YRC Public Data Repository - Protein Structure Prediction

Protein:	RF1_PSEAE
Organism:	Pseudomonas aeruginosa
Length:	360 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 RF1_PSEAE.

Description	E-value	Query Range	Subject Range
RF1_PSEE4 - Peptide chain release factor 1 OS=Pseudomonas entomophila (strain L48) GN=prfA PE=3 SV=1 gi\|95109087 - gi\|95109087\|emb\|CAK13784.1\| peptide chain release factor 1 [Pseudomonas entomophila L48]	0.0	[1..360]	[1..360]
RF1_PASMU - Peptide chain release factor 1 OS=Pasteurella multocida (strain Pm70) GN=prfA PE=3 SV=1 RF1_PASMU - Peptide chain release factor 1 OS=Pasteurella multocida GN=prfA PE=3 SV=1	0.0	[1..360]	[1..358]
RF1_ALTMD - Peptide chain release factor 1 OS=Alteromonas macleodii (strain DSM 17117 / Deep ecotype) GN=prfA1 P... RF1_ALTMD - Peptide chain release factor 1 OS=Alteromonas mediterranea (strain DSM 17117 / CIP 110805 / LMG 2834...	0.0	[1..360]	[1..360]
gi\|114773558 - gi\|114773558\|ref\|ZP_01450656.1\| Protein chain release factor A [alpha proteobacterium HTCC2255] gi\|221135300 - gi\|221135300\|ref\|ZP_03561603.1\| peptide chain release factor 1 [Glaciecola sp. HTCC2999] gi\|114773558, gi... - gi\|114773558\|ref\|ZP_01450656.1\| Protein chain release factor A [alpha proteobacterium HTCC2255], gi\|...	0.0	[1..360]	[1..360]
gi\|32033818 - gi\|32033818\|ref\|ZP_00134103.1\| COG0216: Protein chain release factor A [Actinobacillus pleuropneumon...	0.0	[1..360]	[1..358]
RF1_VIBVU - Peptide chain release factor 1 OS=Vibrio vulnificus GN=prfA PE=3 SV=2 RF1_VIBVY - Peptide chain release factor 1 OS=Vibrio vulnificus (strain YJ016) GN=prfA PE=3 SV=2 RF1_VIBVU - Peptide chain release factor 1 OS=Vibrio vulnificus (strain CMCP6) GN=prfA PE=3 SV=2	0.0	[1..360]	[1..360]
gi\|68058123, gi\|... - gi\|68249924\|ref\|YP_249036.1\| peptide chain release factor 1 [Haemophilus influenzae 86-028NP], gi\|68...	0.0	[1..360]	[2..359]
RF1_HAEIN - Peptide chain release factor 1 OS=Haemophilus influenzae GN=prfA PE=3 SV=2 RF1_HAEIN - Peptide chain release factor 1 OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)...	0.0	[1..360]	[1..358]
gi\|37679115, gi\|... - gi\|37679115\|ref\|NP_933724.1\| peptide chain release factor 1 [Vibrio vulnificus YJ016], gi\|37197857\|d... gi\|27363734, gi\|... - gi\|27363734\|ref\|NP_759262.1\| peptide chain release factor 1 [Vibrio vulnificus CMCP6], gi\|27359850\|g...	0.0	[1..360]	[2..361]
RF1_VIBCM - Peptide chain release factor 1 OS=Vibrio cholerae serotype O1 (strain M66-2) GN=prfA PE=3 SV=1 gi\|116189311, gi... - gi\|75830361\|ref\|ZP_00759641.1\| COG0216: Protein chain release factor A [Vibrio cholerae MO10], gi\|25... gi\|229355248, gi... - gi\|229507743\|ref\|ZP_04397248.1\| peptide chain release factor 1 [Vibrio cholerae BX 330286], gi\|22935... RF1_VIBC3 - Peptide chain release factor 1 OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 3... gi\|229513825, gi... - gi\|229513825\|ref\|ZP_04403287.1\| peptide chain release factor 1 [Vibrio cholerae TMA 21], gi\|22934900... gi\|229519157, gi... - gi\|229519157\|ref\|ZP_04408600.1\| peptide chain release factor 1 [Vibrio cholerae RC9], gi\|229343846\|g... gi\|229522130, gi... - gi\|229522130\|ref\|ZP_04411547.1\| peptide chain release factor 1 [Vibrio cholerae TM 11079-80], gi\|229... gi\|229337756, gi... - gi\|229524175\|ref\|ZP_04413580.1\| peptide chain release factor 1 [Vibrio cholerae bv. albensis VL426],... gi\|229332588, gi... - gi\|229528814\|ref\|ZP_04418204.1\| peptide chain release factor 1 [Vibrio cholerae 12129(1)], gi\|229332... gi\|229369943, gi... - gi\|229607288\|ref\|YP_002877936.1\| peptide chain release factor 1 [Vibrio cholerae MJ-1236], gi\|229369... gi\|197751315, gi... - gi\|254291410\|ref\|ZP_04962203.1\| peptide chain release factor 1 [Vibrio cholerae AM-19226], gi\|197751... gi\|148875897, gi... - gi\|153828626\|ref\|ZP_01981293.1\| peptide chain release factor 1 [Vibrio cholerae 623-39], gi\|14887589... gi\|149740734, gi... - gi\|153825583\|ref\|ZP_01978250.1\| peptide chain release factor 1 [Vibrio cholerae MZO-2], gi\|149740734... RF1_VIBCH - Peptide chain release factor 1 OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N169... gi\|124116034, gi... - gi\|153213234\|ref\|ZP_01948646.1\| peptide chain release factor 1 [Vibrio cholerae 1587], gi\|124116034\|... gi\|153223504, gi... - gi\|153223504\|ref\|ZP_01953906.1\| peptide chain release factor 1 [Vibrio cholerae MAK 757], gi\|1241181... gi\|124122826, gi... - gi\|153801649\|ref\|ZP_01956235.1\| peptide chain release factor 1 [Vibrio cholerae MZO-3], gi\|124122826... RF1_VIBCH - Peptide chain release factor 1 OS=Vibrio cholerae GN=prfA PE=3 SV=1 gi\|153818801, gi... - gi\|153818801\|ref\|ZP_01971468.1\| peptide chain release factor 1 [Vibrio cholerae NCTC 8457], gi\|12651... gi\|126518907, gi... - gi\|229512021\|ref\|ZP_04401500.1\| peptide chain release factor 1 [Vibrio cholerae B33], gi\|229351986\|g...	0.0	[1..360]	[1..360]

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Predicted Domain #1

Region A:
Residues: [1-360]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKASLLKKLD VLSDRYEELT ALLGDAEVIS DQTRFRAYSR EYAEVEPVIL AFRDYRKVQA  60
   61 DLEGAQALLK DSDPELRDLA EEEVAEARGR LAALGDSLQR MLLPKDPNDS RNVFLEIRAG 120
  121 TGGDEAAIFS GDLFRMYSRY AERQGWRIET LSENEGEHGG YKEVIARVEG DNVYAKLKFE 180
  181 SGAHRVQRVP ETESQGRIHT SACTVAVLPE PDEQAAIEIN PADLRVDTYR SSGAGGQHVN 240
  241 KTDSAVRITH IPSGIVVECQ EERSQHKNRA KAMAWLAAKL NDQQQAAAQQ AIASTRKLLV 300
  301 GSGDRSERIR TYNFPQGRVT DHRINLTLYS LGEVMEGAVE QVIEPLLQEY QADQLAALGD 360
  361

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	122.0
Match:	2b3tB
Description:	Molecular basis for bacterial class 1 release factor methylation by PrmC
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
translation release factor activity	8.49824253851587	bayes_pls_golite062009
translation termination factor activity	8.4944923601206	bayes_pls_golite062009
translation regulator activity	5.08132283479856	bayes_pls_golite062009
translation factor activity, nucleic acid binding	5.06589285641735	bayes_pls_golite062009
nucleic acid binding	4.35723700591238	bayes_pls_golite062009
binding	3.84101343221316	bayes_pls_golite062009
translation release factor activity, codon specific	0.183484956864194	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: