Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	L	N	A	L	A	S	L	G	H	K	G	I	K	T	L	R	T	F	G	R	A	G	L	M	L	F	N	A	L	V	G	K	P	E	F	R	K	H	A	P	L	L	V	R	Q	L	Y	N	V	G	V	L	S	M	L	I	I	V
Secondary structure
SS confidence
Disorder		?	?																																	?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	S	G	V	F	I	G	M	V	L	G	L	Q	G	Y	L	V	L	T	T	Y	S	A	E	T	S	L	G	M	L	V	A	L	S	L	L	R	E	L	G	P	V	V	A	A	L	L	F	A	G	R	A	G	S	A	L	T	A	E	I
Secondary structure
SS confidence
Disorder																						?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	L	M	R	A	T	E	Q	L	S	S	M	E	M	M	A	V	D	P	L	R	R	V	I	S	P	R	F	W	A	G	V	I	S	L	P	L	L	T	V	I	F	V	A	V	G	I	W	G	G	S	L	V	G	V	S	W	K	G	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	S	G	F	F	W	S	A	M	Q	N	A	V	D	W	R	M	D	L	V	N	C	L	I	K	S	V	V	F	A	I	T	V	T	W	I	S	L	F	N	G	Y	D	A	I	P	T	S	A	G	I	S	R	A	T	T	R	T	V	V
Secondary structure
SS confidence
Disorder																																													?			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260
Sequence		H	S	S	L	A	V	L	G	L	D	F	V	L	T	A	L	M	F	G	N
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 2haf chain A domain 1 Region: 130 - 139 Aligned: 10 Modelled: 10 Confidence: 17.7% Identity: 10% Fold: VC0467-like Superfamily: VC0467-like Family: VC0467-like Phyre2 PDB 1abz chain A Region: 124 - 139 Aligned: 16 Modelled: 16 Confidence: 13.7% Identity: 25% PDB header:de novo design Chain: A: PDB Molecule:alpha-t-alpha; PDBTitle: alpha-t-alpha, a de novo designed peptide, nmr, 232 structures Phyre2 PDB 2yvx chain D Region: 23 - 179 Aligned: 118 Modelled: 129 Confidence: 13.6% Identity: 17% PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte Phyre2 PDB 2aj2 chain A Region: 130 - 139 Aligned: 10 Modelled: 10 Confidence: 13.1% Identity: 10% PDB header:unknown function Chain: A: PDB Molecule:hypothetical upf0301 protein vc0467; PDBTitle: x-ray crystal structure of protein vc0467 from vibrio2 cholerae. northeast structural genomics consortium target3 vcr8. Phyre2 PDB 2hv8 chain D Region: 115 - 133 Aligned: 19 Modelled: 19 Confidence: 13.0% Identity: 26% PDB header:protein transport Chain: D: PDB Molecule:rab11 family-interacting protein 3; PDBTitle: crystal structure of gtp-bound rab11 in complex with fip3 Phyre2 PDB 2iea chain A domain 3 Region: 95 - 139 Aligned: 42 Modelled: 45 Confidence: 11.5% Identity: 14% Fold: TK C-terminal domain-like Superfamily: TK C-terminal domain-like Family: Transketolase C-terminal domain-like Phyre2 PDB 1z96 chain A domain 1 Region: 125 - 141 Aligned: 17 Modelled: 17 Confidence: 10.1% Identity: 24% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 2hg5 chain D Region: 147 - 176 Aligned: 30 Modelled: 30 Confidence: 9.9% Identity: 20% PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter Phyre2 PDB 2la2 chain A Region: 2 - 30 Aligned: 29 Modelled: 29 Confidence: 8.4% Identity: 14% PDB header:antimicrobial protein Chain: A: PDB Molecule:cecropin; PDBTitle: solution structure of papiliocin isolated from the swallowtail2 butterfly, papilio xuthus Phyre2 PDB 2kn8 chain A Region: 121 - 144 Aligned: 24 Modelled: 24 Confidence: 8.4% Identity: 25% PDB header:protein binding, dna binding protein Chain: A: PDB Molecule:dna cleavage and packaging protein large subunit, ul89; PDBTitle: nmr structure of the c-terminal domain of pul89 Phyre2 PDB 1q7t chain A Region: 119 - 143 Aligned: 25 Modelled: 25 Confidence: 8.3% Identity: 16% PDB header:hydrolase Chain: A: PDB Molecule:hypothetical protein rv1170; PDBTitle: rv1170 (mshb) from mycobacterium tuberculosis Phyre2 PDB 1g7o chain A domain 1 Region: 124 - 149 Aligned: 26 Modelled: 26 Confidence: 8.3% Identity: 12% Fold: GST C-terminal domain-like Superfamily: GST C-terminal domain-like Family: Glutathione S-transferase (GST), C-terminal domain Phyre2 PDB 1cf3 chain A Region: 101 - 124 Aligned: 24 Modelled: 24 Confidence: 8.1% Identity: 13% PDB header:oxidoreductase(flavoprotein) Chain: A: PDB Molecule:protein (glucose oxidase); PDBTitle: glucose oxidase from apergillus niger Phyre2 PDB 1vma chain A Region: 227 - 238 Aligned: 12 Modelled: 12 Confidence: 6.9% Identity: 17% PDB header:protein transport Chain: A: PDB Molecule:cell division protein ftsy; PDBTitle: crystal structure of cell division protein ftsy (tm0570) from2 thermotoga maritima at 1.60 a resolution Phyre2 PDB 2k0b chain X domain 1 Region: 124 - 138 Aligned: 15 Modelled: 15 Confidence: 6.8% Identity: 40% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: UBA domain Phyre2 PDB 1q74 chain A Region: 119 - 143 Aligned: 25 Modelled: 25 Confidence: 6.6% Identity: 16% Fold: LmbE-like Superfamily: LmbE-like Family: LmbE-like Phyre2 PDB 2do8 chain A domain 1 Region: 130 - 139 Aligned: 10 Modelled: 10 Confidence: 6.0% Identity: 20% Fold: VC0467-like Superfamily: VC0467-like Family: VC0467-like Phyre2 PDB 2hjq chain A domain 1 Region: 118 - 142 Aligned: 25 Modelled: 25 Confidence: 5.9% Identity: 20% Fold: LEM/SAP HeH motif Superfamily: Rho N-terminal domain-like Family: YqbF C-terminal domain-like Phyre2 PDB 2j7p chain A Region: 227 - 238 Aligned: 12 Modelled: 12 Confidence: 5.7% Identity: 25% PDB header:signal recognition Chain: A: PDB Molecule:signal recognition particle protein; PDBTitle: gmppnp-stabilized ng domain complex of the srp gtpases ffh2 and ftsy Phyre2 PDB 3dfm chain A Region: 119 - 139 Aligned: 21 Modelled: 21 Confidence: 5.5% Identity: 19% PDB header:hydrolase Chain: A: PDB Molecule:teicoplanin pseudoaglycone deacetylase orf2; PDBTitle: the crystal structure of the zinc inhibited form of2 teicoplanin deacetylase orf2 Phyre2 1 d2hafa1 2 c1abzA_ 3 c2yvxD_ 4 c2aj2A_ 5 c2hv8D_ 6 d2ieaa3 7 d1z96a1 8 c2hg5D_ 9 c2la2A_ 10 c2kn8A_ 11 c1q7tA_ 12 d1g7oa1 13 c1cf3A_ 14 c1vmaA_ 15 d2k0bx1 16 d1q74a_ 17 d2do8a1 18 d2hjqa1 19 c2j7pA_ 20 c3dfmA_ 21

Detailed template information

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

1 d2hafa1 17.7 10 Fold:VC0467-like Superfamily:VC0467-like Family:VC0467-like 2 c1abzA_ 13.7 25 PDB header:de novo design Chain: A: PDB Molecule:alpha-t-alpha; PDBTitle: alpha-t-alpha, a de novo designed peptide, nmr, 232 structures 3 c2yvxD_ 13.6 17 PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte 4 c2aj2A_ 13.1 10 PDB header:unknown function Chain: A: PDB Molecule:hypothetical upf0301 protein vc0467; PDBTitle: x-ray crystal structure of protein vc0467 from vibrio2 cholerae. northeast structural genomics consortium target3 vcr8. 5 c2hv8D_ 13.0 26 PDB header:protein transport Chain: D: PDB Molecule:rab11 family-interacting protein 3; PDBTitle: crystal structure of gtp-bound rab11 in complex with fip3 6 d2ieaa3 11.5 14 Fold:TK C-terminal domain-like Superfamily:TK C-terminal domain-like Family:Transketolase C-terminal domain-like 7 d1z96a1 10.1 24 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 8 c2hg5D_ 9.9 20 PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter 9 c2la2A_ 8.4 14 PDB header:antimicrobial protein Chain: A: PDB Molecule:cecropin; PDBTitle: solution structure of papiliocin isolated from the swallowtail2 butterfly, papilio xuthus 10 c2kn8A_ 8.4 25 PDB header:protein binding, dna binding protein Chain: A: PDB Molecule:dna cleavage and packaging protein large subunit, ul89; PDBTitle: nmr structure of the c-terminal domain of pul89 11 c1q7tA_ 8.3 16 PDB header:hydrolase Chain: A: PDB Molecule:hypothetical protein rv1170; PDBTitle: rv1170 (mshb) from mycobacterium tuberculosis 12 d1g7oa1 8.3 12 Fold:GST C-terminal domain-like Superfamily:GST C-terminal domain-like Family:Glutathione S-transferase (GST), C-terminal domain 13 c1cf3A_ 8.1 13 PDB header:oxidoreductase(flavoprotein) Chain: A: PDB Molecule:protein (glucose oxidase); PDBTitle: glucose oxidase from apergillus niger 14 c1vmaA_ 6.9 17 PDB header:protein transport Chain: A: PDB Molecule:cell division protein ftsy; PDBTitle: crystal structure of cell division protein ftsy (tm0570) from2 thermotoga maritima at 1.60 a resolution 15 d2k0bx1 6.8 40 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 16 d1q74a_ 6.6 16 Fold:LmbE-like Superfamily:LmbE-like Family:LmbE-like 17 d2do8a1 6.0 20 Fold:VC0467-like Superfamily:VC0467-like Family:VC0467-like 18 d2hjqa1 5.9 20 Fold:LEM/SAP HeH motif Superfamily:Rho N-terminal domain-like Family:YqbF C-terminal domain-like 19 c2j7pA_ 5.7 25 PDB header:signal recognition Chain: A: PDB Molecule:signal recognition particle protein; PDBTitle: gmppnp-stabilized ng domain complex of the srp gtpases ffh2 and ftsy 20 c3dfmA_ 5.5 19 PDB header:hydrolase Chain: A: PDB Molecule:teicoplanin pseudoaglycone deacetylase orf2; PDBTitle: the crystal structure of the zinc inhibited form of2 teicoplanin deacetylase orf2 21 c1gw4A_ not modelled 5.4 18 PDB header:high density lipoproteins Chain: A: PDB Molecule:apoa-i; PDBTitle: the helix-hinge-helix structural motif in human2 apolipoprotein a-i determined by nmr spectroscopy, 13 structure

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