Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2548A_(RVBD2548A)_2869263_2869637
DateWed Aug 7 12:50:18 BST 2019
Unique Job IDddeda1214f98a036
SequenceVLPENLEQRV ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:18.625 Y:23.283 Z:39.547
Model (left) based on template c1coiA_
Top template information
PDB header:alpha-helical bundle
Chain: A: PDB Molecule:coil-vald;
PDBTitle: designed trimeric coiled coil-vald
Confidence and coverage
Confidence: 78.6% Coverage: 20%
25 residues ( 20% of your sequence) have been modelled with 78.6% 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.
Please note: You must be registered and logged in to use Phyrealarm.
3D viewing
Interactive 3D view in JSmol
For other options to view your downloaded structure offline see the FAQ

Sequence analysis 

Download FASTA version

Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1coiA_
78.6 52
PDB header:alpha-helical bundle
Chain: A: PDB Molecule:coil-vald;
PDBTitle: designed trimeric coiled coil-vald
2c3cvfA_
61.0 25
PDB header:signaling protein
Chain: A: PDB Molecule:homer protein homolog 3;
PDBTitle: crystal structure of the carboxy terminus of homer3
3c6h9mA_
50.6 26
PDB header:membrane protein
Chain: A: PDB Molecule:coiled-coil domain-containing protein 90b, mitochondrial,
PDBTitle: coiled-coil domain-containing protein 90b residues 43-125 from homo2 sapiens fused to a gcn4 adaptor
4c5xauC_
43.2 17
PDB header:cell adhesion
Chain: C: PDB Molecule:laminin subunit gamma-1;
PDBTitle: crystal structure of integrin binding fragment of laminin-511
5c6dmpA_
37.3 44
PDB header:de novo protein
Chain: A: PDB Molecule:designed orthogonal protein dhd13_xaaa_a;
PDBTitle: de novo design of a protein heterodimer with specificity mediated by2 hydrogen bond networks
6c5uxtB_
35.9 48
PDB header:de novo protein
Chain: B: PDB Molecule:coiled-coil trimer with glu:trp:lys triad;
PDBTitle: coiled-coil trimer with glu:trp:lys triad
7c4widA_
34.6 23
PDB header:viral protein
Chain: A: PDB Molecule:rhul123;
PDBTitle: crystal structure of the immediate-early 1 protein (ie1) at 2.312 angstrom (tetragonal form after crystal dehydration)
8c5uxtC_
34.6 48
PDB header:de novo protein
Chain: C: PDB Molecule:coiled-coil trimer with glu:trp:lys triad;
PDBTitle: coiled-coil trimer with glu:trp:lys triad
9c5uxtA_
33.9 48
PDB header:de novo protein
Chain: A: PDB Molecule:coiled-coil trimer with glu:trp:lys triad;
PDBTitle: coiled-coil trimer with glu:trp:lys triad
10c3sjrB_
29.0 16
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of conserved unkown function protein cv_1783 from2 chromobacterium violaceum atcc 12472
11c2pnvA_
25.7 30
PDB header:membrane protein
Chain: A: PDB Molecule:small conductance calcium-activated potassium
PDBTitle: crystal structure of the leucine zipper domain of small-2 conductance ca2+-activated k+ (skca) channel from rattus3 norvegicus
12c4zmhA_
23.2 40
PDB header:hydrolase
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a five-domain gh115 alpha-glucuronidase from the2 marine bacterium saccharophagus degradans 2-40t
13c1cosC_
20.7 40
PDB header:alpha-helical bundle
Chain: C: PDB Molecule:coiled serine;
PDBTitle: crystal structure of a synthetic triple-stranded alpha-helical bundle
14c1cosB_
20.7 40
PDB header:alpha-helical bundle
Chain: B: PDB Molecule:coiled serine;
PDBTitle: crystal structure of a synthetic triple-stranded alpha-helical bundle
15c1cosA_
20.7 40
PDB header:alpha-helical bundle
Chain: A: PDB Molecule:coiled serine;
PDBTitle: crystal structure of a synthetic triple-stranded alpha-helical bundle
16c3swyB_
20.1 58
PDB header:transport protein
Chain: B: PDB Molecule:cyclic nucleotide-gated cation channel alpha-3;
PDBTitle: cnga3 626-672 containing clz domain
17c2a93B_
19.6 41
PDB header:leucine zippers
Chain: B: PDB Molecule:c-myc-max heterodimeric leucine zipper;
PDBTitle: nmr solution structure of the c-myc-max heterodimeric2 leucine zipper, 40 structures
18c5k92C_
17.3 40
PDB header:de novo protein
Chain: C: PDB Molecule:apo-(csl16c)3;
PDBTitle: crystal structure of an apo tris-thiolate binding site in a de novo2 three stranded coiled coil peptide
19c5k92B_
17.3 40
PDB header:de novo protein
Chain: B: PDB Molecule:apo-(csl16c)3;
PDBTitle: crystal structure of an apo tris-thiolate binding site in a de novo2 three stranded coiled coil peptide
20c5k92A_
17.3 40
PDB header:de novo protein
Chain: A: PDB Molecule:apo-(csl16c)3;
PDBTitle: crystal structure of an apo tris-thiolate binding site in a de novo2 three stranded coiled coil peptide
21c5by3A_
not modelled 17.2 27
PDB header:sugar binding protein
Chain: A: PDB Molecule:btgh115a;
PDBTitle: a novel family gh115 4-o-methyl-alpha-glucuronidase, btgh115a, with2 specificity for decorated arabinogalactans
22c4u5tB_
not modelled 16.8 35
PDB header:transcription/transcription inhibitor
Chain: B: PDB Molecule:vbp leucine zipper;
PDBTitle: crystal structure of vbp leucine zipper with bound arylstibonic acid
23c4e18B_
not modelled 16.3 30
PDB header:cell adhesion
Chain: B: PDB Molecule:catenin alpha-1;
PDBTitle: alpha-e-catenin is an autoinhibited molecule that co-activates2 vinculin
24c2jgoA_
not modelled 16.2 40
PDB header:de novo protein
Chain: A: PDB Molecule:coil ser l9c;
PDBTitle: structure of the arsenated de novo designed peptide coil ser l9c
25c2jgoC_
not modelled 16.2 40
PDB header:de novo protein
Chain: C: PDB Molecule:coil ser l9c;
PDBTitle: structure of the arsenated de novo designed peptide coil ser l9c
26c2jgoB_
not modelled 16.2 40
PDB header:de novo protein
Chain: B: PDB Molecule:coil ser l9c;
PDBTitle: structure of the arsenated de novo designed peptide coil ser l9c
27c3ljmA_
not modelled 16.2 40
PDB header:de novo protein
Chain: A: PDB Molecule:coil ser l9c;
PDBTitle: structure of de novo designed apo peptide coil ser l9c
28c3ljmC_
not modelled 16.2 40
PDB header:de novo protein
Chain: C: PDB Molecule:coil ser l9c;
PDBTitle: structure of de novo designed apo peptide coil ser l9c
29c3ljmB_
not modelled 16.2 40
PDB header:de novo protein
Chain: B: PDB Molecule:coil ser l9c;
PDBTitle: structure of de novo designed apo peptide coil ser l9c
30c3iynR_
not modelled 15.4 18
PDB header:virus
Chain: R: PDB Molecule:hexon-associated protein;
PDBTitle: 3.6-angstrom cryoem structure of human adenovirus type 5
31c2wpyA_
not modelled 14.8 35
PDB header:transcription
Chain: A: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4 leucine zipper mutant with one vxxnxxx motif2 coordinating chloride
32c4g1aC_
not modelled 14.3 38
PDB header:metal binding protein
Chain: C: PDB Molecule:aq-c16c19 peptide;
PDBTitle: metal-binding properties of a self-assembled coiled coil: formation of2 a polynuclear cd-thiolated cluster
33c6a9wA_
not modelled 14.2 27
PDB header:replication
Chain: A: PDB Molecule:primase;
PDBTitle: structure of the bifunctional dna primase-polymerase from phage nrs-1
34c2oqqB_
not modelled 14.2 43
PDB header:transcription
Chain: B: PDB Molecule:transcription factor hy5;
PDBTitle: crystal structure of hy5 leucine zipper homodimer from arabidopsis2 thaliana
35c3w8vC_
not modelled 14.1 35
PDB header:transcription
Chain: C: PDB Molecule:gcn4n coiled coil peptide;
PDBTitle: crystal structure analysis of the synthetic gcn4 coiled coil peptide
36c3w8vB_
not modelled 14.1 35
PDB header:transcription
Chain: B: PDB Molecule:gcn4n coiled coil peptide;
PDBTitle: crystal structure analysis of the synthetic gcn4 coiled coil peptide
37c3w8vA_
not modelled 14.1 35
PDB header:transcription
Chain: A: PDB Molecule:gcn4n coiled coil peptide;
PDBTitle: crystal structure analysis of the synthetic gcn4 coiled coil peptide
38c5kb0A_
not modelled 14.1 37
PDB header:de novo protein
Chain: A: PDB Molecule:pb(ii)zn(ii)(grand coil ser-l16cl30h)3+;
PDBTitle: crystal structure of a tris-thiolate pb(ii) complex in a de novo2 three-stranded coiled coil peptide
39c1ztaA_
not modelled 13.5 34
PDB header:dna-binding motif
Chain: A: PDB Molecule:leucine zipper monomer;
PDBTitle: the solution structure of a leucine-zipper motif peptide
40c1ce0B_
not modelled 12.3 25
PDB header:hiv-1 envelope protein
Chain: B: PDB Molecule:protein (leucine zipper model h38-p1);
PDBTitle: trimerization specificity in hiv-1 gp41: analysis with a2 gcn4 leucine zipper model
41c1ij2C_
not modelled 12.3 32
PDB header:transcription
Chain: C: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-pvtl coiled-coil trimer with threonine at the a(16)2 position
42c2hw2A_
not modelled 12.0 28
PDB header:transferase
Chain: A: PDB Molecule:rifampin adp-ribosyl transferase;
PDBTitle: crystal structure of rifampin adp-ribosyl transferase in complex with2 rifampin
43c1rb6C_
not modelled 11.9 32
PDB header:dna binding protein
Chain: C: PDB Molecule:general control protein gcn4;
PDBTitle: antiparallel trimer of gcn4-leucine zipper core mutant as n16a2 tetragonal form
44c3k7zA_
not modelled 11.9 32
PDB header:dna binding protein
Chain: A: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution
45c1rb1B_
not modelled 11.9 32
PDB header:dna binding protein
Chain: B: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution
46c1rb1A_
not modelled 11.9 32
PDB header:dna binding protein
Chain: A: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution
47c1swiA_
not modelled 11.9 32
PDB header:leucine zipper
Chain: A: PDB Molecule:gcn4p1;
PDBTitle: gcn4-leucine zipper core mutant as n16a complexed with benzene
48c3k7zB_
not modelled 11.9 32
PDB header:dna binding protein
Chain: B: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution
49d1vkoa1
not modelled 11.7 21
Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
50c1ij3C_
not modelled 11.7 32
PDB header:transcription
Chain: C: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position
51c1ij3B_
not modelled 11.7 32
PDB header:transcription
Chain: B: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position
52c1ij2B_
not modelled 11.5 32
PDB header:transcription
Chain: B: PDB Molecule:general control protein gcn4;
PDBTitle: gcn4-pvtl coiled-coil trimer with threonine at the a(16)2 position
53c3vgxC_
not modelled 11.4 27
PDB header:membrane protein
Chain: C: PDB Molecule:envelope glycoprotein gp160;
PDBTitle: structure of gp41 t21/cp621-652
54c4cgbE_
not modelled 11.0 33
PDB header:cell cycle
Chain: E: PDB Molecule:echinoderm microtubule-associated protein-like 2;
PDBTitle: crystal structure of the trimerization domain of eml2
55c5cffD_
not modelled 11.0 29
PDB header:transcription/rna binding protein
Chain: D: PDB Molecule:miranda;
PDBTitle: crystal structure of miranda/staufen dsrbd5 complex
56c5ep6C_
not modelled 11.0 20
PDB header:protein binding/transferase
Chain: C: PDB Molecule:5-azacytidine-induced protein 2;
PDBTitle: the crystal structure of nap1 in complex with tbk1
57c1lq7A_
not modelled 10.8 50
PDB header:de novo protein
Chain: A: PDB Molecule:alpha3w;
PDBTitle: de novo designed protein model of radical enzymes
58c5ep6A_
not modelled 10.7 20
PDB header:protein binding/transferase
Chain: A: PDB Molecule:5-azacytidine-induced protein 2;
PDBTitle: the crystal structure of nap1 in complex with tbk1
59c2mi7A_
not modelled 10.7 50
PDB header:de novo protein
Chain: A: PDB Molecule:de novo protein a3y;
PDBTitle: solution nmr structure of alpha3y
60c2lxyA_
not modelled 10.7 50
PDB header:de novo protein
Chain: A: PDB Molecule:2-mercaptophenol-alpha3c;
PDBTitle: nmr structure of 2-mercaptophenol-alpha3c
61c2o7hF_
not modelled 10.4 32
PDB header:transcription
Chain: F: PDB Molecule:general control protein gcn4;
PDBTitle: crystal structure of trimeric coiled coil gcn4 leucine zipper
62c2ql2A_
not modelled 9.8 60
PDB header:transcription/dna
Chain: A: PDB Molecule:transcription factor e2-alpha;
PDBTitle: crystal structure of the basic-helix-loop-helix domains of2 the heterodimer e47/neurod1 bound to dna
63c4cgbA_
not modelled 9.6 33
PDB header:cell cycle
Chain: A: PDB Molecule:echinoderm microtubule-associated protein-like 2;
PDBTitle: crystal structure of the trimerization domain of eml2
64d2p4ka2
not modelled 9.3 33
Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain
Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain
Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain
65c4bl6A_
not modelled 9.2 14
PDB header:protein transport
Chain: A: PDB Molecule:protein bicaudal d;
PDBTitle: bicaudal-d uses a parallel, homodimeric coiled coil with heterotypic2 registry to co-ordinate recruitment of cargos to dynein
66c6gapB_
not modelled 8.8 16
PDB header:viral protein
Chain: B: PDB Molecule:outer capsid protein sigma-1;
PDBTitle: crystal structure of the t3d reovirus sigma1 coiled coil tail and body
67c2x6pC_
not modelled 8.8 36
PDB header:de novo protein
Chain: C: PDB Molecule:coil ser l19c;
PDBTitle: crystal structure of coil ser l19c
68c2x6pA_
not modelled 8.8 36
PDB header:de novo protein
Chain: A: PDB Molecule:coil ser l19c;
PDBTitle: crystal structure of coil ser l19c
69c2x6pB_
not modelled 8.8 36
PDB header:de novo protein
Chain: B: PDB Molecule:coil ser l19c;
PDBTitle: crystal structure of coil ser l19c
70c6gbrA_
not modelled 8.4 31
PDB header:viral protein
Chain: A: PDB Molecule:polymerase cofactor vp35;
PDBTitle: crystal structure of the oligomerization domain of vp35 from reston2 virus, mercury derivative
71c1htmB_
not modelled 8.3 17
PDB header:viral protein
Chain: B: PDB Molecule:hemagglutinin ha2 chain;
PDBTitle: structure of influenza haemagglutinin at the ph of membrane2 fusion
72c3cveC_
not modelled 8.1 21
PDB header:signaling protein
Chain: C: PDB Molecule:homer protein homolog 1;
PDBTitle: crystal structure of the carboxy terminus of homer1
73c6fueC_
not modelled 7.7 64
PDB header:protein transport
Chain: C: PDB Molecule:fapf;
PDBTitle: periplasmic coiled coil domain of the fapf amyloid transporter
74c3mtuD_
not modelled 7.3 18
PDB header:contractile protein
Chain: D: PDB Molecule:tropomyosin alpha-1 chain,microtubule-associated protein
PDBTitle: structure of the tropomyosin overlap complex from chicken smooth2 muscle
75c4iffC_
not modelled 7.1 21
PDB header:cell cycle
Chain: C: PDB Molecule:fusion of phage phi29 gp7 protein and cell division protein
PDBTitle: structural organization of ftsb, a transmembrane protein of the2 bacterial divisome
76c1m7lA_
not modelled 7.0 40
PDB header:sugar binding protein
Chain: A: PDB Molecule:pulmonary surfactant-associated protein d;
PDBTitle: solution structure of the coiled-coil trimerization domain2 from lung surfactant protein d
77c5eofB_
not modelled 6.8 15
PDB header:protein binding/transferase
Chain: B: PDB Molecule:optineurin;
PDBTitle: crystal structure of optn ntd and tbk1 ctd complex
78c1kwwC_
not modelled 6.6 13
PDB header:immune system, sugar binding protein
Chain: C: PDB Molecule:mannose-binding protein a;
PDBTitle: rat mannose protein a complexed with a-me-fuc.
79d1p1ja1
not modelled 6.5 17
Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
80c3h3mB_
not modelled 6.4 7
PDB header:structural genomics
Chain: B: PDB Molecule:flagellar protein flit;
PDBTitle: crystal structure of flagellar protein flit from bordetella2 bronchiseptica
81c2rukA_
not modelled 6.4 50
PDB header:transcription
Chain: A: PDB Molecule:cellular tumor antigen p53;
PDBTitle: solution structure of the complex between p53 transactivation domain 22 and tfiih p62 ph domain
82c1qceB_
not modelled 6.3 47
PDB header:viral protein
Chain: B: PDB Molecule:protein (gp41);
PDBTitle: solution nmr structure of ectodomain of siv gp41,2 restrained regularized mean structure plus 29 simulated3 annealing structures
83d1b06a2
not modelled 6.3 25
Fold:Fe,Mn superoxide dismutase (SOD), C-terminal domain
Superfamily:Fe,Mn superoxide dismutase (SOD), C-terminal domain
Family:Fe,Mn superoxide dismutase (SOD), C-terminal domain
84c6gboG_
not modelled 6.3 34
PDB header:viral protein
Chain: G: PDB Molecule:polymerase cofactor vp35;
PDBTitle: crystal structure of the oligomerization domain of vp35 from ebola2 virus
85c6e6aB_
not modelled 6.0 18
PDB header:protein binding
Chain: B: PDB Molecule:inclusion membrane protein a;
PDBTitle: triclinic crystal form of inca g144a point mutant
86c1iojA_
not modelled 5.9 36
PDB header:apolipoprotein
Chain: A: PDB Molecule:apoc-i;
PDBTitle: human apolipoprotein c-i, nmr, 18 structures
87c3w93C_
not modelled 5.9 58
PDB header:transcription
Chain: C: PDB Molecule:coiled coil peptide;
PDBTitle: crystal structure analysis of the synthetic gcn4 ester coiled coil2 peptide
88c2yfaA_
not modelled 5.8 21
PDB header:receptor
Chain: A: PDB Molecule:methyl-accepting chemotaxis transducer;
PDBTitle: x-ray structure of mcps ligand binding domain in complex with malate
89c3h5fB_
not modelled 5.8 58
PDB header:de novo protein
Chain: B: PDB Molecule:coil ser l16l-pen;
PDBTitle: switching the chirality of the metal environment alters the2 coordination mode in designed peptides.
90c5u9uA_
not modelled 5.8 58
PDB header:de novo protein
Chain: A: PDB Molecule:apo-(coilser l16(dcy))3;
PDBTitle: de novo three-stranded coiled coil peptide containing a tris-thiolate2 site engineered by d-cysteine ligands
91c5u9uC_
not modelled 5.8 58
PDB header:de novo protein
Chain: C: PDB Molecule:apo-(coilser l16(dcy))3;
PDBTitle: de novo three-stranded coiled coil peptide containing a tris-thiolate2 site engineered by d-cysteine ligands
92c5u9tB_
not modelled 5.8 58
PDB header:de novo protein
Chain: B: PDB Molecule:zn(ii)cl(coilser l16(dcy))3 2-;
PDBTitle: the tris-thiolate zn(ii)s3cl binding site engineered by d-cysteine2 ligands in de novo three-stranded coiled coil environment
93c3h5gA_
not modelled 5.8 58
PDB header:de novo protein
Chain: A: PDB Molecule:coil ser l16d-pen;
PDBTitle: switching the chirality of the metal environment alters the2 coordination mode in designed peptides.
94c3h5fA_
not modelled 5.8 58
PDB header:de novo protein
Chain: A: PDB Molecule:coil ser l16l-pen;
PDBTitle: switching the chirality of the metal environment alters the2 coordination mode in designed peptides.
95c3h5fC_
not modelled 5.8 58
PDB header:de novo protein
Chain: C: PDB Molecule:coil ser l16l-pen;
PDBTitle: switching the chirality of the metal environment alters the2 coordination mode in designed peptides.
96c3h5gC_
not modelled 5.8 58
PDB header:de novo protein
Chain: C: PDB Molecule:coil ser l16d-pen;
PDBTitle: switching the chirality of the metal environment alters the2 coordination mode in designed peptides.
97c5u9uB_
not modelled 5.8 58
PDB header:de novo protein
Chain: B: PDB Molecule:apo-(coilser l16(dcy))3;
PDBTitle: de novo three-stranded coiled coil peptide containing a tris-thiolate2 site engineered by d-cysteine ligands
98c3h5gB_
not modelled 5.8 58
PDB header:de novo protein
Chain: B: PDB Molecule:coil ser l16d-pen;
PDBTitle: switching the chirality of the metal environment alters the2 coordination mode in designed peptides.
99c5u9tA_
not modelled 5.8 58
PDB header:de novo protein
Chain: A: PDB Molecule:zn(ii)cl(coilser l16(dcy))3 2-;
PDBTitle: the tris-thiolate zn(ii)s3cl binding site engineered by d-cysteine2 ligands in de novo three-stranded coiled coil environment

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

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