Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD1241_(-)_1384284_1384544
DateWed Jul 31 22:05:33 BST 2019
Unique Job ID0e18ef713a503a8e
SequenceMRTTLTLDDD ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:28.063 Y:40.786 Z:32.494
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: 95.9% Coverage: 52%
45 residues ( 52% of your sequence) have been modelled with 95.9% 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_
95.9 24
PDB header:antitoxin/toxin
Chain: A: PDB Molecule:antitoxin vapb26;
PDBTitle: vapbc from mycobacterium tuberculosis
2c2bj3D_
95.1 10
PDB header:transcription
Chain: D: PDB Molecule:nickel responsive regulator;
PDBTitle: nikr-apo
3c1q5vB_
94.3 38
PDB header:transcription
Chain: B: PDB Molecule:nickel responsive regulator;
PDBTitle: apo-nikr
4c2k5jB_
94.2 18
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
5d2bsqe1
94.2 9
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Trafficking protein A-like
6d2bj7a1
94.2 10
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
7c2h1oH_
93.8 9
PDB header:gene regulation/dna complex
Chain: H: PDB Molecule:trafficking protein a;
PDBTitle: structure of fitab bound to ir36 dna fragment
8d1p94a_
93.6 19
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
9c2ca9B_
93.6 13
PDB header:transcription
Chain: B: PDB Molecule:putative nickel-responsive regulator;
PDBTitle: apo-nikr from helicobacter pylori in closed trans-2 conformation
10c6a7vU_
92.9 25
PDB header:toxin/antitoxin
Chain: U: PDB Molecule:antitoxin vapb11;
PDBTitle: crystal structure of mycobacterium tuberculosis vapbc11 toxin-2 antitoxin complex
11d2hzaa1
92.1 38
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
12d2hzab1
91.2 38
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
13c4aaiB_
86.6 30
PDB header:viral protein
Chain: B: PDB Molecule:orf e73;
PDBTitle: thermostable protein from hyperthermophilic virus ssv-rh
14c4a1qB_
86.6 30
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
15c6g1nB_
83.5 16
PDB header:antitoxin
Chain: B: PDB Molecule:antitoxin hicb;
PDBTitle: crystal structure of the burkholderia pseudomallei antitoxin hicb
16c3kk4B_
81.4 15
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein bp1543;
PDBTitle: uncharacterized protein bp1543 from bordetella pertussis tohama i
17c4p7dA_
80.1 15
PDB header:toxin
Chain: A: PDB Molecule:antitoxin hicb3;
PDBTitle: antitoxin hicb3 crystal structure
18c5yrzC_
79.2 19
PDB header:antitoxin/hydrolase
Chain: C: PDB Molecule:hicb;
PDBTitle: toxin-antitoxin complex from streptococcus pneumoniae
19c2an7A_
77.1 17
PDB header:dna binding protein
Chain: A: PDB Molecule:protein pard;
PDBTitle: solution structure of the bacterial antidote pard
20c2k29A_
73.3 14
PDB header:transcription
Chain: A: PDB Molecule:antitoxin relb;
PDBTitle: structure of the dbd domain of e. coli antitoxin relb
21d1mnta_
not modelled 64.4 15
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:Arc/Mnt-like phage repressors
22c1ea4K_
not modelled 64.1 23
PDB header:gene regulation/dna
Chain: K: PDB Molecule:transcriptional repressor copg;
PDBTitle: transcriptional repressor copg/22bp dsdna complex
23d2cpga_
not modelled 64.1 23
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
24c4hv0B_
not modelled 63.6 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
25c6iyaD_
not modelled 61.0 24
PDB header:antitoxin
Chain: D: PDB Molecule:transcriptional regulator copg family;
PDBTitle: structure of the dna binding domain of antitoxin copaso
26d1xrxa1
not modelled 50.4 25
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:SeqA N-terminal domain-like
27c1xrxD_
not modelled 50.4 25
PDB header:replication inhibitor
Chain: D: PDB Molecule:seqa protein;
PDBTitle: crystal structure of a dna-binding protein
28c1rrbA_
not modelled 48.8 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
29c3fmtF_
not modelled 48.4 20
PDB header:replication inhibitor/dna
Chain: F: PDB Molecule:protein seqa;
PDBTitle: crystal structure of seqa bound to dna
30c4fxeB_
not modelled 42.5 15
PDB header:toxin/toxin inhibitor
Chain: B: PDB Molecule:antitoxin relb;
PDBTitle: crystal structure of the intact e. coli relbe toxin-antitoxin complex
31c2rbfB_
not modelled 41.4 21
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)
32c3kxeD_
not modelled 41.2 27
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
33c3h87D_
not modelled 39.3 17
PDB header:toxin/antitoxin
Chain: D: PDB Molecule:putative uncharacterized protein;
PDBTitle: rv0301 rv0300 toxin antitoxin complex from mycobacterium tuberculosis
34c2kelB_
not modelled 34.2 16
PDB header:transcription repressor
Chain: B: PDB Molecule:uncharacterized protein 56b;
PDBTitle: structure of the transcription regulator svtr from the2 hyperthermophilic archaeal virus sirv1
35d1gtma2
not modelled 29.5 23
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
36c4pg8B_
not modelled 29.1 15
PDB header:oxidoreductase
Chain: B: PDB Molecule:homoserine dehydrogenase;
PDBTitle: crystal structure of s. aureus homoserine dehydrogenase at ph8.5
37d1hwxa2
not modelled 28.1 18
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
38c1u9pA_
not modelled 27.9 15
PDB header:unknown function
Chain: A: PDB Molecule:parc;
PDBTitle: permuted single-chain arc
39d1bvua2
not modelled 27.7 23
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
40c5k12F_
not modelled 26.7 18
PDB header:oxidoreductase
Chain: F: PDB Molecule:glutamate dehydrogenase 1, mitochondrial;
PDBTitle: cryo-em structure of glutamate dehydrogenase at 1.8 a resolution
41d1euza2
not modelled 25.7 23
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
42c2mdvB_
not modelled 25.4 29
PDB header:de novo protein
Chain: B: PDB Molecule:designed protein;
PDBTitle: nmr structure of beta alpha alpha 38
43d1bgva2
not modelled 25.2 23
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
44d1q9ja2
not modelled 24.8 16
Fold:CoA-dependent acyltransferases
Superfamily:CoA-dependent acyltransferases
Family:NRPS condensation domain (amide synthase)
45c6bwqB_
not modelled 22.4 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
46d1b26a2
not modelled 22.2 23
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
47d1c1yb_
not modelled 21.9 22
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ras-binding domain, RBD
48d1v9la2
not modelled 21.0 32
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
49d1vhib_
not modelled 20.6 17
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
50c5xviA_
not modelled 20.1 23
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase;
PDBTitle: crystal structure of aspergillus niger apo- glutamate dehydrogenase
51c3aogA_
not modelled 19.4 27
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase;
PDBTitle: crystal structure of glutamate dehydrogenase (gdhb) from thermus2 thermophilus (glu bound form)
52d1l1fa2
not modelled 19.3 18
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Aminoacid dehydrogenases
53c3mtjA_
not modelled 19.3 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:homoserine dehydrogenase;
PDBTitle: the crystal structure of a homoserine dehydrogenase from thiobacillus2 denitrificans to 2.15a
54c6noyB_
not modelled 18.4 25
PDB header:structural protein
Chain: B: PDB Molecule:maintenance of carboxysome positioning b protein, mcsb;
PDBTitle: structure of cyanothece mcdb
55c3sboA_
not modelled 18.2 23
PDB header:oxidoreductase
Chain: A: PDB Molecule:nadp-specific glutamate dehydrogenase;
PDBTitle: structure of e.coli gdh from native source
56c6dzsD_
not modelled 17.9 11
PDB header:oxidoreductase
Chain: D: PDB Molecule:homoserine dehydrogenase;
PDBTitle: mycobacterial homoserine dehydrogenase thra in complex with nadp
57c3k8zD_
not modelled 17.8 14
PDB header:oxidoreductase
Chain: D: PDB Molecule:nad-specific glutamate dehydrogenase;
PDBTitle: crystal structure of gudb1 a decryptified secondary glutamate2 dehydrogenase from b. subtilis
58c3do5A_
not modelled 17.6 19
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
59d1v71a1
not modelled 17.3 10
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
60c3ingA_
not modelled 17.2 19
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
61c6gtsC_
not modelled 17.2 18
PDB header:transcription
Chain: C: PDB Molecule:duf1778 domain-containing protein;
PDBTitle: structure of the atat-atar complex bound dna
62c4q2uM_
not modelled 16.8 12
PDB header:toxin/toxin repressor
Chain: M: PDB Molecule:antitoxin dinj;
PDBTitle: crystal structure of the e. coli dinj-yafq toxin-antitoxin complex
63c2bmaA_
not modelled 15.7 23
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase (nadp+);
PDBTitle: the crystal structure of plasmodium falciparum glutamate2 dehydrogenase, a putative target for novel antimalarial3 drugs
64c5yxiA_
not modelled 15.7 26
PDB header:de novo protein
Chain: A: PDB Molecule:drafx6;
PDBTitle: designed protein drafx6
65c5ijzH_
not modelled 15.7 23
PDB header:oxidoreductase
Chain: H: PDB Molecule:nadp-specific glutamate dehydrogenase;
PDBTitle: crystal strcuture of glutamate dehydrogenase(gdh) from corynebacterium2 glutamicum
66d1ebfa2
not modelled 15.4 17
Fold:FwdE/GAPDH domain-like
Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
Family:Homoserine dehydrogenase-like
67c4xgiA_
not modelled 15.0 23
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase;
PDBTitle: crystal structure of glutamate dehydrogenase from burkholderia2 thailandensis
68c1v9lA_
not modelled 14.8 32
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase;
PDBTitle: l-glutamate dehydrogenase from pyrobaculum islandicum2 complexed with nad
69d1b3ta_
not modelled 14.7 17
Fold:Ferredoxin-like
Superfamily:Viral DNA-binding domain
Family:Viral DNA-binding domain
70c3r3jC_
not modelled 14.5 23
PDB header:oxidoreductase
Chain: C: PDB Molecule:glutamate dehydrogenase;
PDBTitle: kinetic and structural characterization of plasmodium falciparum2 glutamate dehydrogenase 2
71c3c8mA_
not modelled 14.2 13
PDB header:oxidoreductase
Chain: A: PDB Molecule:homoserine dehydrogenase;
PDBTitle: crystal structure of homoserine dehydrogenase from thermoplasma2 volcanium
72c3i12A_
not modelled 13.5 9
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
73c3aoeC_
not modelled 13.4 32
PDB header:oxidoreductase
Chain: C: PDB Molecule:glutamate dehydrogenase;
PDBTitle: crystal structure of hetero-hexameric glutamate dehydrogenase from2 thermus thermophilus (leu bound form)
74c1hrdA_
not modelled 12.9 23
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase;
PDBTitle: glutamate dehydrogenase
75c1bvuF_
not modelled 12.6 23
PDB header:oxidoreductase
Chain: F: PDB Molecule:protein (glutamate dehydrogenase);
PDBTitle: glutamate dehydrogenase from thermococcus litoralis
76c2tmgD_
not modelled 12.3 23
PDB header:oxidoreductase
Chain: D: PDB Molecule:protein (glutamate dehydrogenase);
PDBTitle: thermotoga maritima glutamate dehydrogenase mutant s128r,2 t158e, n117r, s160e
77c6ajnF_
not modelled 12.2 23
PDB header:toxin
Chain: F: PDB Molecule:duf1778 domain-containing protein;
PDBTitle: crystal structure of atatr bound with accoa
78c2yfqA_
not modelled 11.8 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:nad-specific glutamate dehydrogenase;
PDBTitle: crystal structure of glutamate dehydrogenase from2 peptoniphilus asaccharolyticus
79d1rfma_
not modelled 11.1 7
Fold:L-sulfolactate dehydrogenase-like
Superfamily:L-sulfolactate dehydrogenase-like
Family:L-sulfolactate dehydrogenase-like
80d1vrpa1
not modelled 11.1 15
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
81c1nr1A_
not modelled 10.8 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:glutamate dehydrogenase 1;
PDBTitle: crystal structure of the r463a mutant of human glutamate dehydrogenase
82c5cegC_
not modelled 10.7 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
83c3i71B_
not modelled 10.0 34
PDB header:unknown function
Chain: B: PDB Molecule:ethanolamine utilization protein eutk;
PDBTitle: ethanolamine utilization microcompartment shell subunit, eutk c-2 terminal domain
84d1y9ba1
not modelled 9.9 18
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:VCA0319-like
85d1i0ea1
not modelled 9.5 12
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
86d1u6ra1
not modelled 9.4 15
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
87d1crka1
not modelled 8.9 9
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
88c1x93B_
not modelled 8.9 19
PDB header:transcription
Chain: B: PDB Molecule:hypothetical protein hp0222;
PDBTitle: nmr structure of helicobacter pylori hp0222
89d1x93a1
not modelled 8.9 19
Fold:Ribbon-helix-helix
Superfamily:Ribbon-helix-helix
Family:CopG-like
90c2ejwB_
not modelled 8.7 15
PDB header:oxidoreductase
Chain: B: PDB Molecule:homoserine dehydrogenase;
PDBTitle: homoserine dehydrogenase from thermus thermophilus hb8
91c4xb1B_
not modelled 8.3 13
PDB header:oxidoreductase
Chain: B: PDB Molecule:319aa long hypothetical homoserine dehydrogenase;
PDBTitle: hyperthermophilic archaeal homoserine dehydrogenase in complex with2 nadph
92c1ebuA_
not modelled 7.7 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:homoserine dehydrogenase;
PDBTitle: homoserine dehydrogenase complex with nad analogue and l-2 homoserine
93d1qh4a1
not modelled 7.2 15
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
94c3qoqC_
not modelled 7.0 14
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
95d1g0wa1
not modelled 6.8 9
Fold:Guanido kinase N-terminal domain
Superfamily:Guanido kinase N-terminal domain
Family:Guanido kinase N-terminal domain
96c1yx5A_
not modelled 6.6 19
PDB header:hydrolase
Chain: A: PDB Molecule:26s proteasome non-atpase regulatory subunit 4;
PDBTitle: solution structure of s5a uim-1/ubiquitin complex
97c1h2iG_
not modelled 6.4 35
PDB header:dna binding protein
Chain: G: PDB Molecule:dna repair protein rad52 homolog;
PDBTitle: human rad52 protein, n-terminal domain
98d1rkta2
not modelled 6.3 15
Fold:Tetracyclin repressor-like, C-terminal domain
Superfamily:Tetracyclin repressor-like, C-terminal domain
Family:Tetracyclin repressor-like, C-terminal domain
99c3c19A_
not modelled 6.2 12
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein mk0293;
PDBTitle: crystal structure of protein mk0293 from methanopyrus kandleri av19

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