Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2183c_(-)_2445423_2445818
DateMon Aug 5 13:25:30 BST 2019
Unique Job IDefe1e92cd725b08a
SequenceVSGAHTDVRP ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:31.387 Y:33.311 Z:39.038
Model (left) based on template c4mb7A_
Top template information
PDB header:hydrolase
Chain: A: PDB Molecule:endonuclease 8-like l720;
PDBTitle: crystal structure of a viral dna glycosylase
Confidence and coverage
Confidence: 70.7% Coverage: 33%
43 residues ( 33% of your sequence) have been modelled with 70.7% 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
1c4mb7A_
70.7 26
PDB header:hydrolase
Chain: A: PDB Molecule:endonuclease 8-like l720;
PDBTitle: crystal structure of a viral dna glycosylase
2c3a1hF_
54.9 45
PDB header:structural protein
Chain: F: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure analysis of the collagen-like peptide, (ppg)4-otg-2 (ppg)4
3c3twkB_
52.9 23
PDB header:hydrolase
Chain: B: PDB Molecule:formamidopyrimidine-dna glycosylase 1;
PDBTitle: crystal structure of arabidopsis thaliana fpg
4c3a0aC_
50.6 43
PDB header:structural protein
Chain: C: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-opg-(ppg)4, monoclinic, twinned crystal
5c2opfA_
48.2 29
PDB header:hydrolase/dna
Chain: A: PDB Molecule:endonuclease viii;
PDBTitle: crystal structure of the dna repair enzyme endonuclease-viii (nei)2 from e. coli (r252a) in complex with ap-site containing dna substrate
6c3a1hA_
45.5 41
PDB header:structural protein
Chain: A: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure analysis of the collagen-like peptide, (ppg)4-otg-2 (ppg)4
7d1woua_
44.6 45
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Txnl5-like
8c3a1hE_
44.2 39
PDB header:structural protein
Chain: E: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure analysis of the collagen-like peptide, (ppg)4-otg-2 (ppg)4
9c3a1hD_
44.2 39
PDB header:structural protein
Chain: D: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure analysis of the collagen-like peptide, (ppg)4-otg-2 (ppg)4
10c3a1hC_
44.2 39
PDB header:structural protein
Chain: C: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure analysis of the collagen-like peptide, (ppg)4-otg-2 (ppg)4
11c1x1kD_
43.0 42
PDB header:structural protein
Chain: D: PDB Molecule:host-guest peptide (pro-pro-gly)4-(pro-allohyp-
PDBTitle: host-guest peptide (pro-pro-gly)4-(pro-allohyp-gly)-(pro-2 pro-gly)4
12c1x1kC_
43.0 42
PDB header:structural protein
Chain: C: PDB Molecule:host-guest peptide (pro-pro-gly)4-(pro-allohyp-
PDBTitle: host-guest peptide (pro-pro-gly)4-(pro-allohyp-gly)-(pro-2 pro-gly)4
13c2d3fF_
43.0 42
PDB header:structural protein
Chain: F: PDB Molecule:collagen model peptides (pro-pro-gly)4-pro-hyp-
PDBTitle: crystal structures of collagen model peptides (pro-pro-gly)2 4-pro-hyp-gly-(pro-pro-gly)4
14c1x1kA_
43.0 42
PDB header:structural protein
Chain: A: PDB Molecule:host-guest peptide (pro-pro-gly)4-(pro-allohyp-
PDBTitle: host-guest peptide (pro-pro-gly)4-(pro-allohyp-gly)-(pro-2 pro-gly)4
15c2d3fD_
43.0 42
PDB header:structural protein
Chain: D: PDB Molecule:collagen model peptides (pro-pro-gly)4-pro-hyp-
PDBTitle: crystal structures of collagen model peptides (pro-pro-gly)2 4-pro-hyp-gly-(pro-pro-gly)4
16c2d3fE_
43.0 42
PDB header:structural protein
Chain: E: PDB Molecule:collagen model peptides (pro-pro-gly)4-pro-hyp-
PDBTitle: crystal structures of collagen model peptides (pro-pro-gly)2 4-pro-hyp-gly-(pro-pro-gly)4
17c1x1kB_
43.0 42
PDB header:structural protein
Chain: B: PDB Molecule:host-guest peptide (pro-pro-gly)4-(pro-allohyp-
PDBTitle: host-guest peptide (pro-pro-gly)4-(pro-allohyp-gly)-(pro-2 pro-gly)4
18c3a0aA_
41.6 41
PDB header:structural protein
Chain: A: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-opg-(ppg)4, monoclinic, twinned crystal
19d1wjka_
40.9 56
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Thioltransferase
20c1k82D_
40.9 24
PDB header:hydrolase/dna
Chain: D: PDB Molecule:formamidopyrimidine-dna glycosylase;
PDBTitle: crystal structure of e.coli formamidopyrimidine-dna2 glycosylase (fpg) covalently trapped with dna
21d2hyja2
not modelled 40.9 18
Fold:Tetracyclin repressor-like, C-terminal domain
Superfamily:Tetracyclin repressor-like, C-terminal domain
Family:Tetracyclin repressor-like, C-terminal domain
22d1v9wa_
not modelled 40.7 42
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Txnl5-like
23c3a0aF_
not modelled 39.7 43
PDB header:structural protein
Chain: F: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-opg-(ppg)4, monoclinic, twinned crystal
24c3a1hB_
not modelled 38.2 41
PDB header:structural protein
Chain: B: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure analysis of the collagen-like peptide, (ppg)4-otg-2 (ppg)4
25c3a0aE_
not modelled 37.2 43
PDB header:structural protein
Chain: E: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-opg-(ppg)4, monoclinic, twinned crystal
26c3a0aB_
not modelled 36.8 43
PDB header:structural protein
Chain: B: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-opg-(ppg)4, monoclinic, twinned crystal
27c2vvyC_
not modelled 36.2 42
PDB header:viral protein
Chain: C: PDB Molecule:protein b15;
PDBTitle: structure of vaccinia virus protein b14
28c3abnC_
not modelled 35.7 43
PDB header:structural protein
Chain: C: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-asp-gly-(pro-pro-gly)4 at 1.022 a
29c3admC_
not modelled 35.1 42
PDB header:structural protein
Chain: C: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-ser-gly-(pro-pro-gly)4
30c3a0mC_
not modelled 34.9 42
PDB header:structural protein
Chain: C: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-ovg-(ppg)4, monoclinic, twinned crystal
31c3a0mB_
not modelled 34.6 43
PDB header:structural protein
Chain: B: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-ovg-(ppg)4, monoclinic, twinned crystal
32c3w0fA_
not modelled 33.6 23
PDB header:hydrolase
Chain: A: PDB Molecule:endonuclease 8-like 3;
PDBTitle: crystal structure of mouse endonuclease viii-like 3 (mneil3)
33c2d3fC_
not modelled 32.4 39
PDB header:structural protein
Chain: C: PDB Molecule:collagen model peptides (pro-pro-gly)4-pro-hyp-
PDBTitle: crystal structures of collagen model peptides (pro-pro-gly)2 4-pro-hyp-gly-(pro-pro-gly)4
34c2d3fB_
not modelled 32.4 39
PDB header:structural protein
Chain: B: PDB Molecule:collagen model peptides (pro-pro-gly)4-pro-hyp-
PDBTitle: crystal structures of collagen model peptides (pro-pro-gly)2 4-pro-hyp-gly-(pro-pro-gly)4
35c1x1kE_
not modelled 32.4 39
PDB header:structural protein
Chain: E: PDB Molecule:host-guest peptide (pro-pro-gly)4-(pro-allohyp-
PDBTitle: host-guest peptide (pro-pro-gly)4-(pro-allohyp-gly)-(pro-2 pro-gly)4
36c2d3fA_
not modelled 32.4 39
PDB header:structural protein
Chain: A: PDB Molecule:collagen model peptides (pro-pro-gly)4-pro-hyp-
PDBTitle: crystal structures of collagen model peptides (pro-pro-gly)2 4-pro-hyp-gly-(pro-pro-gly)4
37c3admE_
not modelled 30.9 42
PDB header:structural protein
Chain: E: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-ser-gly-(pro-pro-gly)4
38c3admB_
not modelled 30.9 42
PDB header:structural protein
Chain: B: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-ser-gly-(pro-pro-gly)4
39c3admA_
not modelled 30.9 42
PDB header:structural protein
Chain: A: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-ser-gly-(pro-pro-gly)4
40c3admF_
not modelled 30.9 42
PDB header:structural protein
Chain: F: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-ser-gly-(pro-pro-gly)4
41c2qsiB_
not modelled 27.6 33
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative hydrogenase expression/formation protein hupg;
PDBTitle: crystal structure of putative hydrogenase expression/formation protein2 hupg from rhodopseudomonas palustris cga009
42c3abnA_
not modelled 26.9 42
PDB header:structural protein
Chain: A: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-asp-gly-(pro-pro-gly)4 at 1.022 a
43c4fybA_
not modelled 26.7 29
PDB header:oxidoreductase
Chain: A: PDB Molecule:thiol:disulfide interchange protein (dsbc);
PDBTitle: structural and functional characterizations of a thioredoxin-fold2 protein from helicobacter pylori
44d1z6na1
not modelled 26.6 67
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Thioltransferase
45c2he3A_
not modelled 25.8 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutathione peroxidase 2;
PDBTitle: crystal structure of the selenocysteine to cysteine mutant of human2 glutathionine peroxidase 2 (gpx2)
46c5a4hA_
not modelled 25.4 39
PDB header:transferase
Chain: A: PDB Molecule:1-acylglycerol-3-phosphate o-acyltransferase abhd5;
PDBTitle: solution structure of the lipid droplet anchoring peptide2 of cgi-58 bound to dpc micelles
47c3a0aD_
not modelled 25.3 47
PDB header:structural protein
Chain: D: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-opg-(ppg)4, monoclinic, twinned crystal
48d1knga_
not modelled 25.2 43
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Glutathione peroxidase-like
49c4tr3A_
not modelled 25.1 25
PDB header:oxidoreductase
Chain: A: PDB Molecule:type iii iodothyronine deiodinase;
PDBTitle: mouse iodothyronine deiodinase 3 catalytic core, semet-labeled active2 site mutant secys->cys
50d1z5ye1
not modelled 24.8 50
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Glutathione peroxidase-like
51c3a46B_
not modelled 24.7 19
PDB header:hydrolase
Chain: B: PDB Molecule:formamidopyrimidine-dna glycosylase;
PDBTitle: crystal structure of mvnei1/thf complex
52c1cagA_
not modelled 23.3 32
PDB header:collagen
Chain: A: PDB Molecule:collagen-like peptide;
PDBTitle: crystal and molecular structure of a collagen-like peptide2 at 1.9 angstrom resolution
53c1cagC_
not modelled 23.3 32
PDB header:collagen
Chain: C: PDB Molecule:collagen-like peptide;
PDBTitle: crystal and molecular structure of a collagen-like peptide2 at 1.9 angstrom resolution
54c5mpeZ_
not modelled 22.8 14
PDB header:hydrolase
Chain: Z: PDB Molecule:26s proteasome regulatory subunit rpn1;
PDBTitle: 26s proteasome in presence of atp (s2)
55c1cagB_
not modelled 22.7 35
PDB header:collagen
Chain: B: PDB Molecule:collagen-like peptide;
PDBTitle: crystal and molecular structure of a collagen-like peptide2 at 1.9 angstrom resolution
56c1cgdA_
not modelled 22.7 35
PDB header:collagen
Chain: A: PDB Molecule:collagen-like peptide;
PDBTitle: hydration structure of a collagen peptide
57c1cgdC_
not modelled 22.7 35
PDB header:collagen
Chain: C: PDB Molecule:collagen-like peptide;
PDBTitle: hydration structure of a collagen peptide
58c1cgdB_
not modelled 22.7 35
PDB header:collagen
Chain: B: PDB Molecule:collagen-like peptide;
PDBTitle: hydration structure of a collagen peptide
59c3a0mD_
not modelled 22.0 39
PDB header:structural protein
Chain: D: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-ovg-(ppg)4, monoclinic, twinned crystal
60d1sgma2
not modelled 22.0 22
Fold:Tetracyclin repressor-like, C-terminal domain
Superfamily:Tetracyclin repressor-like, C-terminal domain
Family:Tetracyclin repressor-like, C-terminal domain
61c2fgxA_
not modelled 21.7 33
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative thioredoxin;
PDBTitle: solution nmr structure of protein ne2328 from nitrosomonas2 europaea. northeast structural genomics consortium target3 net3.
62c1v98A_
not modelled 20.2 60
PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin;
PDBTitle: crystal structure analysis of thioredoxin from thermus thermophilus
63d1o73a_
not modelled 20.0 57
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Glutathione peroxidase-like
64d2fy6a1
not modelled 19.5 83
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Glutathione peroxidase-like
65c3abnB_
not modelled 19.2 39
PDB header:structural protein
Chain: B: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-asp-gly-(pro-pro-gly)4 at 1.022 a
66c2yzhD_
not modelled 19.1 40
PDB header:oxidoreductase
Chain: D: PDB Molecule:probable thiol peroxidase;
PDBTitle: crystal structure of peroxiredoxin-like protein from aquifex aeolicus
67c3s9fA_
not modelled 19.0 67
PDB header:electron transport
Chain: A: PDB Molecule:tryparedoxin;
PDBTitle: the structure of tryparedoxin i from leishmania major
68c3admD_
not modelled 18.6 39
PDB header:structural protein
Chain: D: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)4-hyp-ser-gly-(pro-pro-gly)4
69d1qgva_
not modelled 18.3 33
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:spliceosomal protein U5-15Kd
70d2fwha1
not modelled 18.1 60
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Thioltransferase
71c2lrcA_
not modelled 18.1 44
PDB header:oxidoreductase
Chain: A: PDB Molecule:probable thioredoxin;
PDBTitle: structure of thioredoxin 2 from pseudomonas aeruginosa pao1 in its2 reduced form
72c4m90A_
not modelled 17.8 31
PDB header:oxidoreductase
Chain: A: PDB Molecule:tumor suppressor candidate 3;
PDBTitle: crystal structure of oxidized hn33/tusc3
73d1j08a1
not modelled 17.6 22
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:PDI-like
74c3f9uA_
not modelled 17.5 33
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative exported cytochrome c biogenesis-related protein;
PDBTitle: crystal structure of c-terminal domain of putative exported cytochrome2 c biogenesis-related protein from bacteroides fragilis
75c6gn9A_
not modelled 17.4 60
PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin;
PDBTitle: crystal structure of a thioredoxin from clostridium acetobutylicum at2 1.75 a resolution
76c2b1kA_
not modelled 17.3 57
PDB header:oxidoreductase
Chain: A: PDB Molecule:thiol:disulfide interchange protein dsbe;
PDBTitle: crystal structure of e. coli ccmg protein
77c1qsuB_
not modelled 17.1 24
PDB header:structural protein
Chain: B: PDB Molecule:protein ((pro-hyp-gly)4- glu-lys-gly(pro-hyp-gly)5);
PDBTitle: crystal structure of the triple-helical collagen-like peptide, (pro-2 hyp-gly)4-glu-lys-gly(pro-hyp-gly)5
78c1qsuA_
not modelled 17.1 24
PDB header:structural protein
Chain: A: PDB Molecule:protein ((pro-hyp-gly)4- glu-lys-gly(pro-hyp-gly)5);
PDBTitle: crystal structure of the triple-helical collagen-like peptide, (pro-2 hyp-gly)4-glu-lys-gly(pro-hyp-gly)5
79c2v2gC_
not modelled 17.0 20
PDB header:oxidoreductase
Chain: C: PDB Molecule:peroxiredoxin 6;
PDBTitle: crystal structure of the c45s mutant of the peroxiredoxin 62 of arenicola marina. monoclinic form
80c3a0mE_
not modelled 16.7 41
PDB header:structural protein
Chain: E: PDB Molecule:collagen-like peptide;
PDBTitle: structure of (ppg)4-ovg-(ppg)4, monoclinic, twinned crystal
81c4euyA_
not modelled 16.7 22
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of thioredoxin-like protein bce_0499 from bacillus2 cereus atcc 10987
82d2f8aa1
not modelled 16.6 0
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Glutathione peroxidase-like
83d2nysa1
not modelled 16.4 26
Fold:SspB-like
Superfamily:SspB-like
Family:AGR C 3712p-like
84c2nysA_
not modelled 16.4 26
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:agr_c_3712p;
PDBTitle: x-ray crystal structure of protein agr_c_3712 from agrobacterium2 tumefaciens. northeast structural genomics consortium target atr88.
85d1dbya_
not modelled 16.4 44
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Thioltransferase
86c1x1kF_
not modelled 16.2 36
PDB header:structural protein
Chain: F: PDB Molecule:host-guest peptide (pro-pro-gly)4-(pro-allohyp-
PDBTitle: host-guest peptide (pro-pro-gly)4-(pro-allohyp-gly)-(pro-2 pro-gly)4
87c5ganD_
not modelled 15.9 20
PDB header:transcription
Chain: D: PDB Molecule:spliceosomal protein dib1;
PDBTitle: the overall structure of the yeast spliceosomal u4/u6.u5 tri-snrnp at2 3.7 angstrom
88d2b5xa1
not modelled 15.9 43
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Glutathione peroxidase-like
89c2rupA_
not modelled 15.8 53
PDB header:transport protein
Chain: A: PDB Molecule:p2x purinoceptor 4;
PDBTitle: solution structure of rat p2x4 receptor head domain
90c3w6gP_
not modelled 15.6 33
PDB header:oxidoreductase
Chain: P: PDB Molecule:probable peroxiredoxin;
PDBTitle: structure of peroxiredoxin from anaerobic hyperthermophilic archaeon2 pyrococcus horikoshii
91d1j08a2
not modelled 15.5 60
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:PDI-like
92c3razA_
not modelled 15.5 43
PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin-related protein;
PDBTitle: the crystal structure of thioredoxin-related protein from neisseria2 meningitidis serogroup b
93d2fiya1
not modelled 15.3 30
Fold:FdhE-like
Superfamily:FdhE-like
Family:FdhE-like
94c3ah9E_
not modelled 15.2 28
PDB header:structural protein
Chain: E: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)9 at 1.1 a resolution
95c3ah9B_
not modelled 15.2 28
PDB header:structural protein
Chain: B: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)9 at 1.1 a resolution
96c3ah9C_
not modelled 15.2 28
PDB header:structural protein
Chain: C: PDB Molecule:collagen-like peptide;
PDBTitle: crystal structure of (pro-pro-gly)9 at 1.1 a resolution
97d1zmaa1
not modelled 15.2 60
Fold:Thioredoxin fold
Superfamily:Thioredoxin-like
Family:Thioltransferase
98c3nznA_
not modelled 15.2 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutaredoxin;
PDBTitle: the crystal structure of the glutaredoxin from methanosarcina mazei2 go1
99c2ywiA_
not modelled 15.1 40
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical conserved protein;
PDBTitle: crystal structure of uncharacterized conserved protein from2 geobacillus kaustophilus

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