Secondary structure and disorder prediction

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Sequence		M	E	C	R	P	G	C	G	A	C	C	T	A	P	S	I	S	S	P	I	P	G	M	P	D	G	K	P	A	N	T	P	C	I	Q	L	D	E	Q	Q	R	C	K	I	F	T	S	P	L	R	P	K	V	C	A	G	L	Q	A	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?															?	?	?	?											?						?		?										?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.
Sequence		A	E	M	C	G	N	S	R	Q	Q	A	M	T	W	L	I	D	L	E	M	L	T	A	P
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 2hcu chain A Region: 64 - 78 Aligned: 15 Modelled: 15 Confidence: 40.0% Identity: 40% PDB header:lyase Chain: A: PDB Molecule:3-isopropylmalate dehydratase small subunit; PDBTitle: crystal structure of smu.1381 (or leud) from streptococcus2 mutans Phyre2 PDB 3h5j chain A Region: 64 - 78 Aligned: 15 Modelled: 15 Confidence: 38.3% Identity: 40% PDB header:lyase Chain: A: PDB Molecule:3-isopropylmalate dehydratase small subunit; PDBTitle: leud_1-168 small subunit of isopropylmalate isomerase (rv2987c) from2 mycobacterium tuberculosis Phyre2 PDB 3q3w chain B Region: 64 - 78 Aligned: 15 Modelled: 15 Confidence: 31.9% Identity: 40% PDB header:transferase Chain: B: PDB Molecule:3-isopropylmalate dehydratase small subunit; PDBTitle: isopropylmalate isomerase small subunit from campylobacter jejuni. Phyre2 PDB 1v7l chain A Region: 64 - 78 Aligned: 15 Modelled: 15 Confidence: 25.9% Identity: 40% Fold: The "swivelling" beta/beta/alpha domain Superfamily: LeuD/IlvD-like Family: LeuD-like Phyre2 PDB 2pkp chain A Region: 64 - 78 Aligned: 15 Modelled: 15 Confidence: 24.9% Identity: 40% PDB header:lyase Chain: A: PDB Molecule:homoaconitase small subunit; PDBTitle: crystal structure of 3-isopropylmalate dehydratase (leud)2 from methhanocaldococcus jannaschii dsm2661 (mj1271) Phyre2 PDB 3gse chain A Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 23.0% Identity: 28% PDB header:isomerase Chain: A: PDB Molecule:menaquinone-specific isochorismate synthase; PDBTitle: crystal structure of menaquinone-specific isochorismate synthase from2 yersinia pestis co92 Phyre2 PDB 3h9m chain A Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 22.9% Identity: 8% PDB header:lyase Chain: A: PDB Molecule:p-aminobenzoate synthetase, component i; PDBTitle: crystal structure of para-aminobenzoate synthetase,2 component i from cytophaga hutchinsonii Phyre2 PDB 3os6 chain A Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 22.9% Identity: 20% PDB header:isomerase Chain: A: PDB Molecule:isochorismate synthase dhbc; PDBTitle: crystal structure of putative 2,3-dihydroxybenzoate-specific2 isochorismate synthase, dhbc from bacillus anthracis. Phyre2 PDB 2fn0 chain A domain 1 Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 22.3% Identity: 20% Fold: ADC synthase Superfamily: ADC synthase Family: ADC synthase Phyre2 PDB 2g5f chain A domain 1 Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 22.1% Identity: 12% Fold: ADC synthase Superfamily: ADC synthase Family: ADC synthase Phyre2 PDB 3bzn chain A domain 1 Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 20.0% Identity: 28% Fold: ADC synthase Superfamily: ADC synthase Family: ADC synthase Phyre2 PDB 2i6y chain A Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 19.9% Identity: 12% PDB header:lyase Chain: A: PDB Molecule:anthranilate synthase component i, putative; PDBTitle: structure and mechanism of mycobacterium tuberculosis salicylate2 synthase, mbti Phyre2 PDB 3hwo chain B Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 19.1% Identity: 24% PDB header:isomerase Chain: B: PDB Molecule:isochorismate synthase entc; PDBTitle: crystal structure of escherichia coli enterobactin-specific2 isochorismate synthase entc in complex with isochorismate Phyre2 PDB 2crc chain A Region: 4 - 22 Aligned: 19 Modelled: 19 Confidence: 17.8% Identity: 42% PDB header:ligase Chain: A: PDB Molecule:ubiquitin conjugating enzyme 7 interacting PDBTitle: solution structure of the zf-ranbp domain of the protein2 hbv associated factor Phyre2 PDB 1lva chain A domain 4 Region: 62 - 81 Aligned: 20 Modelled: 20 Confidence: 17.7% Identity: 25% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal fragment of elongation factor SelB Phyre2 PDB 1wgq chain A Region: 63 - 84 Aligned: 22 Modelled: 22 Confidence: 15.8% Identity: 9% Fold: PH domain-like barrel Superfamily: PH domain-like Family: Pleckstrin-homology domain (PH domain) Phyre2 PDB 3b08 chain H Region: 4 - 22 Aligned: 19 Modelled: 19 Confidence: 15.6% Identity: 47% PDB header:signaling protein/metal binding protein Chain: H: PDB Molecule:ranbp-type and c3hc4-type zinc finger-containing protein 1; PDBTitle: crystal structure of the mouse hoil1-l-nzf in complex with linear di-2 ubiquitin Phyre2 PDB 2dlq chain A domain 2 Region: 1 - 10 Aligned: 9 Modelled: 10 Confidence: 14.9% Identity: 67% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 2rrf chain A Region: 66 - 82 Aligned: 17 Modelled: 17 Confidence: 14.7% Identity: 29% PDB header:unknown function Chain: A: PDB Molecule:zinc finger fyve domain-containing protein 21; PDBTitle: the solution structure of the c-terminal region of zinc finger fyve2 domain-containing protein 21 Phyre2 PDB 2oz6 chain A domain 1 Region: 61 - 80 Aligned: 20 Modelled: 20 Confidence: 14.5% Identity: 30% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: CAP C-terminal domain-like Phyre2 1 c2hcuA_ 2 c3h5jA_ 3 c3q3wB_ 4 d1v7la_ 5 c2pkpA_ 6 c3gseA_ 7 c3h9mA_ 8 c3os6A_ 9 d2fn0a1 10 d2g5fa1 11 d3bzna1 12 c2i6yA_ 13 c3hwoB_ 14 c2crcA_ 15 d1lvaa4 16 d1wgqa_ 17 c3b08H_ 18 d2dlqa2 19 c2rrfA_ 20 d2oz6a1 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

Detailed template information

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

1 c2hcuA_ 40.0 40 PDB header:lyase Chain: A: PDB Molecule:3-isopropylmalate dehydratase small subunit; PDBTitle: crystal structure of smu.1381 (or leud) from streptococcus2 mutans 2 c3h5jA_ 38.3 40 PDB header:lyase Chain: A: PDB Molecule:3-isopropylmalate dehydratase small subunit; PDBTitle: leud_1-168 small subunit of isopropylmalate isomerase (rv2987c) from2 mycobacterium tuberculosis 3 c3q3wB_ 31.9 40 PDB header:transferase Chain: B: PDB Molecule:3-isopropylmalate dehydratase small subunit; PDBTitle: isopropylmalate isomerase small subunit from campylobacter jejuni. 4 d1v7la_ 25.9 40 Fold:The "swivelling" beta/beta/alpha domain Superfamily:LeuD/IlvD-like Family:LeuD-like 5 c2pkpA_ 24.9 40 PDB header:lyase Chain: A: PDB Molecule:homoaconitase small subunit; PDBTitle: crystal structure of 3-isopropylmalate dehydratase (leud)2 from methhanocaldococcus jannaschii dsm2661 (mj1271) 6 c3gseA_ 23.0 28 PDB header:isomerase Chain: A: PDB Molecule:menaquinone-specific isochorismate synthase; PDBTitle: crystal structure of menaquinone-specific isochorismate synthase from2 yersinia pestis co92 7 c3h9mA_ 22.9 8 PDB header:lyase Chain: A: PDB Molecule:p-aminobenzoate synthetase, component i; PDBTitle: crystal structure of para-aminobenzoate synthetase,2 component i from cytophaga hutchinsonii 8 c3os6A_ 22.9 20 PDB header:isomerase Chain: A: PDB Molecule:isochorismate synthase dhbc; PDBTitle: crystal structure of putative 2,3-dihydroxybenzoate-specific2 isochorismate synthase, dhbc from bacillus anthracis. 9 d2fn0a1 22.3 20 Fold:ADC synthase Superfamily:ADC synthase Family:ADC synthase 10 d2g5fa1 22.1 12 Fold:ADC synthase Superfamily:ADC synthase Family:ADC synthase 11 d3bzna1 20.0 28 Fold:ADC synthase Superfamily:ADC synthase Family:ADC synthase 12 c2i6yA_ 19.9 12 PDB header:lyase Chain: A: PDB Molecule:anthranilate synthase component i, putative; PDBTitle: structure and mechanism of mycobacterium tuberculosis salicylate2 synthase, mbti 13 c3hwoB_ 19.1 24 PDB header:isomerase Chain: B: PDB Molecule:isochorismate synthase entc; PDBTitle: crystal structure of escherichia coli enterobactin-specific2 isochorismate synthase entc in complex with isochorismate 14 c2crcA_ 17.8 42 PDB header:ligase Chain: A: PDB Molecule:ubiquitin conjugating enzyme 7 interacting PDBTitle: solution structure of the zf-ranbp domain of the protein2 hbv associated factor 15 d1lvaa4 17.7 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal fragment of elongation factor SelB 16 d1wgqa_ 15.8 9 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Pleckstrin-homology domain (PH domain) 17 c3b08H_ 15.6 47 PDB header:signaling protein/metal binding protein Chain: H: PDB Molecule:ranbp-type and c3hc4-type zinc finger-containing protein 1; PDBTitle: crystal structure of the mouse hoil1-l-nzf in complex with linear di-2 ubiquitin 18 d2dlqa2 14.9 67 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 19 c2rrfA_ 14.7 29 PDB header:unknown function Chain: A: PDB Molecule:zinc finger fyve domain-containing protein 21; PDBTitle: the solution structure of the c-terminal region of zinc finger fyve2 domain-containing protein 21 20 d2oz6a1 14.5 30 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 21 c2kefA_ not modelled 14.2 63 PDB header:antibiotic, hormone Chain: A: PDB Molecule:hepcidin; PDBTitle: solution nmr structures of human hepcidin at 325k 22 c3h0tC_ not modelled 14.0 63 PDB header:immune system/antimicrobial protein Chain: C: PDB Molecule:hepcidin; PDBTitle: hepcidin-fab complex 23 c1m4eA_ not modelled 13.1 63 PDB header:antimicrobial protein Chain: A: PDB Molecule:hepcidin; PDBTitle: solution structure of hepcidin-20 24 c2bruC_ not modelled 12.9 75 PDB header:oxidoreductase Chain: C: PDB Molecule:nad(p) transhydrogenase subunit beta; PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase 25 d1d4oa_ not modelled 12.5 63 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Transhydrogenase domain III (dIII) 26 c1m4fA_ not modelled 12.4 63 PDB header:antimicrobial protein Chain: A: PDB Molecule:hepcidin; PDBTitle: solution structure of hepcidin-25 27 d1pnoa_ not modelled 12.0 88 Fold:DHS-like NAD/FAD-binding domain Superfamily:DHS-like NAD/FAD-binding domain Family:Transhydrogenase domain III (dIII) 28 c3nsuA_ not modelled 11.7 29 PDB header:signaling protein Chain: A: PDB Molecule:phosphatidylinositol 4,5-bisphosphate-binding protein slm1; PDBTitle: a systematic screen for protein-lipid interactions in saccharomyces2 cerevisiae 29 c1pt9B_ not modelled 11.6 63 PDB header:oxidoreductase Chain: B: PDB Molecule:nad(p) transhydrogenase, mitochondrial; PDBTitle: crystal structure analysis of the diii component of transhydrogenase2 with a thio-nicotinamide nucleotide analogue 30 d1qdla_ not modelled 11.1 24 Fold:ADC synthase Superfamily:ADC synthase Family:ADC synthase 31 d1acoa1 not modelled 10.5 27 Fold:The "swivelling" beta/beta/alpha domain Superfamily:LeuD/IlvD-like Family:LeuD-like 32 c1iclA_ not modelled 9.9 46 PDB header:de novo protein Chain: A: PDB Molecule:th1ox; PDBTitle: solution structure of designed beta-sheet mini-protein th1ox 33 d1i5za1 not modelled 9.7 30 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 34 d2gaua1 not modelled 9.4 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 35 c3r74B_ not modelled 9.0 12 PDB header:lyase, biosynthetic protein Chain: B: PDB Molecule:anthranilate/para-aminobenzoate synthases component i; PDBTitle: crystal structure of 2-amino-2-desoxyisochorismate synthase (adic)2 synthase phze from burkholderia lata 383 36 c2qdrA_ not modelled 8.9 14 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative dioxygenase (npun_f5605) from nostoc2 punctiforme pcc 73102 at 2.60 a resolution 37 c1s6wA_ not modelled 8.9 71 PDB header:antibiotic Chain: A: PDB Molecule:hepcidin; PDBTitle: solution structure of hybrid white striped bass hepcidin 38 c1wsuA_ not modelled 8.5 25 PDB header:translation/rna Chain: A: PDB Molecule:selenocysteine-specific elongation factor; PDBTitle: c-terminal domain of elongation factor selb complexed with2 secis rna 39 d1x1ga1 not modelled 8.3 20 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Pleckstrin-homology domain (PH domain) 40 c2knnA_ not modelled 8.3 57 PDB header:plant protein Chain: A: PDB Molecule:cycloviolacin-o2; PDBTitle: solution structure of the cyclotide cycloviolacin o2 with2 glu6 methylated (cyo2me) 41 c3bl4B_ not modelled 8.2 45 PDB header:unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a protein with unknown function (arth_0117) from2 arthrobacter sp. fb24 at 2.20 a resolution 42 c2pjpA_ not modelled 7.8 20 PDB header:translation/rna Chain: A: PDB Molecule:selenocysteine-specific elongation factor; PDBTitle: structure of the mrna-binding domain of elongation factor2 selb from e.coli in complex with secis rna 43 d2b3ya1 not modelled 7.6 33 Fold:The "swivelling" beta/beta/alpha domain Superfamily:LeuD/IlvD-like Family:LeuD-like 44 d1v5ua_ not modelled 7.2 14 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Pleckstrin-homology domain (PH domain) 45 c2rf4B_ not modelled 7.0 17 PDB header:transferase Chain: B: PDB Molecule:dna-directed rna polymerase i subunit rpa4; PDBTitle: crystal structure of the rna polymerase i subcomplex a14/43 46 d1k25a2 not modelled 6.8 28 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 47 d1nekb2 not modelled 6.5 50 Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin domains from multidomain proteins 48 d2coca1 not modelled 6.4 19 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Pleckstrin-homology domain (PH domain) 49 c3gitA_ not modelled 6.2 25 PDB header:transferase Chain: A: PDB Molecule:carbon monoxide dehydrogenase/acetyl-coa synthase subunit PDBTitle: crystal structure of a truncated acetyl-coa synthase 50 d1k0ga_ not modelled 6.1 20 Fold:ADC synthase Superfamily:ADC synthase Family:ADC synthase 51 d1ft9a1 not modelled 5.6 40 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 52 c2k2jA_ not modelled 5.4 9 PDB header:hydrolase, signaling protein Chain: A: PDB Molecule:1-phosphatidylinositol-4,5-bisphosphate PDBTitle: nmr solution structure of the split ph domain from2 phospholipase c gamma 2 53 d1l5ja2 not modelled 5.4 50 Fold:The "swivelling" beta/beta/alpha domain Superfamily:LeuD/IlvD-like Family:LeuD-like 54 d1upqa_ not modelled 5.4 14 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Pleckstrin-homology domain (PH domain) 55 d1k36a_ not modelled 5.4 17 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:EGF/Laminin Family:EGF-type module 56 c3nggA_ not modelled 5.1 42 PDB header:antibiotic Chain: A: PDB Molecule:omwaprin-a; PDBTitle: x-ray structure of omwaprin 57 d2h6ca1 not modelled 5.0 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-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

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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