YRC Public Data Repository - Protein Structure Prediction

Protein:	RRFC_ORYSJ
Organism:	Oryza sativa Japonica Group
Length:	266 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 RRFC_ORYSJ.

Description	E-value	Query Range	Subject Range
RRFC_SPIOL - Ribosome-recycling factor, chloroplastic OS=Spinacia oleracea GN=RRF PE=1 SV=1	270.0	[0..27]	[266..31]
RRF_COLP3 - Ribosome-recycling factor OS=Colwellia psychrerythraea (strain 34H / ATCC BAA-681) GN=frr PE=3 SV=1	270.0	[0..82]	[266..1]
RRF_ERWCT - Ribosome-recycling factor OS=Erwinia carotovora subsp. atroseptica GN=frr PE=3 SV=1 RRF_PECAS - Ribosome-recycling factor OS=Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) GN=frr PE...	269.0	[0..82]	[265..1]
RRF_VIBCH - Ribosome-recycling factor OS=Vibrio cholerae GN=frr PE=3 SV=1 RRF_VIBCM - Ribosome-recycling factor OS=Vibrio cholerae serotype O1 (strain M66-2) GN=frr PE=3 SV=1 gi\|229507669, gi... - gi\|229507669\|ref\|ZP_04397174.1\| ribosome recycling factor [Vibrio cholerae BX 330286], gi\|229355174\|... gi\|254286071, gi... - gi\|254286071\|ref\|ZP_04961032.1\| ribosome recycling factor [Vibrio cholerae AM-19226], gi\|197752556\|r... gi\|229512136, gi... - gi\|229512136\|ref\|ZP_04401615.1\| ribosome recycling factor [Vibrio cholerae B33], gi\|229352101\|gb\|EEO... gi\|153827697, gi... - gi\|153827697\|ref\|ZP_01980364.1\| ribosome recycling factor [Vibrio cholerae MZO-2], gi\|149737829\|gb\|E... gi\|229343960, gi... - gi\|229519271\|ref\|ZP_04408714.1\| ribosome recycling factor [Vibrio cholerae RC9], gi\|229343960\|gb\|EEO... gi\|229522203, gi... - gi\|229522203\|ref\|ZP_04411620.1\| ribosome recycling factor [Vibrio cholerae TM 11079-80], gi\|22934112... gi\|229337841, gi... - gi\|229524260\|ref\|ZP_04413665.1\| ribosome recycling factor [Vibrio cholerae bv. albensis VL426], gi\|2... gi\|229528740, gi... - gi\|229528740\|ref\|ZP_04418130.1\| ribosome recycling factor [Vibrio cholerae 12129(1)], gi\|229332514\|g... gi\|229607173, gi... - gi\|229607173\|ref\|YP_002877821.1\| ribosome recycling factor [Vibrio cholerae MJ-1236], gi\|229369828\|g... gi\|254845092, gi... - gi\|254849387\|ref\|ZP_05238737.1\| ribosome recycling factor [Vibrio cholerae MO10], gi\|254845092\|gb\|EE... RRF_VIBC3 - Ribosome-recycling factor OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / ... RRF_VIBCH - Ribosome-recycling factor OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) G... gi\|153221229, gi... - gi\|153221229\|ref\|ZP_01952244.1\| ribosome recycling factor [Vibrio cholerae MAK 757], gi\|124119758\|gb... gi\|153803002, gi... - gi\|153803002\|ref\|ZP_01957588.1\| ribosome recycling factor [Vibrio cholerae MZO-3], gi\|124121445\|gb\|E...	268.0	[0..82]	[266..1]
RRF_PHOLL - Ribosome-recycling factor OS=Photorhabdus luminescens subsp. laumondii GN=frr PE=3 SV=1 RRF_PHOLL - Ribosome-recycling factor OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 10556...	268.0	[0..82]	[265..1]
RRF_DESHD - Ribosome-recycling factor OS=Desulfitobacterium hafniense (strain DCB-2 / DSM 10664) GN=frr PE=3 SV=...	268.0	[0..82]	[266..1]
RRF_LEGPA - Ribosome-recycling factor OS=Legionella pneumophila (strain Paris) GN=frr PE=3 SV=1	267.0	[0..82]	[266..1]
RRF_LEGPL - Ribosome-recycling factor OS=Legionella pneumophila (strain Lens) GN=frr PE=3 SV=1 RRF_LEGPC - Ribosome-recycling factor OS=Legionella pneumophila (strain Corby) GN=frr PE=3 SV=1 RRF_LEGPH - Ribosome-recycling factor OS=Legionella pneumophila subsp. pneumophila (strain Philadelphia 1 / ATCC...	267.0	[0..82]	[266..1]
RRF_HISS2 - Ribosome-recycling factor OS=Histophilus somni (strain 2336) GN=frr PE=3 SV=1 RRF_HAES1 - Ribosome-recycling factor OS=Haemophilus somnus (strain 129Pt) GN=frr PE=3 SV=1	267.0	[0..82]	[264..1]
RRF_VIBF1 - Ribosome-recycling factor OS=Vibrio fischeri (strain ATCC 700601 / ES114) GN=frr PE=3 SV=1	266.0	[0..82]	[266..1]

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Predicted Domain #1

Region A:
Residues: [1-74]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPPLHAVSPA AAAAPPRALS SAARVPQRPG CVPERPNILS SSTNFMSLRA GPMRFYSRPL  60
   61 ILQNSDKRAV LRHA

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.463	a.4.1	Homeodomain-like
View	Download	0.410	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.410	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.380	a.4.1	Homeodomain-like
View	Download	0.364	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.358	a.60.2	RuvA domain 2-like
View	Download	0.311	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.304	a.60.1	SAM/Pointed domain
View	Download	0.232	a.56.1	CO dehydrogenase ISP C-domain like

Predicted Domain #2

Region A:
Residues: [75-266]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TIEEIEAEKS VIEDQARERM EKAIETVQNN FNTVRTGRAN PAMLDRIEVE YYGTPVNLKS  60
   61 IAQINTPDAT SLLIQPYDKS SLKLIEKTIV AANLGVTPSN DGEVIRVTVP PLTSDRRKEL 120
  121 AKTVAKLAEE GKVAIRNIRR DAIKAYDKLE KEKKLSEDNV KDLSADLQKV TDEYMKKIEA 180
  181 IQKQKEQELM KI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	71.045757
Match:	1is1A
Description:	Ribosome recycling factor, RRF
Matching Structure (courtesy of the PDB):

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