Phyre Home Retrieve Phyre Job Id
Emailmdejesus@rockefeller.edu
DescriptionRVBD2586c_(secF)_2912693_2914021
DateWed Aug 7 12:50:22 BST 2019
Unique Job IDd07e601fbcc864d0
SequenceMASKAKTGRD ... Download FASTA
Job Typenormal
Job Expiry

Summary 

Top model
Image coloured by rainbow N → C terminus
Model dimensions (Å):X:63.173 Y:78.435 Z:47.536
Model (left) based on template c5mg3F_
Top template information
PDB header:chaperone
Chain: F: PDB Molecule:protein translocase subunit secf;
PDBTitle: em fitted model of bacterial holo-translocon
Confidence and coverage
Confidence:100.0% Coverage: 65%
289 residues ( 65% 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
1c5mg3F_



100.0 25
PDB header:chaperone
Chain: F: PDB Molecule:protein translocase subunit secf;
PDBTitle: em fitted model of bacterial holo-translocon
2c3aqpB_



100.0 29
PDB header:membrane protein
Chain: B: PDB Molecule:probable secdf protein-export membrane protein;
PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus
3c5xamA_



100.0 27
PDB header:membrane protein
Chain: A: PDB Molecule:protein translocase subunit secd;
PDBTitle: crystal structure of secdf in i form at 4 a resolution
4c5mg3D_



99.9 15
PDB header:chaperone
Chain: D: PDB Molecule:protein translocase subunit secd;
PDBTitle: em fitted model of bacterial holo-translocon
5c5lq3F_



99.9 15
PDB header:transport protein
Chain: F: PDB Molecule:cmeb;
PDBTitle: structures and transport dynamics of the campylobacter jejuni2 multidrug efflux pump cmeb
6c2v50A_



99.9 14
PDB header:membrane protein
Chain: A: PDB Molecule:multidrug resistance protein mexb;
PDBTitle: the missing part of the bacterial mexab-oprm system: structural2 determination of the multidrug exporter mexb
7c6owsB_



99.9 14
PDB header:membrane protein
Chain: B: PDB Molecule:efflux pump membrane transporter;
PDBTitle: cryo-em structure of an acinetobacter baumannii multidrug efflux pump
8c6ajjA_



99.8 16
PDB header:membrane protein, hydrolase
Chain: A: PDB Molecule:drug exporters of the rnd superfamily-like protein,
PDBTitle: crystal structure of mycolic acid transporter mmpl3 from mycobacterium2 smegmatis complexed with ica38
9c4mt1A_



99.8 15
PDB header:membrane protein, tranport protein
Chain: A: PDB Molecule:drug efflux protein;
PDBTitle: crystal structure of the neisseria gonorrhoeae mtrd inner membrane2 multidrug efflux pump
10c3k07A_



99.8 11
PDB header:transport protein
Chain: A: PDB Molecule:cation efflux system protein cusa;
PDBTitle: crystal structure of cusa
11c4k0eA_



99.8 12
PDB header:transport protein
Chain: A: PDB Molecule:heavy metal cation tricomponent efflux pump znea(czca-
PDBTitle: x-ray crystal structure of a heavy metal efflux pump, crystal form ii
12c6csxA_



99.8 15
PDB header:transport protein
Chain: A: PDB Molecule:multidrug efflux pump subunit acrb;
PDBTitle: single particles cryo-em structure of acrb d407a associated with lipid2 bilayer at 3.0 angstrom
13c1oy8A_



99.8 15
PDB header:membrane protein
Chain: A: PDB Molecule:acriflavine resistance protein b;
PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump
14c5khnB_



99.8 17
PDB header:membrane protein
Chain: B: PDB Molecule:rnd transporter;
PDBTitle: crystal structures of the burkholderia multivorans hopanoid2 transporter hpnn
15d1iwga7



99.8 16
Fold:Multidrug efflux transporter AcrB transmembrane domain
Superfamily:Multidrug efflux transporter AcrB transmembrane domain
Family:Multidrug efflux transporter AcrB transmembrane domain
16d1iwga8



99.8 20
Fold:Multidrug efflux transporter AcrB transmembrane domain
Superfamily:Multidrug efflux transporter AcrB transmembrane domain
Family:Multidrug efflux transporter AcrB transmembrane domain
17c6dmoA_



99.7 16
PDB header:protein binding
Chain: A: PDB Molecule:protein patched homolog 1;
PDBTitle: cryo-em structure of human ptch1 with three mutations2 l282q/t500f/p504l
18c4k0eC_



99.7 17
PDB header:transport protein
Chain: C: PDB Molecule:heavy metal cation tricomponent efflux pump znea(czca-
PDBTitle: x-ray crystal structure of a heavy metal efflux pump, crystal form ii
19c3jd8A_



99.6 13
PDB header:membrane protein
Chain: A: PDB Molecule:niemann-pick c1 protein;
PDBTitle: cryo-em structure of the full-length human npc1 at 4.4 angstrom
20c2rrnA_



99.5 18
PDB header:protein transport
Chain: A: PDB Molecule:probable secdf protein-export membrane protein;
PDBTitle: solution structure of secdf periplasmic domain p4
21c5oonA_



not modelled 82.0 15
PDB header:membrane protein
Chain: A: PDB Molecule:undecaprenyl-diphosphatase;
PDBTitle: structure of undecaprenyl-pyrophosphate phosphatase, baca
22c4a01B_



not modelled 63.2 14
PDB header:hydrolase
Chain: B: PDB Molecule:proton pyrophosphatase;
PDBTitle: crystal structure of the h-translocating pyrophosphatase
23c2bpa3_



not modelled 38.6 46
PDB header:virus/dna
Chain: 3: PDB Molecule:protein (subunit of bacteriophage phix174);
PDBTitle: atomic structure of single-stranded dna bacteriophage2 phix174 and its functional implications
24c6b2zf_



not modelled 30.2 12
PDB header:membrane protein
Chain: F: PDB Molecule:atp synthase subunit c, mitochondrial;
PDBTitle: cryo-em structure of the dimeric fo region of yeast mitochondrial atp2 synthase
25c4hydA_



not modelled 28.6 24
PDB header:membrane protein
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: structure of a presenilin family intramembrane aspartate protease in2 c2221 space group
26c6b8ht_



not modelled 26.7 12
PDB header:membrane protein
Chain: T: PDB Molecule:atp synthase subunit 9, mitochondrial;
PDBTitle: mosaic model of yeast mitochondrial atp synthase monomer
27c5xj6A_



not modelled 26.2 20
PDB header:transferase
Chain: A: PDB Molecule:glycerol-3-phosphate acyltransferase;
PDBTitle: crystal structure of plsy (ygih), an integral membrane glycerol 3-2 phosphate acyltransferase - the glycerol 3-phosphate form
28c1ciiA_



not modelled 18.5 14
PDB header:transmembrane protein
Chain: A: PDB Molecule:colicin ia;
PDBTitle: colicin ia
29c3uz0A_



not modelled 16.5 14
PDB header:transport protein
Chain: A: PDB Molecule:stage iii sporulation protein ah;
PDBTitle: crystal structure of spoiiiah and spoiiq complex
30d1bg3a1



not modelled 16.2 25
Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Hexokinase
31c6iblB_



not modelled 15.4 14
PDB header:immune system
Chain: B: PDB Molecule:thioredoxin 1,beta-1 adrenergic receptor;
PDBTitle: activated turkey beta1 adrenoceptor with bound agonist formoterol and2 nanobody nb80
32c4yzfA_



not modelled 14.5 11
PDB header:immune system
Chain: A: PDB Molecule:band 3 anion transport protein;
PDBTitle: crystal structure of the anion exchanger domain of human erythrocyte2 band 3
33c3f1jA_



not modelled 14.2 55
PDB header:viral protein
Chain: A: PDB Molecule:matrix protein;
PDBTitle: crystal structure of the borna disease virus matrix protein2 (bdv-m) reveals rna binding properties
34c1w8xP_



not modelled 13.9 20
PDB header:virus
Chain: P: PDB Molecule:protein p16;
PDBTitle: structural analysis of prd1
35c3tufA_



not modelled 12.5 12
PDB header:signaling protein
Chain: A: PDB Molecule:stage iii sporulation protein ah;
PDBTitle: structure of the spoiiq-spoiiiah pore forming complex.
36d1cola_



not modelled 12.4 18
Fold:Toxins' membrane translocation domains
Superfamily:Colicin
Family:Colicin
37c4bj5A_



not modelled 11.2 30
PDB header:transcription
Chain: A: PDB Molecule:protein rif2;
PDBTitle: crystal structure of rif2 in complex with the c-terminal domain of2 rap1 (rap1-rct)
38c3fewX_



not modelled 10.7 17
PDB header:immune system
Chain: X: PDB Molecule:colicin s4;
PDBTitle: structure and function of colicin s4, a colicin with a duplicated2 receptor binding domain
39c2lx0A_



not modelled 10.4 9
PDB header:membrane protein
Chain: A: PDB Molecule:membrane fusion protein p14;
PDBTitle: arced helix (arch) nmr structure of the reovirus p14 fusion-associated2 small transmembrane (fast) protein transmembrane domain (tmd) in3 dodecyl phosphocholine (dpc) micelles
40c4hitD_



not modelled 10.1 67
PDB header:viral protein
Chain: D: PDB Molecule:matrix protein;
PDBTitle: crystal structure of h112w mutant of borna disease virus matrix2 protein
41c5l22B_



not modelled 10.1 9
PDB header:protein transport
Chain: B: PDB Molecule:abc transporter (hlyb subfamily);
PDBTitle: prtd t1ss abc transporter
42c3dl8D_



not modelled 9.7 26
PDB header:protein transport
Chain: D: PDB Molecule:sece;
PDBTitle: structure of the complex of aquifex aeolicus secyeg and bacillus2 subtilis seca
43c3dl8C_



not modelled 9.7 26
PDB header:protein transport
Chain: C: PDB Molecule:sece;
PDBTitle: structure of the complex of aquifex aeolicus secyeg and bacillus2 subtilis seca
44c5sv9B_



not modelled 9.3 13
PDB header:transport protein
Chain: B: PDB Molecule:bor1p boron transporter;
PDBTitle: structure of the slc4 transporter bor1p in an inward-facing2 conformation
45d1pgya_



not modelled 8.7 25
Fold:RuvA C-terminal domain-like
Superfamily:UBA-like
Family:UBA domain
46d1o75a2



not modelled 8.7 27
Fold:Immunoglobulin-like beta-sandwich
Superfamily:Tp47 lipoprotein, middle and C-terminal domains
Family:Tp47 lipoprotein, middle and C-terminal domains
47c6k1hF_



not modelled 8.7 25
PDB header:protein transport
Chain: F: PDB Molecule:pts system mannose-specific eiid component;
PDBTitle: structure of membrane protein
48c2n1pA_



not modelled 8.7 23
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
49c6fkip_



not modelled 8.4 17
PDB header:membrane protein
Chain: P: PDB Molecule:atp synthase subunit c, chloroplastic;
PDBTitle: chloroplast f1fo conformation 3
50c2mkaA_



not modelled 8.2 14
PDB header:immune system
Chain: A: PDB Molecule:toll-like receptor 3;
PDBTitle: spatial structure of the toll-like receptor 3 transmembrane domain in2 the trimeric state
51c2mkaB_



not modelled 8.2 14
PDB header:immune system
Chain: B: PDB Molecule:toll-like receptor 3;
PDBTitle: spatial structure of the toll-like receptor 3 transmembrane domain in2 the trimeric state
52c2mk9B_



not modelled 8.2 14
PDB header:immune system
Chain: B: PDB Molecule:toll-like receptor 3;
PDBTitle: spatial structure of the dimeric transmembrane domain of toll-like2 receptor 3
53c2mkaC_



not modelled 8.2 14
PDB header:immune system
Chain: C: PDB Molecule:toll-like receptor 3;
PDBTitle: spatial structure of the toll-like receptor 3 transmembrane domain in2 the trimeric state
54c2mk9A_



not modelled 8.2 14
PDB header:immune system
Chain: A: PDB Molecule:toll-like receptor 3;
PDBTitle: spatial structure of the dimeric transmembrane domain of toll-like2 receptor 3
55c5fshA_



not modelled 7.8 43
PDB header:hydrolase
Chain: A: PDB Molecule:csm6;
PDBTitle: crystal structure of thermus thermophilus csm6
56d1wh9a_



not modelled 7.6 8
Fold:Alpha-lytic protease prodomain-like
Superfamily:Prokaryotic type KH domain (KH-domain type II)
Family:Prokaryotic type KH domain (KH-domain type II)
57c3qf4B_



not modelled 7.4 9
PDB header:transport protein
Chain: B: PDB Molecule:uncharacterized abc transporter atp-binding protein
PDBTitle: crystal structure of a heterodimeric abc transporter in its inward-2 facing conformation
58c5mkkB_



not modelled 7.3 13
PDB header:transport protein
Chain: B: PDB Molecule:multidrug resistance abc transporter atp-binding and
PDBTitle: crystal structure of the heterodimeric abc transporter tmrab, a2 homolog of the antigen translocation complex tap
59c5u1dB_



not modelled 7.3 8
PDB header:transport protein
Chain: B: PDB Molecule:antigen peptide transporter 2;
PDBTitle: cryo-em structure of the human tap atp-binding cassette transporter
60c5lj7B_



not modelled 7.3 8
PDB header:transport protein
Chain: B: PDB Molecule:macrolide export atp-binding/permease protein macb;
PDBTitle: structure of aggregatibacter actinomycetemcomitans macb bound to atp2 (p21)
61c4bhqA_



not modelled 7.3 30
PDB header:cell adhesion
Chain: A: PDB Molecule:competence protein piln;
PDBTitle: structure of the periplasmic domain of the piln type iv2 pilus biogenesis protein from thermus thermophilus
62c3i0pA_



not modelled 7.2 26
PDB header:oxidoreductase
Chain: A: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of malate dehydrogenase from entamoeba histolytica
63c3k3gA_



not modelled 7.1 14
PDB header:transport protein
Chain: A: PDB Molecule:urea transporter;
PDBTitle: crystal structure of the urea transporter from desulfovibrio vulgaris2 bound to 1,3-dimethylurea
64c3aqoD_



not modelled 7.1 14
PDB header:membrane protein
Chain: D: PDB Molecule:probable secdf protein-export membrane protein;
PDBTitle: structure and function of a membrane component secdf that enhances2 protein export
65d1ehkb2



not modelled 7.0 28
Fold:Transmembrane helix hairpin
Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region
Family:Cytochrome c oxidase subunit II-like, transmembrane region
66c3qf4A_



not modelled 6.9 8
PDB header:transport protein
Chain: A: PDB Molecule:abc transporter, atp-binding protein;
PDBTitle: crystal structure of a heterodimeric abc transporter in its inward-2 facing conformation
67c6c14A_



not modelled 6.8 13
PDB header:membrane protein, metal transport
Chain: A: PDB Molecule:protocadherin-15;
PDBTitle: cryoem structure of mouse pcdh15-1ec-lhfpl5 complex
68d1rh1a2



not modelled 6.8 16
Fold:Toxins' membrane translocation domains
Superfamily:Colicin
Family:Colicin
69d1lgha_



not modelled 6.8 25
Fold:Light-harvesting complex subunits
Superfamily:Light-harvesting complex subunits
Family:Light-harvesting complex subunits
70c5fgnA_



not modelled 6.6 7
PDB header:transferase,hydrolase
Chain: A: PDB Molecule:lipooligosaccharide phosphoethanolamine transferase a;
PDBTitle: integral membrane protein lipooligosaccharide phosphoethanolamine2 transferase a (epta) from neisseria meningitidis
71d1txka1



not modelled 6.6 50
Fold:Immunoglobulin-like beta-sandwich
Superfamily:E set domains
Family:E-set domains of sugar-utilizing enzymes
72c4y7jE_



not modelled 6.6 12
PDB header:membrane protein,transport protein
Chain: E: PDB Molecule:large conductance mechanosensitive channel protein,
PDBTitle: structure of an archaeal mechanosensitive channel in expanded state
73c1z2iA_



not modelled 6.6 21
PDB header:oxidoreductase
Chain: A: PDB Molecule:malate dehydrogenase;
PDBTitle: crystal structure of agrobacterium tumefaciens malate2 dehydrogenase, new york structural genomics consortium
74c3mk7F_



not modelled 6.5 5
PDB header:oxidoreductase
Chain: F: PDB Molecule:cytochrome c oxidase, cbb3-type, subunit p;
PDBTitle: the structure of cbb3 cytochrome oxidase
75c5t4oJ_



not modelled 6.5 9
PDB header:hydrolase
Chain: J: PDB Molecule:atp synthase subunit b;
PDBTitle: autoinhibited e. coli atp synthase state 1
76c5sxpF_



not modelled 6.4 44
PDB header:signaling protein/ligase
Chain: F: PDB Molecule:e3 ubiquitin-protein ligase itchy homolog;
PDBTitle: structural basis for the interaction between itch prr and beta-pix
77c5nikK_



not modelled 6.4 14
PDB header:transport protein
Chain: K: PDB Molecule:macrolide export atp-binding/permease protein macb;
PDBTitle: structure of the macab-tolc abc-type tripartite multidrug efflux pump
78c6rdu9_



not modelled 6.4 28
PDB header:proton transport
Chain: 9: PDB Molecule:asa-9: polytomella f-atp synthase associated subunit 9;
PDBTitle: cryo-em structure of polytomella f-atp synthase, rotary substate 1e,2 monomer-masked refinement
79d1uc8a1



not modelled 6.3 18
Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:Lysine biosynthesis enzyme LysX, N-terminal domain
80c2bbjB_



not modelled 6.3 12
PDB header:metal transport/membrane protein
Chain: B: PDB Molecule:divalent cation transport-related protein;
PDBTitle: crystal structure of the cora mg2+ transporter
81c2kluA_



not modelled 6.2 33
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
82c2g8yB_



not modelled 6.1 33
PDB header:oxidoreductase
Chain: B: PDB Molecule:malate/l-lactate dehydrogenases;
PDBTitle: the structure of a putative malate/lactate dehydrogenase from e. coli.
83c5xyiG_



not modelled 6.1 19
PDB header:ribosome
Chain: G: PDB Molecule:40s ribosomal protein s6;
PDBTitle: small subunit of trichomonas vaginalis ribosome
84c1wtjB_



not modelled 6.0 25
PDB header:oxidoreductase
Chain: B: PDB Molecule:ureidoglycolate dehydrogenase;
PDBTitle: crystal structure of delta1-piperideine-2-carboxylate2 reductase from pseudomonas syringae pvar.tomato
85d1pama3



not modelled 6.0 20
Fold:Glycosyl hydrolase domain
Superfamily:Glycosyl hydrolase domain
Family:alpha-Amylases, C-terminal beta-sheet domain
86c1pi8A_



not modelled 5.9 32
PDB header:viral protein
Chain: A: PDB Molecule:vpu protein;
PDBTitle: structure of the channel-forming trans-membrane domain of2 virus protein "u" (vpu) from hiv-1
87c2gohA_



not modelled 5.9 32
PDB header:viral protein
Chain: A: PDB Molecule:vpu protein;
PDBTitle: three-dimensional structure of the trans-membrane domain of2 vpu from hiv-1 in aligned phospholipid bicelles
88c1pi7A_



not modelled 5.9 32
PDB header:viral protein
Chain: A: PDB Molecule:vpu protein;
PDBTitle: structure of the channel-forming trans-membrane domain of2 virus protein "u" (vpu) from hiv-1
89c2gofA_



not modelled 5.9 32
PDB header:viral protein
Chain: A: PDB Molecule:vpu protein;
PDBTitle: three-dimensional structure of the trans-membrane domain of2 vpu from hiv-1 in aligned phospholipid bicelles
90c1pjeA_



not modelled 5.9 32
PDB header:viral protein
Chain: A: PDB Molecule:vpu protein;
PDBTitle: structure of the channel-forming trans-membrane domain of2 virus protein "u"(vpu) from hiv-1
91d1hkya_



not modelled 5.9 45
Fold:Hairpin loop containing domain-like
Superfamily:Hairpin loop containing domain-like
Family:Pan module (APPLE domain)
92c5sxpG_



not modelled 5.8 44
PDB header:signaling protein/ligase
Chain: G: PDB Molecule:e3 ubiquitin-protein ligase itchy homolog;
PDBTitle: structural basis for the interaction between itch prr and beta-pix
93c2jo1A_



not modelled 5.8 21
PDB header:hydrolase regulator
Chain: A: PDB Molecule:phospholemman;
PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles
94c5hg1A_



not modelled 5.8 31
PDB header:transferase/transferase inhibitor
Chain: A: PDB Molecule:hexokinase-2;
PDBTitle: crystal structure of human hexokinase 2 with cmpd 1, a c-2-substituted2 glucosamine
95c1v9nA_



not modelled 5.8 29
PDB header:oxidoreductase
Chain: A: PDB Molecule:malate dehydrogenase;
PDBTitle: structure of malate dehydrogenase from pyrococcus horikoshii ot3
96d1czan3



not modelled 5.8 31
Fold:Ribonuclease H-like motif
Superfamily:Actin-like ATPase domain
Family:Hexokinase
97d1jjcb2



not modelled 5.6 25
Fold:Putative DNA-binding domain
Superfamily:Putative DNA-binding domain
Family:Domains B1 and B5 of PheRS-beta, PheT
98c1algA_



not modelled 5.6 23
PDB header:oxidoreductase
Chain: A: PDB Molecule:p11;
PDBTitle: solution structure of an hgr inhibitor, nmr, 10 structures
99c1yg0A_



not modelled 5.6 8
PDB header:metal transport
Chain: A: PDB Molecule:cop associated protein;
PDBTitle: solution structure of apo-copp from helicobacter pylori

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