Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD1704c_(cycA)_1929793_1931463
DateFri Aug 2 13:30:30 BST 2019
Unique Job ID09f5ba1cc43102b5
SequenceMPDDIAAADP ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:56.085 Y:52.350 Z:65.104
Model (left) based on template c5oqtA_
Top template information
PDB header:transport protein
Chain: A: PDB Molecule:amino acid transporter;
PDBTitle: crystal structure of a bacterial cationic amino acid transporter (cat)2 homologue
Confidence and coverage
Confidence:100.0% Coverage: 78%
435 residues ( 78% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
505 residues ( 91%) 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
1c5oqtA_
100.0 22
PDB header:transport protein
Chain: A: PDB Molecule:amino acid transporter;
PDBTitle: crystal structure of a bacterial cationic amino acid transporter (cat)2 homologue
2c4djiA_
100.0 16
PDB header:transport protein
Chain: A: PDB Molecule:probable glutamate/gamma-aminobutyrate antiporter;
PDBTitle: structure of glutamate-gaba antiporter gadc
3c6f2wA_
100.0 19
PDB header:transport protein
Chain: A: PDB Molecule:putative amino acid/polyamine transport protein;
PDBTitle: bacterial asc transporter crystal structure in open to in conformation
4c6irtB_
100.0 21
PDB header:membrane protein
Chain: B: PDB Molecule:large neutral amino acids transporter small subunit 1;
PDBTitle: human lat1-4f2hc complex bound with bch
5c3giaA_
100.0 17
PDB header:transport protein
Chain: A: PDB Molecule:uncharacterized protein mj0609;
PDBTitle: crystal structure of apct transporter
6c3lrcC_
100.0 19
PDB header:transport protein
Chain: C: PDB Molecule:arginine/agmatine antiporter;
PDBTitle: structure of e. coli adic (p1)
7c6jmqA_
100.0 21
PDB header:membrane protein/immune system
Chain: A: PDB Molecule:large neutral amino acids transporter small subunit 1;
PDBTitle: lat1-cd98hc complex bound to mem-108 fab
8c6csfC_
100.0 14
PDB header:membrane protein
Chain: C: PDB Molecule:sodium/alanine symporter agcs;
PDBTitle: crystal structure of sodium/alanine symporter agcs with d-alanine2 bound
9c2jlnA_
100.0 8
PDB header:membrane protein
Chain: A: PDB Molecule:mhp1;
PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter
10c5nvaA_
99.7 9
PDB header:membrane protein
Chain: A: PDB Molecule:putative sodium:solute symporter;
PDBTitle: substrate-bound outward-open state of a na+-coupled sialic acid2 symporter reveals a novel na+-site
11c6c08F_
99.7 9
PDB header:membrane protein
Chain: F: PDB Molecule:sodium-coupled neutral amino acid transporter 9;
PDBTitle: zebrafish slc38a9 with arginine bound in the cytosol open state
12c2xq2A_
99.6 9
PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: structure of the k294a mutant of vsglt
13c3dh4A_
99.4 12
PDB header:transport protein
Chain: A: PDB Molecule:sodium/glucose cotransporter;
PDBTitle: crystal structure of sodium/sugar symporter with bound galactose from2 vibrio parahaemolyticus
14c6c08C_
99.3 9
PDB header:membrane protein
Chain: C: PDB Molecule:sodium-coupled neutral amino acid transporter 9;
PDBTitle: zebrafish slc38a9 with arginine bound in the cytosol open state
15c5m87A_
99.2 11
PDB header:transport protein
Chain: A: PDB Molecule:divalent metal cation transporter mnth;
PDBTitle: crystal structure of eremococcus coleocola manganese transporter
16c4wgwA_
99.0 10
PDB header:transport protein
Chain: A: PDB Molecule:divalent metal cation transporter mnth;
PDBTitle: staphylococcus capitis divalent metal ion transporter (dmt) in complex2 with manganese
17c4wgvC_
99.0 10
PDB header:transport protein
Chain: C: PDB Molecule:divalent metal cation transporter mnth;
PDBTitle: crystal structure of staphylococcus capitis divalent metal ion2 transporter (dmt) in complex with nanobody
18c4m48A_
97.7 15
PDB header:transport protein
Chain: A: PDB Molecule:transporter;
PDBTitle: x-ray structure of dopamine transporter elucidates antidepressant2 mechanism
19c5i6xA_
97.7 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
20c4us3A_
97.2 13
PDB header:transport protein
Chain: A: PDB Molecule:transporter;
PDBTitle: crystal structure of the bacterial nss member mhst in an2 occluded inward-facing state
21d2a65a1
not modelled 97.2 15
Fold:SNF-like
Superfamily:SNF-like
Family:SNF-like
22c2w8aC_
not modelled 97.1 11
PDB header:membrane protein
Chain: C: PDB Molecule:glycine betaine transporter betp;
PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate
23c4ainB_
not modelled 95.4 12
PDB header:membrane protein
Chain: B: PDB Molecule:glycine betaine transporter betp;
PDBTitle: crystal structure of betp with asymmetric protomers.
24c3hfxA_
not modelled 93.9 9
PDB header:transport protein
Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter;
PDBTitle: crystal structure of carnitine transporter
25c5kteA_
not modelled 85.3 14
PDB header:transport protein/immune system
Chain: A: PDB Molecule:divalent metal cation transporter mnth;
PDBTitle: crystal structure of deinococcus radiodurans mnth, an nramp-family2 transition metal transporter
26c3g40A_
not modelled 60.3 8
PDB header:transport protein
Chain: A: PDB Molecule:na-k-cl cotransporter;
PDBTitle: crystal structure of the cytoplasmic domain of a2 prokaryotic cation chloride cotransporter
27c6nbxG_
not modelled 44.9 15
PDB header:oxidoreductase
Chain: G: PDB Molecule:nadh-quinone oxidoreductase subunit j;
PDBTitle: t.elongatus ndh (data-set 2)
28d1fftb2
not modelled 33.2 6
Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
29c3j1zP_
not modelled 23.2 12
PDB header:metal transport
Chain: P: PDB Molecule:cation efflux family protein;
PDBTitle: inward-facing conformation of the zinc transporter yiip revealed by2 cryo-electron microscopy
30c5xpdA_
not modelled 20.4 10
PDB header:transport protein
Chain: A: PDB Molecule:sugar transporter;
PDBTitle: sugar transporter of atsweet13 in inward-facing state with a substrate2 analog
31c5mg3D_
not modelled 19.7 12
PDB header:chaperone
Chain: D: PDB Molecule:protein translocase subunit secd;
PDBTitle: em fitted model of bacterial holo-translocon
32c2kluA_
not modelled 19.4 11
PDB header:immune system, membrane protein
Chain: A: PDB Molecule:t-cell surface glycoprotein cd4;
PDBTitle: nmr structure of the transmembrane and cytoplasmic domains2 of human cd4
33c6hwhL_
not modelled 16.7 10
PDB header:electron transport
Chain: L: PDB Molecule:cytochrome c oxidase subunit 2;
PDBTitle: structure of a functional obligate respiratory supercomplex from2 mycobacterium smegmatis
34d1g2913
not modelled 16.5 30
Fold:OB-fold
Superfamily:MOP-like
Family:ABC-transporter additional domain
35c2m67A_
not modelled 14.9 22
PDB header:transport protein
Chain: A: PDB Molecule:merf;
PDBTitle: full-length mercury transporter protein merf in lipid bilayer2 membranes
36c2m20B_
not modelled 13.6 18
PDB header:signaling protein
Chain: B: PDB Molecule:epidermal growth factor receptor;
PDBTitle: egfr transmembrane - juxtamembrane (tm-jm) segment in bicelles: md2 guided nmr refined structure.
37c3rkoF_
not modelled 12.7 17
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
38c1k6nH_
not modelled 12.4 16
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
39c2yevB_
not modelled 11.6 15
PDB header:electron transport
Chain: B: PDB Molecule:cytochrome c oxidase subunit 2;
PDBTitle: structure of caa3-type cytochrome oxidase
40c2wj8N_
not modelled 8.4 55
PDB header:rna binding protein/rna
Chain: N: PDB Molecule:nucleoprotein;
PDBTitle: respiratory syncitial virus ribonucleoprotein
41c2auhB_
not modelled 6.9 24
PDB header:transferase/signaling protein
Chain: B: PDB Molecule:growth factor receptor-bound protein 14;
PDBTitle: crystal structure of the grb14 bps region in complex with2 the insulin receptor tyrosine kinase
42c5gapG_
not modelled 6.9 11
PDB header:transcription
Chain: G: PDB Molecule:u4/u6 small nuclear ribonucleoprotein prp3;
PDBTitle: body region of the u4/u6.u5 tri-snrnp
43c6adqP_
not modelled 6.6 15
PDB header:electron transport
Chain: P: PDB Molecule:prokaryotic respiratory supercomplex associate factor 1
PDBTitle: respiratory complex ciii2civ2sod2 from mycobacterium smegmatis
44c5h93C_
not modelled 6.6 43
PDB header:hydrolase
Chain: C: PDB Molecule:geobacter metallireducens smug1;
PDBTitle: crystal structure of geobacter metallireducens smug1
45d1qnta2
not modelled 6.5 21
Fold:Ribonuclease H-like motif
Superfamily:Methylated DNA-protein cysteine methyltransferase domain
Family:Methylated DNA-protein cysteine methyltransferase domain
46c2l9uB_
not modelled 6.5 13
PDB header:membrane protein
Chain: B: PDB Molecule:receptor tyrosine-protein kinase erbb-3;
PDBTitle: spatial structure of dimeric erbb3 transmembrane domain
47c2l9uA_
not modelled 6.5 13
PDB header:membrane protein
Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-3;
PDBTitle: spatial structure of dimeric erbb3 transmembrane domain
48c4o9uB_
not modelled 6.3 12
PDB header:membrane protein
Chain: B: PDB Molecule:nad(p) transhydrogenase subunit beta;
PDBTitle: mechanism of transhydrogenase coupling proton translocation and2 hydride transfer
49c2w2eA_
not modelled 6.1 18
PDB header:membrane protein
Chain: A: PDB Molecule:aquaporin pip2-7 7;
PDBTitle: 1.15 angstrom crystal structure of p.pastoris aquaporin, aqy1, in a2 closed conformation at ph 3.5
50c1m57H_
not modelled 5.9 8
PDB header:oxidoreductase
Chain: H: PDB Molecule:cytochrome c oxidase;
PDBTitle: structure of cytochrome c oxidase from rhodobacter2 sphaeroides (eq(i-286) mutant))
51c6eznH_
not modelled 5.8 9
PDB header:membrane protein
Chain: H: PDB Molecule:dolichyl-diphosphooligosaccharide--protein
PDBTitle: cryo-em structure of the yeast oligosaccharyltransferase (ost) complex
52c3ixzA_
not modelled 5.8 13
PDB header:hydrolase
Chain: A: PDB Molecule:potassium-transporting atpase alpha;
PDBTitle: pig gastric h+/k+-atpase complexed with aluminium fluoride
53d2qw7a1
not modelled 5.8 13
Fold:OB-fold
Superfamily:EutN/CcmL-like
Family:EutN/CcmL-like
54c1fftG_
not modelled 5.6 6
PDB header:oxidoreductase
Chain: G: PDB Molecule:ubiquinol oxidase;
PDBTitle: the structure of ubiquinol oxidase from escherichia coli
55c5xamA_
not modelled 5.6 10
PDB header:membrane protein
Chain: A: PDB Molecule:protein translocase subunit secd;
PDBTitle: crystal structure of secdf in i form at 4 a resolution
56c5ofxF_
not modelled 5.5 11
PDB header:sugar binding protein
Chain: F: PDB Molecule:plla;
PDBTitle: plla lectin, trisaccharide complex
57d1xcra1
not modelled 5.3 10
Fold:AF0104/ALDC/Ptd012-like
Superfamily:AF0104/ALDC/Ptd012-like
Family:PTD012-like

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