Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2227_(-)_2500939_2501640
DateMon Aug 5 13:25:36 BST 2019
Unique Job IDa55e2ec291b83d4d
SequenceVGQTRRLRRL ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:30.117 Y:40.882 Z:39.003
Model (left) based on template c3dkqB_
Top template information
PDB header:oxidoreductase
Chain: B: PDB Molecule:pkhd-type hydroxylase sbal_3634;
PDBTitle: crystal structure of putative oxygenase (yp_001051978.1) from2 shewanella baltica os155 at 2.26 a resolution
Confidence and coverage
Confidence: 98.8% Coverage: 34%
80 residues ( 34% of your sequence) have been modelled with 98.8% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
162 residues ( 70%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
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
1c3dkqB_
98.8 30
PDB header:oxidoreductase
Chain: B: PDB Molecule:pkhd-type hydroxylase sbal_3634;
PDBTitle: crystal structure of putative oxygenase (yp_001051978.1) from2 shewanella baltica os155 at 2.26 a resolution
2c6f0wA_
98.3 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:hif prolyl hydroxylase;
PDBTitle: prolyl hydroxylase in complex with hypoxia inducible factor oxygen2 degradation domain peptide fragment from trichoplax adhaerens
3c4iw3J_
98.1 18
PDB header:metal binding protein/translation
Chain: J: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of a pseudomonas putida prolyl-4-hydroxylase (p4h)2 in complex with elongation factor tu (ef-tu)
4c5c5tB_
98.1 19
PDB header:oxidoreductase
Chain: B: PDB Molecule:prolyl 4-hydroxylase;
PDBTitle: the crystal structure of viral collagen prolyl hydroxylase vcph from2 paramecium bursaria chlorella virus-1 - 2og complex
5c2jijA_
97.9 23
PDB header:hydrolase
Chain: A: PDB Molecule:prolyl-4 hydroxylase;
PDBTitle: crystal structure of the apo form of chlamydomonas2 reinhardtii prolyl-4 hydroxylase type i
6c2g19A_
97.8 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:egl nine homolog 1;
PDBTitle: cellular oxygen sensing: crystal structure of hypoxia-inducible factor2 prolyl hydroxylase (phd2)
7c6ax6B_
97.7 20
PDB header:oxidoreductase
Chain: B: PDB Molecule:procollagen lysyl hydroxylase and glycosyltransferase;
PDBTitle: the crystal structure of a lysyl hydroxylase from acanthamoeba2 polyphaga mimivirus
8c3itqB_
97.5 19
PDB header:oxidoreductase
Chain: B: PDB Molecule:prolyl 4-hydroxylase, alpha subunit domain protein;
PDBTitle: crystal structure of a prolyl 4-hydroxylase from bacillus anthracis
9c3ouiA_
96.8 17
PDB header:oxidoreductase
Chain: A: PDB Molecule:egl nine homolog 1;
PDBTitle: phd2-r717 with 40787422
10c6fxyA_
96.5 21
PDB header:transferase
Chain: A: PDB Molecule:procollagen-lysine,2-oxoglutarate 5-dioxygenase 3;
PDBTitle: crystal structure of full-length human lysyl hydroxylase lh3 -2 cocrystal with fe2+, mn2+, udp-gal - structure from long-wavelength3 s-sad
11c6n1fD_
96.5 27
PDB header:oxidoreductase
Chain: D: PDB Molecule:oxidoreductase, 2og-fe(ii) oxygenase family;
PDBTitle: crystal structure of oxidoreductase, 2og-fe(ii) oxygenase family, from2 burkholderia pseudomallei
12d2fdia1
94.8 18
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:AlkB-like
13c4nhyC_
93.8 20
PDB header:oxidoreductase/oxidoreductase inhibitor
Chain: C: PDB Molecule:2-oxoglutarate and iron-dependent oxygenase domain-
PDBTitle: crystal structure of human ogfod1, 2-oxoglutarate and iron-dependent2 oxygenase domain containing 1, in complex with pyridine-2,4-3 dicarboxylic acid (2,4-pdca)
14c2iuwA_
93.4 12
PDB header:oxidoreductase
Chain: A: PDB Molecule:alkylated repair protein alkb homolog 3;
PDBTitle: crystal structure of human abh3 in complex with iron ion and 2-2 oxoglutarate
15d2iuwa1
93.2 14
Fold:Double-stranded beta-helix
Superfamily:Clavaminate synthase-like
Family:AlkB-like
16c6iuqA_
91.4 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:prolyl 4-hydroxylase;
PDBTitle: crystal structure and expression patterns of prolyl 4-hydroxylases2 from phytophthora capsici
17c3kt4A_
87.6 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:pkhd-type hydroxylase tpa1;
PDBTitle: crystal structure of tpa1 from saccharomyces cerevisiae, a component2 of the messenger ribonucleoprotein complex
18c4xaaA_
87.1 25
PDB header:oxidoreductase
Chain: A: PDB Molecule:putative oxygenase;
PDBTitle: crystal structure of avio1 from streptomyces viridochromogenes tue57
19c4qkbA_
87.0 19
PDB header:oxidoreductase
Chain: A: PDB Molecule:alpha-ketoglutarate-dependent dioxygenase alkb homolog 7,
PDBTitle: crystal structure of seleno-methionine labelled human alkbh7 in2 complex with alpha-ketoglutarate and mn(ii)
20c4nj4A_
86.4 15
PDB header:oxidoreductase/oxidoreductase inhibitor
Chain: A: PDB Molecule:rna demethylase alkbh5;
PDBTitle: crystal structure of human alkbh5
21c3bvcA_
not modelled 79.3 15
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein ism_01780;
PDBTitle: crystal structure of uncharacterized protein ism_01780 from2 roseovarius nubinhibens ism
22c5xoiA_
not modelled 78.2 20
PDB header:oxidoreductase
Chain: A: PDB Molecule:oxidoreductase, 2og-fe oxygenase family protein, putative,
PDBTitle: the structure of osalkbh1
23c5ylbA_
not modelled 76.8 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:uncharacterized protein p8a3.02c;
PDBTitle: crystal structure of ofd2 from schizosaccharomyces pombe at 1.80 a
24c3thtB_
not modelled 76.2 25
PDB header:oxidoreductase
Chain: B: PDB Molecule:alkylated dna repair protein alkb homolog 8;
PDBTitle: crystal structure and rna binding properties of the rrm/alkb domains2 in human abh8, an enzyme catalyzing trna hypermodification, northeast3 structural genomics consortium target hr5601b
25c5erlD_
not modelled 63.1 20
PDB header:isomerase
Chain: D: PDB Molecule:snon,snon;
PDBTitle: crystal structure of the epimerase snon in complex with ni2+,2 succinate and nogalamycin ro
26c3gjbA_
not modelled 55.2 24
PDB header:biosynthetic protein
Chain: A: PDB Molecule:cytc3;
PDBTitle: cytc3 with fe(ii) and alpha-ketoglutarate
27c3mguA_
not modelled 53.2 15
PDB header:oxidoreductase
Chain: A: PDB Molecule:pkhd-type hydroxylase tpa1;
PDBTitle: structure of s. cerevisiae tpa1 protein, a proline hydroxylase2 modifying ribosomal protein rps23
28c3btzA_
not modelled 46.7 16
PDB header:oxidoreductase/dna
Chain: A: PDB Molecule:alpha-ketoglutarate-dependent dioxygenase alkb homolog 2;
PDBTitle: crystal structure of human abh2 cross-linked to dsdna
29c5aycA_
not modelled 42.0 19
PDB header:transferase
Chain: A: PDB Molecule:4-o-beta-d-mannosyl-d-glucose phosphorylase;
PDBTitle: crystal structure of ruminococcus albus 4-o-beta-d-mannosyl-d-glucose2 phosphorylase (ramp1) in complexes with sulfate and 4-o-beta-d-3 mannosyl-d-glucose
30c3watA_
not modelled 23.0 19
PDB header:transferase
Chain: A: PDB Molecule:4-o-beta-d-mannosyl-d-glucose phosphorylase;
PDBTitle: crystal structure of 4-o-beta-d-mannosyl-d-glucose phosphorylase mgp2 complexed with man+glc
31d1r8ja2
not modelled 17.9 22
Fold:Flavodoxin-like
Superfamily:CheY-like
Family:N-terminal domain of the circadian clock protein KaiA
32c4lt5A_
not modelled 16.6 21
PDB header:oxidoreductase/dna
Chain: A: PDB Molecule:naegleria tet-like dioxygenase;
PDBTitle: structure of a naegleria tet-like dioxygenase in complex with 5-2 methylcytosine dna
33d2eiaa1
not modelled 16.1 16
Fold:Acyl carrier protein-like
Superfamily:Retrovirus capsid dimerization domain-like
Family:Retrovirus capsid protein C-terminal domain
34c4xabA_
not modelled 16.0 18
PDB header:oxidoreductase
Chain: A: PDB Molecule:evdo2;
PDBTitle: crystal structure of evdo2 from micromonospora carbonacea var.2 aurantiaca
35c4p29A_
not modelled 15.6 13
PDB header:protein binding
Chain: A: PDB Molecule:lpoa;
PDBTitle: crystal structure of the lpoa n-terminal domain from haemophilus2 influenzae
36d2dsma1
not modelled 13.8 29
Fold:YqaI-like
Superfamily:YqaI-like
Family:YqaI-like
37c5oetB_
not modelled 13.0 16
PDB header:ligase
Chain: B: PDB Molecule:glutathione synthetase-like effector 30 (gpa-gss30-apo);
PDBTitle: the structure of a glutathione synthetase like-effector (gss30) from2 globodera pallida in apoform.
38c4xvvB_
not modelled 12.8 28
PDB header:chaperone
Chain: B: PDB Molecule:acid stress chaperone hdeb;
PDBTitle: crystal structure of an acid stress chaperone hdeb (kpn_03484) from2 klebsiella pneumoniae subsp. pneumoniae mgh 78578 at 1.70 a3 resolution
39c1xexB_
not modelled 12.7 14
PDB header:cell cycle
Chain: B: PDB Molecule:smc protein;
PDBTitle: structural biochemistry of atp-driven dimerization and dna2 stimulated activation of smc atpases.
40c2rrnA_
not modelled 11.8 27
PDB header:protein transport
Chain: A: PDB Molecule:probable secdf protein-export membrane protein;
PDBTitle: solution structure of secdf periplasmic domain p4
41c5zm4B_
not modelled 11.4 16
PDB header:oxidoreductase
Chain: B: PDB Molecule:dioxygenase anda;
PDBTitle: fe(ii)/(alpha)ketoglutarate-dependent dioxygenase anda with2 preandiloid c
42c3j3ah_
not modelled 10.3 29
PDB header:ribosome
Chain: H: PDB Molecule:40s ribosomal protein s7;
PDBTitle: structure of the human 40s ribosomal proteins
43c5e6wA_
not modelled 10.2 14
PDB header:cell adhesion
Chain: A: PDB Molecule:integrin beta-2;
PDBTitle: re-refinement of the crystal structure of the plexin-semaphorin-2 integrin domain/hybrid domain/i-egf1 segment from the human integrin3 b2 subunit
44d2bzea1
not modelled 9.6 17
Fold:SH3-like barrel
Superfamily:Plus3-like
Family:Plus3
45c3gzfD_
not modelled 9.2 29
PDB header:viral protein
Chain: D: PDB Molecule:replicase polyprotein 1ab;
PDBTitle: structure of the c-terminal domain of nsp4 from feline coronavirus
46c5gj9A_
not modelled 9.2 14
PDB header:oxidoreductase
Chain: A: PDB Molecule:1-aminocyclopropane-1-carboxylate oxidase 2;
PDBTitle: crystal structure of arabidopsis thaliana aco2 in complex with poa
47c5j92B_
not modelled 9.0 12
PDB header:oxidoreductase
Chain: B: PDB Molecule:putative alpha kg dependent 2,4-d dioxygenase;
PDBTitle: crystal structure of a putative alpha-ketoglutarate dependent 2,4-d2 dioxygenase from burkholderia xenovorans
48d1jswa_
not modelled 8.8 31
Fold:L-aspartase-like
Superfamily:L-aspartase-like
Family:L-aspartase/fumarase
49c5mg3F_
not modelled 8.4 27
PDB header:chaperone
Chain: F: PDB Molecule:protein translocase subunit secf;
PDBTitle: em fitted model of bacterial holo-translocon
50d2pw6a1
not modelled 8.3 17
Fold:Phosphorylase/hydrolase-like
Superfamily:LigB-like
Family:LigB-like
51d1wgya_
not modelled 8.3 16
Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:Ras-binding domain, RBD
52d1vi2a2
not modelled 8.3 17
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Shikimate dehydrogenase-like
53c2d40C_
not modelled 8.3 10
PDB header:oxidoreductase
Chain: C: PDB Molecule:putative gentisate 1,2-dioxygenase;
PDBTitle: crystal structure of z3393 from escherichia coli o157:h7
54d1vh0a_
not modelled 8.2 26
Fold:alpha/beta knot
Superfamily:alpha/beta knot
Family:YbeA-like
55c5u7gB_
not modelled 8.2 29
PDB header:transferase
Chain: B: PDB Molecule:creb-binding protein;
PDBTitle: crystal structure of the catalytic core of cbp
56c3brgC_
not modelled 8.1 19
PDB header:dna binding protein/dna
Chain: C: PDB Molecule:recombining binding protein suppressor of hairless;
PDBTitle: csl (rbp-jk) bound to dna
57d1s9ca1
not modelled 8.1 60
Fold:Thioesterase/thiol ester dehydrase-isomerase
Superfamily:Thioesterase/thiol ester dehydrase-isomerase
Family:MaoC-like
58c1eiaA_
not modelled 7.7 24
PDB header:viral protein
Chain: A: PDB Molecule:eiav capsid protein p26;
PDBTitle: x-ray crystal structure of equine infectious anemia virus2 (eiav) capsid protein p26
59c4bhwB_
not modelled 7.4 29
PDB header:transferase
Chain: B: PDB Molecule:histone acetyltransferase p300;
PDBTitle: structural basis for autoinhibition of the acetyltransferase activity2 of p300
60c3biyA_
not modelled 7.3 29
PDB header:transferase
Chain: A: PDB Molecule:histone acetyltransferase p300;
PDBTitle: crystal structure of p300 histone acetyltransferase domain in complex2 with a bisubstrate inhibitor, lys-coa
61d1nvta2
not modelled 7.2 17
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Shikimate dehydrogenase-like
62c5b58T_
not modelled 7.1 33
PDB header:metal binding protein
Chain: T: PDB Molecule:putative hemin transport system, substrate-binding protein;
PDBTitle: inward-facing conformation of abc heme importer bhuuv in complex with2 periplasmic heme binding protein bhut from burkholderia cenocepacia
63c2k1cA_
not modelled 7.1 22
PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:capsid protein p24;
PDBTitle: nmr structure of the c-terminal domain of hiv-1 capsid in complex with2 peptide inhibitor
64c6ff48_
not modelled 6.9 29
PDB header:splicing
Chain: 8: PDB Molecule:splicing factor 3b subunit 2;
PDBTitle: human bact spliceosome core structure
65c2mhkA_
not modelled 6.9 20
PDB header:protein binding
Chain: A: PDB Molecule:penicillin-binding protein activator lpoa;
PDBTitle: e. coli lpoa n-terminal domain
66d1w6ka2
not modelled 6.8 21
Fold:alpha/alpha toroid
Superfamily:Terpenoid cyclases/Protein prenyltransferases
Family:Terpene synthases
67c3hsbB_
not modelled 6.8 24
PDB header:rna binding protein/rna
Chain: B: PDB Molecule:protein hfq;
PDBTitle: crystal structure of ymah (hfq) from bacillus subtilis in complex with2 an rna aptamer
68c3o14B_
not modelled 6.6 21
PDB header:gene regulation
Chain: B: PDB Molecule:anti-ecfsigma factor, chrr;
PDBTitle: crystal structure of an anti-ecfsigma factor, chrr (maqu_0586) from2 marinobacter aquaeolei vt8 at 1.70 a resolution
69c2xuvB_
not modelled 6.6 35
PDB header:unknown function
Chain: B: PDB Molecule:hdeb;
PDBTitle: the structure of hdeb
70c4mdyA_
not modelled 6.5 18
PDB header:transport protein
Chain: A: PDB Molecule:periplasmic binding protein;
PDBTitle: crystal structure of periplasmic solute binding protein from2 mycobacterium smegmatis str. mc2 155
71c6hwiA_
not modelled 6.5 18
PDB header:viral protein
Chain: A: PDB Molecule:gag-pro-pol polyprotein;
PDBTitle: immature m-pmv capsid hexamer structure in intact virus particles
72d1npya2
not modelled 6.5 17
Fold:Aminoacid dehydrogenase-like, N-terminal domain
Superfamily:Aminoacid dehydrogenase-like, N-terminal domain
Family:Shikimate dehydrogenase-like
73c4cbzA_
not modelled 6.4 15
PDB header:signaling protein
Chain: A: PDB Molecule:protein jagged-1;
PDBTitle: notch ligand, jagged-1, contains an n-terminal c2 domain
74d1pn2a2
not modelled 6.2 50
Fold:Thioesterase/thiol ester dehydrase-isomerase
Superfamily:Thioesterase/thiol ester dehydrase-isomerase
Family:MaoC-like
75d3brda1
not modelled 6.2 30
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain
76d1zeea1
not modelled 6.0 16
Fold:Indolic compounds 2,3-dioxygenase-like
Superfamily:Indolic compounds 2,3-dioxygenase-like
Family:Indoleamine 2,3-dioxygenase-like
77d2d40a1
not modelled 5.8 11
Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:Gentisate 1,2-dioxygenase-like
78d1kq1a_
not modelled 5.7 43
Fold:Sm-like fold
Superfamily:Sm-like ribonucleoproteins
Family:Pleiotropic translational regulator Hfq
79c2eo2A_
not modelled 5.6 37
PDB header:oxidoreductase
Chain: A: PDB Molecule:adult male hypothalamus cdna, riken full-length
PDBTitle: solution structure of the insertion region (510-573) of2 fthfs domain from mouse methylenetetrahydrofolate3 dehydrogenase (nadp+ dependent) 1-like protein
80c4p9gA_
not modelled 5.5 11
PDB header:oxidoreductase
Chain: A: PDB Molecule:2,4'-dihydroxyacetophenone dioxygenase;
PDBTitle: structure of the 2,4'-dihydroxyacetophenone dioxygenase from2 alcaligenes sp.
81d1zvfa1
not modelled 5.5 17
Fold:Double-stranded beta-helix
Superfamily:RmlC-like cupins
Family:3-hydroxyanthranilic acid dioxygenase-like
82c1x65A_
not modelled 5.4 22
PDB header:rna binding protein
Chain: A: PDB Molecule:unr protein;
PDBTitle: solution structure of the third cold-shock domain of the human2 kiaa0885 protein (unr protein)
83c3fbtB_
not modelled 5.2 13
PDB header:oxidoreductase, lyase
Chain: B: PDB Molecule:chorismate mutase and shikimate 5-dehydrogenase fusion
PDBTitle: crystal structure of a chorismate mutase/shikimate 5-dehydrogenase2 fusion protein from clostridium acetobutylicum
84c4y91L_
not modelled 5.2 36
PDB header:rna binding protein/rna
Chain: L: PDB Molecule:rna-binding protein hfq;
PDBTitle: crystal structure of a thermotoga maritima hfq homolog
85c4hgvC_
not modelled 5.1 37
PDB header:lyase
Chain: C: PDB Molecule:fumarate hydratase class ii;
PDBTitle: crystal structure of a fumarate hydratase
86c5xzsA_
not modelled 5.1 29
PDB header:transcription
Chain: A: PDB Molecule:histone acetyltransferase p300;
PDBTitle: cryo-em structure of p300
87d1u1sa1
not modelled 5.1 27
Fold:Sm-like fold
Superfamily:Sm-like ribonucleoproteins
Family:Pleiotropic translational regulator Hfq
88c2zxkB_
not modelled 5.1 31
PDB header:oxidoreductase
Chain: B: PDB Molecule:red chlorophyll catabolite reductase,
PDBTitle: crystal structure of semet-red chlorophyll catabolite2 reductase
89c3echC_
not modelled 5.1 63
PDB header:transcription, transcription regulation
Chain: C: PDB Molecule:25-mer fragment of protein armr;
PDBTitle: the marr-family repressor mexr in complex with its antirepressor armr
90c2ba1B_
not modelled 5.1 23
PDB header:rna binding protein
Chain: B: PDB Molecule:archaeal exosome rna binding protein csl4;
PDBTitle: archaeal exosome core
91c1pn2D_
not modelled 5.0 50
PDB header:lyase
Chain: D: PDB Molecule:peroxisomal hydratase-dehydrogenase-epimerase;
PDBTitle: crystal structure analysis of the selenomethionine labelled2 2-enoyl-coa hydratase 2 domain of candida tropicalis3 multifunctional enzyme type 2

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