Secondary structure and disorder prediction

1

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10

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20

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30

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40

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50

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60

Sequence

M

N

N

H

A

T

V

Q

S

S

A

P

V

S

A

A

P

L

L

Q

V

S

G

A

L

I

A

I

I

A

L

I

L

A

A

A

W

L

V

K

R

L

G

F

A

P

K

R

T

G

V

N

G

L

K

I

S

A

S

A

Secondary structure

SS confidence

Disorder

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?

Disorder confidence

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70

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80

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90

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100

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110

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120

Sequence

S

L

G

A

R

E

R

V

V

V

V

D

V

E

D

A

R

L

V

L

G

V

T

A

G

Q

I

N

L

L

H

K

L

P

P

S

A

P

T

E

E

I

P

Q

T

D

F

Q

S

V

M

K

N

L

L

K

R

S

G

R

Secondary structure

SS confidence

Disorder

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?

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Disorder confidence

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Sequence

S

Secondary structure

SS confidence

Disorder

?

Disorder confidence

Confidence Key
High(9)											Low (0)

?	Disordered
	Alpha helix
	Beta strand

Domain analysis

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

Rank Aligned region

PDB 3fqm chain A Region: 61 - 97 Aligned: 37 Modelled: 37 Confidence: 39.8% Identity: 27% PDB header:metal binding protein Chain: A: PDB Molecule:non-structural protein 5a; PDBTitle: crystal structure of a novel dimeric form of hcv ns5a domain i protein Phyre2 PDB 1e2t chain A Region: 34 - 83 Aligned: 50 Modelled: 50 Confidence: 33.5% Identity: 18% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Arylamine N-acetyltransferase Phyre2 PDB 2pfr chain B Region: 33 - 83 Aligned: 51 Modelled: 51 Confidence: 25.5% Identity: 14% PDB header:transferase Chain: B: PDB Molecule:arylamine n-acetyltransferase 2; PDBTitle: human n-acetyltransferase 2 Phyre2 PDB 3lnb chain A Region: 33 - 107 Aligned: 75 Modelled: 75 Confidence: 24.4% Identity: 9% PDB header:transferase Chain: A: PDB Molecule:n-acetyltransferase family protein; PDBTitle: crystal structure analysis of arylamine n-acetyltransferase c from2 bacillus anthracis Phyre2 PDB 2qtx chain L Region: 38 - 80 Aligned: 43 Modelled: 43 Confidence: 22.3% Identity: 16% PDB header:rna binding protein Chain: L: PDB Molecule:uncharacterized protein mj1435; PDBTitle: crystal structure of an hfq-like protein from methanococcus2 jannaschii Phyre2 PDB 1j3w chain B Region: 63 - 89 Aligned: 27 Modelled: 27 Confidence: 20.4% Identity: 22% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:giding protein-mglb; PDBTitle: structure of gliding protein-mglb from thermus thermophilus hb8 Phyre2 PDB 3hh1 chain D Region: 75 - 91 Aligned: 17 Modelled: 15 Confidence: 19.9% Identity: 12% PDB header:transferase Chain: D: PDB Molecule:tetrapyrrole methylase family protein; PDBTitle: the structure of a tetrapyrrole methylase family protein domain from2 chlorobium tepidum tls Phyre2 PDB 2knc chain A Region: 5 - 53 Aligned: 49 Modelled: 49 Confidence: 18.4% Identity: 10% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2l2t chain A Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 16.6% Identity: 32% PDB header:membrane protein Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-4; PDBTitle: solution nmr structure of the erbb4 dimeric membrane domain Phyre2 PDB 1j3w chain A Region: 63 - 89 Aligned: 27 Modelled: 27 Confidence: 16.3% Identity: 22% Fold: Profilin-like Superfamily: Roadblock/LC7 domain Family: Roadblock/LC7 domain Phyre2 PDB 1pjq chain A domain 2 Region: 75 - 91 Aligned: 17 Modelled: 17 Confidence: 15.8% Identity: 24% Fold: Tetrapyrrole methylase Superfamily: Tetrapyrrole methylase Family: Tetrapyrrole methylase Phyre2 PDB 3e19 chain D Region: 47 - 81 Aligned: 31 Modelled: 35 Confidence: 14.1% Identity: 19% PDB header:transcription regulator, metal binding p Chain: D: PDB Molecule:feoa; PDBTitle: crystal structure of iron uptake regulatory protein (feoa) solved by2 sulfur sad in a monoclinic space group Phyre2 PDB 2e0k chain A Region: 75 - 91 Aligned: 17 Modelled: 17 Confidence: 13.9% Identity: 12% PDB header:transferase Chain: A: PDB Molecule:precorrin-2 c20-methyltransferase; PDBTitle: crystal structure of cbil, a methyltransferase involved in anaerobic2 vitamin b12 biosynthesis Phyre2 PDB 1xe1 chain A Region: 54 - 87 Aligned: 34 Modelled: 33 Confidence: 13.1% Identity: 15% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pf0907; PDBTitle: hypothetical protein from pyrococcus furiosus pfu-880080-001 Phyre2 PDB 1xe1 chain A Region: 54 - 87 Aligned: 34 Modelled: 33 Confidence: 13.1% Identity: 15% Fold: Reductase/isomerase/elongation factor common domain Superfamily: Translation proteins Family: Elongation factors Phyre2 PDB 1ve2 chain A domain 1 Region: 75 - 91 Aligned: 17 Modelled: 17 Confidence: 12.8% Identity: 18% Fold: Tetrapyrrole methylase Superfamily: Tetrapyrrole methylase Family: Tetrapyrrole methylase Phyre2 PDB 1v55 chain B Region: 17 - 57 Aligned: 41 Modelled: 41 Confidence: 12.8% Identity: 0% PDB header:oxidoreductase Chain: B: PDB Molecule:cytochrome c oxidase polypeptide ii; PDBTitle: bovine heart cytochrome c oxidase at the fully reduced state Phyre2 PDB 3gzt chain F Region: 62 - 75 Aligned: 14 Modelled: 14 Confidence: 12.6% Identity: 50% PDB header:virus Chain: F: PDB Molecule:outer capsid glycoprotein vp7; PDBTitle: vp7 recoated rotavirus dlp Phyre2 PDB 3kwp chain A Region: 74 - 91 Aligned: 18 Modelled: 17 Confidence: 12.5% Identity: 6% PDB header:transferase Chain: A: PDB Molecule:predicted methyltransferase; PDBTitle: crystal structure of putative methyltransferase from lactobacillus2 brevis Phyre2 PDB 1fft chain B domain 2 Region: 4 - 50 Aligned: 47 Modelled: 47 Confidence: 12.5% Identity: 19% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 1 c3fqmA_ 2 d1e2ta_ 3 c2pfrB_ 4 c3lnbA_ 5 c2qtxL_ 6 c1j3wB_ 7 c3hh1D_ 8 c2kncA_ 9 c2l2tA_ 10 d1j3wa_ 11 d1pjqa2 12 c3e19D_ 13 c2e0kA_ 14 c1xe1A_ 15 d1xe1a_ 16 d1ve2a1 17 c1v55B_ 18 c3gztF_ 19 c3kwpA_ 20 d1fftb2 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c3fqmA_ 39.8 27 PDB header:metal binding protein Chain: A: PDB Molecule:non-structural protein 5a; PDBTitle: crystal structure of a novel dimeric form of hcv ns5a domain i protein 2 d1e2ta_ 33.5 18 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Arylamine N-acetyltransferase 3 c2pfrB_ 25.5 14 PDB header:transferase Chain: B: PDB Molecule:arylamine n-acetyltransferase 2; PDBTitle: human n-acetyltransferase 2 4 c3lnbA_ 24.4 9 PDB header:transferase Chain: A: PDB Molecule:n-acetyltransferase family protein; PDBTitle: crystal structure analysis of arylamine n-acetyltransferase c from2 bacillus anthracis 5 c2qtxL_ 22.3 16 PDB header:rna binding protein Chain: L: PDB Molecule:uncharacterized protein mj1435; PDBTitle: crystal structure of an hfq-like protein from methanococcus2 jannaschii 6 c1j3wB_ 20.4 22 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:giding protein-mglb; PDBTitle: structure of gliding protein-mglb from thermus thermophilus hb8 7 c3hh1D_ 19.9 12 PDB header:transferase Chain: D: PDB Molecule:tetrapyrrole methylase family protein; PDBTitle: the structure of a tetrapyrrole methylase family protein domain from2 chlorobium tepidum tls 8 c2kncA_ 18.4 10 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 9 c2l2tA_ 16.6 32 PDB header:membrane protein Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-4; PDBTitle: solution nmr structure of the erbb4 dimeric membrane domain 10 d1j3wa_ 16.3 22 Fold:Profilin-like Superfamily:Roadblock/LC7 domain Family:Roadblock/LC7 domain 11 d1pjqa2 15.8 24 Fold:Tetrapyrrole methylase Superfamily:Tetrapyrrole methylase Family:Tetrapyrrole methylase 12 c3e19D_ 14.1 19 PDB header:transcription regulator, metal binding p Chain: D: PDB Molecule:feoa; PDBTitle: crystal structure of iron uptake regulatory protein (feoa) solved by2 sulfur sad in a monoclinic space group 13 c2e0kA_ 13.9 12 PDB header:transferase Chain: A: PDB Molecule:precorrin-2 c20-methyltransferase; PDBTitle: crystal structure of cbil, a methyltransferase involved in anaerobic2 vitamin b12 biosynthesis 14 c1xe1A_ 13.1 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pf0907; PDBTitle: hypothetical protein from pyrococcus furiosus pfu-880080-001 15 d1xe1a_ 13.1 15 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:Elongation factors 16 d1ve2a1 12.8 18 Fold:Tetrapyrrole methylase Superfamily:Tetrapyrrole methylase Family:Tetrapyrrole methylase 17 c1v55B_ 12.8 0 PDB header:oxidoreductase Chain: B: PDB Molecule:cytochrome c oxidase polypeptide ii; PDBTitle: bovine heart cytochrome c oxidase at the fully reduced state 18 c3gztF_ 12.6 50 PDB header:virus Chain: F: PDB Molecule:outer capsid glycoprotein vp7; PDBTitle: vp7 recoated rotavirus dlp 19 c3kwpA_ 12.5 6 PDB header:transferase Chain: A: PDB Molecule:predicted methyltransferase; PDBTitle: crystal structure of putative methyltransferase from lactobacillus2 brevis 20 d1fftb2 12.5 19 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 21 c1afoB_ not modelled 12.4 25 PDB header:integral membrane protein Chain: B: PDB Molecule:glycophorin a; PDBTitle: dimeric transmembrane domain of human glycophorin a, nmr,2 20 structures 22 c3nutC_ not modelled 12.2 24 PDB header:transferase Chain: C: PDB Molecule:precorrin-3 methylase; PDBTitle: crystal structure of the methyltransferase cobj 23 d1va0a1 not modelled 12.2 24 Fold:Tetrapyrrole methylase Superfamily:Tetrapyrrole methylase Family:Tetrapyrrole methylase 24 c2zvbA_ not modelled 12.0 18 PDB header:transferase Chain: A: PDB Molecule:precorrin-3 c17-methyltransferase; PDBTitle: crystal structure of tt0207 from thermus thermophilus hb8 25 c2qbuA_ not modelled 11.7 29 PDB header:transferase Chain: A: PDB Molecule:precorrin-2 methyltransferase; PDBTitle: crystal structure of methanothermobacter thermautotrophicus cbil 26 c2jwaA_ not modelled 11.6 11 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 27 c2ks1B_ not modelled 11.0 23 PDB header:transferase Chain: B: PDB Molecule:epidermal growth factor receptor; PDBTitle: heterodimeric association of transmembrane domains of erbb1 and erbb22 receptors enabling kinase activation 28 d1q18a1 not modelled 10.9 14 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Glucokinase 29 c1pjtB_ not modelled 10.8 24 PDB header:transferase/oxidoreductase/lyase Chain: B: PDB Molecule:siroheme synthase; PDBTitle: the structure of the ser128ala point-mutant variant of cysg,2 the multifunctional3 methyltransferase/dehydrogenase/ferrochelatase for4 siroheme synthesis 30 c2yboA_ not modelled 10.5 24 PDB header:transferase Chain: A: PDB Molecule:methyltransferase; PDBTitle: the x-ray structure of the sam-dependent uroporphyrinogen2 iii methyltransferase nire from pseudomonas aeruginosa in3 complex with sah 31 d1s4da_ not modelled 9.7 24 Fold:Tetrapyrrole methylase Superfamily:Tetrapyrrole methylase Family:Tetrapyrrole methylase 32 c1cbfA_ not modelled 9.5 18 PDB header:methyltransferase Chain: A: PDB Molecule:cobalt-precorrin-4 transmethylase; PDBTitle: the x-ray structure of a cobalamin biosynthetic enzyme, cobalt2 precorrin-4 methyltransferase, cbif 33 d1cbfa_ not modelled 9.5 18 Fold:Tetrapyrrole methylase Superfamily:Tetrapyrrole methylase Family:Tetrapyrrole methylase 34 d1ppjd2 not modelled 9.2 17 Fold:Single transmembrane helix Superfamily:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor Family:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor 35 d1vdda_ not modelled 9.1 23 Fold:Recombination protein RecR Superfamily:Recombination protein RecR Family:Recombination protein RecR 36 c3q1jA_ not modelled 8.5 8 PDB header:transcription Chain: A: PDB Molecule:phd finger protein 20; PDBTitle: crystal structure of tudor domain 1 of human phd finger protein 20 37 c3kdpG_ not modelled 8.5 33 PDB header:hydrolase Chain: G: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the sodium-potassium pump 38 c3kdpH_ not modelled 8.5 33 PDB header:hydrolase Chain: H: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the sodium-potassium pump 39 c3sftA_ not modelled 8.4 21 PDB header:hydrolase Chain: A: PDB Molecule:chemotaxis response regulator protein-glutamate PDBTitle: crystal structure of thermotoga maritima cheb methylesterase catalytic2 domain 40 c2i2rK_ not modelled 8.3 18 PDB header:transport protein Chain: K: PDB Molecule:potassium voltage-gated channel subfamily d member 3; PDBTitle: crystal structure of the kchip1/kv4.3 t1 complex 41 d3cx5d2 not modelled 8.1 13 Fold:Single transmembrane helix Superfamily:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor Family:Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor 42 d2ftwa1 not modelled 7.6 25 Fold:Composite domain of metallo-dependent hydrolases Superfamily:Composite domain of metallo-dependent hydrolases Family:Hydantoinase (dihydropyrimidinase) 43 c2fynH_ not modelled 7.5 24 PDB header:oxidoreductase Chain: H: PDB Molecule:cytochrome c1; PDBTitle: crystal structure analysis of the double mutant rhodobacter2 sphaeroides bc1 complex 44 c2r6fA_ not modelled 7.4 19 PDB header:hydrolase Chain: A: PDB Molecule:excinuclease abc subunit a; PDBTitle: crystal structure of bacillus stearothermophilus uvra 45 c2l34A_ not modelled 7.4 25 PDB header:protein binding Chain: A: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12 transmembrane homodimer 46 c2l34B_ not modelled 7.2 26 PDB header:protein binding Chain: B: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12 transmembrane homodimer 47 d1w4ta1 not modelled 6.6 13 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Arylamine N-acetyltransferase 48 d2bsza1 not modelled 6.4 19 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Arylamine N-acetyltransferase 49 c2l35A_ not modelled 6.4 29 PDB header:protein binding Chain: A: PDB Molecule:dap12-nkg2c_tm; PDBTitle: structure of the dap12-nkg2c transmembrane heterotrimer 50 c2kpeA_ not modelled 6.4 29 PDB header:membrane protein Chain: A: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles 51 c2kpeB_ not modelled 6.4 29 PDB header:membrane protein Chain: B: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles 52 c3cwbQ_ not modelled 6.2 10 PDB header:oxidoreductase Chain: Q: PDB Molecule:mitochondrial cytochrome c1, heme protein; PDBTitle: chicken cytochrome bc1 complex inhibited by an iodinated analogue of2 the polyketide crocacin-d 53 c2npnA_ not modelled 6.2 25 PDB header:transferase Chain: A: PDB Molecule:putative cobalamin synthesis related protein; PDBTitle: crystal structure of putative cobalamin synthesis related protein2 (cobf) from corynebacterium diphtheriae 54 c2rmzA_ not modelled 5.7 32 PDB header:cell adhesion Chain: A: PDB Molecule:integrin beta-3; PDBTitle: bicelle-embedded integrin beta3 transmembrane segment 55 c2k21A_ not modelled 5.7 24 PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily e PDBTitle: nmr structure of human kcne1 in lmpg micelles at ph 6.0 and2 40 degree c 56 c2yiuE_ not modelled 5.6 24 PDB header:oxidoreductase Chain: E: PDB Molecule:cytochrome c1, heme protein; PDBTitle: x-ray structure of the dimeric cytochrome bc1 complex from2 the soil bacterium paracoccus denitrificans at 2.73 angstrom resolution 57 c3nd1B_ not modelled 5.5 13 PDB header:transferase Chain: B: PDB Molecule:precorrin-6a synthase/cobf protein; PDBTitle: crystal structure of precorrin-6a synthase from rhodobacter capsulatus 58 d2j01v1 not modelled 5.4 6 Fold:L21p-like Superfamily:L21p-like Family:Ribosomal protein L21p 59 c2rddB_ not modelled 5.4 13 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. 60 c1vddC_ not modelled 5.1 23 PDB header:recombination Chain: C: PDB Molecule:recombination protein recr; PDBTitle: crystal structure of recombinational repair protein recr 61 c1p84D_ not modelled 5.1 24 PDB header:oxidoreductase Chain: D: PDB Molecule:cytochrome c1, heme protein; PDBTitle: hdbt inhibited yeast cytochrome bc1 complex

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

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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0