YRC Public Data Repository - Protein Structure Prediction

Protein:	ROM2
Organism:	Saccharomyces cerevisiae
Length:	1356 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 ROM2.

Description	E-value	Query Range	Subject Range
gi\|50303861, gi\|... - gi\|50303861\|ref\|XP_451877.1\| unnamed protein product [Kluyveromyces lactis], gi\|49641009\|emb\|CAH0227... gi\|16611806, gi\|... - gi\|49641009\|emb\|CAH02270.1\| KLLA0B07799p [Kluyveromyces lactis], gi\|16611806\|gb\|AAL27369.1\|AF421953_...	913.0	[0..1]	[1356..1]
gi\|1314785 - gi\|1314785\|gb\|AAA99813.1\| protein kinase C suppressor Skc1p	882.0	[0..188]	[1354..21]
gi\|45199103, gi\|... - gi\|45199103\|ref\|NP_986132.1\| AFR585Wp [Ashbya gossypii ATCC 10895], gi\|44985178\|gb\|AAS53956.1\| AFR58... gi\|44985178 - gi\|44985178\|gb\|AAS53956.1\| AFR585Wp [Ashbya gossypii ATCC 10895]	834.0	[0..240]	[1355..184]
gi\|49525880 - gi\|49525880\|emb\|CAG59499.1\| unnamed protein product [Candida glabrata] gi\|50288287, gi\|... - gi\|50288287\|ref\|XP_446572.1\| unnamed protein product [Candida glabrata], gi\|49525880\|emb\|CAG59499.1\|...	830.0	[0..86]	[1356..55]
RGF1_SCHPO - Rho1 guanine nucleotide exchange factor 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=... rgf1 - RhoGEF for Rho1, Rgf1	755.0	[0..81]	[1345..30]
gi\|169778969 - gi\|169778969\|ref\|XP_001823949.1\| hypothetical protein [Aspergillus oryzae RIB40] gi\|83772688 - gi\|83772688\|dbj\|BAE62816.1\| unnamed protein product [Aspergillus oryzae]	574.0	[0..146]	[1354..34]
gi\|58270880, gi\|... - gi\|58270880\|ref\|XP_572596.1\| Rho guanyl-nucleotide exchange factor [Cryptococcus neoformans var. neo...	562.0	[0..219]	[1329..8]

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Predicted Domain #1

Region A:
Residues: [1-137]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSETNVDSLG DRNDIYSQIF GVERRPDSFA TFDSDSHGDI SSQLLPNRIE NIQNLNVLLS  60
   61 EDIANDIIIA KQRRRSGVEA AIDDSDIPNN EMKGKSSNYI LSQQTNIKEV PDTQSLSSAD 120
  121 NTPVSSPKKA RDATSSH

[Run NCBI BLAST on this sequence.]

Detection Method:	ab initio
Confidence:	12.41
Match:
Description:	No description for 1ldvA was found.

Predicted Domain #2

Region A:
Residues: [138-531]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PIVHAKSMSH IYSTSNSASR QAKHYNDHPL PPMSPRNEVY QKNKSTTAFV PKRKPSLPQL  60
   61 ALAGLKKQSS FSTGSASTTP TQARKSPLQG FGFFSRPSSK DLHEQHQHHQ HIQHNNINNH 120
  121 NNNNTNNNGA HYQVGSSNSN YPQHSHSISS RSMSLNSSTL KNIASSFQSK TSNSRKATQK 180
  181 YDITSNPFSD PHHHHHHHHS SNSHSSLNNV HGSGNSSSVM GSSSNIGLGL KTRVSSTSLA 240
  241 LKRYTSVSGT SLSSPRRSSM TPLSASRPVM SASSKKPQVY PALLSRVATK FKSSIQLGEH 300
  301 KKDGLVYRDA FTGQQAVDVI CAIIRTSDRN LALLFGRSLD AQKLFHDVVY EHRLRDSPHE 360
  361 VYEFTDNSRF TGTGSTNAHD PLMLLPNSSS FNSG

[Run NCBI BLAST on this sequence.]

Detection Method:	ab initio
Confidence:	12.45
Match:
Description:	No description for 1m2vB was found.

Predicted Domain #3

Region A:
Residues: [532-641]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NHSYPNSGMV PSSSTSSLNS DQATLTGSRL HMSSSLSQQK NPAAIHNVNG VFTLLAECYS  60
   61 PTCTRDALCY SISCPRRLEQ QARLNLKPNG GLKRNISMAL DDDDEEKPSW

[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	0.381	a.182.1	GatB/YqeY domain
View	Download	0.378	d.108.1	Acyl-CoA N-acyltransferases (Nat)
View	Download	0.378	a.4.1	Homeodomain-like
View	Download	0.355	a.149.1	RNase III endonuclease catalytic domain
View	Download	0.347	a.11.2	Second domain of FERM
View	Download	0.347	a.11.2	Second domain of FERM
View	Download	0.339	g.10.1	Hairpin loop containing domain-like
View	Download	0.296	c.23.1	CheY-like

Predicted Domain #4

Region A:
Residues: [642-849]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TSSVSKEDWE NLPKKEIKRQ EAIYEVYITE KNFVKSLEIT RDTFMKTLAE TNIISADIRK  60
   61 NFIKHVFAHI NDIYSVNRRF LKALTDRQRS SPVVRGIGDI VLRFIPFFEP FVSYVASRPY 120
  121 AKYLIETQRS VNPYFARFDD DMMSSSLRHG IDSFLSQGVS RPGRYMLLVK EIMKSTDPEK 180
  181 DKSDYEDLSK AMDALRDFMK RIDQASGA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	197.9897
Match:	1ki1B
Description:	GEF of intersectin
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [850-1032]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AQDRHDVKLL KQKILFKNEY VNLGLNDERR KIKHEGILSR KELSKSDGTV VGDIQFYLLD  60
   61 NMLLFLKAKA VNKWHQHKVF QRPIPLPLLF ACPGEDMPAL RKYIGDHPDC SGTVIQPEYN 120
  121 TSNPKNAITF LYYGAKQRYQ VTLYAAQYAG LQTLLEKIKQ GQAAIISKTE MFNVTKMSDR 180
  181 FFD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	197.9897
Match:	1ki1B
Description:	GEF of intersectin
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [1033-1356]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YTNKINSVTS CDGGRKLLIA TNSGLYMSNI KRQQNKDHRH KSSAFFSTPI QLVQRNNITQ  60
   61 IAVLEEFKSI ILLIDKKLYS CPLSLIEAEG NGTSFFKKHH KELINHVSFF AEGDCNGKRL 120
  121 IVTAHSSSHS IKYFEHEHPL LAEKNGSGSG NKKSLKKKIT EVIFDSEPVS ISFLKANLCI 180
  181 GCKKGFQIVS ISQNAHESLL DPADTSLEFA LRDTLKPMAI YRVGNMFLLC YTEFAFFVNN 240
  241 QGWRKKESHI IHWEGEPQKF AIWYPYILAF DSNFIEIRKI ETGELIRCVL ADKIRLLQTS 300
  301 TQEILYCYED YRGYDTVASL DFWG

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	104.552842
Match:	PF00780
Description:	CNH domain

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.

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