Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD3098B_(RVBD3098B)_3467409_3467609
DateThu Aug 8 16:20:27 BST 2019
Unique Job ID1f08553f97abce9d
SequenceMTATIGFRPT ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:37.692 Y:31.367 Z:26.522
Model (left) based on template c3kxeD_
Top template information
PDB header:protein binding
Chain: D: PDB Molecule:antitoxin protein pard-1;
PDBTitle: a conserved mode of protein recognition and binding in a2 pard-pare toxin-antitoxin complex
Confidence and coverage
Confidence: 83.9% Coverage: 61%
40 residues ( 61% of your sequence) have been modelled with 83.9% confidence by the single highest scoring template.
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Sequence analysis 

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Secondary structure and disorder prediction [Show] 

Domain analysis [Show] 

Detailed template information [Hide] 

 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3kxeD_
83.9 30
PDB header:protein binding
Chain: D: PDB Molecule:antitoxin protein pard-1;
PDBTitle: a conserved mode of protein recognition and binding in a2 pard-pare toxin-antitoxin complex
2c5cegC_
68.4 18
PDB header:toxin
Chain: C: PDB Molecule:addiction module antidote protein, copg/arc/metj family;
PDBTitle: x-ray structure of toxin/anti-toxin complex from mesorhizobium2 opportunistum
3d1cuka1
52.3 25
Fold:RuvA C-terminal domain-like
Superfamily:DNA helicase RuvA subunit, C-terminal domain
Family:DNA helicase RuvA subunit, C-terminal domain
4c1ixrB_
37.9 26
PDB header:hydrolase
Chain: B: PDB Molecule:holliday junction dna helicase ruva;
PDBTitle: ruva-ruvb complex
5c2h5xA_
31.0 29
PDB header:dna binding protein
Chain: A: PDB Molecule:holliday junction atp-dependent dna helicase ruva;
PDBTitle: ruva from mycobacterium tuberculosis
6c4me7E_
30.9 19
PDB header:hydrolase/hydrolase inhibitor
Chain: E: PDB Molecule:antitoxin endoai;
PDBTitle: crystal structure of bacillus subtilis toxin mazf in complex with2 cognate antitoxin maze
7d2b3aa1
27.6 36
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ras-binding domain, RBD
8c1xrxD_
25.0 50
PDB header:replication inhibitor
Chain: D: PDB Molecule:seqa protein;
PDBTitle: crystal structure of a dna-binding protein
9d1xrxa1
25.0 50
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:SeqA N-terminal domain-like
10d1v66a_
24.1 28
Fold:LEM/SAP HeH motif
Superfamily:SAP domain
Family:SAP domain
11c6qeqD_
20.4 12
PDB header:dna binding protein
Chain: D: PDB Molecule:pcff;
PDBTitle: pcff from enterococcus faecalis pcf10
12d1ef5a_
18.0 38
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ras-binding domain, RBD
13c3fmtF_
12.6 36
PDB header:replication inhibitor/dna
Chain: F: PDB Molecule:protein seqa;
PDBTitle: crystal structure of seqa bound to dna
14c6ekrA_
12.6 21
PDB header:hydrolase
Chain: A: PDB Molecule:type ii site-specific deoxyribonuclease;
PDBTitle: crystal structure of type iip restriction endonuclease kpn2i
15c2z90D_
12.3 15
PDB header:dna binding protein
Chain: D: PDB Molecule:starvation-inducible dna-binding protein or fine
PDBTitle: crystal structure of the second dps from mycobacterium2 smegmatis
16d1lfda_
12.0 36
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ras-binding domain, RBD
17c2ba3A_
11.7 47
PDB header:dna binding protein
Chain: A: PDB Molecule:nika;
PDBTitle: nmr structure of nika n-terminal fragment
18c3kh0A_
11.0 36
PDB header:signaling protein
Chain: A: PDB Molecule:ral guanine nucleotide dissociation stimulator;
PDBTitle: crystal structure of the ras-association (ra) domain of ralgds
19c4ce4c_
10.8 17
PDB header:ribosome
Chain: C: PDB Molecule:
PDBTitle: 39s large subunit of the porcine mitochondrial ribosome
20c3w1oA_
10.2 58
PDB header:protein binding
Chain: A: PDB Molecule:dna mimic protein dmp12;
PDBTitle: neisseria dna mimic protein dmp12
21c4a25A_
not modelled 9.8 12
PDB header:metal binding protein
Chain: A: PDB Molecule:ferritin dps family protein;
PDBTitle: x-ray structure dps from kineococcus radiotolerans in2 complex with mn (ii) ions.
22d2rgfa_
not modelled 8.9 36
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ras-binding domain, RBD
23c3l9kZ_
not modelled 8.7 40
PDB header:motor protein
Chain: Z: PDB Molecule:dynein intermediate chain, cytosolic;
PDBTitle: insights into dynein assembly from a dynein intermediate chain-light2 chain roadblock structure
24c3l9kX_
not modelled 8.7 40
PDB header:motor protein
Chain: X: PDB Molecule:dynein intermediate chain, cytosolic;
PDBTitle: insights into dynein assembly from a dynein intermediate chain-light2 chain roadblock structure
25c1qeyD_
not modelled 8.3 80
PDB header:gene regulation
Chain: D: PDB Molecule:protein (regulatory protein mnt);
PDBTitle: nmr structure determination of the tetramerization domain2 of the mnt repressor: an asymmetric a-helical assembly in3 slow exchange
26c1qeyC_
not modelled 8.3 80
PDB header:gene regulation
Chain: C: PDB Molecule:protein (regulatory protein mnt);
PDBTitle: nmr structure determination of the tetramerization domain2 of the mnt repressor: an asymmetric a-helical assembly in3 slow exchange
27c1qeyA_
not modelled 8.3 80
PDB header:gene regulation
Chain: A: PDB Molecule:protein (regulatory protein mnt);
PDBTitle: nmr structure determination of the tetramerization domain2 of the mnt repressor: an asymmetric a-helical assembly in3 slow exchange
28c1qeyB_
not modelled 8.3 80
PDB header:gene regulation
Chain: B: PDB Molecule:protein (regulatory protein mnt);
PDBTitle: nmr structure determination of the tetramerization domain2 of the mnt repressor: an asymmetric a-helical assembly in3 slow exchange
29c2e6oA_
not modelled 7.3 27
PDB header:transcription, cell cycle
Chain: A: PDB Molecule:hmg box-containing protein 1;
PDBTitle: solution structure of the hmg box domain from human hmg-box2 transcription factor 1
30c3htuE_
not modelled 7.0 43
PDB header:protein transport
Chain: E: PDB Molecule:vacuolar protein-sorting-associated protein 25;
PDBTitle: crystal structure of the human vps25-vps20 subcomplex
31c2k9iB_
not modelled 6.6 27
PDB header:dna binding protein
Chain: B: PDB Molecule:uncharacterized protein orf56;
PDBTitle: nmr structure of plasmid copy control protein orf56 from sulfolobus2 islandicus
32c2c6rA_
not modelled 6.6 12
PDB header:dna-binding protein
Chain: A: PDB Molecule:dna-binding stress response protein, dps family;
PDBTitle: fe-soaked crystal structure of the dps92 from deinococcus2 radiodurans
33d2yw6a1
not modelled 6.2 18
Fold:Ferritin-like
Superfamily:Ferritin-like
Family:Ferritin
34c2yjkF_
not modelled 6.0 15
PDB header:metal-binding protein
Chain: F: PDB Molecule:afp;
PDBTitle: structure of dps from microbacterium arborescens in the2 high iron form
35c1hjpA_
not modelled 6.0 27
PDB header:dna recombination
Chain: A: PDB Molecule:ruva;
PDBTitle: holliday junction binding protein ruva from e. coli
36d1nb9a_
not modelled 6.0 38
Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin kinase-like
Family:ATP-dependent riboflavin kinase-like
37c2mdvB_
not modelled 5.9 53
PDB header:de novo protein
Chain: B: PDB Molecule:designed protein;
PDBTitle: nmr structure of beta alpha alpha 38
38c2k5jB_
not modelled 5.8 16
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein yiif;
PDBTitle: solution structure of protein yiif from shigella flexneri2 serotype 5b (strain 8401) . northeast structural genomics3 consortium target sft1
39d1mrza1
not modelled 5.8 38
Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin kinase-like
Family:ATP-dependent riboflavin kinase-like
40d1bvsa1
not modelled 5.5 53
Fold:RuvA C-terminal domain-like
Superfamily:DNA helicase RuvA subunit, C-terminal domain
Family:DNA helicase RuvA subunit, C-terminal domain
41d1hw1a1
not modelled 5.2 38
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:GntR-like transcriptional regulators

Binding site prediction 

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