YRC Public Data Repository - Protein Structure Prediction

Protein:	RNE_ECOLI
Organism:	Escherichia coli
Length:	1061 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 RNE_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|74311645, gi\|... - gi\|74311645\|ref\|YP_310064.1\| ribonuclease E [Shigella sonnei Ss046], gi\|73855122\|gb\|AAZ87829.1\| RNas...	736.0	[0..1]	[1061..1]
gi\|110342852, gi... - gi\|110641260\|ref\|YP_668990.1\| ribonuclease E [Escherichia coli 536], gi\|110342852\|gb\|ABG69089.1\| rib...	734.0	[0..1]	[1061..1]
gi\|218364735, gi... - gi\|218557966\|ref\|YP_002390879.1\| ribonuclease E [Escherichia coli S88], gi\|218364735\|emb\|CAR02425.1\|... gi\|237706930, gi... - gi\|237706930\|ref\|ZP_04537411.1\| rnase E [Escherichia sp. 3_2_53FAA], gi\|226898140\|gb\|EEH84399.1\| rna... gi\|117623270, gi... - gi\|117623270\|ref\|YP_852183.1\| ribonuclease E [Escherichia coli APEC O1], gi\|115512394\|gb\|ABJ00469.1\|... gi\|91071810, gi\|... - gi\|91210236\|ref\|YP_540222.1\| ribonuclease E [Escherichia coli UTI89], gi\|91071810\|gb\|ABE06691.1\| RNa...	733.0	[0..1]	[1061..1]
gi\|110805100, gi... - gi\|110805100\|ref\|YP_688620.1\| ribonuclease E [Shigella flexneri 5 str. 8401], gi\|110614648\|gb\|ABF033...	731.0	[0..1]	[1061..1]
gi\|75195268 - gi\|75195268\|ref\|ZP_00705338.1\| COG1530: Ribonucleases G and E [Escherichia coli HS]	731.0	[0..4]	[1061..1]
gi\|75513528 - gi\|75513528\|ref\|ZP_00735932.1\| COG1530: Ribonucleases G and E [Escherichia coli 53638]	729.0	[0..4]	[1061..1]
gi\|77958126 - gi\|77958126\|ref\|ZP_00822165.1\| COG1530: Ribonucleases G and E [Yersinia bercovieri ATCC 43970]	729.0	[0..4]	[494..1]
gi\|83586382 - gi\|83586382\|ref\|ZP_00925016.1\| COG1530: Ribonucleases G and E [Escherichia coli 101-1]	729.0	[0..4]	[1061..1]
gi\|81245862, gi\|... - gi\|82544451\|ref\|YP_408398.1\| ribonuclease E [Shigella boydii Sb227], gi\|81245862\|gb\|ABB66570.1\| RNas...	728.0	[0..1]	[1061..1]
gi\|254792466, gi... - gi\|254792466\|ref\|YP_003077303.1\| RNase E [Escherichia coli O157:H7 str. TW14359], gi\|254591866\|gb\|AC... gi\|15830716, gi\|... - gi\|15830716\|ref\|NP_309489.1\| ribonuclease E [Escherichia coli O157:H7 str. Sakai], gi\|13360926\|dbj\|B... gi\|208737531, gi... - gi\|208822046\|ref\|ZP_03262365.1\| ribonuclease E [Escherichia coli O157:H7 str. EC4042], gi\|208737531\|... gi\|208732183, gi... - gi\|208815535\|ref\|ZP_03256714.1\| ribonuclease E [Escherichia coli O157:H7 str. EC4045], gi\|208732183\|... gi\|217318492, gi... - gi\|217328065\|ref\|ZP_03444147.1\| ribonuclease E [Escherichia coli O157:H7 str. TW14588], gi\|217318492... gi\|209400957, gi... - gi\|209400957\|ref\|YP_002269930.1\| ribonuclease E [Escherichia coli O157:H7 str. EC4115], gi\|209162357... gi\|168790019, gi... - gi\|189370502\|gb\|EDU88918.1\| ribonuclease E [Escherichia coli O157:H7 str. EC869], gi\|168790019\|ref\|Z... gi\|168783614, gi... - gi\|188999086\|gb\|EDU68072.1\| ribonuclease E [Escherichia coli O157:H7 str. EC4076], gi\|168783614\|ref\|... gi\|208805839, gi... - gi\|208805839\|ref\|ZP_03248176.1\| ribonuclease E [Escherichia coli O157:H7 str. EC4206], gi\|208725640\|... gi\|195935474 - gi\|195935474\|ref\|ZP_03080856.1\| ribonuclease E [Escherichia coli O157:H7 str. EC4024] gi\|15830716, gi\|... - gi\|15830716\|ref\|NP_309489.1\| RNase E [Escherichia coli O157:H7], gi\|13360926\|dbj\|BAB34885.1\| RNase E... gi\|189363122, gi... - gi\|189363122\|gb\|EDU81541.1\| ribonuclease E [Escherichia coli O157:H7 str. EC4486], gi\|168767743\|ref\|... gi\|209773298, gi... - pir\|\|B85671 RNase E [similarity] - Escherichia coli (strain O157:H7, substrain EDL933), pir\|\|F90811... gi\|12514625, gi\|... - gi\|15801201\|ref\|NP_287218.1\| ribonuclease E [Escherichia coli O157:H7 EDL933], gi\|12514625\|gb\|AAG558...	728.0	[0..1]	[1061..1]

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Predicted Domain #1

Region A:
Residues: [1-535]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKRMLINATQ QEELRVALVD GQRLYDLDIE SPGHEQKKAN IYKGKITRIE PSLEAAFVDY  60
   61 GAERHGFLPL KEIAREYFPA NYSAHGRPNI KDVLREGQEV IVQIDKEERG NKGAALTTFI 120
  121 SLAGSYLVLM PNNPRAGGIS RRIEGDDRTE LKEALASLEL PEGMGLIVRT AGVGKSAEAL 180
  181 QWDLSFRLKH WEAIKKAAES RPAPFLIHQE SNVIVRAFRD YLRQDIGEIL IDNPKVLELA 240
  241 RQHIAALGRP DFSSKIKLYT GEIPLFSHYQ IESQIESAFQ REVRLPSGGS IVIDSTEALT 300
  301 AIDINSARAT RGGDIEETAF NTNLEAADEI ARQLRLRDLG GLIVIDFIDM TPVRHQRAVE 360
  361 NRLREAVRQD RARIQISHIS RFGLLEMSRQ RLSPSLGESS HHVCPRCSGT GTVRDNESLS 420
  421 LSILRLIEEE ALKENTQEVH AIVPVPIASY LLNEKRSAVN AIETRQDGVR CVIVPNDQME 480
  481 TPHYHVLRVR KGEETPTLSY MLPKLHEEAM ALPSEEEFAE RKRPEQPALA TFAMP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	2bx2L
Description:	Catalytic domain of E. coli RNase E
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [536-827]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DVPPAPTPAE PAAPVVAPAP KAAPATPAAP AQPGLLSRFF GALKALFSGG EETKPTEQPA  60
   61 PKAEAKPERQ QDRRKPRQNN RRDRNERRDT RSERTEGSDN REENRRNRRQ AQQQTAETRE 120
  121 SRQQAEVTEK ARTADEQQAP RRERSRRRND DKRQAQQEAK ALNVEEQSVQ ETEQEERVRP 180
  181 VQPRRKQRQL NQKVRYEQSV AEEAVVAPVV EETVAAEPIV QEAPAPRTEL VKVPLPVVAQ 240
  241 TAPEQQEENN ADNRDNGGMP RRSRRSPRHL RVSGQRRRRY RDERYPTQSP MP

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.09
Match:	1dv4A
Description:	30S subunit
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [828-1061]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LTVACASPEL ASGKVWIRYP IVRPQDVQVE EQREQEEVHV QPMVTEVPVA AAIEPVVSAP  60
   61 VVEEVAGVVE APVQVAEPQP EVVETTHPEV IAAAVTEQPQ VITESDVAVA QEVAEQAEPV 120
  121 VEPQEETADI EEVVETAEVV VAEPEVVAQP AAPVVAEVAA EVETVAAVEP EVTVEHNHAT 180
  181 APMTRAPAPE YVPEAPRHSD WQRPTFAFEG KGAAGGHTAT HHASAAPARP QPVE

[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