Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2871_(-)_3183148_3183405
DateWed Aug 7 12:50:54 BST 2019
Unique Job IDba943b1ea2457b55
SequenceVRTTIRIDDE ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:29.653 Y:49.711 Z:33.992
Model (left) based on template c5x3tA_
Top template information
PDB header:antitoxin/toxin
Chain: A: PDB Molecule:antitoxin vapb26;
PDBTitle: vapbc from mycobacterium tuberculosis
Confidence and coverage
Confidence: 96.4% Coverage: 58%
49 residues ( 58% of your sequence) have been modelled with 96.4% confidence by the single highest scoring template.
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Sequence analysis 

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Domain analysis [Show] 

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#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c5x3tA_
96.4 31
PDB header:antitoxin/toxin
Chain: A: PDB Molecule:antitoxin vapb26;
PDBTitle: vapbc from mycobacterium tuberculosis
2c2bj3D_
94.6 17
PDB header:transcription
Chain: D: PDB Molecule:nickel responsive regulator;
PDBTitle: nikr-apo
3d2bsqe1
94.2 16
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Trafficking protein A-like
4c1q5vB_
93.7 28
PDB header:transcription
Chain: B: PDB Molecule:nickel responsive regulator;
PDBTitle: apo-nikr
5d2bj7a1
93.7 18
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
6c2ca9B_
93.2 18
PDB header:transcription
Chain: B: PDB Molecule:putative nickel-responsive regulator;
PDBTitle: apo-nikr from helicobacter pylori in closed trans-2 conformation
7c2k5jB_
92.6 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
8d1p94a_
92.5 30
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
9c6a7vU_
92.5 39
PDB header:toxin/antitoxin
Chain: U: PDB Molecule:antitoxin vapb11;
PDBTitle: crystal structure of mycobacterium tuberculosis vapbc11 toxin-2 antitoxin complex
10c2h1oH_
90.8 12
PDB header:gene regulation/dna complex
Chain: H: PDB Molecule:trafficking protein a;
PDBTitle: structure of fitab bound to ir36 dna fragment
11d2hzaa1
90.1 28
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
12d2hzab1
88.3 28
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
13c2kelB_
85.5 21
PDB header:transcription repressor
Chain: B: PDB Molecule:uncharacterized protein 56b;
PDBTitle: structure of the transcription regulator svtr from the2 hyperthermophilic archaeal virus sirv1
14c6g1nB_
85.0 23
PDB header:antitoxin
Chain: B: PDB Molecule:antitoxin hicb;
PDBTitle: crystal structure of the burkholderia pseudomallei antitoxin hicb
15c4a1qB_
84.8 26
PDB header:viral protein
Chain: B: PDB Molecule:orf e73;
PDBTitle: solution structure of e73 protein from sulfolobus spindle-2 shaped virus ragged hills, a hyperthermophilic3 crenarchaeal virus from yellowstone national park
16c4aaiB_
84.8 26
PDB header:viral protein
Chain: B: PDB Molecule:orf e73;
PDBTitle: thermostable protein from hyperthermophilic virus ssv-rh
17c4p7dA_
81.5 13
PDB header:toxin
Chain: A: PDB Molecule:antitoxin hicb3;
PDBTitle: antitoxin hicb3 crystal structure
18c3kk4B_
81.1 27
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein bp1543;
PDBTitle: uncharacterized protein bp1543 from bordetella pertussis tohama i
19c5yrzC_
77.4 19
PDB header:antitoxin/hydrolase
Chain: C: PDB Molecule:hicb;
PDBTitle: toxin-antitoxin complex from streptococcus pneumoniae
20c2k29A_
72.5 24
PDB header:transcription
Chain: A: PDB Molecule:antitoxin relb;
PDBTitle: structure of the dbd domain of e. coli antitoxin relb
21c6iyaD_
not modelled 69.6 16
PDB header:antitoxin
Chain: D: PDB Molecule:transcriptional regulator copg family;
PDBTitle: structure of the dna binding domain of antitoxin copaso
22c4hv0B_
not modelled 69.3 19
PDB header:transcription, viral protein
Chain: B: PDB Molecule:avtr;
PDBTitle: structure and function of avtr, a novel transcriptional regulator from2 a hyperthermophilic archaeal lipothrixvirus
23d2cpga_
not modelled 67.8 18
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
24c1ea4K_
not modelled 67.7 18
PDB header:gene regulation/dna
Chain: K: PDB Molecule:transcriptional repressor copg;
PDBTitle: transcriptional repressor copg/22bp dsdna complex
25d1mnta_
not modelled 64.3 26
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
26c2an7A_
not modelled 62.9 34
PDB header:dna binding protein
Chain: A: PDB Molecule:protein pard;
PDBTitle: solution structure of the bacterial antidote pard
27c2k6lA_
not modelled 52.6 29
PDB header:unknown function
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: the solution structure of xacb0070 from xanthonomas2 axonopodis pv citri reveals this new protein is a member of3 the rhh family of transcriptional repressors
28c6ajnF_
not modelled 47.5 18
PDB header:toxin
Chain: F: PDB Molecule:duf1778 domain-containing protein;
PDBTitle: crystal structure of atatr bound with accoa
29d1y9ba1
not modelled 45.5 21
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:VCA0319-like
30c1xrxD_
not modelled 40.9 38
PDB header:replication inhibitor
Chain: D: PDB Molecule:seqa protein;
PDBTitle: crystal structure of a dna-binding protein
31d1xrxa1
not modelled 40.9 38
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:SeqA N-terminal domain-like
32c2rbfB_
not modelled 39.4 22
PDB header:oxidoreductase/dna
Chain: B: PDB Molecule:bifunctional protein puta;
PDBTitle: structure of the ribbon-helix-helix domain of escherichia coli puta2 (puta52) complexed with operator dna (o2)
33c3kxeD_
not modelled 39.3 15
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
34c4fxeB_
not modelled 37.9 24
PDB header:toxin/toxin inhibitor
Chain: B: PDB Molecule:antitoxin relb;
PDBTitle: crystal structure of the intact e. coli relbe toxin-antitoxin complex
35c1u9pA_
not modelled 37.2 21
PDB header:unknown function
Chain: A: PDB Molecule:parc;
PDBTitle: permuted single-chain arc
36c2mdvB_
not modelled 31.8 19
PDB header:de novo protein
Chain: B: PDB Molecule:designed protein;
PDBTitle: nmr structure of beta alpha alpha 38
37d1q9ja2
not modelled 30.7 13
Fold:CoA-dependent acyltransferases
Superfamily:CoA-dependent acyltransferases
Family:NRPS condensation domain (amide synthase)
38c6bwqB_
not modelled 30.5 16
PDB header:metal binding protein
Chain: B: PDB Molecule:pyridinium-3,5-bisthiocarboxylic acid mononucleotide nickel
PDBTitle: larc2, the c-terminal domain of a cyclometallase involved in the2 synthesis of the npn cofactor of lactate racemase, in complex with3 mnctp
39c6gtsC_
not modelled 29.7 13
PDB header:transcription
Chain: C: PDB Molecule:duf1778 domain-containing protein;
PDBTitle: structure of the atat-atar complex bound dna
40c4pg8B_
not modelled 26.8 24
PDB header:oxidoreductase
Chain: B: PDB Molecule:homoserine dehydrogenase;
PDBTitle: crystal structure of s. aureus homoserine dehydrogenase at ph8.5
41c4q2uM_
not modelled 26.6 21
PDB header:toxin/toxin repressor
Chain: M: PDB Molecule:antitoxin dinj;
PDBTitle: crystal structure of the e. coli dinj-yafq toxin-antitoxin complex
42d1rkta2
not modelled 25.1 18
Fold:Tetracyclin repressor-like, C-terminal domain
Superfamily:Tetracyclin repressor-like, C-terminal domain
Family:Tetracyclin repressor-like, C-terminal domain
43c3fmtF_
not modelled 21.3 35
PDB header:replication inhibitor/dna
Chain: F: PDB Molecule:protein seqa;
PDBTitle: crystal structure of seqa bound to dna
44d1vhib_
not modelled 18.8 28
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
45c3mtjA_
not modelled 17.1 26
PDB header:oxidoreductase
Chain: A: PDB Molecule:homoserine dehydrogenase;
PDBTitle: the crystal structure of a homoserine dehydrogenase from thiobacillus2 denitrificans to 2.15a
46c6dzsD_
not modelled 17.1 16
PDB header:oxidoreductase
Chain: D: PDB Molecule:homoserine dehydrogenase;
PDBTitle: mycobacterial homoserine dehydrogenase thra in complex with nadp
47c1x93B_
not modelled 16.6 17
PDB header:transcription
Chain: B: PDB Molecule:hypothetical protein hp0222;
PDBTitle: nmr structure of helicobacter pylori hp0222
48c6a6xC_
not modelled 16.3 23
PDB header:toxin
Chain: C: PDB Molecule:antitoxin maze7;
PDBTitle: the crystal structure of the mtb maze-mazf-mt9 complex
49d1x93a1
not modelled 15.9 16
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
50c3qoqC_
not modelled 15.6 11
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
51c5cegC_
not modelled 15.4 11
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
52d1b3ta_
not modelled 15.3 28
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
53c3do5A_
not modelled 15.2 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:homoserine dehydrogenase;
PDBTitle: crystal structure of putative homoserine dehydrogenase (np_069768.1)2 from archaeoglobus fulgidus at 2.20 a resolution
54d2ve8a1
not modelled 14.2 26
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:FtsK C-terminal domain-like
55d1irqa_
not modelled 14.1 24
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Omega transcriptional repressor
56c1irqB_
not modelled 13.9 24
PDB header:gene regulation
Chain: B: PDB Molecule:omega transcriptional repressor;
PDBTitle: crystal structure of omega transcriptional repressor at2 1.5a resolution
57d1ebfa2
not modelled 13.8 20
Fold:FwdE/GAPDH domain-like
Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
Family:Homoserine dehydrogenase-like
58c2lxmB_
not modelled 13.3 27
PDB header:protein transport
Chain: B: PDB Molecule:charged multivesicular body protein 5;
PDBTitle: lip5-chmp5
59d1vrpa1
not modelled 11.8 21
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
60c3h87D_
not modelled 11.8 18
PDB header:toxin/antitoxin
Chain: D: PDB Molecule:putative uncharacterized protein;
PDBTitle: rv0301 rv0300 toxin antitoxin complex from mycobacterium tuberculosis
61c2khvA_
not modelled 11.7 20
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:phage integrase;
PDBTitle: solution nmr structure of protein nmul_a0922 from2 nitrosospira multiformis. northeast structural genomics3 consortium target nmr38b.
62d1puga_
not modelled 11.7 17
Fold:YbaB-like
Superfamily:YbaB-like
Family:YbaB-like
63d1rfma_
not modelled 11.6 20
Fold:L-sulfolactate dehydrogenase-like
Superfamily:L-sulfolactate dehydrogenase-like
Family:L-sulfolactate dehydrogenase-like
64c2cw1A_
not modelled 11.6 21
PDB header:de novo protein
Chain: A: PDB Molecule:sn4m;
PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein
65c3opyE_
not modelled 10.6 11
PDB header:transferase
Chain: E: PDB Molecule:6-phosphofructo-1-kinase alpha-subunit;
PDBTitle: crystal structure of pichia pastoris phosphofructokinase in the t-2 state
66c3c8mA_
not modelled 10.3 21
PDB header:oxidoreductase
Chain: A: PDB Molecule:homoserine dehydrogenase;
PDBTitle: crystal structure of homoserine dehydrogenase from thermoplasma2 volcanium
67d2ay0a1
not modelled 9.8 24
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:PutA pre-N-terminal region-like
68d1u6ra1
not modelled 9.7 29
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
69d1crka1
not modelled 9.7 14
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
70c3ingA_
not modelled 9.5 28
PDB header:oxidoreductase
Chain: A: PDB Molecule:homoserine dehydrogenase;
PDBTitle: crystal structure of homoserine dehydrogenase (np_394635.1) from2 thermoplasma acidophilum at 1.95 a resolution
71c2ejwB_
not modelled 9.4 33
PDB header:oxidoreductase
Chain: B: PDB Molecule:homoserine dehydrogenase;
PDBTitle: homoserine dehydrogenase from thermus thermophilus hb8
72d1i0ea1
not modelled 9.3 36
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
73d2g3ba2
not modelled 9.1 21
Fold:Tetracyclin repressor-like, C-terminal domain
Superfamily:Tetracyclin repressor-like, C-terminal domain
Family:Tetracyclin repressor-like, C-terminal domain
74c3c19A_
not modelled 9.1 12
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein mk0293;
PDBTitle: crystal structure of protein mk0293 from methanopyrus kandleri av19
75d1g0wa1
not modelled 8.7 43
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
76d2j5pa1
not modelled 8.7 15
Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:FtsK C-terminal domain-like
77c1rrbA_
not modelled 8.6 22
PDB header:transferase
Chain: A: PDB Molecule:raf proto-oncogene serine/threonine-protein
PDBTitle: the ras-binding domain of raf-1 from rat, nmr, 1 structure
78c4xb1B_
not modelled 8.5 25
PDB header:oxidoreductase
Chain: B: PDB Molecule:319aa long hypothetical homoserine dehydrogenase;
PDBTitle: hyperthermophilic archaeal homoserine dehydrogenase in complex with2 nadph
79d1m15a1
not modelled 8.5 21
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
80d1qh4a1
not modelled 8.0 25
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
81c6qeqD_
not modelled 7.0 16
PDB header:dna binding protein
Chain: D: PDB Molecule:pcff;
PDBTitle: pcff from enterococcus faecalis pcf10
82d1hwxa2
not modelled 7.0 30
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
83c3i12A_
not modelled 6.8 13
PDB header:ligase
Chain: A: PDB Molecule:d-alanine-d-alanine ligase a;
PDBTitle: the crystal structure of the d-alanyl-alanine synthetase a from2 salmonella enterica subsp. enterica serovar typhimurium str. lt2
84d1qk1a1
not modelled 6.6 18
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
85c6noyB_
not modelled 6.4 33
PDB header:structural protein
Chain: B: PDB Molecule:maintenance of carboxysome positioning b protein, mcsb;
PDBTitle: structure of cyanothece mcdb
86d2outa1
not modelled 6.4 29
Fold:LEM/SAP HeH motif
Superfamily:Rho N-terminal domain-like
Family:YqbF C-terminal domain-like
87c5t81A_
not modelled 6.0 11
PDB header:biosynthetic protein
Chain: A: PDB Molecule:epob;
PDBTitle: rhombohedral crystal form of the epob nrps cyclization-docking2 bidomain from sorangium cellulosum
88d1y88a1
not modelled 5.8 50
Fold:SAM domain-like
Superfamily:Rad51 N-terminal domain-like
Family:Hypothetical protein AF1548, C-terminal domain
89c3o8oC_
not modelled 5.4 7
PDB header:transferase
Chain: C: PDB Molecule:6-phosphofructokinase subunit alpha;
PDBTitle: structure of phosphofructokinase from saccharomyces cerevisiae
90d1v71a1
not modelled 5.2 23
Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
91c3d3kD_
not modelled 5.2 17
PDB header:protein binding
Chain: D: PDB Molecule:enhancer of mrna-decapping protein 3;
PDBTitle: crystal structure of human edc3p
92d1gtma2
not modelled 5.1 50
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
93c5k12F_
not modelled 5.1 33
PDB header:oxidoreductase
Chain: F: PDB Molecule:glutamate dehydrogenase 1, mitochondrial;
PDBTitle: cryo-em structure of glutamate dehydrogenase at 1.8 a resolution

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