YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|7494406
Organism:	Plasmodium falciparum
Length:	498 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|7494406.

Description	E-value	Query Range	Subject Range
gi\|83592924, gi\|... - gi\|83592924\|ref\|YP_426676.1\| ribosome recycling factor [Rhodospirillum rubrum ATCC 11170], gi\|835758...	233.0	[0..324]	[498..8]
RRF_RHOP5 - Ribosome-recycling factor OS=Rhodopseudomonas palustris (strain BisA53) GN=frr PE=3 SV=1	230.0	[0..322]	[498..2]
gi\|23010622 - gi\|23010622\|ref\|ZP_00051247.1\| COG0233: Ribosome recycling factor [Magnetospirillum magnetotacticum ...	228.0	[0..324]	[498..4]
RRF_RUBXD - Ribosome-recycling factor OS=Rubrobacter xylanophilus (strain DSM 9941 / NBRC 16129) GN=frr PE=3 SV=...	227.0	[0..322]	[498..1]
RRF_AZOVD - Ribosome-recycling factor OS=Azotobacter vinelandii (strain DJ / ATCC BAA-1303) GN=frr PE=3 SV=1 gi\|23105090, gi\|... - gi\|67156409\|ref\|ZP_00418002.1\| Ribosome recycling factor [Azotobacter vinelandii AvOP], ref\|ZP_00091...	227.0	[0..323]	[498..1]
RRF_PSEA8 - Ribosome-recycling factor OS=Pseudomonas aeruginosa (strain LESB58) GN=frr PE=3 SV=1 gi\|84325659, gi\|... - gi\|84325659\|ref\|ZP_00973693.1\| COG0233: Ribosome recycling factor [Pseudomonas aeruginosa 2192], gi\|... gi\|84319633, gi\|... - gi\|84319633\|ref\|ZP_00968027.1\| COG0233: Ribosome recycling factor [Pseudomonas aeruginosa C3719], gi... RRF_PSEAB - Ribosome-recycling factor OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=frr PE=3 SV=1 RRF_PSEAE - Ribosome-recycling factor OS=Pseudomonas aeruginosa GN=frr PE=3 SV=1 RRF_PSEAE - Ribosome-recycling factor OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 1... gi\|107103167 - gi\|107103167\|ref\|ZP_01367085.1\| hypothetical protein PaerPA_01004236 [Pseudomonas aeruginosa PACS2]	226.0	[0..323]	[498..1]
RRF_PSEA7 - Ribosome-recycling factor OS=Pseudomonas aeruginosa (strain PA7) GN=frr PE=3 SV=1	225.0	[0..323]	[498..1]
RRF_RHOPB - Ribosome-recycling factor OS=Rhodopseudomonas palustris (strain BisB18) GN=frr PE=3 SV=1	224.0	[0..326]	[498..6]
RRF_SALG2 - Ribosome-recycling factor OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=frr PE=3 SV=1 gi\|204927412, gi... - gi\|204927412\|ref\|ZP_03218614.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serov... gi\|200388182, gi... - gi\|200388182\|ref\|ZP_03214794.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serov... RRF_SALDC - Ribosome-recycling factor OS=Salmonella dublin (strain CT_02021853) GN=frr PE=3 SV=1 gi\|213425945 - gi\|213425945\|ref\|ZP_03358695.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serov... RRF_SALTI - Ribosome-recycling factor OS=Salmonella typhi GN=frr PE=3 SV=1 gi\|213416682 - gi\|213416682\|ref\|ZP_03349826.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serov... gi\|213163136 - gi\|213163136\|ref\|ZP_03348846.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serov... RRF_SALEP - Ribosome-recycling factor OS=Salmonella enteritidis PT4 (strain P125109) GN=frr PE=3 SV=1 gi\|16759209 - gi\|16759209\|ref\|NP_454826.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serovar ... RRF_SALHS - Ribosome-recycling factor OS=Salmonella heidelberg (strain SL476) GN=frr PE=3 SV=1 RRF_SALNS - Ribosome-recycling factor OS=Salmonella newport (strain SL254) GN=frr PE=3 SV=1 RRF_SALTY - Ribosome-recycling factor OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=frr PE=... gi\|168823247, gi... - gi\|205340485\|gb\|EDZ27249.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serovar W... gi\|29136383, gi\|... - gi\|29140759\|ref\|NP_804101.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serovar ... gi\|195632657, gi... - gi\|195632657\|gb\|EDX51111.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serovar N... gi\|197240067, gi... - gi\|197261812\|ref\|ZP_03161886.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serov... RRF_SALA4 - Ribosome-recycling factor OS=Salmonella agona (strain SL483) GN=frr PE=3 SV=1 RRF_SALSV - Ribosome-recycling factor OS=Salmonella schwarzengrund (strain CVM19633) GN=frr PE=3 SV=1 gi\|194457134, gi... - gi\|194470770\|ref\|ZP_03076754.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serov... RRF_SALCH - Ribosome-recycling factor OS=Salmonella choleraesuis GN=frr PE=3 SV=1 RRF_SALPC - Ribosome-recycling factor OS=Salmonella paratyphi C (strain RKS4594) GN=frr PE=3 SV=1 RRF_SALTY - Ribosome-recycling factor OS=Salmonella typhimurium GN=frr PE=3 SV=1 RRF_SALTI - Ribosome-recycling factor OS=Salmonella typhi GN=frr PE=3 SV=1 gi\|214000838 - gi\|214000838\|ref\|ZP_03411573.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serov... RRF_SALTY - Ribosome-recycling factor OS=Salmonella typhimurium GN=frr PE=3 SV=1 gi\|213646665 - gi\|213646665\|ref\|ZP_03376718.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serov... gi\|213580802 - gi\|213580802\|ref\|ZP_03362628.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serov... lcl\|NC_016856.1_... - [gene=frr] [protein=ribosome recycling factor] [protein_id=YP_005235890.1] [location=257853..258410] RRF_SALPB - Ribosome-recycling factor OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=frr PE=3 SV=1 RRF_SALAR - Ribosome-recycling factor OS=Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2980) GN=frr ... RRF_SALCH - Ribosome-recycling factor OS=Salmonella choleraesuis GN=frr PE=3 SV=1 gi\|205331572, gi... - gi\|205331572\|gb\|EDZ18336.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serovar 4... gi\|205322189, gi... - gi\|205322189\|gb\|EDZ10028.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serovar S... gi\|168263914, gi... - gi\|205347503\|gb\|EDZ34134.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serovar H... gi\|205336212, gi... - gi\|205336212\|gb\|EDZ22976.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serovar H... gi\|168234997, gi... - gi\|197291879\|gb\|EDY31229.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serovar S... gi\|168230526, gi... - gi\|205335095\|gb\|EDZ21859.1\| ribosome releasing factor [Salmonella enterica subsp. enterica serovar K... RRF_SALCH - Ribosome-recycling factor OS=Salmonella choleraesuis (strain SC-B67) GN=frr PE=3 SV=1 gi\|238911285 - gi\|238911285\|ref\|ZP_04655122.1\| ribosome recycling factor [Salmonella enterica subsp. enterica serov... RRF_SALPB - Ribosome-recycling factor OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=frr PE=3 SV=1	223.0	[0..323]	[498..1]
gi\|114327599, gi... - gi\|114327599\|ref\|YP_744756.1\| ribosome recycling factor (RRF) [Granulibacter bethesdensis CGDNIH1], ...	220.0	[0..310]	[498..5]

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Predicted Domain #1

Region A:
Residues: [1-87]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIFQHFLSLH NEKKISMFFY TFLILYISHV RIFYDCLNLK NEKNYNVLLK NGNNNSPSYY  60
   61 FLNSNYRNNN NFLRRKENYQ RVLLLYN

[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 #2

Region A:
Residues: [88-222]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PKFNDGAKRN SYILYAHSKK NKNKNKINHN INITKRETVS RRDRDDEDDN YDDDDENYDD  60
   61 DDDNYDDDEN YEDDENYDDD DENYDDGENY EDDENYNDDE NYDDDENYDD EYDDDDYPFN 120
  121 NDDIDIGDKD TPYET

[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: [223-334]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QKSKIRSKDE NVAHQNKGGN TLSLENYKIK KNANSDLETD KKNKVKKKQD EEMDETNKNN  60
   61 KNETNEKDEK DEKEEKDDNI NDNNDDIMED EYEEDYITEE HIKDLHKICS EK

[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: [335-498]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKVYEFLKK ESYRFNLNNV SNDMFENEKV KINERIYTVK HICHIKKKEN LFTITPYDPY  60
   61 FVNFLYQHFI KEFDELKFYV KDKSLYAIIP PISENLKNEI KMKIKRKIED SKVTLRTVRK 120
  121 QMMDKLEKFK NKIGKDIYFK QKNYIQSIHD QTKKNIEKLF ADTK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	53.69897
Match:	1ek8A
Description:	Ribosome recycling factor, RRF
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	0.838193922019645	bayes_pls_golite062009
translation regulator activity	0.51099545903621	bayes_pls_golite062009
nucleic acid binding	0.44053908101724	bayes_pls_golite062009
translation factor activity, nucleic acid binding	0.32761172237831	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: