Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionO14683
DateSat Jun 16 10:44:10 BST 2012
Unique Job ID6f5dda828a11eb40

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2hjnA_
Top template information
PDB header:cell cycle
Chain: A: PDB Molecule:maintenance of ploidy protein mob1;
PDBTitle: structural and functional analysis of saccharomyces2 cerevisiae mob1
Confidence and coverage
Confidence: 44.8% Coverage: 30%
56 residues ( 30% of your sequence) have been modelled with 44.8% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
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3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MAAKQPPPLMKKHSQTDLVSRLKTRKILGVGGEDDDGEVHRSKISQVLGNEIKFTIREPL
Secondary structure 
SS confidence 
Disorder  ???????
??
?
?
??????
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  GLRVWQFVSAVLFSGIAIMALAFPDQLYDAVFDGAQVTSKTPIRLYGGALLSISLIMWNA
Secondary structure 
SS confidence 
Disorder 
?????
??
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  LYTAEKVIIRWTLLTEACYFGVQFLVVTATLAETGLMSLGILLLLVSRLLFVVISIYYYY
Secondary structure 
SS confidence 
Disorder 
??
???????
?
Disorder confidence 
 
   .........
Sequence  QVGRRPKKA
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 

Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 2hjn chain A

3D model

Region: 41 - 98
Aligned: 56
Modelled: 58
Confidence: 44.8%
Identity: 9%
PDB header:cell cycle
Chain: A: PDB Molecule:maintenance of ploidy protein mob1;
PDBTitle: structural and functional analysis of saccharomyces2 cerevisiae mob1

Phyre2

PDB 3nr5 chain A

3D model

Region: 72 - 99
Aligned: 24
Modelled: 28
Confidence: 25.9%
Identity: 46%
PDB header:transcription
Chain: A: PDB Molecule:repressor of rna polymerase iii transcription maf1 homolog;
PDBTitle: crystal structure of human maf1

Phyre2

PDB 3qoq chain C

3D model

Region: 51 - 63
Aligned: 13
Modelled: 11
Confidence: 20.9%
Identity: 46%
PDB header:transcription/dna
Chain: C: PDB Molecule:alginate and motility regulator z;
PDBTitle: crystal structure of the transcription factor amrz in complex with the2 18 base pair amrz1 binding site

Phyre2

PDB 1ixr chain C domain 1

3D model

Region: 35 - 61
Aligned: 27
Modelled: 27
Confidence: 15.2%
Identity: 33%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Helicase DNA-binding domain

Phyre2

PDB 1u9p chain A

3D model

Region: 49 - 63
Aligned: 15
Modelled: 15
Confidence: 15.0%
Identity: 27%
PDB header:unknown function
Chain: A: PDB Molecule:parc;
PDBTitle: permuted single-chain arc

Phyre2

PDB 1in4 chain A domain 1

3D model

Region: 35 - 61
Aligned: 27
Modelled: 27
Confidence: 14.2%
Identity: 30%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Helicase DNA-binding domain

Phyre2

PDB 1t0f chain C

3D model

Region: 83 - 107
Aligned: 25
Modelled: 25
Confidence: 14.1%
Identity: 24%
PDB header:dna binding protein
Chain: C: PDB Molecule:transposon tn7 transposition protein tnsc;
PDBTitle: crystal structure of the tnsa/tnsc(504-555) complex

Phyre2

PDB 1mnt chain A

3D model

Region: 51 - 63
Aligned: 13
Modelled: 13
Confidence: 13.3%
Identity: 31%
Fold: Ribbon-helix-helix
Superfamily: Ribbon-helix-helix
Family: Arc/Mnt-like phage repressors

Phyre2

PDB 2v6x chain B

3D model

Region: 16 - 26
Aligned: 11
Modelled: 11
Confidence: 13.0%
Identity: 55%
PDB header:protein transport
Chain: B: PDB Molecule:doa4-independent degradation protein 4;
PDBTitle: stractural insight into the interaction between escrt-iii2 and vps4

Phyre2

PDB 1kyq chain C

3D model

Region: 21 - 59
Aligned: 35
Modelled: 39
Confidence: 12.8%
Identity: 34%
PDB header:oxidoreductase, lyase
Chain: C: PDB Molecule:siroheme biosynthesis protein met8;
PDBTitle: met8p: a bifunctional nad-dependent dehydrogenase and2 ferrochelatase involved in siroheme synthesis.

Phyre2

PDB 1rk8 chain B

3D model

Region: 59 - 78
Aligned: 20
Modelled: 20
Confidence: 12.5%
Identity: 40%
Fold: Mago nashi protein
Superfamily: Mago nashi protein
Family: Mago nashi protein

Phyre2

PDB 3di3 chain A

3D model

Region: 7 - 46
Aligned: 39
Modelled: 40
Confidence: 11.7%
Identity: 26%
PDB header:cytokine/cytokine receptor
Chain: A: PDB Molecule:interleukin-7;
PDBTitle: crystal structure of the complex of human interleukin-7 with2 glycosylated human interleukin-7 receptor alpha ectodomain

Phyre2

PDB 1yew chain F

3D model

Region: 106 - 118
Aligned: 13
Modelled: 13
Confidence: 11.1%
Identity: 15%
PDB header:oxidoreductase, membrane protein
Chain: F: PDB Molecule:particulate methane monooxygenase, a subunit;
PDBTitle: crystal structure of particulate methane monooxygenase

Phyre2

PDB 3izc chain S

3D model

Region: 16 - 54
Aligned: 38
Modelled: 39
Confidence: 11.1%
Identity: 26%
PDB header:ribosome
Chain: S: PDB Molecule:60s ribosomal protein rpl20 (l18ae);
PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome

Phyre2

PDB 1ixs chain B domain 1

3D model

Region: 25 - 61
Aligned: 37
Modelled: 37
Confidence: 9.9%
Identity: 32%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: Helicase DNA-binding domain

Phyre2

PDB 1kqf chain C

3D model

Region: 50 - 117
Aligned: 68
Modelled: 68
Confidence: 9.7%
Identity: 16%
Fold: Heme-binding four-helical bundle
Superfamily: Transmembrane di-heme cytochromes
Family: Formate dehydrogenase N, cytochrome (gamma) subunit

Phyre2

PDB 3o27 chain B

3D model

Region: 47 - 60
Aligned: 14
Modelled: 14
Confidence: 9.5%
Identity: 29%
PDB header:dna binding protein
Chain: B: PDB Molecule:putative uncharacterized protein;
PDBTitle: the crystal structure of c68 from the hybrid virus-plasmid pssvx

Phyre2

PDB 3chx chain F

3D model

Region: 106 - 118
Aligned: 13
Modelled: 13
Confidence: 9.4%
Identity: 15%
PDB header:membrane protein
Chain: F: PDB Molecule:pmoa;
PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo)

Phyre2

PDB 3izc chain I

3D model

Region: 92 - 115
Aligned: 24
Modelled: 24
Confidence: 9.3%
Identity: 29%
PDB header:ribosome
Chain: I: PDB Molecule:60s ribosomal protein rpl10 (l10e);
PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome

Phyre2

PDB 3twe chain A

3D model

Region: 17 - 28
Aligned: 12
Modelled: 12
Confidence: 8.8%
Identity: 67%
PDB header:unknown function
Chain: A: PDB Molecule:alpha4h;
PDBTitle: crystal structure of the de novo designed peptide alpha4h

Phyre2
1
c2hjnA_
2
c3nr5A_
3
c3qoqC_
4
d1ixrc1
5
c1u9pA_
6
d1in4a1
7
c1t0fC_
8
d1mnta_
9
c2v6xB_
10
c1kyqC_
11
d1rk8b_
12
c3di3A_
13
c1yewF_
14
c3izcS_
15
d1ixsb1
16
d1kqfc_
17
c3o27B_
18
c3chxF_
19
c3izci_
20
c3tweA_
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2hjnA_
44.8 9 PDB header:cell cycle
Chain: A: PDB Molecule:maintenance of ploidy protein mob1;
PDBTitle: structural and functional analysis of saccharomyces2 cerevisiae mob1
2c3nr5A_
25.9 46 PDB header:transcription
Chain: A: PDB Molecule:repressor of rna polymerase iii transcription maf1 homolog;
PDBTitle: crystal structure of human maf1
3c3qoqC_
20.9 46 PDB header:transcription/dna
Chain: C: PDB Molecule:alginate and motility regulator z;
PDBTitle: crystal structure of the transcription factor amrz in complex with the2 18 base pair amrz1 binding site
4d1ixrc1
15.2 33 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Helicase DNA-binding domain
5c1u9pA_
15.0 27 PDB header:unknown function
Chain: A: PDB Molecule:parc;
PDBTitle: permuted single-chain arc
6d1in4a1
14.2 30 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Helicase DNA-binding domain
7c1t0fC_
14.1 24 PDB header:dna binding protein
Chain: C: PDB Molecule:transposon tn7 transposition protein tnsc;
PDBTitle: crystal structure of the tnsa/tnsc(504-555) complex
8d1mnta_
13.3 31 Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
9c2v6xB_
13.0 55 PDB header:protein transport
Chain: B: PDB Molecule:doa4-independent degradation protein 4;
PDBTitle: stractural insight into the interaction between escrt-iii2 and vps4
10c1kyqC_
12.8 34 PDB header:oxidoreductase, lyase
Chain: C: PDB Molecule:siroheme biosynthesis protein met8;
PDBTitle: met8p: a bifunctional nad-dependent dehydrogenase and2 ferrochelatase involved in siroheme synthesis.
11d1rk8b_
12.5 40 Fold:Mago nashi protein
Superfamily:Mago nashi protein
Family:Mago nashi protein
12c3di3A_
11.7 26 PDB header:cytokine/cytokine receptor
Chain: A: PDB Molecule:interleukin-7;
PDBTitle: crystal structure of the complex of human interleukin-7 with2 glycosylated human interleukin-7 receptor alpha ectodomain
13c1yewF_
11.1 15 PDB header:oxidoreductase, membrane protein
Chain: F: PDB Molecule:particulate methane monooxygenase, a subunit;
PDBTitle: crystal structure of particulate methane monooxygenase
14c3izcS_
11.1 26 PDB header:ribosome
Chain: S: PDB Molecule:60s ribosomal protein rpl20 (l18ae);
PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
15d1ixsb1
9.9 32 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Helicase DNA-binding domain
16d1kqfc_
9.7 16 Fold:Heme-binding four-helical bundle
Superfamily:Transmembrane di-heme cytochromes
Family:Formate dehydrogenase N, cytochrome (gamma) subunit
17c3o27B_
9.5 29 PDB header:dna binding protein
Chain: B: PDB Molecule:putative uncharacterized protein;
PDBTitle: the crystal structure of c68 from the hybrid virus-plasmid pssvx
18c3chxF_
9.4 15 PDB header:membrane protein
Chain: F: PDB Molecule:pmoa;
PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo)
19c3izci_
9.3 29 PDB header:ribosome
Chain: I: PDB Molecule:60s ribosomal protein rpl10 (l10e);
PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome
20c3tweA_
8.8 67 PDB header:unknown function
Chain: A: PDB Molecule:alpha4h;
PDBTitle: crystal structure of the de novo designed peptide alpha4h
21c3tweB_
not modelled 8.6 67 PDB header:unknown function
Chain: B: PDB Molecule:alpha4h;
PDBTitle: crystal structure of the de novo designed peptide alpha4h
22c2islB_
not modelled 8.1 32 PDB header:flavoprotein
Chain: B: PDB Molecule:blub;
PDBTitle: blub bound to reduced flavin (fmnh2) and molecular oxygen.2 (clear crystal form)
23c4a19X_
not modelled 8.1 15 PDB header:ribosome
Chain: X: PDB Molecule:rpl18a;
PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2.
24c2bbdA_
not modelled 7.9 40 PDB header:viral protein
Chain: A: PDB Molecule:coat protein;
PDBTitle: crystal structure of the stiv mcp
25d1czan4
not modelled 7.9 30 Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Hexokinase
26c3iz5i_
not modelled 7.7 30 PDB header:ribosome
Chain: I: PDB Molecule:60s ribosomal protein l10 (l10e);
PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome
27d2j0sc1
not modelled 7.6 45 Fold:Mago nashi protein
Superfamily:Mago nashi protein
Family:Mago nashi protein
28c3lw6A_
not modelled 7.3 63 PDB header:transferase
Chain: A: PDB Molecule:beta-4-galactosyltransferase 7;
PDBTitle: crystal structure of drosophila beta1,4-galactosyltransferase-7
29c3ge5A_
not modelled 7.0 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative nad(p)h:fmn oxidoreductase;
PDBTitle: crystal structure of a putative nad(p)h:fmn oxidoreductase (pg0310)2 from porphyromonas gingivalis w83 at 1.70 a resolution
30c1nybA_
not modelled 6.9 36 PDB header:transcription/rna
Chain: A: PDB Molecule:probable regulatory protein n;
PDBTitle: solution structure of the bacteriophage phi21 n peptide-boxb2 rna complex
31d1kyqa1
not modelled 6.6 34 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Siroheme synthase N-terminal domain-like
32d2gaxa1
not modelled 6.6 25 Fold:Peptidyl-tRNA hydrolase II
Superfamily:Peptidyl-tRNA hydrolase II
Family:Peptidyl-tRNA hydrolase II
33c1ho7A_
not modelled 6.3 47 PDB header:membrane protein
Chain: A: PDB Molecule:voltage-gated potassium channel protein;
PDBTitle: nmr structure of the potassium channel fragment l45 in tfe
34c1ho2A_
not modelled 6.3 47 PDB header:membrane protein
Chain: A: PDB Molecule:voltage-gated potassium channel protein;
PDBTitle: nmr structure of the potassium channel fragment l45 in2 micelles
35d2frea1
not modelled 6.1 21 Fold:FMN-dependent nitroreductase-like
Superfamily:FMN-dependent nitroreductase-like
Family:NADH oxidase/flavin reductase
36d1b9ha_
not modelled 5.8 16 Fold:PLP-dependent transferase-like
Superfamily:PLP-dependent transferases
Family:GABA-aminotransferase-like
37c3jtgA_
not modelled 5.7 33 PDB header:transcription
Chain: A: PDB Molecule:ets-related transcription factor elf-3;
PDBTitle: crystal structure of mouse elf3 c-terminal dna-binding domain in2 complex with type ii tgf-beta receptor promoter dna
38c3bemA_
not modelled 5.7 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative nad(p)h nitroreductase ydfn;
PDBTitle: crystal structure of putative nitroreductase ydfn (2632848) from2 bacillus subtilis at 1.65 a resolution
39d3cx5d2
not modelled 5.5 50 Fold:Single transmembrane helix
Superfamily:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor
Family:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor
40d1oe4a_
not modelled 5.5 26 Fold:Uracil-DNA glycosylase-like
Superfamily:Uracil-DNA glycosylase-like
Family:Single-strand selective monofunctional uracil-DNA glycosylase SMUG1
41d1pv0a_
not modelled 5.4 27 Fold:Long alpha-hairpin
Superfamily:Sporulation inhibitor Sda
Family:Sporulation inhibitor Sda
42d1ppjd2
not modelled 5.4 63 Fold:Single transmembrane helix
Superfamily:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor
Family:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor
43c4a19L_
not modelled 5.4 29 PDB header:ribosome
Chain: L: PDB Molecule:rpl34;
PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2.
44c1ckkB_
not modelled 5.4 25 PDB header:calmodulin-peptide complex
Chain: B: PDB Molecule:protein (rat ca2+/calmodulin dependent protein
PDBTitle: calmodulin/rat ca2+/calmodulin dependent protein kinase2 fragment
45c2zkrq_
not modelled 5.3 20 PDB header:ribosomal protein/rna
Chain: Q: PDB Molecule:rna expansion segment es31 part ii;
PDBTitle: structure of a mammalian ribosomal 60s subunit within an 80s complex2 obtained by docking homology models of the rna and proteins into an3 8.7 a cryo-em map
46c1q2iA_
not modelled 5.2 40 PDB header:antitumor protein
Chain: A: PDB Molecule:pnc27;
PDBTitle: nmr solution structure of a peptide from the mdm-2 binding2 domain of the p53 protein that is selectively cytotoxic to3 cancer cells
47d1dp7p_
not modelled 5.1 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:P4 origin-binding domain-like

Binding site prediction 

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If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite