Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	N	Q	F	L	K	E	S	D	V	T	A	E	S	V	F	F	M	K	R	R	Q	V	L	K	A	L	G	I	S	A	T	A	L	S	L	P	H	A	A	H	A	D	L	L	S	W	F	K	G	N	D	R	P	P	A	P	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																			?			?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	K	A	L	E	F	S	K	P	A	A	W	Q	N	N	L	P	L	T	P	A	D	K	V	S	G	Y	N	N	F	Y	E	F	G	L	D	K	A	D	P	A	A	N	A	G	S	L	K	T	D	P	W	T	L	K	I	S	G	E	V
Secondary structure
SS confidence
Disorder							?			?		?	?	?	?	?	?	?	?	?	?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	K	P	L	T	L	D	H	D	D	L	T	R	R	F	P	L	E	E	R	I	Y	R	M	R	C	V	E	A	W	S	M	V	V	P	W	I	G	F	P	L	H	K	L	L	A	L	A	E	P	T	S	N	A	K	Y	V	A	F	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	I	Y	A	P	E	Q	M	P	G	Q	Q	D	R	F	I	G	G	G	L	K	Y	P	Y	V	E	G	L	R	L	D	E	A	M	H	P	L	T	L	M	T	V	G	V	Y	G	K	A	L	P	P	Q	N	G	A	P	V	R	L	I
Secondary structure
SS confidence
Disorder									?				?		?								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	P	W	K	Y	G	F	K	G	I	K	S	I	V	S	I	K	L	T	R	E	R	P	P	T	T	W	N	L	A	A	P	D	E	Y	G	F	Y	A	N	V	N	P	Y	V	D	H	P	R	W	S	Q	A	T	E	R	F	I	G	S
Secondary structure
SS confidence
Disorder																																																					?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.
Sequence		G	G	I	L	D	V	Q	R	Q	P	T	L	L	F	N	G	Y	A	A	Q	V	A	S	L	Y	R	G	L	D	L	R	E	N	F
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 1xdy chain A Region: 62 - 330 Aligned: 263 Modelled: 269 Confidence: 100.0% Identity: 100% Fold: Oxidoreductase molybdopterin-binding domain Superfamily: Oxidoreductase molybdopterin-binding domain Family: Oxidoreductase molybdopterin-binding domain Phyre2 PDB 1xdy chain C Region: 62 - 330 Aligned: 264 Modelled: 269 Confidence: 100.0% Identity: 100% PDB header:oxidoreductase Chain: C: PDB Molecule:bacterial sulfite oxidase; PDBTitle: structural and biochemical identification of a novel2 bacterial oxidoreductase, w-containing cofactor Phyre2 PDB 2xts chain C Region: 63 - 334 Aligned: 244 Modelled: 251 Confidence: 100.0% Identity: 20% PDB header:oxidoreductase/electron transport Chain: C: PDB Molecule:sulfite dehydrogenase; PDBTitle: crystal structure of the sulfane dehydrogenase soxcd from paracoccus2 pantotrophus Phyre2 PDB 1sox chain B Region: 52 - 334 Aligned: 263 Modelled: 264 Confidence: 100.0% Identity: 21% PDB header:oxidoreductase Chain: B: PDB Molecule:sulfite oxidase; PDBTitle: sulfite oxidase from chicken liver Phyre2 PDB 2bih chain A Region: 56 - 334 Aligned: 256 Modelled: 261 Confidence: 100.0% Identity: 19% PDB header:oxidoreductase Chain: A: PDB Molecule:nitrate reductase [nadph]; PDBTitle: crystal structure of the molybdenum-containing nitrate2 reducing fragment of pichia angusta assimilatory nitrate3 reductase Phyre2 PDB 2bpb chain A Region: 68 - 334 Aligned: 248 Modelled: 256 Confidence: 100.0% Identity: 24% PDB header:oxidoreductase Chain: A: PDB Molecule:sulfite\:cytochrome c oxidoreductase subunit a; PDBTitle: sulfite dehydrogenase from starkeya novella Phyre2 PDB 2bii chain A Region: 83 - 334 Aligned: 229 Modelled: 238 Confidence: 100.0% Identity: 19% PDB header:oxidoreductase Chain: A: PDB Molecule:nitrate reductase [nadph]; PDBTitle: crystal structure of nitrate-reducing fragment of2 assimilatory nitrate reductase from pichia angusta Phyre2 PDB 2a9d chain B Region: 63 - 334 Aligned: 253 Modelled: 259 Confidence: 100.0% Identity: 19% PDB header:oxidoreductase Chain: B: PDB Molecule:sulfite oxidase; PDBTitle: crystal structure of recombinant chicken sulfite oxidase with arg at2 residue 161 Phyre2 PDB 1ogp chain D Region: 53 - 334 Aligned: 264 Modelled: 271 Confidence: 100.0% Identity: 20% PDB header:oxidoreductase Chain: D: PDB Molecule:sulfite oxidase; PDBTitle: the crystal structure of plant sulfite oxidase provides2 insight into sulfite oxidation in plants and animals Phyre2 PDB 1ogp chain A domain 2 Region: 44 - 283 Aligned: 222 Modelled: 234 Confidence: 100.0% Identity: 21% Fold: Oxidoreductase molybdopterin-binding domain Superfamily: Oxidoreductase molybdopterin-binding domain Family: Oxidoreductase molybdopterin-binding domain Phyre2 PDB 2a9d chain A domain 2 Region: 53 - 294 Aligned: 216 Modelled: 229 Confidence: 100.0% Identity: 22% Fold: Oxidoreductase molybdopterin-binding domain Superfamily: Oxidoreductase molybdopterin-binding domain Family: Oxidoreductase molybdopterin-binding domain Phyre2 PDB 2e76 chain D Region: 17 - 70 Aligned: 54 Modelled: 54 Confidence: 77.3% Identity: 17% PDB header:photosynthesis Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus Phyre2 PDB 1p84 chain E Region: 2 - 42 Aligned: 41 Modelled: 41 Confidence: 53.8% Identity: 22% PDB header:oxidoreductase Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur PDBTitle: hdbt inhibited yeast cytochrome bc1 complex Phyre2 PDB 2fyu chain E Region: 20 - 41 Aligned: 22 Modelled: 22 Confidence: 34.5% Identity: 14% PDB header:oxidoreductase Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit, PDBTitle: crystal structure of bovine heart mitochondrial bc1 with jg1442 inhibitor Phyre2 PDB 1ogp chain A domain 1 Region: 279 - 334 Aligned: 48 Modelled: 48 Confidence: 28.0% Identity: 15% Fold: Immunoglobulin-like beta-sandwich Superfamily: E set domains Family: Molybdenum-containing oxidoreductases-like dimerisation domain Phyre2 PDB 2fyn chain O Region: 20 - 41 Aligned: 22 Modelled: 22 Confidence: 22.0% Identity: 9% PDB header:oxidoreductase Chain: O: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur PDBTitle: crystal structure analysis of the double mutant rhodobacter2 sphaeroides bc1 complex Phyre2 PDB 1r6o chain C domain 1 Region: 231 - 241 Aligned: 11 Modelled: 11 Confidence: 21.2% Identity: 18% Fold: ClpS-like Superfamily: ClpS-like Family: Adaptor protein ClpS (YljA) Phyre2 PDB 2a9d chain A domain 1 Region: 279 - 334 Aligned: 48 Modelled: 52 Confidence: 13.5% Identity: 21% Fold: Immunoglobulin-like beta-sandwich Superfamily: E set domains Family: Molybdenum-containing oxidoreductases-like dimerisation domain Phyre2 PDB 3h3g chain B Region: 15 - 31 Aligned: 17 Modelled: 17 Confidence: 12.9% Identity: 29% PDB header:membrane protein Chain: B: PDB Molecule:parathyroid hormone-related protein; PDBTitle: crystal structure of the extracellular domain of the human parathyroid2 hormone receptor (pth1r) in complex with parathyroid hormone-related3 protein (pthrp) Phyre2 PDB 2axw chain A domain 1 Region: 100 - 125 Aligned: 26 Modelled: 26 Confidence: 12.0% Identity: 12% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 1 d1xdya_ 2 c1xdyC_ 3 c2xtsC_ 4 c1soxB_ 5 c2bihA_ 6 c2bpbA_ 7 c2biiA_ 8 c2a9dB_ 9 c1ogpD_ 10 d1ogpa2 11 d2a9da2 12 c2e76D_ 13 c1p84E_ 14 c2fyuE_ 15 d1ogpa1 16 c2fynO_ 17 d1r6oc1 18 d2a9da1 19 c3h3gB_ 20 d2axwa1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38

Detailed template information

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

1 d1xdya_ 100.0 100 Fold:Oxidoreductase molybdopterin-binding domain Superfamily:Oxidoreductase molybdopterin-binding domain Family:Oxidoreductase molybdopterin-binding domain 2 c1xdyC_ 100.0 100 PDB header:oxidoreductase Chain: C: PDB Molecule:bacterial sulfite oxidase; PDBTitle: structural and biochemical identification of a novel2 bacterial oxidoreductase, w-containing cofactor 3 c2xtsC_ 100.0 20 PDB header:oxidoreductase/electron transport Chain: C: PDB Molecule:sulfite dehydrogenase; PDBTitle: crystal structure of the sulfane dehydrogenase soxcd from paracoccus2 pantotrophus 4 c1soxB_ 100.0 21 PDB header:oxidoreductase Chain: B: PDB Molecule:sulfite oxidase; PDBTitle: sulfite oxidase from chicken liver 5 c2bihA_ 100.0 19 PDB header:oxidoreductase Chain: A: PDB Molecule:nitrate reductase [nadph]; PDBTitle: crystal structure of the molybdenum-containing nitrate2 reducing fragment of pichia angusta assimilatory nitrate3 reductase 6 c2bpbA_ 100.0 24 PDB header:oxidoreductase Chain: A: PDB Molecule:sulfite\:cytochrome c oxidoreductase subunit a; PDBTitle: sulfite dehydrogenase from starkeya novella 7 c2biiA_ 100.0 19 PDB header:oxidoreductase Chain: A: PDB Molecule:nitrate reductase [nadph]; PDBTitle: crystal structure of nitrate-reducing fragment of2 assimilatory nitrate reductase from pichia angusta 8 c2a9dB_ 100.0 19 PDB header:oxidoreductase Chain: B: PDB Molecule:sulfite oxidase; PDBTitle: crystal structure of recombinant chicken sulfite oxidase with arg at2 residue 161 9 c1ogpD_ 100.0 20 PDB header:oxidoreductase Chain: D: PDB Molecule:sulfite oxidase; PDBTitle: the crystal structure of plant sulfite oxidase provides2 insight into sulfite oxidation in plants and animals 10 d1ogpa2 100.0 21 Fold:Oxidoreductase molybdopterin-binding domain Superfamily:Oxidoreductase molybdopterin-binding domain Family:Oxidoreductase molybdopterin-binding domain 11 d2a9da2 100.0 22 Fold:Oxidoreductase molybdopterin-binding domain Superfamily:Oxidoreductase molybdopterin-binding domain Family:Oxidoreductase molybdopterin-binding domain 12 c2e76D_ 77.3 17 PDB header:photosynthesis Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus 13 c1p84E_ 53.8 22 PDB header:oxidoreductase Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur PDBTitle: hdbt inhibited yeast cytochrome bc1 complex 14 c2fyuE_ 34.5 14 PDB header:oxidoreductase Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit, PDBTitle: crystal structure of bovine heart mitochondrial bc1 with jg1442 inhibitor 15 d1ogpa1 28.0 15 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Molybdenum-containing oxidoreductases-like dimerisation domain 16 c2fynO_ 22.0 9 PDB header:oxidoreductase Chain: O: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur PDBTitle: crystal structure analysis of the double mutant rhodobacter2 sphaeroides bc1 complex 17 d1r6oc1 21.2 18 Fold:ClpS-like Superfamily:ClpS-like Family:Adaptor protein ClpS (YljA) 18 d2a9da1 13.5 21 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Molybdenum-containing oxidoreductases-like dimerisation domain 19 c3h3gB_ 12.9 29 PDB header:membrane protein Chain: B: PDB Molecule:parathyroid hormone-related protein; PDBTitle: crystal structure of the extracellular domain of the human parathyroid2 hormone receptor (pth1r) in complex with parathyroid hormone-related3 protein (pthrp) 20 d2axwa1 12.0 12 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 21 d2evea1 not modelled 11.8 19 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 22 c3dnjB_ not modelled 11.5 9 PDB header:peptide binding protein Chain: B: PDB Molecule:atp-dependent clp protease adapter protein clps; PDBTitle: the structure of the caulobacter crescentus clps protease2 adaptor protein in complex with a n-end rule peptide 23 c3ffdP_ not modelled 10.7 31 PDB header:immune system/hormone Chain: P: PDB Molecule:parathyroid hormone-related protein; PDBTitle: structure of parathyroid hormone-related protein complexed2 to a neutralizing monoclonal antibody 24 d1l7la_ not modelled 9.9 38 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:PA-IL, galactose-binding lectin 1 25 d1pd0a2 not modelled 9.4 16 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:beta-sandwich domain of Sec23/24 Family:beta-sandwich domain of Sec23/24 26 c2inpE_ not modelled 7.9 14 PDB header:oxidoreductase Chain: E: PDB Molecule:phenol hydroxylase component pho; PDBTitle: structure of the phenol hydroxylase-regulatory protein2 complex 27 d2g2xa1 not modelled 7.8 27 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 28 c1r8oA_ not modelled 7.1 22 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:kunitz trypsin inhibitor; PDBTitle: crystal structure of an unusual kunitz-type trypsin inhibitor from2 copaifera langsdorffii seeds 29 c3diiB_ not modelled 6.8 16 PDB header:oxidoreductase Chain: B: PDB Molecule:short-chain dehydrogenase/reductase sdr; PDBTitle: crystal structure of a carbohydrate specific scor enzyme2 from clostridium thermocellum, ligand-free form 30 d1zud21 not modelled 6.3 9 Fold:beta-Grasp (ubiquitin-like) Superfamily:MoaD/ThiS Family:ThiS 31 d2huha1 not modelled 6.2 18 Fold:C2 domain-like Superfamily:Smr-associated domain-like Family:Smr-associated domain 32 c2fvnA_ not modelled 6.0 12 PDB header:cell adhesion Chain: A: PDB Molecule:protein afad; PDBTitle: the fibrillar tip complex of the afa/dr adhesins from2 pathogen e. coli displays synergistic binding to 5 1 and v3 3 integrins 33 d1qo7a_ not modelled 5.7 30 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Epoxide hydrolase 34 d2ar1a1 not modelled 5.5 18 Fold:PUA domain-like Superfamily:PUA domain-like Family:Atu2648/PH1033-like 35 d1pgw21 not modelled 5.5 22 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Positive stranded ssRNA viruses Family:Comoviridae-like VP 36 d2hkja1 not modelled 5.3 22 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Topoisomerase VI-B subunit middle domain 37 d1pgl21 not modelled 5.3 22 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Positive stranded ssRNA viruses Family:Comoviridae-like VP 38 d1ny721 not modelled 5.2 26 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Positive stranded ssRNA viruses Family:Comoviridae-like VP

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