YRC Public Data Repository - Protein Structure Prediction

Protein:	SGS1_YEAST
Organism:	Saccharomyces cerevisiae S288c
Length:	1447 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 SGS1_YEAST.

Description	E-value	Query Range	Subject Range
SGS1 - Nucleolar DNA helicase of the RecQ family involved in genome integrity maintenance; regulates chromo... SGS1_YEAST - ATP-dependent helicase SGS1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SGS1 PE=1 SV...	0.0	[1..1447]	[1..1447]
BLM - Bloom syndrome, RecQ helicase-like	0.0	[236..1287]	[174..1290]
BLM_XENLA - Bloom syndrome protein homolog OS=Xenopus laevis GN=blm PE=2 SV=1	0.0	[242..1285]	[160..1240]
gi\|3370996, gi\|3... - gi\|3370996\|dbj\|BAA32001.1\| mBlm [Mus musculus], gi\|31982492\|ref\|NP_031576.2\| Bloom syndrome protein ...	0.0	[241..1305]	[175..1311]
RQL4B_ARATH - ATP-dependent DNA helicase Q-like 4B OS=Arabidopsis thaliana GN=RECQL4B PE=2 SV=1	0.0	[420..1283]	[216..1110]
HUS2_SCHPO - ATP-dependent DNA helicase hus2/rqh1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rqh1 ... rqh1 - RecQ type DNA helicase Rqh1	0.0	[435..1445]	[271..1290]
gi\|9945008 - gi\|9945008\|gb\|AAG03075.1\|AF294728_1 Sgs1p [Candida albicans]	0.0	[211..1435]	[26..1168]
Q66FY3\|Q66FY3_YERPS - ATP-dependent DNA helicase - Yersinia pseudotuberculosis gi\|167048747, gi... - gi\|167401854\|ref\|ZP_02307342.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis biovar Antiqua str.... gi\|89104204, gi\|... - gi\|89104204\|ref\|ZP_01176754.1\| COG0514: Superfamily II DNA helicase [Yersinia pestis biovar Oriental... gi\|166213635, gi... - gi\|166213635\|ref\|ZP_02239670.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis biovar Antiqua str.... gi\|108806187, gi... - gi\|108806187\|ref\|YP_650103.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis Antiqua], gi\|10877810... gi\|167054800, gi... - gi\|167426281\|ref\|ZP_02318034.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis biovar Mediaevalis ... gi\|229682488, gi... - gi\|229900469\|ref\|ZP_04515598.1\| ATP-dependent DNA helicase [Yersinia pestis Nepal516], gi\|229682488\|... gi\|167421077, gi... - gi\|167421077\|ref\|ZP_02312830.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis biovar Orientalis s... gi\|167469646 - gi\|167469646\|ref\|ZP_02334350.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis FV-1] gi\|21957085, gi\|... - gi\|22124312\|ref\|NP_667735.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis KIM], gi\|21957085\|gb\|A... gi\|25290798 - pir\|\|AI0466 ATP-dependent DNA helicase (EC 3.6.1.-) [imported] - Yersinia pestis (strain CO92) gi\|51594557, gi\|... - gi\|51594557\|ref\|YP_068748.1\| ATP-dependent DNA helicase RecQ [Yersinia pseudotuberculosis IP 32953],... gi\|45442967, gi\|... - gi\|45442967\|ref\|NP_994506.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis biovar Microtus str. 9... gi\|16123968, gi\|... - gi\|218930836\|ref\|YP_002348711.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis CO92], gi\|16123968... gi\|162418857, gi... - gi\|162418857\|ref\|YP_001605148.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis Angola], gi\|162351... gi\|229706105, gi... - gi\|229837162\|ref\|ZP_04457327.1\| ATP-dependent DNA helicase [Yersinia pestis Pestoides A], gi\|2297061... gi\|229695888, gi... - gi\|229839522\|ref\|ZP_04459681.1\| ATP-dependent DNA helicase [Yersinia pestis biovar Orientalis str. P... gi\|77630731, gi\|... - gi\|77630731\|ref\|ZP_00793317.1\| COG0514: Superfamily II DNA helicase [Yersinia pseudotuberculosis IP ... gi\|149289417, gi... - gi\|153997111\|ref\|ZP_02022244.1\| ATP-dependent DNA helicase [Yersinia pestis CA88-4125], gi\|149289417... gi\|165989444, gi... - gi\|166011675\|ref\|ZP_02232573.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis biovar Antiqua str.... gi\|229900085, gi... - gi\|229900085\|ref\|ZP_04515222.1\| ATP-dependent DNA helicase [Yersinia pestis biovar Orientalis str. I... gi\|145600700, gi... - gi\|145600700\|ref\|YP_001164776.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis Pestoides F], gi\|1... gi\|165921764, gi... - gi\|165926240\|ref\|ZP_02222072.1\| ATP-dependent DNA helicase RecQ [Yersinia pestis biovar Orientalis s...	0.0	[662..1275]	[7..602]
gi\|11352915 - pir\|\|H81794 ATP-dependent DNA helicase (EC 3.6.1.-) NMA2213 [imported] - Neisseria meningitidis (str... gi\|7380832, gi\|2... - gi\|7380832\|emb\|CAB85424.1\| ATP-dependent DNA helicase [Neisseria meningitidis Z2491], gi\|218768944\|r...	0.0	[662..1356]	[2..702]

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Predicted Domain #1

Region A:
Residues: [1-134]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVTKPSHNLR REHKWLKETA TLQEDKDFVF QAIQKHIANK RPKTNSPPTT PSKDECGPGT  60
   61 TNFITSIPAS GPTNTATKQH EVMQTLSNDT EWLSYTATSN QYADVPMVDI PASTSVVSNP 120
  121 RTPNGSKTHN FNTF

[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	0.331	a.1.1	Globin-like
View	Download	0.214	c.84.1	Phosphoglucomutase, first 3 domains
View	Download	0.203	f.36.1	Neurotransmitter-gated ion-channel pransmembrane pore

Predicted Domain #2

Region A:
Residues: [135-654]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RPHMASSLVE NDSSRNLGSR NNNKSVIDNS SIGKQLENDI KLEVIRLQGS LIMALKEQSK  60
   61 LLLQKCSIIE STSLSEDAKR LQLSRDIRPQ LSNMSIRIDS LEKEIIKAKK DGMSKDQSKG 120
  121 RSQVSSQDDN IISSILPSPL EYNTSSRNSN LTSTTATTVT KALAITGAKQ NITNNTGKNS 180
  181 NNDSNNDDLI QVLDDEDDID CDPPVILKEG APHSPAFPHL HMTSEEQDEL TRRRNMRSRE 240
  241 PVNYRIPDRD DPFDYVMGKS LRDDYPDVER EEDELTMEAE DDAHSSYMTT RDEEKEENEL 300
  301 LNQSDFDFVV NDDLDPTQDT DYHDNMDVSA NIQESSQEGD TRSTITLSQN KNVQVILSSP 360
  361 TAQSVPSNGQ NQIGVEHIDL LEDDLEKDAI LDDSMSFSFG RQHMPMSHSD LELIDSEKEN 420
  421 EDFEEDNNNN GIEYLSDSDL ERFDEERENR TQVADIQELD NDLKIITERK LTGDNEHPPP 480
  481 SWSPKIKREK SSVSQKDEED DFDDDFSLSD IVSKSNLSSK

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [655-867]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TNGPTYPWSD EVLYRLHEVF KLPGFRPNQL EAVNATLQGK DVFVLMPTGG GKSLCYQLPA  60
   61 VVKSGKTHGT TIVISPLISL MQDQVEHLLN KNIKASMFSS RGTAEQRRQT FNLFINGLLD 120
  121 LVYISPEMIS ASEQCKRAIS RLYADGKLAR IVVDEAHCVS NWGHDFRPDY KELKFFKREY 180
  181 PDIPMIALTA TASEQVRMDI IHNLELKEPV FLK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	197.9691
Match:	1hv8A_
Description:	Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [868-1017]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QSFNRTNLYY EVNKKTKNTI FEICDAVKSR FKNQTGIIYC HSKKSCEQTS AQMQRNGIKC  60
   61 AYYHAGMEPD ERLSVQKAWQ ADEIQVICAT VAFGMGIDKP DVRFVYHFTV PRTLEGYYQE 120
  121 TGRAGRDGNY SYCITYFSFR DIRTMQTMIQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	197.9691
Match:	1hv8A_
Description:	Putative DEAD box RNA helicase
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [1018-1156]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KDKNLDRENK EKHLNKLQQV MAYCDNVTDC RRKLVLSYFN EDFDSKLCHK NCDNCRNSAN  60
   61 VINEERDVTE PAKKIVKLVE SIQNERVTII YCQDVFKGSR SSKIVQANHD TLEEHGIGKS 120
  121 MQKSEIERIF FHLITIRVL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	14.69897
Match:	1d2mA_
Description:	Nucleotide excision repair enzyme UvrB
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA-directed RNA polymerase activity	3.24179656806626	bayes_pls_golite062009
RNA polymerase activity	3.24179656806626	bayes_pls_golite062009
nucleotidyltransferase activity	2.86764755795127	bayes_pls_golite062009
transcription regulator activity	2.21457679362657	bayes_pls_golite062009
histone acetyltransferase activity	1.94584323396575	bayes_pls_golite062009
lysine N-acetyltransferase activity	1.94584323396575	bayes_pls_golite062009
binding	1.9212205923594	bayes_pls_golite062009
DNA-dependent ATPase activity	1.68565168715612	bayes_pls_golite062009
DNA helicase activity	1.46069986266132	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.34255479264918	bayes_pls_golite062009
catalytic activity	1.17990683373825	bayes_pls_golite062009
hydrolase activity	1.08890095536803	bayes_pls_golite062009
endonuclease activity	0.876142054476658	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.54480131475963	bayes_pls_golite062009
protein binding	0.497114544861103	bayes_pls_golite062009
ribonuclease activity	0.35631508447468	bayes_pls_golite062009
helicase activity	0.112889920470041	bayes_pls_golite062009

Predicted Domain #6

Region A:
Residues: [1157-1269]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QEYSIMNNSG FASSYVKVGP NAKKLLTGKM EIKMQFTISA PNSRPSTSSS FQANEDNIPV  60
   61 IAQKSTTIGG NVAANPPRFI SAKEHLRSYT YGGSTMGSSH PITLKNTSDL RST

[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	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.442	0.831	meiotic chromosome segregation	b.1.1	Immunoglobulin
View	Download	0.416	0.831	meiotic chromosome segregation	b.55.1	PH domain-like
View	Download	0.357	0.831	meiotic chromosome segregation	a.24.17	Group V grass pollen allergen
View	Download	0.363	0.831	meiotic chromosome segregation	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.344	0.831	meiotic chromosome segregation	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.341	0.831	meiotic chromosome segregation	d.32.1	Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
View	Download	0.338	0.831	meiotic chromosome segregation	d.85.1	RNA bacteriophage capsid protein
View	Download	0.313	0.831	meiotic chromosome segregation	a.118.1	ARM repeat
View	Download	0.311	0.831	meiotic chromosome segregation	a.64.1	Saposin
View	Download	0.295	0.831	meiotic chromosome segregation	a.64.2	Bacteriocin AS-48
View	Download	0.279	0.831	meiotic chromosome segregation	b.61.3	D-aminopeptidase, middle and C-terminal domains
View	Download	0.272	0.831	meiotic chromosome segregation	a.2.1	GreA transcript cleavage protein, N-terminal domain
View	Download	0.266	0.831	meiotic chromosome segregation	d.19.1	MHC antigen-recognition domain
View	Download	0.264	0.831	meiotic chromosome segregation	b.60.1	Lipocalins
View	Download	0.263	0.831	meiotic chromosome segregation	b.1.1	Immunoglobulin
View	Download	0.259	0.831	meiotic chromosome segregation	a.48.3	Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
View	Download	0.255	0.831	meiotic chromosome segregation	a.3.1	Cytochrome c
View	Download	0.233	0.831	meiotic chromosome segregation	a.48.3	Conserved domain common to transcription factors TFIIS, elongin A, CRSP70

Predicted Domain #7

Region A:
Residues: [1270-1373]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 QELNNLRMTY ERLRELSLNL GNRMVPPVGN FMPDSILKKM AAILPMNDSA FATLGTVEDK  60
   61 YRRRFKYFKA TIADLSKKRS SEDHEKYDTI LNDEFVNRAA ASSN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	405.440336
Match:	1d8bA_
Description:	HRDC domain from RecQ helicase
Matching Structure (courtesy of the PDB):

Predicted Domain #8

Region A:
Residues: [1374-1447]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GIAQSTGTKS KFFGANLNEA KENEQIINQI RQSQLPKNTT SSKSGTRSIS KSSKKSANGR  60
   61 RGFRNYRGHY RGRK

[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	0.311	a.64.1	Saposin
View	Download	0.272	a.2.1	GreA transcript cleavage protein, N-terminal domain
View	Download	0.259	a.48.3	Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
View	Download	0.295	a.64.2	Bacteriocin AS-48
View	Download	0.233	a.48.3	Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
View	Download	0.210	c.55.4	Translational machinery components

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: