YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|145600551, gi...
Organism:	Yersinia pestis Pestoides F
Length:	664 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|145600551, gi....

Description	E-value	Query Range	Subject Range
gi\|21957415, gi\|... - gi\|22124610\|ref\|NP_668033.1\| inducible ATP-independent RNA helicase [Yersinia pestis KIM], gi\|219574... gi\|45435306, gi\|... - gi\|45440449\|ref\|NP_991988.1\| inducible ATP-independent RNA helicase [Yersinia pestis biovar Microtus...	0.0	[1..638]	[6..643]
gi\|238793027, gi... - gi\|77978617\|ref\|ZP_00834044.1\| COG0513: Superfamily II DNA and RNA helicases [Yersinia intermedia AT...	0.0	[1..664]	[1..667]
gi\|77958797 - gi\|77958797\|ref\|ZP_00822825.1\| COG0513: Superfamily II DNA and RNA helicases [Yersinia bercovieri AT...	0.0	[1..638]	[1..638]
gi\|77961875 - gi\|77961875\|ref\|ZP_00825704.1\| COG0513: Superfamily II DNA and RNA helicases [Yersinia mollaretii AT...	0.0	[1..638]	[1..638]
gi\|77974025 - gi\|77974025\|ref\|ZP_00829568.1\| COG0513: Superfamily II DNA and RNA helicases [Yersinia frederiksenii...	0.0	[1..638]	[1..634]
gi\|33332423 - gi\|33332423\|gb\|AAQ11420.1\| DeaD box RNA helicase [Yersinia enterocolitica]	0.0	[1..636]	[1..633]
gi\|21109105, gi\|... - gi\|21243540\|ref\|NP_643122.1\| ATP-dependent RNA helicase [Xanthomonas axonopodis pv. citri str. 306],...	0.0	[2..622]	[4..631]
gi\|78036960, gi\|... - gi\|78048530\|ref\|YP_364705.1\| ATP-dependent RNA helicase [Xanthomonas campestris pv. vesicatoria str....	0.0	[2..622]	[20..647]
gi\|85058361, gi\|... - gi\|85058361\|ref\|YP_454063.1\| inducible ATP-independent RNA helicase [Sodalis glossinidius str. 'mors...	0.0	[3..664]	[7..627]
gi\|84623095, gi\|... - gi\|84623095\|ref\|YP_450467.1\| ATP-dependent RNA helicase [Xanthomonas oryzae pv. oryzae MAFF 311018],... gi\|58425767, gi\|... - gi\|58581173\|ref\|YP_200189.1\| ATP-dependent RNA helicase [Xanthomonas oryzae pv. oryzae KACC10331], g...	0.0	[2..622]	[4..633]

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Predicted Domain #1

Region A:
Residues: [1-374]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTTELETSFA DLGLSAPILS ALTDLGYEKP SPIQLECIPH LLNGRDVLGM AQTGSGKTAA  60
   61 FGLPLLHNIK ADLKSPQVLV LAPTRELAVQ VAEALSSFSK HINGVNVVAL YGGQRYDVQL 120
  121 RALRQGPQVV VGTPGRLLDH LKRGTLNLSN LSGLVLDEAD EMLRMGFIED VETIMAQIPA 180
  181 EHQTALFSAT MPEAIRRITR RFMKEPQEVR IQSSVTTRPD ISQSYWRVGG GYRKNEALVR 240
  241 FLEAEDFDAA IIFVRTKNAT LEVAEALERS GYNSAALNGD MNQALREQTL ERLKDGRLDI 300
  301 LIATDVAARG LDVERISLVV NYDIPMDSES YVHRIGRTGR AGRAGRALLF VENRERRLLQ 360
  361 NIERTMKLTI PEVE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	70.69897
Match:	1hv8A
Description:	Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrogen ion transmembrane transporter activity	9.07129841752891	bayes_pls_golite062009
hydrogen ion transporting ATP synthase activity, rotational mechanism	8.58358908736821	bayes_pls_golite062009
translation initiation factor activity	7.79457008386475	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	7.35625288284796	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	6.62734320850541	bayes_pls_golite062009
translation factor activity, nucleic acid binding	4.98637553020315	bayes_pls_golite062009
translation regulator activity	4.94658029227343	bayes_pls_golite062009
	4.704140727858	bayes_pls_golite062009
structural constituent of ribosome	4.56509805974548	bayes_pls_golite062009
proton-transporting ATPase activity, rotational mechanism	4.03326929098701	bayes_pls_golite062009
hydrolase activity	3.63069754092699	bayes_pls_golite062009
structural molecule activity	3.58406348799895	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	3.4837867129694	bayes_pls_golite062009
ion transmembrane transporter activity	3.35436118751376	bayes_pls_golite062009
hydrogen-exporting ATPase activity, phosphorylative mechanism	3.28373827150339	bayes_pls_golite062009
transporter activity	3.10463051760206	bayes_pls_golite062009
cation transmembrane transporter activity	3.08390071341252	bayes_pls_golite062009
transmembrane transporter activity	2.95886887664984	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.95079405147356	bayes_pls_golite062009
pyrophosphatase activity	2.87427509025394	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.85499564954033	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.85178667290149	bayes_pls_golite062009
motor activity	2.79327761685782	bayes_pls_golite062009
microtubule motor activity	2.74365461017633	bayes_pls_golite062009
binding	2.64537357529343	bayes_pls_golite062009
primary active transmembrane transporter activity	2.61775212528604	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	2.61467977505707	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	2.57552435627908	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	2.57107347424517	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	2.57054427875021	bayes_pls_golite062009
nucleic acid binding	2.51683451033161	bayes_pls_golite062009
active transmembrane transporter activity	2.50494515048649	bayes_pls_golite062009
ATPase activity, coupled	2.43862163407966	bayes_pls_golite062009
ATPase activity	2.39535714892224	bayes_pls_golite062009
cation-transporting ATPase activity	2.31476707827367	bayes_pls_golite062009
RNA binding	2.29590582680214	bayes_pls_golite062009
metal ion transmembrane transporter activity	2.18118655708491	bayes_pls_golite062009
RNA cap binding	2.17871969124431	bayes_pls_golite062009
DNA binding	1.94055378599526	bayes_pls_golite062009
substrate-specific transporter activity	1.91091452720653	bayes_pls_golite062009
transcription regulator activity	1.83584389083042	bayes_pls_golite062009
helicase activity	1.70242731830224	bayes_pls_golite062009
protein-DNA loading ATPase activity	1.54436515966471	bayes_pls_golite062009
DNA clamp loader activity	1.51134988628578	bayes_pls_golite062009
RNA helicase activity	1.42791449104435	bayes_pls_golite062009
cytoskeletal protein binding	1.40488517180956	bayes_pls_golite062009
RNA-dependent ATPase activity	1.39335733374328	bayes_pls_golite062009
ATP-dependent RNA helicase activity	1.36724390116598	bayes_pls_golite062009
voltage-gated cation channel activity	1.3493704216639	bayes_pls_golite062009
protein transporter activity	1.25342367751911	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of ions	1.23799860254751	bayes_pls_golite062009
voltage-gated ion channel activity	1.23468617030519	bayes_pls_golite062009
voltage-gated channel activity	1.216998547662	bayes_pls_golite062009
DNA-dependent ATPase activity	1.2155186842031	bayes_pls_golite062009
potassium channel activity	1.20877745413881	bayes_pls_golite062009
purine NTP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
ATP-dependent helicase activity	1.19311444180077	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
tubulin binding	0.979946830272106	bayes_pls_golite062009
DNA-directed DNA polymerase activity	0.971476020912368	bayes_pls_golite062009
transcription factor activity	0.959949409533517	bayes_pls_golite062009
cation channel activity	0.940476916156422	bayes_pls_golite062009
purine nucleotide binding	0.929901285538132	bayes_pls_golite062009
DNA polymerase activity	0.928091843881235	bayes_pls_golite062009
nucleotide binding	0.922442819194247	bayes_pls_golite062009
purine ribonucleotide binding	0.920987930180051	bayes_pls_golite062009
ribonucleotide binding	0.920926158369519	bayes_pls_golite062009
microtubule binding	0.907162506177187	bayes_pls_golite062009
actin binding	0.883285269827407	bayes_pls_golite062009
ion channel activity	0.848261056209476	bayes_pls_golite062009
channel activity	0.806331380134838	bayes_pls_golite062009
passive transmembrane transporter activity	0.806331380134838	bayes_pls_golite062009
substrate-specific channel activity	0.799997700906738	bayes_pls_golite062009
structure-specific DNA binding	0.782430219754236	bayes_pls_golite062009
mRNA binding	0.76699944561918	bayes_pls_golite062009
DNA helicase activity	0.72881469450553	bayes_pls_golite062009
ribonuclease activity	0.712344060953362	bayes_pls_golite062009
peptidase activity	0.654073677905812	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.652333406433794	bayes_pls_golite062009
gated channel activity	0.650050847753837	bayes_pls_golite062009
double-stranded DNA binding	0.6071273686445	bayes_pls_golite062009
transcription repressor activity	0.607045223341107	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.5886142102548	bayes_pls_golite062009
GTPase activity	0.437665353870877	bayes_pls_golite062009
anion transmembrane transporter activity	0.43332053110728	bayes_pls_golite062009
snRNA binding	0.418985924846052	bayes_pls_golite062009
ATP binding	0.41092997612902	bayes_pls_golite062009
adenyl ribonucleotide binding	0.385813421701492	bayes_pls_golite062009
adenyl nucleotide binding	0.377870145186619	bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides	0.347363231484033	bayes_pls_golite062009
guanyl nucleotide binding	0.296406132096546	bayes_pls_golite062009
GTP binding	0.295705904888768	bayes_pls_golite062009
guanyl ribonucleotide binding	0.29028316917561	bayes_pls_golite062009
molecular transducer activity	0.286367085584159	bayes_pls_golite062009
signal transducer activity	0.286367085584159	bayes_pls_golite062009
di-, tri-valent inorganic cation transmembrane transporter activity	0.226231702119567	bayes_pls_golite062009
protein binding	0.170837278876362	bayes_pls_golite062009
microfilament motor activity	0.10236059675512	bayes_pls_golite062009
signal sequence binding	6.53725193420218E-4	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [375-573]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPNADLLSER RLAKFAAKVS QQLESSDLDM YRALLAKLQP EEEFDIETLA AALLKMAQGE  60
   61 RPLILPPEAP RRPQREFNSR DDRGNDRGSR DRGDSRRDNR SDSRSADSRD GGERPARRER 120
  121 RDVGEMELYR IEVGRDDGVE VRHIVGAIAN EGDISSRYIG NIKLFASHST IELPKGMPGE 180
  181 MLSHFTRTRI LNKPLNMQL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.30103
Match:	1m6nA
Description:	Pre-protein croslinking domain of SecA; Helical scaffold and wing domains of SecA; Translocation ATPase SecA, nucleotide-binding domains
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [574-664]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LGDAQPHERR ERPAGGNGGE RRGGGRPFSG ERREGAGAPP RRSFSGDRAP TGGGERRGNR  60
   61 DGQRSAAPRR DDAAAPAAAA AAPARRRFGD A

[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.

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: