YRC Public Data Repository - Protein Structure Prediction

Protein:	REV1
Organism:	Saccharomyces cerevisiae
Length:	985 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 REV1.

Description	E-value	Query Range	Subject Range
REV1_YEAST - DNA repair protein REV1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=REV1 PE=1 SV=2 REV1 - Deoxycytidyl transferase, forms a complex with the subunits of DNA polymerase zeta, Rev3p and Rev7p;...	0.0	[1..985]	[1..985]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	0.0	[109..865]	[9..782]
Rev1-PA - The gene Rev1 is referred to in FlyBase by the symbol Dmel\Rev1 (CG12189, FBgn0035150). It is a prot...	0.0	[132..836]	[5..797]
REV1_MOUSE - DNA repair protein REV1 OS=Mus musculus GN=Rev1 PE=1 SV=1	0.0	[227..844]	[249..969]
gi\|119622268, gi... - gi\|84043967\|ref\|NP_001032961.1\| REV1-like isoform 2 [Homo sapiens], gi\|12483635\|dbj\|BAB21441.1\| Rev1...	0.0	[242..844]	[266..968]
gi\|24051469, gi\|... - gi\|24112571\|ref\|NP_707081.1\| DNA polymerase V subunit UmuC [Shigella flexneri 2a str. 301], gi\|24051... gi\|30040949, gi\|... - gi\|30062701\|ref\|NP_836872.1\| DNA polymerase V subunit UmuC [Shigella flexneri 2a str. 2457T], gi\|300... gi\|110805183, gi... - gi\|110805183\|ref\|YP_688703.1\| DNA polymerase V subunit UmuC [Shigella flexneri 5 str. 8401], gi\|1106...	0.0	[358..800]	[2..420]
gi\|254592061, gi... - gi\|254792661\|ref\|YP_003077498.1\| DNA polymerase V, subunit C [Escherichia coli O157:H7 str. TW14359]... gi\|208732550, gi... - gi\|208815902\|ref\|ZP_03257081.1\| protein UmuC [Escherichia coli O157:H7 str. EC4045], gi\|208732550\|gb... gi\|208728509, gi... - gi\|208808708\|ref\|ZP_03251045.1\| protein UmuC [Escherichia coli O157:H7 str. EC4206], gi\|208728509\|gb... gi\|195938839 - gi\|195938839\|ref\|ZP_03084221.1\| DNA polymerase V subunit UmuC [Escherichia coli O157:H7 str. EC4024] gi\|189372493, gi... - gi\|189372493\|gb\|EDU90909.1\| protein UmuC [Escherichia coli O157:H7 str. EC869], gi\|168787685\|ref\|ZP_... gi\|15830933, gi\|... - gi\|15830933\|ref\|NP_309706.1\| DNA polymerase V subunit UmuC [Escherichia coli O157:H7 str. Sakai], gi... gi\|217318447, gi... - gi\|217328020\|ref\|ZP_03444102.1\| protein UmuC [Escherichia coli O157:H7 str. TW14588], gi\|217318447\|g... gi\|209400560, gi... - gi\|209400560\|ref\|YP_002270124.1\| protein UmuC [Escherichia coli O157:H7 str. EC4115], gi\|209161960\|g... gi\|208737807, gi... - gi\|208822322\|ref\|ZP_03262641.1\| protein UmuC [Escherichia coli O157:H7 str. EC4042], gi\|208737807\|gb... gi\|168752765, gi... - gi\|188013532\|gb\|EDU51654.1\| protein UmuC [Escherichia coli O157:H7 str. EC4113], gi\|168752765\|ref\|ZP... gi\|209772706, gi... - pir\|\|G90838 UmuC protein [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509952), gi\|... gi\|188999983, gi... - gi\|188999983\|gb\|EDU68969.1\| protein UmuC [Escherichia coli O157:H7 str. EC4076], gi\|168782542\|ref\|ZP... gi\|168771075, gi... - gi\|189360080\|gb\|EDU78499.1\| protein UmuC [Escherichia coli O157:H7 str. EC4486], gi\|168771075\|ref\|ZP... gi\|15830933, gi\|... - gi\|15830933\|ref\|NP_309706.1\| DNA polymerase IV [Escherichia coli O157:H7], gi\|13361143\|dbj\|BAB35102.... gi\|189364859, gi... - gi\|189364859\|gb\|EDU83275.1\| protein UmuC [Escherichia coli O157:H7 str. EC4501], gi\|168765429\|ref\|ZP... gi\|168756549, gi... - gi\|189356339\|gb\|EDU74758.1\| protein UmuC [Escherichia coli O157:H7 str. EC4401], gi\|168756549\|ref\|ZP...	0.0	[358..800]	[2..420]

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Predicted Domain #1

Region A:
Residues: [1-103]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGEHGGLVDL LDSDLEYSIN RETPDKNNCL SQQSVNDSHL TAKTGGLNAR SFLSTLSDDS  60
   61 LIEYVNQLSQ TNKNNSNPTA GTLRFTTKNI SCDELHADLG GGE

[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	0.422	c.1.8	(Trans)glycosidases
View	Download	0.342	a.45.1	Glutathione S-transferase (GST), C-terminal domain
View	Download	0.382	a.100.1	6-phosphogluconate dehydrogenase C-terminal domain-like
View	Download	0.332	d.58.44	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View	Download	0.559	d.58.19	Bacterial exopeptidase dimerisation domain
View	Download	0.328	d.58.11	EF-G/eEF-2 domains III and V
View	Download	0.320	d.146.1	Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain
View	Download	0.311	d.58.33	Formylmethanofuran:tetrahydromethanopterin formyltransferase
View	Download	0.250	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.245	a.118.13	Arp2/3 complex 16 kDa subunit ARPC5
View	Download	0.236	a.68.1	Wiscott-Aldrich syndrome protein, WASP, C-terminal domain
View	Download	0.235	a.134.1	Fungal elicitin
View	Download	0.235	a.74.1	Cyclin-like
View	Download	0.232	c.47.1	Thioredoxin-like
View	Download	0.228	d.58.43	Mechanosensitive channel protein MscS (YggB), C-terminal domain
View	Download	0.212	a.142.1	PTS-regulatory domain, PRD
View	Download	0.212	d.58.8	Viral DNA-binding domain
View	Download	0.201	d.58.4	Dimeric alpha+beta barrel

Predicted Domain #2

Region A:
Residues: [104-251]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DSPIARSVIE IQESDSNGDD VKKNTVYTRE AYFHEKAHGQ TLQDQILKDQ YKDQISSQSS  60
   61 KIFKNCVIYI NGYTKPGRLQ LHEMIVLHGG KFLHYLSSKK TVTHIVASNL PLKKRIEFAN 120
  121 YKVVSPDWIV DSVKEARLLP WQNYSLTS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	3.522879
Match:	1n5oX_
Description:	Breast cancer associated protein, BRCA1
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [252-342]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KLDEQQKKLD NCKTVNSIPL PSETSLHKGS KCVGSALLPV EQQSPVNLNN LEAKRIVACD  60
   61 DPDFLTSYFA HSRLHHLSAW KANLKDKFLN E

[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	0.280	a.74.1	Cyclin-like
View	Download	0.217	a.81.1	N-terminal domain of DnaB helicase
View	Download	0.246	a.22.1	Histone-fold
View	Download	0.287	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.318	a.7.6	Ribosomal protein S20
View	Download	0.210	d.192.1	YlxR-like

Predicted Domain #4

Region A:
Residues: [343-365]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NIHKYTKITD KDTYIIFHID FDC

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [439-537]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EQFQLKSEAF YSTLKRLNIF NLILPISIDE AVCVRIIPDN IHNTNTLNAR LCEEIRQEIF  60
   61 QGTNGCTVSI GCSDSLVLAR LALKMAKPNG YNITFKSNL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	197.0103
Match:	1jxlA_
Description:	DinB homolog (DBH)
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [366-438]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FFATVAYLCR SSSFSACDFK RDPIVVCHGT KNSDIASCNY VARSYGIKNG MWVSQAEKML  60
   61 PNGIKLISLP YTF

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [538-619]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SEEFWSSFKL DDLPGVGHST LSRLESTFDS PHSLNDLRKR YTLDALKASV GSKLGMKIHL  60
   61 ALQGQDDEES LKILYDPKEV LQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	197.0103
Match:	1jxlA_
Description:	DinB homolog (DBH)
Matching Structure (courtesy of the PDB):

Predicted Domain #6

Region A:
Residues: [620-807]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RKSLSIDINW GIRFKNITQV DLFIERGCQY LLEKLNEINK TTSQITLKLM RRCKDAPIEP  60
   61 PKYMGMGRCD SFSRSSRLGI PTNEFGIIAT EMKSLYRTLG CPPMELRGLA LQFNKLVDVG 120
  121 PDNNQLKLRL PFKTIVTNRA FEALPEDVKN DINNEFEKRN YKRKESGLTS NSLSSKKKGF 180
  181 AISRLEVN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	197.0103
Match:	1jxlA_
Description:	DinB homolog (DBH)
Matching Structure (courtesy of the PDB):

Predicted Domain #7

Region A:
Residues: [808-985]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DLPSTMEEQF MNELPTQIRA EVRHDLRIQK KIQQTKLGNL QEKIKRREES LQNEKNHFMG  60
   61 QNSIFQPIKF QNLTRFKKIC QLVKQWVAET LGDGGPHEKD VKLFVKYLIK LCDSNRVHLV 120
  121 LHLSNLISRE LNLCAFLNQD HSGFQTWERI LLNDIIPLLN RNKHTYQTVR KLDMDFEV

[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.

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