Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2445c_(ndk)_2745324_2745734
DateWed Aug 7 12:50:07 BST 2019
Unique Job ID6576fc043f06a5ab
SequenceVTERTLVLIK ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:34.388 Y:39.018 Z:39.684
Model (left) based on template d1k44a_
Top template information
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
Confidence and coverage
Confidence:100.0% Coverage: 99%
135 residues ( 99% of your sequence) have been modelled with 100.0% 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
1d1k44a_
100.0 100
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
2d1ehwa_
100.0 46
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
3d1nb2a_
100.0 51
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
4d1u8wa_
100.0 50
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
5c3mpdA_
100.0 44
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of nucleoside diphosphate kinase from2 encephalitozoon cuniculi, cubic form, apo
6c5u2iF_
100.0 56
PDB header:transferase
Chain: F: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of a nucleoside diphosphate kinase from naegleria2 fowleri
7c3ztqC_
100.0 45
PDB header:transferase
Chain: C: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: hexagonal crystal form p61 of the aquifex aeolicus nucleoside2 diphosphate kinase
8c4o0nA_
100.0 47
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: 2.4 angstrom resolution crystal structure of putative nucleoside2 diphosphate kinase from toxoplasma gondii.
9c3ngtJ_
100.0 48
PDB header:transferase
Chain: J: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: structure of leishmania ndkb complexed with amp.
10d1hlwa_
100.0 51
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
11d1s57a_
100.0 53
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
12d1pkua1
100.0 51
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
13d3bbba1
100.0 46
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
14d1ucna_
100.0 44
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
15d1be4a_
100.0 47
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
16c2hurF_
100.0 45
PDB header:signaling protein,transferase
Chain: F: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: escherichia coli nucleoside diphosphate kinase
17c6agyA_
100.0 47
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: aspergillus fumigatus af293 ndk
18c4s0mC_
100.0 50
PDB header:transferase
Chain: C: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of nucleoside diphosphate kinase at 1.92 a2 resolution from acinetobacter baumannii
19d1w7wa_
100.0 49
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
20c3js9A_
100.0 51
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase family protein;
PDBTitle: crystal structure of nucleoside diphosphate kinase family protein from2 babesia bovis
21d1xiqa_
not modelled 100.0 44
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
22c1w7wF_
not modelled 100.0 48
PDB header:transferase
Chain: F: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: structure and mutational analysis of a plant mitochondrial nucleoside2 diphosphate kinase: identification of residues involved in serine3 phosphorylation and oligomerization.
23c3q89H_
not modelled 100.0 56
PDB header:transferase
Chain: H: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of staphylococcus aureus nucleoside diphosphate2 kinase complexed with cdp
24c5v6dH_
not modelled 100.0 46
PDB header:transferase
Chain: H: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of nucleoside diphosphate kinase from neisseria2 gonorrhoeae in complex with citrate
25d1zs6a1
not modelled 100.0 53
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
26d1nhkl_
not modelled 100.0 52
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
27c4dutA_
not modelled 100.0 49
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: the structure of nucleoside diphosphate kinase (ndk) from burkholderia2 thailandensis
28d2az3a1
not modelled 100.0 55
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
29c2vu5A_
not modelled 100.0 52
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of pndk from bacillus anthracis
30d1wkja1
not modelled 100.0 59
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
31c5iolC_
not modelled 100.0 43
PDB header:transferase
Chain: C: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of nucleoside diphosphate kinase from schistosoma2 mansoni
32d2dyaa1
not modelled 100.0 57
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
33c4di6F_
not modelled 100.0 43
PDB header:transferase
Chain: F: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of nucleoside-diphosphate kinase from borrelia2 burgdorferi
34d1nsqa_
not modelled 100.0 46
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
35d1xqia1
not modelled 100.0 47
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
36d2b8qa1
not modelled 100.0 46
Fold:Ferredoxin-like
Superfamily:Nucleoside diphosphate kinase, NDK
Family:Nucleoside diphosphate kinase, NDK
37c2az1B_
not modelled 100.0 52
PDB header:transferase
Chain: B: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: structure of a halophilic nucleoside diphosphate kinase from2 halobacterium salinarum
38c3b6bF_
not modelled 100.0 46
PDB header:transferase
Chain: F: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of acanthamoeba polyphaga mimivirus2 nucleoside diphosphate kinase complexed with dgdp
39c3b54A_
not modelled 100.0 46
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: saccharomyces cerevisiae nucleoside diphosphate kinase
40c5x00A_
not modelled 100.0 56
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: nucleoside diphosphate kinase from vibrio cholerae is a thermolabile2 type ii tetramer
41c3r9lA_
not modelled 100.0 50
PDB header:transferase
Chain: A: PDB Molecule:nucleoside diphosphate kinase;
PDBTitle: crystal structure of nucleoside diphosphate kinase from giardia2 lamblia featuring a disordered dinucleotide binding site
42c2bx6A_
not modelled 98.1 19
PDB header:transduction protein
Chain: A: PDB Molecule:xrp2 protein;
PDBTitle: crystal structure of the human retinitis pigmentosa2 protein 2 (rp2)
43c3p04A_
not modelled 41.9 18
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized bcr;
PDBTitle: crystal structure of the bcr protein from corynebacterium glutamicum.2 northeast structural genomics consortium target cgr8
44c3bqsB_
not modelled 35.7 12
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an uncharacterized protein from2 listeria monocytogenes, trigonal form
45c1y7pB_
not modelled 26.1 22
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein af1403;
PDBTitle: 1.9 a crystal structure of a protein of unknown function2 af1403 from archaeoglobus fulgidus, probable metabolic3 regulator
46d2fi0a1
not modelled 20.8 18
Fold:SP0561-like
Superfamily:SP0561-like
Family:SP0561-like
47c5xv8A_
not modelled 12.1 36
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
48c3zihB_
not modelled 11.3 19
PDB header:cell cycle
Chain: B: PDB Molecule:cell division protein sepf;
PDBTitle: bacillus subtilis sepf, c-terminal domain
49c4otmB_
not modelled 10.9 15
PDB header:transferase
Chain: B: PDB Molecule:serine/threonine-protein kinase gcn2;
PDBTitle: crystal structure of the c-terminal domain from yeast gcn2
50d1ul7a_
not modelled 10.1 22
Fold:TBP-like
Superfamily:KA1-like
Family:Kinase associated domain 1, KA1
51c6qb7A_
not modelled 10.0 9
PDB header:signaling protein
Chain: A: PDB Molecule:btb/poz domain-containing protein kctd16;
PDBTitle: structure of the h1 domain of human kctd16
52d1fmfa_
not modelled 9.8 8
Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
53c5wjdA_
not modelled 9.8 13
PDB header:transferase
Chain: A: PDB Molecule:cg8481, isoform b;
PDBTitle: crystal structure of naa80 bound to acetyl-coa
54c5cupB_
not modelled 9.7 17
PDB header:transferase
Chain: B: PDB Molecule:phosphate propanoyltransferase;
PDBTitle: structure of rhodopseudomonas palustris pdul - phosphate bound form
55d1kvka2
not modelled 9.2 13
Fold:Ferredoxin-like
Superfamily:GHMP Kinase, C-terminal domain
Family:Mevalonate kinase
56d1whza_
not modelled 9.0 18
Fold:dsRBD-like
Superfamily:YcfA/nrd intein domain
Family:YcfA-like
57c6m8sM_
not modelled 8.7 9
PDB header:signaling protein
Chain: M: PDB Molecule:btb/poz domain-containing protein kctd12;
PDBTitle: crystal structure of the kctd12 h1 domain in complex with gbeta1gamma22 subunits
58c5tdyC_
not modelled 8.6 33
PDB header:motor protein
Chain: C: PDB Molecule:flagellar m-ring protein;
PDBTitle: structure of cofolded flifc:flign complex from thermotoga maritima
59c5by4A_
not modelled 8.5 17
PDB header:protein transport
Chain: A: PDB Molecule:protein tolr;
PDBTitle: structure and function of the escherichia coli tol-pal stator protein2 tolr
60c3mgjA_
not modelled 8.0 17
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein mj1480;
PDBTitle: crystal structure of the saccharop_dh_n domain of mj1480 protein from2 methanococcus jannaschii. northeast structural genomics consortium3 target mjr83a.
61d2o0qa1
not modelled 7.9 47
Fold:ADP-ribosylation
Superfamily:ADP-ribosylation
Family:CC0527-like
62c3zvrA_
not modelled 7.8 33
PDB header:hydrolase
Chain: A: PDB Molecule:dynamin-1;
PDBTitle: crystal structure of dynamin
63c5zbjA_
not modelled 7.7 18
PDB header:hydrolase
Chain: A: PDB Molecule:putative cytokinin riboside 5'-monophosphate
PDBTitle: crystal strcuture of type-i log from pseudomonas aeruginosa pao1
64d1ufza_
not modelled 7.6 14
Fold:RuvA C-terminal domain-like
Superfamily:HBS1-like domain
Family:HBS1-like domain
65d1wdcc_
not modelled 7.6 22
Fold:EF Hand-like
Superfamily:EF-hand
Family:Calmodulin-like
66c5i0cA_
not modelled 7.6 17
PDB header:hydrolase
Chain: A: PDB Molecule:uncharacterized protein yjdj;
PDBTitle: crystal structure of predicted acyltransferase yjdj with acyl-coa n-2 acyltransferase domain from escherichia coli str. k-12
67c4c26A_
not modelled 7.6 18
PDB header:toxin
Chain: A: PDB Molecule:hica;
PDBTitle: solution nmr structure of the hica toxin from burkholderia2 pseudomallei
68c4p4sA_
not modelled 7.4 17
PDB header:antiviral protein/hydrolase
Chain: A: PDB Molecule:interferon-induced gtp-binding protein mx1;
PDBTitle: gmppcp-bound stalkless-mxa
69c3ifuA_
not modelled 7.3 42
PDB header:transcription
Chain: A: PDB Molecule:non-structural protein;
PDBTitle: the crystal structure of porcine reproductive and respiratory syndrome2 virus (prrsv) leader protease nsp1
70d2fgca2
not modelled 7.2 19
Fold:Ferredoxin-like
Superfamily:ACT-like
Family:IlvH-like
71c5j6bB_
not modelled 7.1 17
PDB header:oxidoreductase
Chain: B: PDB Molecule:aldehyde dehydrogenase;
PDBTitle: crystal structure of aldehyde dehydrogenase from burkholderia2 thailandensis in covelent complex with nadph
72c2m7eA_
not modelled 7.1 38
PDB header:calmodulin-binding protein
Chain: A: PDB Molecule:calcium-transporting atpase 2, plasma membrane-type;
PDBTitle: solution structure of the calmodulin-binding domain of plant calcium-2 atpase aca2
73c3ceuA_
not modelled 7.1 17
PDB header:transferase
Chain: A: PDB Molecule:thiamine phosphate pyrophosphorylase;
PDBTitle: crystal structure of thiamine phosphate pyrophosphorylase (bt_0647)2 from bacteroides thetaiotaomicron. northeast structural genomics3 consortium target btr268
74d2f06a1
not modelled 7.1 19
Fold:Ferredoxin-like
Superfamily:ACT-like
Family:BT0572-like
75c3j3bF_
not modelled 6.7 10
PDB header:ribosome
Chain: F: PDB Molecule:60s ribosomal protein l7;
PDBTitle: structure of the human 60s ribosomal proteins
76c4whjA_
not modelled 6.5 19
PDB header:antiviral protein, hydrolase
Chain: A: PDB Molecule:interferon-induced gtp-binding protein mx2;
PDBTitle: myxovirus resistance protein 2 (mxb)
77c6ff2A_
not modelled 6.4 13
PDB header:chaperone
Chain: A: PDB Molecule:copper chaperone copz;
PDBTitle: copz metallochaperone
78c6fo1G_
not modelled 6.1 7
PDB header:chaperone
Chain: G: PDB Molecule:rna polymerase ii-associated protein 3;
PDBTitle: human r2tp subcomplex containing 1 ruvbl1-ruvbl2 hexamer bound to 12 rbd domain from rpap3.
79c3pf6C_
not modelled 6.0 44
PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:hypothetical protein pp-luz7_gp033;
PDBTitle: the structure of uncharacterized protein pp-luz7_gp033 from2 pseudomonas phage luz7.
80d1t35a_
not modelled 5.7 20
Fold:MCP/YpsA-like
Superfamily:MCP/YpsA-like
Family:MoCo carrier protein-like
81c5a3fD_
not modelled 5.7 33
PDB header:endocytosis
Chain: D: PDB Molecule:dynamin 3;
PDBTitle: crystal structure of the dynamin tetramer
82d2atra1
not modelled 5.7 13
Fold:Acyl-CoA N-acyltransferases (Nat)
Superfamily:Acyl-CoA N-acyltransferases (Nat)
Family:N-acetyl transferase, NAT
83c3e8sA_
not modelled 5.6 15
PDB header:transferase
Chain: A: PDB Molecule:putative sam dependent methyltransferase;
PDBTitle: crystal structure of putative sam dependent methyltransferase in2 complex with sah (np_744700.1) from pseudomonas putida kt2440 at 2.103 a resolution
84c6ql4B_
not modelled 5.5 38
PDB header:motor protein
Chain: B: PDB Molecule:putative mitochondrial dynamin protein;
PDBTitle: crystal structure of nucleotide-free mgm1
85c3grzA_
not modelled 5.5 19
PDB header:transferase
Chain: A: PDB Molecule:ribosomal protein l11 methyltransferase;
PDBTitle: crystal structure of ribosomal protein l11 methylase from2 lactobacillus delbrueckii subsp. bulgaricus
86c3w7bB_
not modelled 5.2 22
PDB header:hydrolase
Chain: B: PDB Molecule:formyltetrahydrofolate deformylase;
PDBTitle: crystal structure of formyltetrahydrofolate deformylase from thermus2 thermophilus hb8

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