Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD3043c_(ctaD)_3403211_3404932
DateThu Aug 8 16:20:21 BST 2019
Unique Job IDf79bcf47bdfeaf9a
SequenceLTAEAPPLGE ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:49.051 Y:59.217 Z:76.378
Model (left) based on template c6hwhQ_
Top template information
PDB header:electron transport
Chain: Q: PDB Molecule:cytochrome c oxidase subunit 1;
PDBTitle: structure of a functional obligate respiratory supercomplex from2 mycobacterium smegmatis
Confidence and coverage
Confidence:100.0% Coverage: 95%
547 residues ( 95% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
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
1c6hwhQ_
100.0 86
PDB header:electron transport
Chain: Q: PDB Molecule:cytochrome c oxidase subunit 1;
PDBTitle: structure of a functional obligate respiratory supercomplex from2 mycobacterium smegmatis
2c1m56G_
100.0 47
PDB header:oxidoreductase
Chain: G: PDB Molecule:cytochrome c oxidase;
PDBTitle: structure of cytochrome c oxidase from rhodobactor2 sphaeroides (wild type)
3d3dtua1
100.0 47
Fold:Cytochrome c oxidase subunit I-like
Superfamily:Cytochrome c oxidase subunit I-like
Family:Cytochrome c oxidase subunit I-like
4c2yevA_
100.0 44
PDB header:electron transport
Chain: A: PDB Molecule:cytochrome c oxidase polypeptide i+iii;
PDBTitle: structure of caa3-type cytochrome oxidase
5c6hu9m_
100.0 41
PDB header:oxidoreductase/electron transport
Chain: M: PDB Molecule:cytochrome b-c1 complex subunit 2, mitochondrial;
PDBTitle: iii2-iv2 mitochondrial respiratory supercomplex from s. cerevisiae
6d1v54a_
100.0 41
Fold:Cytochrome c oxidase subunit I-like
Superfamily:Cytochrome c oxidase subunit I-like
Family:Cytochrome c oxidase subunit I-like
7d1ar1a_
100.0 47
Fold:Cytochrome c oxidase subunit I-like
Superfamily:Cytochrome c oxidase subunit I-like
Family:Cytochrome c oxidase subunit I-like
8d1ffta_
100.0 46
Fold:Cytochrome c oxidase subunit I-like
Superfamily:Cytochrome c oxidase subunit I-like
Family:Cytochrome c oxidase subunit I-like
9c1fftF_
100.0 46
PDB header:oxidoreductase
Chain: F: PDB Molecule:ubiquinol oxidase;
PDBTitle: the structure of ubiquinol oxidase from escherichia coli
10c3eh4A_
100.0 21
PDB header:oxidoreductase
Chain: A: PDB Molecule:cytochrome c oxidase subunit 1;
PDBTitle: structure of the reduced form of cytochrome ba3 oxidase from thermus2 thermophilus
11d1xmea1
100.0 21
Fold:Cytochrome c oxidase subunit I-like
Superfamily:Cytochrome c oxidase subunit I-like
Family:Cytochrome c oxidase subunit I-like
12c3mk7K_
100.0 17
PDB header:oxidoreductase
Chain: K: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit n;
PDBTitle: the structure of cbb3 cytochrome oxidase
13c3o0rB_
100.0 16
PDB header:immune system/oxidoreductase
Chain: B: PDB Molecule:nitric oxide reductase subunit b;
PDBTitle: crystal structure of nitric oxide reductase from pseudomonas2 aeruginosa in complex with antibody fragment
14c4xydA_
100.0 16
PDB header:oxidoreductase
Chain: A: PDB Molecule:nitric-oxide reductase subunit b;
PDBTitle: nitric oxide reductase from roseobacter denitrificans (rdnor)
15c3aygA_
100.0 14
PDB header:oxidoreductase
Chain: A: PDB Molecule:nitric oxide reductase;
PDBTitle: crystal structure of nitric oxide reductase complex with hqno
16c6elhA_
100.0 14
PDB header:oxidoreductase
Chain: A: PDB Molecule:nitric-oxide reductase;
PDBTitle: low resolution structure of neisseria meningitidis qnor
17c5ir6A_
81.5 14
PDB header:oxidoreductase
Chain: A: PDB Molecule:bd-type quinol oxidase subunit i;
PDBTitle: the structure of bd oxidase from geobacillus thermodenitrificans
18c5z62N_
56.7 28
PDB header:electron transport
Chain: N: PDB Molecule:cytochrome c oxidase subunit ndufa4;
PDBTitle: structure of human cytochrome c oxidase
19c1fftG_
50.3 12
PDB header:oxidoreductase
Chain: G: PDB Molecule:ubiquinol oxidase;
PDBTitle: the structure of ubiquinol oxidase from escherichia coli
20c6g7oA_
50.2 16
PDB header:membrane protein
Chain: A: PDB Molecule:alkaline ceramidase 3,soluble cytochrome b562;
PDBTitle: crystal structure of human alkaline ceramidase 3 (acer3) at 2.72 angstrom resolution
21c5xgrF_
not modelled 46.4 40
PDB header:viral protein
Chain: F: PDB Molecule:spike protein s1;
PDBTitle: structure of the s1 subunit c-terminal domain from bat-derived2 coronavirus hku5 spike protein
22c6eznH_
not modelled 44.6 14
PDB header:membrane protein
Chain: H: PDB Molecule:dolichyl-diphosphooligosaccharide--protein
PDBTitle: cryo-em structure of the yeast oligosaccharyltransferase (ost) complex
23c4qzvB_
not modelled 44.1 27
PDB header:hydrolase/viral protein
Chain: B: PDB Molecule:spike protein s1;
PDBTitle: bat-derived coronavirus hku4 uses mers-cov receptor human cd26 for2 cell entry
24c6humO_
not modelled 41.3 23
PDB header:proton transport
Chain: O: PDB Molecule:nad(p)h-quinone oxidoreductase subunit o;
PDBTitle: structure of the photosynthetic complex i from thermosynechococcus2 elongatus
25c2yevB_
not modelled 39.6 14
PDB header:electron transport
Chain: B: PDB Molecule:cytochrome c oxidase subunit 2;
PDBTitle: structure of caa3-type cytochrome oxidase
26c4kqzA_
not modelled 38.6 27
PDB header:viral protein
Chain: A: PDB Molecule:s protein;
PDBTitle: structure of the receptor binding domain (rbd) of mers-cov spike
27d1rzhh2
not modelled 31.5 44
Fold:Single transmembrane helix
Superfamily:Photosystem II reaction centre subunit H, transmembrane region
Family:Photosystem II reaction centre subunit H, transmembrane region
28c5zlgA_
not modelled 30.7 11
PDB header:oxidoreductase
Chain: A: PDB Molecule:cytochrome b reductase 1;
PDBTitle: human duodenal cytochrome b (dcytb) in zinc ion and ascorbate bound2 form
29c6f0kF_
not modelled 30.5 16
PDB header:membrane protein
Chain: F: PDB Molecule:actf;
PDBTitle: alternative complex iii
30d1fftb2
not modelled 30.5 10
Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
31c3ke2A_
not modelled 28.7 57
PDB header:unknown function
Chain: A: PDB Molecule:uncharacterized protein yp_928783.1;
PDBTitle: crystal structure of a duf2131 family protein (sama_2911) from2 shewanella amazonensis sb2b at 2.50 a resolution
32c3sciE_
not modelled 27.2 14
PDB header:hydrolase/viral protein
Chain: E: PDB Molecule:spike glycoprotein;
PDBTitle: crystal structure of spike protein receptor-binding domain from a2 predicted sars coronavirus human strain complexed with human receptor3 ace2
33d1eysl_
not modelled 26.9 13
Fold:Bacterial photosystem II reaction centre, L and M subunits
Superfamily:Bacterial photosystem II reaction centre, L and M subunits
Family:Bacterial photosystem II reaction centre, L and M subunits
34d2ghvc1
not modelled 26.7 13
Fold:SARS receptor-binding domain-like
Superfamily:SARS receptor-binding domain-like
Family:SARS receptor-binding domain-like
35d1ufaa1
not modelled 26.5 20
Fold:immunoglobulin/albumin-binding domain-like
Superfamily:Families 57/38 glycoside transferase middle domain
Family:AmyC C-terminal domain-like
36d1l9bh2
not modelled 25.8 43
Fold:Single transmembrane helix
Superfamily:Photosystem II reaction centre subunit H, transmembrane region
Family:Photosystem II reaction centre subunit H, transmembrane region
37c5kwbA_
not modelled 25.5 20
PDB header:viral protein
Chain: A: PDB Molecule:spike glycoprotein;
PDBTitle: crystal structure of the receptor binding domain of the spike2 glycoprotein of human betacoronavirus hku1 (hku1 1a-ctd, 1.93 angstrom, molecular replacement)
38d2b5dx1
not modelled 24.8 17
Fold:immunoglobulin/albumin-binding domain-like
Superfamily:Families 57/38 glycoside transferase middle domain
Family:AmyC C-terminal domain-like
39d1y5ic1
not modelled 24.6 18
Fold:Heme-binding four-helical bundle
Superfamily:Respiratory nitrate reductase 1 gamma chain
Family:Respiratory nitrate reductase 1 gamma chain
40c3j21g_
not modelled 24.3 25
PDB header:ribosome
Chain: G: PDB Molecule:50s ribosomal protein l7ae;
PDBTitle: promiscuous behavior of proteins in archaeal ribosomes revealed by2 cryo-em: implications for evolution of eukaryotic ribosomes (50s3 ribosomal proteins)
41d2rcrh2
not modelled 23.8 43
Fold:Single transmembrane helix
Superfamily:Photosystem II reaction centre subunit H, transmembrane region
Family:Photosystem II reaction centre subunit H, transmembrane region
42c3up6A_
not modelled 23.5 23
PDB header:cell adhesion
Chain: A: PDB Molecule:hypothetical protein bacova_04078;
PDBTitle: crystal structure of a putative cell adhesion protein (bacova_04078)2 from bacteroides ovatus atcc 8483 at 2.80 a resolution
43c6abfC_
not modelled 23.5 20
PDB header:viral protein/rna
Chain: C: PDB Molecule:polymerase pb2;
PDBTitle: structure of influenza d virus polymerase bound to vrna promoter in2 mode b conformation (class b1)
44c3p4hA_
not modelled 23.2 14
PDB header:hydrolase
Chain: A: PDB Molecule:atp-dependent dna ligase, n-terminal domain protein;
PDBTitle: structures of archaeal members of the ligd 3'-phosphoesterase dna2 repair enzyme superfamily
45c5vrhA_
not modelled 22.7 11
PDB header:transferase
Chain: A: PDB Molecule:apolipoprotein n-acyltransferase;
PDBTitle: apolipoprotein n-acyltransferase c387s active site mutant
46c6hwhL_
not modelled 22.6 11
PDB header:electron transport
Chain: L: PDB Molecule:cytochrome c oxidase subunit 2;
PDBTitle: structure of a functional obligate respiratory supercomplex from2 mycobacterium smegmatis
47c2kxqB_
not modelled 22.4 33
PDB header:protein binding
Chain: B: PDB Molecule:smad7 py motif containing peptide;
PDBTitle: solution structure of smurf2 ww2 and ww3 bound to smad7 py motif2 containing peptide
48c2djyB_
not modelled 22.4 33
PDB header:ligase/signaling protein
Chain: B: PDB Molecule:mothers against decapentaplegic homolog 7;
PDBTitle: solution structure of smurf2 ww3 domain-smad7 py peptide2 complex
49d1xmeb2
not modelled 22.4 29
Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
50c6humG_
not modelled 22.4 23
PDB header:proton transport
Chain: G: PDB Molecule:nadh dehydrogenase subunit 6;
PDBTitle: structure of the photosynthetic complex i from thermosynechococcus2 elongatus
51c5zjiO_
not modelled 22.4 29
PDB header:membrane protein
Chain: O: PDB Molecule:16kda membrane protein;
PDBTitle: structure of photosystem i supercomplex with light-harvesting2 complexes i and ii
52d2gl5a2
not modelled 22.3 12
Fold:Enolase N-terminal domain-like
Superfamily:Enolase N-terminal domain-like
Family:Enolase N-terminal domain-like
53c5x5fC_
not modelled 22.3 27
PDB header:viral protein
Chain: C: PDB Molecule:s protein;
PDBTitle: prefusion structure of mers-cov spike glycoprotein, conformation 2
54c6nbxG_
not modelled 22.2 23
PDB header:oxidoreductase
Chain: G: PDB Molecule:nadh-quinone oxidoreductase subunit j;
PDBTitle: t.elongatus ndh (data-set 2)
55c6roiC_
not modelled 22.0 14
PDB header:lipid transport
Chain: C: PDB Molecule:cell division control protein 50;
PDBTitle: cryo-em structure of the partially activated drs2p-cdc50p
56d1l2wi_
not modelled 22.0 20
Fold:Secretion chaperone-like
Superfamily:Type III secretory system chaperone-like
Family:Type III secretory system chaperone
57c5is0E_
not modelled 21.9 8
PDB header:transport protein
Chain: E: PDB Molecule:transient receptor potential cation channel subfamily v
PDBTitle: structure of trpv1 in complex with capsazepine, determined in lipid2 nanodisc
58d2djia3
not modelled 21.8 13
Fold:Thiamin diphosphate-binding fold (THDP-binding)
Superfamily:Thiamin diphosphate-binding fold (THDP-binding)
Family:Pyruvate oxidase and decarboxylase PP module
59c3rkoF_
not modelled 21.8 15
PDB header:oxidoreductase
Chain: F: PDB Molecule:nadh-quinone oxidoreductase subunit j;
PDBTitle: crystal structure of the membrane domain of respiratory complex i from2 e. coli at 3.0 angstrom resolution
60c6gcs6_
not modelled 21.4 16
PDB header:oxidoreductase
Chain: 6: PDB Molecule:nd6 subunit (nu6m);
PDBTitle: cryo-em structure of respiratory complex i from yarrowia lipolytica
61d1n7za_
not modelled 21.3 25
Fold:Baseplate structural protein gp8
Superfamily:Baseplate structural protein gp8
Family:Baseplate structural protein gp8
62c5zz9E_
not modelled 20.8 71
PDB header:protein binding
Chain: E: PDB Molecule:peptide from drebrin;
PDBTitle: crystal structure of homer2 evh1/drebrin ppxxf complex
63c3p43A_
not modelled 20.4 20
PDB header:hydrolase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: structure and activities of archaeal members of the ligd 3'2 phosphoesterase dna repair enzyme superfamily
64c5i6xA_
not modelled 20.0 12
PDB header:membrane protein
Chain: A: PDB Molecule:sodium-dependent serotonin transporter;
PDBTitle: x-ray structure of the ts3 human serotonin transporter complexed with2 paroxetine at the central site
65c4fxwB_
not modelled 20.0 38
PDB header:protein binding
Chain: B: PDB Molecule:splicing factor 1;
PDBTitle: structure of phosphorylated sf1 complex with u2af65-uhm domain
66c5y88S_
not modelled 19.9 33
PDB header:splicing
Chain: S: PDB Molecule:pre-mrna-processing factor 17;
PDBTitle: cryo-em structure of the intron-lariat spliceosome ready for2 disassembly from s.cerevisiae at 3.5 angstrom
67c5dmpA_
not modelled 19.9 11
PDB header:hydrolase
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: structure of the archaeal nhej phosphoesterase from methanocella2 paludicola.
68c3n9dA_
not modelled 19.3 11
PDB header:ligase
Chain: A: PDB Molecule:probable atp-dependent dna ligase;
PDBTitle: monoclinic structure of p. aeruginosa ligd phosphoesterase domain
69c5xu1M_
not modelled 19.2 21
PDB header:transport protein
Chain: M: PDB Molecule:abc transporter permeae;
PDBTitle: structure of a non-canonical abc transporter from streptococcus2 pneumoniae r6
70c2kncB_
not modelled 18.9 17
PDB header:cell adhesion
Chain: B: PDB Molecule:integrin beta-3;
PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex
71c3mk7F_
not modelled 18.7 20
PDB header:oxidoreductase
Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p;
PDBTitle: the structure of cbb3 cytochrome oxidase
72c2m09A_
not modelled 18.7 27
PDB header:transcription
Chain: A: PDB Molecule:splicing factor 1;
PDBTitle: structure, phosphorylation and u2af65 binding of the nterminal domain2 of splicing factor 1 during 3 splice site recognition
73c5c8jJ_
not modelled 18.6 23
PDB header:membrane protein
Chain: J: PDB Molecule:protein mj0480;
PDBTitle: a yidc-like protein in the archaeal plasma membrane
74c5hypB_
not modelled 18.4 36
PDB header:immune system
Chain: B: PDB Molecule:m28 protein;
PDBTitle: structure of human c4b-binding protein alpha cain ccp domains 1 and 22 in complex with the hypervariable region of group a streptococcus m283 protein
75c2n1pA_
not modelled 18.3 18
PDB header:viral protein
Chain: A: PDB Molecule:non-structural protein 5b, ns5b;
PDBTitle: structure of the c-terminal membrane domain of hcv ns5b protein
76c5cmyB_
not modelled 18.3 27
PDB header:protein transport
Chain: B: PDB Molecule:epsin-5;
PDBTitle: crystal structure of yeast ent5 n-terminal domain-native
77c2kxaA_
not modelled 18.2 32
PDB header:viral protein, immune system
Chain: A: PDB Molecule:haemagglutinin ha2 chain peptide;
PDBTitle: the hemagglutinin fusion peptide (h1 subtype) at ph 7.4
78c2kgnA_
not modelled 18.0 25
PDB header:signaling protein
Chain: A: PDB Molecule:protein ste5;
PDBTitle: solution structure of ste5pm24 in the zwitterionic dpc2 micelle
79d1eysh2
not modelled 18.0 28
Fold:Single transmembrane helix
Superfamily:Photosystem II reaction centre subunit H, transmembrane region
Family:Photosystem II reaction centre subunit H, transmembrane region
80c6bdtC_
not modelled 18.0 21
PDB header:hydrolase
Chain: C: PDB Molecule:calpain-3;
PDBTitle: crystal structure of human calpain-3 protease core mutant-c129s
81d2odgc1
not modelled 18.0 26
Fold:LEM/SAP HeH motif
Superfamily:LEM domain
Family:LEM domain
82d1ehkb2
not modelled 17.8 30
Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
83d1kp0a1
not modelled 17.8 25
Fold:Ribonuclease H-like motif
Superfamily:Creatinase/prolidase N-terminal domain
Family:Creatinase/prolidase N-terminal domain
84d2axtc1
not modelled 17.7 15
Fold:Photosystem II antenna protein-like
Superfamily:Photosystem II antenna protein-like
Family:Photosystem II antenna protein-like
85c2axtc_
not modelled 17.7 15
PDB header:electron transport
Chain: C: PDB Molecule:photosystem ii cp43 protein;
PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus
86c2m0gA_
not modelled 17.7 38
PDB header:splicing
Chain: A: PDB Molecule:splicing factor 1;
PDBTitle: structure, phosphorylation and u2af65 binding of the nterminal domain2 of splicing factor 1 during 3 splice site recognition
87c2rmzA_
not modelled 17.7 17
PDB header:cell adhesion
Chain: A: PDB Molecule:integrin beta-3;
PDBTitle: bicelle-embedded integrin beta3 transmembrane segment
88c2khfA_
not modelled 17.7 44
PDB header:antimicrobial protein
Chain: A: PDB Molecule:plnj;
PDBTitle: plantaricin j in dpc-micelles
89c2khgA_
not modelled 17.7 44
PDB header:antimicrobial protein
Chain: A: PDB Molecule:plnj;
PDBTitle: plantaricin j in tfe
90c4ct4C_
not modelled 17.5 30
PDB header:rna binding protein
Chain: C: PDB Molecule:ccr4-not transcription complex subunit 1;
PDBTitle: cnot1 mif4g domain - ddx6 complex
91c1k6nH_
not modelled 17.4 25
PDB header:photosynthesis
Chain: H: PDB Molecule:photosynthetic reaction center h subunit;
PDBTitle: e(l212)a,d(l213)a double mutant structure of photosynthetic reaction2 center from rhodobacter sphaeroides
92c2k4fA_
not modelled 17.2 29
PDB header:immune system, signaling protein
Chain: A: PDB Molecule:t-cell surface glycoprotein cd3 epsilon chain;
PDBTitle: mouse cd3epsilon cytoplasmic tail
93c6bmsA_
not modelled 17.2 13
PDB header:membrane protein
Chain: A: PDB Molecule:palmitoyltransferase;
PDBTitle: palmitoyltransferase structure
94c5n9yB_
not modelled 16.9 6
PDB header:membrane protein
Chain: B: PDB Molecule:zinc transport protein zntb;
PDBTitle: the full-length structure of zntb
95c6hu9u_
not modelled 16.9 19
PDB header:oxidoreductase/electron transport
Chain: U: PDB Molecule:cytochrome b-c1 complex subunit 10;
PDBTitle: iii2-iv2 mitochondrial respiratory supercomplex from s. cerevisiae
96c3chxG_
not modelled 16.9 23
PDB header:membrane protein
Chain: G: PDB Molecule:pmoc;
PDBTitle: crystal structure of methylosinus trichosporium ob3b particulate2 methane monooxygenase (pmmo)
97c5lddA_
not modelled 16.8 17
PDB header:protein transport
Chain: A: PDB Molecule:mon1;
PDBTitle: crystal structure of the heterodimeric gef mon1-ccz1 in complex with2 ypt7
98c4b8cH_
not modelled 16.7 19
PDB header:hydrolase/cell cycle
Chain: H: PDB Molecule:general negative regulator of transcription subunit 1;
PDBTitle: nuclease module of the yeast ccr4-not complex
99c3jclC_
not modelled 16.4 30
PDB header:viral protein
Chain: C: PDB Molecule:spike glycoprotein;
PDBTitle: cryo-electron microscopy structure of a coronavirus spike glycoprotein2 trimer

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

Transmembrane helix prediction 

Transmembrane helices have been predicted in your sequence to adopt the topology shown below