\|229607620\|ref\|YP_002878268.1\| cytochrome d ubiquinol oxidase subunit I [Vibrio cholerae MJ-1236],... gi\|229518841, gi... - gi\|229518841\|ref\|ZP_04408284.1\| cytochrome d ubiquinol oxidase subunit I [Vibrio cholerae RC9], gi\|2... gi\|229351667, gi... - gi\|229511702\|ref\|ZP_04401181.1\| cytochrome d ubiquinol oxidase subunit I [Vibrio cholerae B33], gi\|2... gi\|121591341, gi... - gi\|121591341\|ref\|ZP_01678629.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio cholerae 2740-80],... gi\|229508059, gi... - gi\|229508059\|ref\|ZP_04397564.1\| cytochrome d ubiquinol oxidase subunit I [Vibrio cholerae BX 330286]... gi\|75830159, gi\|... - gi\|75830159\|ref\|ZP_00759442.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Vibrio cholera... gi\|153225631, gi... - gi\|153225631\|ref\|ZP_01954817.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio cholerae MAK 757],... gi\|227081973, gi... - gi\|227081973\|ref\|YP_002810524.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio cholerae M66-2], ... gi\|75827169, gi\|... - gi\|75827169\|ref\|ZP_00756604.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Vibrio cholera... gi\|75814782, gi\|... - gi\|75814782\|ref\|ZP_00745333.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Vibrio cholera... gi\|11280222 - pir\|\|E82149 cytochrome d ubiquinol oxidase, chain I VC1844 [similarity] - Vibrio cholerae (strain N1...	665.0	[0..2]	[520..14]
gi\|91188505, gi\|... - gi\|91227612\|ref\|ZP_01261916.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio alginolyticus 12G01...	663.0	[0..2]	[520..1]
gi\|75853720, gi\|... - gi\|75853720\|ref\|ZP_00761496.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Vibrio sp. Ex2...	663.0	[0..2]	[520..1]
gi\|28806040, gi\|... - gi\|28897827\|ref\|NP_797432.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio parahaemolyticus RIMD... gi\|28806040 - gi\|28806040\|dbj\|BAC59316.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio parahaemolyticus RIMD ...	663.0	[0..2]	[520..11]
gi\|30062104, gi\|... - gi\|30062104\|ref\|NP_836275.1\| cytochrome d terminal oxidase, polypeptide subunit I [Shigella flexneri...	661.0	[0..1]	[523..1]
gi\|497637 - gi\|497637\|gb\|AAA18804.1\| cytochrome oxidase d subunit I	660.0	[0..2]	[523..1]
gi\|82776010, gi\|... - gi\|82776010\|ref\|YP_402357.1\| cytochrome d terminal oxidase, polypeptide subunit I [Shigella dysenter...	660.0	[0..1]	[523..1]
gi\|27361640, gi\|... - gi\|27365492\|ref\|NP_761020.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio vulnificus CMCP6], gi...	659.0	[0..2]	[520..1]
gi\|168750675, gi... - gi\|188015201\|gb\|EDU53323.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 str.... gi\|168757197, gi... - gi\|189355764\|gb\|EDU74183.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 str.... gi\|189003046, gi... - gi\|189003046\|gb\|EDU72032.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 str.... EG10173 - cytochrome d terminal oxidase, subunit I / Cytochrome d (bd-I) ubiquinol oxidase subunit 1; upregula... gi\|189376472, gi... - gi\|189376472\|gb\|EDU94888.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 str.... CYDA_SHIFL - Cytochrome bd-I ubiquinol oxidase subunit 1 OS=Shigella flexneri GN=cydA PE=3 SV=1 gi\|170020923, gi... - gi\|170020923\|ref\|YP_001725877.1\| cytochrome bd ubiquinol oxidase subunit I [Escherichia coli ATCC 87... gi\|169888234, gi... - gi\|170080399\|ref\|YP_001729719.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli str. K-1... gi\|170519144, gi... - gi\|170681426\|ref\|YP_001742843.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli SMS-3-5... gi\|208815868, gi... - gi\|208815868\|ref\|ZP_03257047.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 ... gi\|208823042, gi... - gi\|208823042\|ref\|ZP_03263360.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 ... gi\|209158784, gi... - gi\|209397384\|ref\|YP_002269366.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7... gi\|209917984, gi... - gi\|209917984\|ref\|YP_002292068.1\| cytochrome d ubiquinol oxidase subunit I [Escherichia coli SE11], g... gi\|1651327, gi\|8... - gi\|89107590\|ref\|AP_001370.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli str. K-12 su... gi\|215485754, gi... - gi\|215485754\|ref\|YP_002328185.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli O127:H6 ... gi\|110640940, gi... - gi\|110640940\|ref\|YP_668668.1\| cytochrome D ubiquinol oxidase subunit I [Escherichia coli 536], gi\|11... gi\|217324293, gi... - gi\|217324293\|ref\|ZP_03440377.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 ... EG10173 - cytochrome d terminal oxidase, subunit I / Cytochrome d (bd-I) ubiquinol oxidase subunit 1; upregula... gi\|218553260, gi... - gi\|218553260\|ref\|YP_002386173.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli IAI1], g... gi\|218364415, gi... - gi\|218557646\|ref\|YP_002390559.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli S88], gi... gi\|187776422, gi... - gi\|187776422\|ref\|ZP_02992952.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 ... gi\|189363332, gi... - gi\|189402916\|ref\|ZP_03006896.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli O157:H7 ... gi\|190902771, gi... - gi\|191167223\|ref\|ZP_03029042.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli B7A], gi... gi\|254591290, gi... - gi\|254791890\|ref\|YP_003076727.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli O157:H7 ... gi\|190905663, gi... - gi\|191174055\|ref\|ZP_03035571.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli F11], gi... gi\|254160802, gi... - gi\|254160802\|ref\|YP_003043910.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli B str. R... gi\|193070641, gi... - gi\|193070641\|ref\|ZP_03051578.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli E110019]... gi\|253325341, gi... - gi\|254287590\|ref\|YP_003053338.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli BL21(DE3... gi\|194429064, gi... - gi\|194429064\|ref\|ZP_03061595.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli B171], g... gi\|242376494, gi... - gi\|251784221\|ref\|YP_002998525.1\| hypothetical protein B21_00681 [Escherichia coli BL21], gi\|24237649... gi\|194417745, gi... - gi\|194433980\|ref\|ZP_03066251.1\| cytochrome d ubiquinol oxidase, subunit I [Shigella dysenteriae 1012... gi\|238899997, gi... - gi\|238899997\|ref\|YP_002925793.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli BW2952],... gi\|194439257, gi... - gi\|194439257\|ref\|ZP_03071337.1\| cytochrome d ubiquinol oxidase, subunit I [Escherichia coli 101-1], ... gi\|75511620, gi\|... - gi\|75511620\|ref\|ZP_00734271.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Escherichia co... gi\|75256443, gi\|... - gi\|75256443\|ref\|ZP_00728101.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Escherichia co... gi\|157160215, gi... - gi\|75194893\|ref\|ZP_00704963.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Escherichia co... CYDA_ECOL6 - Cytochrome bd-I ubiquinol oxidase subunit 1 OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 /... gi\|157156610, gi... - gi\|75189754\|ref\|ZP_00703021.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Escherichia co... gi\|75175932, gi\|... - gi\|75175932\|ref\|ZP_00696119.1\| COG1271: Cytochrome bd-type quinol oxidase, subunit 1 [Shigella boydi... gi\|218688524, gi... - gi\|218688524\|ref\|YP_002396736.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli ED1a], g... gi\|218350889, gi... - gi\|218694157\|ref\|YP_002401824.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli 55989], ... gi\|218369091, gi... - gi\|218699105\|ref\|YP_002406734.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli IAI39], ... gi\|218704060, gi... - gi\|218704060\|ref\|YP_002411579.1\| cytochrome d terminal oxidase, subunit I [Escherichia coli UMN026],... CYDA_ECOL6 - Cytochrome d ubiquinol oxidase subunit 1 OS=Escherichia coli O6 GN=cydA PE=3 SV=1 CYDA_ECOLI - Cytochrome d ubiquinol oxidase subunit 1 (EC 1.10.3.-) (Cytochrome d ubiquinol oxidase subunit I) (C... gi\|124501506, gi... - gi\|124526812\|ref\|ZP_01698694.1\| cytochrome bd ubiquinol oxidase, subunit I [Escherichia coli B], gi\|...	659.0	[0..2]	[523..1]
gi\|37199215, gi\|... - gi\|37680467\|ref\|NP_935076.1\| cytochrome d ubiquinol oxidase, subunit I [Vibrio vulnificus YJ016], gi...	659.0	[0..2]	[520..11]

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Predicted Domain #1

Region A:
Residues: [1-121]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MMLDIVELSR LQFALTAMYH FLFVPLTLGM AFLLAIMETV YVLSGKQIYK DMTKFWGKLF  60
   61 GINFALGVAT GLTMEFQFGT NWSYYSHYVG DIFGAPLAIE GLMAFFLEST FVGLFFFGWD 120
  121 R

[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 #2

Region A:
Residues: [122-263]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LGKVQHMCVT WLVALGSNLS ALWILVANGW MQNPIASDFN FETMRMEMVS FSELVLNPVA  60
   61 QVKFVHTVAS GYVTGAMFIL GISAWYMLKG RDFAFAKRSF AIAASFGMAA VLSVIVLGDE 120
  121 SGYEMGDVQK TKLAAIEAEW ET

[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 #3

Region A:
Residues: [264-368]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QPAPAAFTLF GIPDQEEETN KFAIQIPYAL GIIATRSVDT PVIGLKELMV QHEERIRNGM  60
   61 KAYSLLEQLR SGSTDQAVRD QFNSMKKDLG YGLLLKRYTP NVADA

[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: [369-523]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TEAQIQQATK DSIPRVAPLY FAFRIMVACG FLLLAIIALS FWSVIRNRIG EKKWLLRAAL  60
   61 YGIPLPWIAV EAGWFVAEYG RQPWAIGEVL PTAVANSSLT AGDLIFSMVL ICGLYTLFLV 120
  121 AELFLMFKFA RLGPSSLKTG RYHFEQSSTT TQPAR

[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