Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD1397c_(-)_1574118_1574519
DateWed Jul 31 22:05:50 BST 2019
Unique Job ID8678687cf930d4e6
SequenceMILVDSDVLI ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:35.465 Y:35.603 Z:46.538
Model (left) based on template c6nklA_
Top template information
PDB header:antitoxin
Chain: A: PDB Molecule:ribonuclease vapc;
PDBTitle: 2.2 a resolution structure of vapbc-1 from nontypeable haemophilus2 influenzae
Confidence and coverage
Confidence: 99.9% Coverage: 92%
123 residues ( 92% of your sequence) have been modelled with 99.9% confidence by the single highest scoring template.
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
1c6nklA_



99.9 24
PDB header:antitoxin
Chain: A: PDB Molecule:ribonuclease vapc;
PDBTitle: 2.2 a resolution structure of vapbc-1 from nontypeable haemophilus2 influenzae
2c3tndC_



99.9 22
PDB header:translation, toxin
Chain: C: PDB Molecule:trna(fmet)-specific endonuclease vapc;
PDBTitle: crystal structure of shigella flexneri vapbc toxin-antitoxin complex
3c3zvkC_



99.9 19
PDB header:antitoxin/toxin/dna
Chain: C: PDB Molecule:toxin of toxin-antitoxin system;
PDBTitle: crystal structure of vapbc2 from rickettsia felis bound to2 a dna fragment from their promoter
4c3h87B_



99.9 24
PDB header:toxin/antitoxin
Chain: B: PDB Molecule:putative uncharacterized protein;
PDBTitle: rv0301 rv0300 toxin antitoxin complex from mycobacterium tuberculosis
5d2h1ca1



99.9 25
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:PIN domain
6d1v96a1



99.9 17
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:PIN domain
7c5l6mC_



99.9 22
PDB header:hydrolase
Chain: C: PDB Molecule:ribonuclease vapc;
PDBTitle: structure of caulobacter crescentus vapbc1 (vapb1deltac:vapc1 form)
8c5sv2A_



99.9 15
PDB header:hydrolase
Chain: A: PDB Molecule:ribonuclease vapc21;
PDBTitle: toxin vapc21 from mycobacterium tuberculosis
9d1y82a1



99.8 20
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:PIN domain
10c4chgC_



99.8 25
PDB header:toxin/antitoxin
Chain: C: PDB Molecule:probable ribonuclease vapc15;
PDBTitle: crystal structure of vapbc15 complex from mycobacterium tuberculosis
11c3dboB_



99.8 27
PDB header:toxin/antitoxin
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of a member of the vapbc family of toxin-antitoxin2 systems, vapbc-5, from mycobacterium tuberculosis
12c4xgrG_



99.8 16
PDB header:toxin/antitoxin
Chain: G: PDB Molecule:ribonuclease vapc30;
PDBTitle: crystal structure of addiction module from mycobacterial species
13c6a7vG_



99.8 18
PDB header:toxin/antitoxin
Chain: G: PDB Molecule:ribonuclease vapc11;
PDBTitle: crystal structure of mycobacterium tuberculosis vapbc11 toxin-2 antitoxin complex
14c5x3tD_



99.7 17
PDB header:antitoxin/toxin
Chain: D: PDB Molecule:ribonuclease vapc26;
PDBTitle: vapbc from mycobacterium tuberculosis
15c5wzfB_



99.6 16
PDB header:hydrolase
Chain: B: PDB Molecule:23s rrna-specific endonuclease vapc20;
PDBTitle: crystal structure of mycobacterium tuberculosis vapc20 (rv2549c),2 sarcin-ricin loop cleaving toxin
16d2fe1a1



99.5 17
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:PIN domain
17c2fe1A_



99.5 17
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved hypothetical protein pae0151;
PDBTitle: crystal structure of pae0151 from pyrobaculum aerophilum
18c3ix7A_



98.4 19
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein ttha0540;
PDBTitle: crystal structure of a domain of functionally unknown protein from2 thermus thermophilus hb8
19d1w8ia_



98.3 14
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:PIN domain
20d1v8pa_



98.2 17
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:PIN domain
21c1v8pK_



not modelled 98.1 18
PDB header:structural genomics, unknown function
Chain: K: PDB Molecule:hypothetical protein pae2754;
PDBTitle: crystal structure of pae2754 from pyrobaculum aerophilum
22c3i8oA_



not modelled 98.0 18
PDB header:rna binding protein
Chain: A: PDB Molecule:kh domain-containing protein mj1533;
PDBTitle: a domain of a functionally unknown protein from methanocaldococcus2 jannaschii dsm 2661.
23d1o4wa_



not modelled 98.0 15
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:PIN domain
24c5ywwA_



not modelled 97.9 13
PDB header:hydrolase
Chain: A: PDB Molecule:nucleotide binding protein pinc;
PDBTitle: archael ruvb-like holiday junction helicase
25c5f4hF_



not modelled 97.8 16
PDB header:hydrolase
Chain: F: PDB Molecule:nucleotide binding protein pinc;
PDBTitle: archael ruvb-like holiday junction helicase
26c5yz4A_



not modelled 97.5 15
PDB header:hydrolase
Chain: A: PDB Molecule:rrna-processing protein fcf1;
PDBTitle: structure of the pin domain endonuclease utp24
27c5jpqd_



not modelled 97.4 12
PDB header:ribosome
Chain: D: PDB Molecule:wd40 domain proteins;
PDBTitle: cryo-em structure of the 90s pre-ribosome
28c2lcqA_



not modelled 97.3 14
PDB header:metal binding protein
Chain: A: PDB Molecule:putative toxin vapc6;
PDBTitle: solution structure of the endonuclease nob1 from p.horikoshii
29c2hwwC_



not modelled 95.9 26
PDB header:rna binding protein
Chain: C: PDB Molecule:telomerase-binding protein est1a;
PDBTitle: structure of pin domain of human smg6
30c4mj7B_



not modelled 95.5 10
PDB header:rna binding protein
Chain: B: PDB Molecule:rrna-processing protein utp23;
PDBTitle: crystal structure of the pin domain of saccharomyces cerevisiae utp23
31c2hwyB_



not modelled 91.2 24
PDB header:rna binding protein
Chain: B: PDB Molecule:protein smg5;
PDBTitle: structure of pin domain of human smg5.
32c6g5iy_



not modelled 49.5 14
PDB header:ribosome
Chain: Y: PDB Molecule:40s ribosomal protein s24;
PDBTitle: cryo-em structure of a late human pre-40s ribosomal subunit - state r
33c3v33A_



not modelled 41.9 18
PDB header:hydrolase
Chain: A: PDB Molecule:ribonuclease zc3h12a;
PDBTitle: crystal structure of mcpip1 conserved domain with zinc-finger motif
34c3v32B_



not modelled 39.4 20
PDB header:hydrolase
Chain: B: PDB Molecule:ribonuclease zc3h12a;
PDBTitle: crystal structure of mcpip1 n-terminal conserved domain
35c1jqsB_



not modelled 11.3 24
PDB header:ribosome
Chain: B: PDB Molecule:elongation factor g;
PDBTitle: fitting of l11 protein and elongation factor g (domain g'2 and v) in the cryo-em map of e. coli 70s ribosome bound3 with ef-g and gmppcp, a nonhydrolysable gtp analog
36c6hc2L_



not modelled 11.0 67
PDB header:cell cycle
Chain: L: PDB Molecule:nuclear mitotic apparatus protein 1;
PDBTitle: crystal structure of numa/lgn hetero-hexamers
37d1cmwa2



not modelled 9.9 14
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:5' to 3' exonuclease catalytic domain
38c6nkoA_



not modelled 9.9 4
PDB header:unknown function
Chain: A: PDB Molecule:forh;
PDBTitle: crystal structure of forh
39c3zddA_



not modelled 9.9 14
PDB header:hydrolase/dna
Chain: A: PDB Molecule:protein xni;
PDBTitle: structure of e. coli exoix in complex with the palindromic 5ov62 oligonucleotide and potassium
40d1pkxa1



not modelled 9.7 12
Fold:Methylglyoxal synthase-like
Superfamily:Methylglyoxal synthase-like
Family:Inosicase
41d1zcza2



not modelled 8.3 10
Fold:Cytidine deaminase-like
Superfamily:Cytidine deaminase-like
Family:AICAR transformylase domain of bifunctional purine biosynthesis enzyme ATIC
42c4mitG_



not modelled 8.2 10
PDB header:signaling protein
Chain: G: PDB Molecule:serine/threonine protein kinase pak, putative;
PDBTitle: crystal structure of e. histolytica racc bound to the ehpak4 pbd
43d1g8ma1



not modelled 7.5 12
Fold:Methylglyoxal synthase-like
Superfamily:Methylglyoxal synthase-like
Family:Inosicase
44d1g8ma2



not modelled 7.4 14
Fold:Cytidine deaminase-like
Superfamily:Cytidine deaminase-like
Family:AICAR transformylase domain of bifunctional purine biosynthesis enzyme ATIC
45c5xv8A_



not modelled 7.3 18
PDB header:nuclear protein
Chain: A: PDB Molecule:uv-stimulated scaffold protein a;
PDBTitle: solution structure of the complex between uvssa acidic region and2 tfiih p62 ph domain
46d1pkxa2



not modelled 7.1 21
Fold:Cytidine deaminase-like
Superfamily:Cytidine deaminase-like
Family:AICAR transformylase domain of bifunctional purine biosynthesis enzyme ATIC
47c1dgrX_



not modelled 6.8 19
PDB header:plant protein
Chain: X: PDB Molecule:canavalin;
PDBTitle: refined crystal structure of canavalin from jack bean
48d1tfra2



not modelled 6.7 17
Fold:PIN domain-like
Superfamily:PIN domain-like
Family:5' to 3' exonuclease catalytic domain
49d1ofcx1



not modelled 5.9 20
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:Homeodomain-like
Family:Myb/SANT domain
50d1gyxa_



not modelled 5.8 30
Fold:Tautomerase/MIF
Superfamily:Tautomerase/MIF
Family:4-oxalocrotonate tautomerase-like
51d1ebfa1



not modelled 5.8 17
Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
52c4rl4B_



not modelled 5.8 14
PDB header:hydrolase
Chain: B: PDB Molecule:gtp cyclohydrolase-2;
PDBTitle: crystal structure of gtp cyclohydrolase ii from helicobacter pylori2 26695
53d1a3qa1



not modelled 5.6 23
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain
54d1u36a_



not modelled 5.6 23
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain

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