Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Y	A	A	K	G	T	Q	A	Y	A	Q	I	G	V	E	S	A	V	M	S	A	S	Q	Q	Q	L	V	T	M	L	F	D	G	V	L	S	A	L	V	R	A	S	L	F	M	Q	D	N	N	Q	Q	G	K	G	V	S	L	S	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?																?	?	?																									?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	I	N	I	I	E	N	G	L	R	V	S	L	D	E	E	S	K	D	E	L	T	Q	N	L	I	A	L	Y	S	Y	M	V	R	R	L	L	Q	A	N	L	R	N	D	V	S	A	V	E	E	V	E	A	L	M	R	N	I	A	D
Secondary structure
SS confidence
Disorder													?		?	?	?	?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.
Sequence		A	W	K	E	S	L	L	S	P	S	L	I	Q	D	P	V
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 1orj chain A Region: 4 - 128 Aligned: 118 Modelled: 125 Confidence: 100.0% Identity: 23% Fold: Four-helical up-and-down bundle Superfamily: Flagellar export chaperone FliS Family: Flagellar export chaperone FliS Phyre2 PDB 3k1i chain A Region: 23 - 129 Aligned: 106 Modelled: 107 Confidence: 100.0% Identity: 27% PDB header:chaperone Chain: A: PDB Molecule:flagellar protein; PDBTitle: crystal strcture of flis-hp1076 complex in h. pylori Phyre2 PDB 1vh6 chain A Region: 22 - 126 Aligned: 102 Modelled: 105 Confidence: 100.0% Identity: 34% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:flagellar protein flis; PDBTitle: crystal structure of a flagellar protein Phyre2 PDB 1vh6 chain A Region: 22 - 126 Aligned: 102 Modelled: 105 Confidence: 100.0% Identity: 34% Fold: Four-helical up-and-down bundle Superfamily: Flagellar export chaperone FliS Family: Flagellar export chaperone FliS Phyre2 PDB 1orj chain B Region: 24 - 127 Aligned: 101 Modelled: 104 Confidence: 100.0% Identity: 22% Fold: Four-helical up-and-down bundle Superfamily: Flagellar export chaperone FliS Family: Flagellar export chaperone FliS Phyre2 PDB 2nw8 chain A domain 1 Region: 25 - 74 Aligned: 49 Modelled: 50 Confidence: 46.8% Identity: 12% Fold: Indolic compounds 2,3-dioxygenase-like Superfamily: Indolic compounds 2,3-dioxygenase-like Family: Bacterial tryptophan 2,3-dioxygenase Phyre2 PDB 2nox chain P Region: 25 - 74 Aligned: 49 Modelled: 50 Confidence: 45.9% Identity: 16% PDB header:oxidoreductase Chain: P: PDB Molecule:tryptophan 2,3-dioxygenase; PDBTitle: crystal structure of tryptophan 2,3-dioxygenase from ralstonia2 metallidurans Phyre2 PDB 2nw7 chain C Region: 25 - 74 Aligned: 49 Modelled: 50 Confidence: 42.6% Identity: 12% PDB header:oxidoreductase Chain: C: PDB Molecule:tryptophan 2,3-dioxygenase; PDBTitle: crystal structure of tryptophan 2,3-dioxygenase (tdo) from2 xanthomonas campestris in complex with ferric heme.3 northeast structural genomics target xcr13 Phyre2 PDB 1x91 chain A Region: 31 - 101 Aligned: 70 Modelled: 71 Confidence: 25.7% Identity: 11% Fold: Bromodomain-like Superfamily: Plant invertase/pectin methylesterase inhibitor Family: Plant invertase/pectin methylesterase inhibitor Phyre2 PDB 3mhv chain A Region: 32 - 69 Aligned: 37 Modelled: 38 Confidence: 24.6% Identity: 11% PDB header:protein transport Chain: A: PDB Molecule:vacuolar protein sorting-associated protein vta1; PDBTitle: crystal structure of vps4 and vta1 Phyre2 PDB 3opc chain B Region: 31 - 127 Aligned: 81 Modelled: 83 Confidence: 18.7% Identity: 17% PDB header:chaperone Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of flgn chaperone from bordetella pertussis Phyre2 PDB 3rau chain B Region: 24 - 104 Aligned: 79 Modelled: 81 Confidence: 16.9% Identity: 9% PDB header:hydrolase Chain: B: PDB Molecule:tyrosine-protein phosphatase non-receptor type 23; PDBTitle: crystal structure of the hd-ptp bro1 domain Phyre2 PDB 3o3n chain B Region: 81 - 136 Aligned: 53 Modelled: 56 Confidence: 16.4% Identity: 4% PDB header:lyase Chain: B: PDB Molecule:beta-subunit 2-hydroxyacyl-coa dehydratase; PDBTitle: (r)-2-hydroxyisocaproyl-coa dehydratase in complex with its substrate2 (r)-2-hydroxyisocaproyl-coa Phyre2 PDB 2e9x chain B domain 1 Region: 67 - 120 Aligned: 54 Modelled: 54 Confidence: 15.5% Identity: 20% Fold: GINS helical bundle-like Superfamily: GINS helical bundle-like Family: PSF2 C-terminal domain-like Phyre2 PDB 2pmr chain A domain 1 Region: 17 - 70 Aligned: 53 Modelled: 54 Confidence: 13.1% Identity: 9% Fold: immunoglobulin/albumin-binding domain-like Superfamily: AF1782-like Family: AF1782-like Phyre2 PDB 2wpv chain G Region: 37 - 116 Aligned: 76 Modelled: 80 Confidence: 11.3% Identity: 22% PDB header:protein binding Chain: G: PDB Molecule:upf0363 protein yor164c; PDBTitle: crystal structure of s. cerevisiae get4-get5 complex Phyre2 PDB 1zb1 chain A Region: 28 - 104 Aligned: 73 Modelled: 77 Confidence: 10.9% Identity: 14% PDB header:protein transport Chain: A: PDB Molecule:bro1 protein; PDBTitle: structure basis for endosomal targeting by the bro1 domain Phyre2 PDB 2rkl chain B Region: 32 - 66 Aligned: 35 Modelled: 35 Confidence: 10.7% Identity: 11% PDB header:lipid transport Chain: B: PDB Molecule:vacuolar protein sorting-associated protein vta1; PDBTitle: crystal structure of s.cerevisiae vta1 c-terminal domain Phyre2 PDB 3n71 chain A Region: 32 - 103 Aligned: 70 Modelled: 72 Confidence: 10.2% Identity: 13% PDB header:transcription Chain: A: PDB Molecule:histone lysine methyltransferase smyd1; PDBTitle: crystal structure of cardiac specific histone methyltransferase smyd1 Phyre2 PDB 1nvp chain B Region: 85 - 124 Aligned: 38 Modelled: 40 Confidence: 9.6% Identity: 13% PDB header:transcription/dna Chain: B: PDB Molecule:transcription initiation factor iia alpha chain; PDBTitle: human tfiia/tbp/dna complex Phyre2 1 d1orja_ 2 c3k1iA_ 3 c1vh6A_ 4 d1vh6a_ 5 d1orjb_ 6 d2nw8a1 7 c2noxP_ 8 c2nw7C_ 9 d1x91a_ 10 c3mhvA_ 11 c3opcB_ 12 c3rauB_ 13 c3o3nB_ 14 d2e9xb1 15 d2pmra1 16 c2wpvG_ 17 c1zb1A_ 18 c2rklB_ 19 c3n71A_ 20 c1nvpB_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35

Detailed template information

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

1 d1orja_ 100.0 23 Fold:Four-helical up-and-down bundle Superfamily:Flagellar export chaperone FliS Family:Flagellar export chaperone FliS 2 c3k1iA_ 100.0 27 PDB header:chaperone Chain: A: PDB Molecule:flagellar protein; PDBTitle: crystal strcture of flis-hp1076 complex in h. pylori 3 c1vh6A_ 100.0 34 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:flagellar protein flis; PDBTitle: crystal structure of a flagellar protein 4 d1vh6a_ 100.0 34 Fold:Four-helical up-and-down bundle Superfamily:Flagellar export chaperone FliS Family:Flagellar export chaperone FliS 5 d1orjb_ 100.0 22 Fold:Four-helical up-and-down bundle Superfamily:Flagellar export chaperone FliS Family:Flagellar export chaperone FliS 6 d2nw8a1 46.8 12 Fold:Indolic compounds 2,3-dioxygenase-like Superfamily:Indolic compounds 2,3-dioxygenase-like Family:Bacterial tryptophan 2,3-dioxygenase 7 c2noxP_ 45.9 16 PDB header:oxidoreductase Chain: P: PDB Molecule:tryptophan 2,3-dioxygenase; PDBTitle: crystal structure of tryptophan 2,3-dioxygenase from ralstonia2 metallidurans 8 c2nw7C_ 42.6 12 PDB header:oxidoreductase Chain: C: PDB Molecule:tryptophan 2,3-dioxygenase; PDBTitle: crystal structure of tryptophan 2,3-dioxygenase (tdo) from2 xanthomonas campestris in complex with ferric heme.3 northeast structural genomics target xcr13 9 d1x91a_ 25.7 11 Fold:Bromodomain-like Superfamily:Plant invertase/pectin methylesterase inhibitor Family:Plant invertase/pectin methylesterase inhibitor 10 c3mhvA_ 24.6 11 PDB header:protein transport Chain: A: PDB Molecule:vacuolar protein sorting-associated protein vta1; PDBTitle: crystal structure of vps4 and vta1 11 c3opcB_ 18.7 17 PDB header:chaperone Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of flgn chaperone from bordetella pertussis 12 c3rauB_ 16.9 9 PDB header:hydrolase Chain: B: PDB Molecule:tyrosine-protein phosphatase non-receptor type 23; PDBTitle: crystal structure of the hd-ptp bro1 domain 13 c3o3nB_ 16.4 4 PDB header:lyase Chain: B: PDB Molecule:beta-subunit 2-hydroxyacyl-coa dehydratase; PDBTitle: (r)-2-hydroxyisocaproyl-coa dehydratase in complex with its substrate2 (r)-2-hydroxyisocaproyl-coa 14 d2e9xb1 15.5 20 Fold:GINS helical bundle-like Superfamily:GINS helical bundle-like Family:PSF2 C-terminal domain-like 15 d2pmra1 13.1 9 Fold:immunoglobulin/albumin-binding domain-like Superfamily:AF1782-like Family:AF1782-like 16 c2wpvG_ 11.3 22 PDB header:protein binding Chain: G: PDB Molecule:upf0363 protein yor164c; PDBTitle: crystal structure of s. cerevisiae get4-get5 complex 17 c1zb1A_ 10.9 14 PDB header:protein transport Chain: A: PDB Molecule:bro1 protein; PDBTitle: structure basis for endosomal targeting by the bro1 domain 18 c2rklB_ 10.7 11 PDB header:lipid transport Chain: B: PDB Molecule:vacuolar protein sorting-associated protein vta1; PDBTitle: crystal structure of s.cerevisiae vta1 c-terminal domain 19 c3n71A_ 10.2 13 PDB header:transcription Chain: A: PDB Molecule:histone lysine methyltransferase smyd1; PDBTitle: crystal structure of cardiac specific histone methyltransferase smyd1 20 c1nvpB_ 9.6 13 PDB header:transcription/dna Chain: B: PDB Molecule:transcription initiation factor iia alpha chain; PDBTitle: human tfiia/tbp/dna complex 21 d1nvpb_ not modelled 9.6 13 Fold:Transcription factor IIA (TFIIA), alpha-helical domain Superfamily:Transcription factor IIA (TFIIA), alpha-helical domain Family:Transcription factor IIA (TFIIA), alpha-helical domain 22 c2xzeA_ not modelled 9.0 12 PDB header:hydrolase/protein transport Chain: A: PDB Molecule:stam-binding protein; PDBTitle: structural basis for amsh-escrt-iii chmp3 interaction 23 c2dl1A_ not modelled 9.0 9 PDB header:protein transport Chain: A: PDB Molecule:spartin; PDBTitle: solution structure of the mit domain from human spartin 24 c2v6yA_ not modelled 8.1 15 PDB header:hydrolase Chain: A: PDB Molecule:aaa family atpase, p60 katanin; PDBTitle: structure of the mit domain from a s. solfataricus vps4-2 like atpase 25 d1z6om1 not modelled 8.1 15 Fold:Ferritin-like Superfamily:Ferritin-like Family:Ferritin 26 c2e9xF_ not modelled 7.8 19 PDB header:replication Chain: F: PDB Molecule:dna replication complex gins protein psf2; PDBTitle: the crystal structure of human gins core complex 27 c2v6xA_ not modelled 7.5 5 PDB header:protein transport Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 4; PDBTitle: stractural insight into the interaction between escrt-iii2 and vps4 28 c2nuxB_ not modelled 7.3 7 PDB header:lyase Chain: B: PDB Molecule:2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho gluconate PDBTitle: 2-keto-3-deoxygluconate aldolase from sulfolobus acidocaldarius,2 native structure in p6522 at 2.5 a resolution 29 c2yruA_ not modelled 7.3 5 PDB header:apoptosis Chain: A: PDB Molecule:steroid receptor rna activator 1; PDBTitle: solution structure of mouse steroid receptor rna activator2 1 (sra1) protein 30 c3kh1B_ not modelled 6.2 15 PDB header:hydrolase Chain: B: PDB Molecule:predicted metal-dependent phosphohydrolase; PDBTitle: crystal structure of predicted metal-dependent2 phosphohydrolase (zp_00055740.2) from magnetospirillum3 magnetotacticum ms-1 at 1.37 a resolution 31 d2ijqa1 not modelled 6.2 9 Fold:Hyaluronidase domain-like Superfamily:TTHA0068-like Family:TTHA0068-like 32 c1rm1C_ not modelled 5.6 12 PDB header:transcription/dna Chain: C: PDB Molecule:transcription initiation factor iia large chain; PDBTitle: structure of a yeast tfiia/tbp/tata-box dna complex 33 d2za7a1 not modelled 5.5 21 Fold:Ferritin-like Superfamily:Ferritin-like Family:Ferritin 34 d2g5ca1 not modelled 5.4 11 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:TyrA dimerization domain-like 35 c3e6sD_ not modelled 5.3 18 PDB header:oxidoreductase Chain: D: PDB Molecule:ferritin; PDBTitle: crystal structure of ferritin soaked with iron from pseudo-2 nitzschia multiseries

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