Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	H	P	R	A	R	T	M	L	L	L	S	L	P	A	V	A	I	G	I	A	S	S	L	I	L	I	V	V	M	K	I	A	S	V	L	Q	N	L	L	W	Q	R	L	P	G	T	L	G	I	A	Q	D	S	P	L	W	I	I
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	V	L	T	L	T	G	I	A	V	G	L	V	I	R	F	S	Q	G	H	A	G	P	D	P	A	C	E	P	L	I	G	A	P	V	P	P	S	A	L	P	G	L	I	V	A	L	I	L	G	L	A	G	G	V	S	L	G	P	E
Secondary structure
SS confidence
Disorder																			?	?	?	?	?									?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		H	P	I	M	T	V	N	I	A	L	A	V	A	I	G	A	R	L	L	P	R	V	N	R	M	E	W	T	I	L	A	S	A	G	T	I	G	A	L	F	G	T	P	V	A	A	A	L	I	F	S	Q	T	L	N	G	S	S	E	V
Secondary structure
SS confidence
Disorder																								?																																		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	L	W	D	R	L	F	A	P	L	M	A	A	A	A	G	A	L	T	T	G	L	F	F	H	P	H	F	S	L	P	I	A	H	Y	G	Q	M	E	M	T	D	I	L	S	G	A	I	V	A	A	I	A	I	A	A	G	M	V	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		V	W	C	L	P	R	L	H	A	M	M	H	Q	M	K	N	P	V	L	V	L	G	I	G	G	F	I	L	G	I	L	G	V	I	G	G	P	V	S	L	F	K	G	L	D	E	M	Q	Q	M	V	A	N	Q	A	F	S	T	S	D
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		Y	F	L	L	A	V	I	K	L	A	A	L	V	V	A	A	A	S	G	F	R	G	G	R	I	F	P	A	V	F	V	G	V	A	L	G	L	M	L	H	E	H	V	P	A	V	P	A	A	I	T	V	S	C	A	I	L	G	I	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.
Sequence		L	V	V	T	R	D	G	W	L	S	L	F	M	A	A	V	V	V	P	N	T	T	L	L	P	L	L	C	I	V	M	L	P	A	W	L	L	L	A	G	K	P	M	M	M	V	N	R	P	K	Q	Q	P	P	H	D	N	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 2ht2 chain B Region: 4 - 416 Aligned: 411 Modelled: 413 Confidence: 100.0% Identity: 17% PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex Phyre2 PDB 1ots chain A Region: 3 - 411 Aligned: 407 Modelled: 409 Confidence: 100.0% Identity: 17% Fold: Clc chloride channel Superfamily: Clc chloride channel Family: Clc chloride channel Phyre2 PDB 3nd0 chain A Region: 2 - 417 Aligned: 408 Modelled: 416 Confidence: 100.0% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:sll0855 protein; PDBTitle: x-ray crystal structure of a slow cyanobacterial cl-/h+ antiporter Phyre2 PDB 1kpl chain A Region: 8 - 410 Aligned: 401 Modelled: 403 Confidence: 100.0% Identity: 17% Fold: Clc chloride channel Superfamily: Clc chloride channel Family: Clc chloride channel Phyre2 PDB 3org chain B Region: 7 - 416 Aligned: 382 Modelled: 392 Confidence: 100.0% Identity: 16% PDB header:transport protein Chain: B: PDB Molecule:cmclc; PDBTitle: crystal structure of a eukaryotic clc transporter Phyre2 PDB 1l7v chain A Region: 4 - 156 Aligned: 146 Modelled: 153 Confidence: 44.1% Identity: 16% Fold: ABC transporter involved in vitamin B12 uptake, BtuC Superfamily: ABC transporter involved in vitamin B12 uptake, BtuC Family: ABC transporter involved in vitamin B12 uptake, BtuC Phyre2 PDB 2nq2 chain A Region: 5 - 161 Aligned: 150 Modelled: 150 Confidence: 21.3% Identity: 11% PDB header:metal transport Chain: A: PDB Molecule:hypothetical abc transporter permease protein PDBTitle: an inward-facing conformation of a putative metal-chelate2 type abc transporter. Phyre2 PDB 2dw3 chain A Region: 309 - 331 Aligned: 23 Modelled: 23 Confidence: 15.6% Identity: 22% PDB header:photosynthesis Chain: A: PDB Molecule:intrinsic membrane protein pufx; PDBTitle: solution structure of the rhodobacter sphaeroides pufx2 membrane protein Phyre2 PDB 2knc chain A Region: 224 - 257 Aligned: 34 Modelled: 34 Confidence: 13.2% Identity: 6% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2k47 chain A Region: 116 - 145 Aligned: 30 Modelled: 30 Confidence: 7.8% Identity: 13% PDB header:replication Chain: A: PDB Molecule:phosphoprotein; PDBTitle: solution structure of the c-terminal n-rna binding domain2 of the vesicular stomatitis virus phosphoprotein Phyre2 PDB 2knc chain B Region: 14 - 36 Aligned: 23 Modelled: 23 Confidence: 7.4% Identity: 13% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 3sok chain B Region: 8 - 38 Aligned: 31 Modelled: 31 Confidence: 7.4% Identity: 19% PDB header:cell adhesion Chain: B: PDB Molecule:fimbrial protein; PDBTitle: dichelobacter nodosus pilin fima Phyre2 PDB 1rh4 chain A Region: 393 - 412 Aligned: 20 Modelled: 20 Confidence: 6.6% Identity: 25% PDB header:coiled coil Chain: A: PDB Molecule:right-handed coiled coil tetramer; PDBTitle: rh4 designed right-handed coiled coil tetramer Phyre2 PDB 1cii chain A Region: 102 - 144 Aligned: 42 Modelled: 43 Confidence: 6.6% Identity: 21% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 1joy chain A Region: 364 - 377 Aligned: 14 Modelled: 14 Confidence: 6.2% Identity: 14% Fold: ROP-like Superfamily: Homodimeric domain of signal transducing histidine kinase Family: Homodimeric domain of signal transducing histidine kinase Phyre2 PDB 2kjf chain A Region: 105 - 132 Aligned: 28 Modelled: 28 Confidence: 6.2% Identity: 32% PDB header:antimicrobial protein Chain: A: PDB Molecule:carnocyclin-a; PDBTitle: the solution structure of the circular bacteriocin2 carnocyclin a (ccla) Phyre2 PDB 1vyu chain A domain 1 Region: 404 - 418 Aligned: 15 Modelled: 15 Confidence: 6.0% Identity: 27% Fold: SH3-like barrel Superfamily: SH3-domain Family: SH3-domain Phyre2 PDB 2pil chain A Region: 8 - 39 Aligned: 32 Modelled: 32 Confidence: 5.9% Identity: 19% Fold: Pili subunits Superfamily: Pili subunits Family: Pilin Phyre2 PDB 1vyv chain A domain 1 Region: 394 - 418 Aligned: 25 Modelled: 25 Confidence: 5.9% Identity: 28% Fold: SH3-like barrel Superfamily: SH3-domain Family: SH3-domain Phyre2 PDB 1j4n chain A Region: 15 - 91 Aligned: 77 Modelled: 77 Confidence: 5.8% Identity: 10% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 1 c2ht2B_ 2 d1otsa_ 3 c3nd0A_ 4 d1kpla_ 5 c3orgB_ 6 d1l7va_ 7 c2nq2A_ 8 c2dw3A_ 9 c2kncA_ 10 c2k47A_ 11 c2kncB_ 12 c3sokB_ 13 c1rh4A_ 14 c1ciiA_ 15 d1joya_ 16 c2kjfA_ 17 d1vyua1 18 d2pila_ 19 d1vyva1 20 d1j4na_ 21 22 23 24 25 26 27 28 29 30

Detailed template information

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

1 c2ht2B_ 100.0 17 PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex 2 d1otsa_ 100.0 17 Fold:Clc chloride channel Superfamily:Clc chloride channel Family:Clc chloride channel 3 c3nd0A_ 100.0 13 PDB header:transport protein Chain: A: PDB Molecule:sll0855 protein; PDBTitle: x-ray crystal structure of a slow cyanobacterial cl-/h+ antiporter 4 d1kpla_ 100.0 17 Fold:Clc chloride channel Superfamily:Clc chloride channel Family:Clc chloride channel 5 c3orgB_ 100.0 16 PDB header:transport protein Chain: B: PDB Molecule:cmclc; PDBTitle: crystal structure of a eukaryotic clc transporter 6 d1l7va_ 44.1 16 Fold:ABC transporter involved in vitamin B12 uptake, BtuC Superfamily:ABC transporter involved in vitamin B12 uptake, BtuC Family:ABC transporter involved in vitamin B12 uptake, BtuC 7 c2nq2A_ 21.3 11 PDB header:metal transport Chain: A: PDB Molecule:hypothetical abc transporter permease protein PDBTitle: an inward-facing conformation of a putative metal-chelate2 type abc transporter. 8 c2dw3A_ 15.6 22 PDB header:photosynthesis Chain: A: PDB Molecule:intrinsic membrane protein pufx; PDBTitle: solution structure of the rhodobacter sphaeroides pufx2 membrane protein 9 c2kncA_ 13.2 6 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 10 c2k47A_ 7.8 13 PDB header:replication Chain: A: PDB Molecule:phosphoprotein; PDBTitle: solution structure of the c-terminal n-rna binding domain2 of the vesicular stomatitis virus phosphoprotein 11 c2kncB_ 7.4 13 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 12 c3sokB_ 7.4 19 PDB header:cell adhesion Chain: B: PDB Molecule:fimbrial protein; PDBTitle: dichelobacter nodosus pilin fima 13 c1rh4A_ 6.6 25 PDB header:coiled coil Chain: A: PDB Molecule:right-handed coiled coil tetramer; PDBTitle: rh4 designed right-handed coiled coil tetramer 14 c1ciiA_ 6.6 21 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 15 d1joya_ 6.2 14 Fold:ROP-like Superfamily:Homodimeric domain of signal transducing histidine kinase Family:Homodimeric domain of signal transducing histidine kinase 16 c2kjfA_ 6.2 32 PDB header:antimicrobial protein Chain: A: PDB Molecule:carnocyclin-a; PDBTitle: the solution structure of the circular bacteriocin2 carnocyclin a (ccla) 17 d1vyua1 6.0 27 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 18 d2pila_ 5.9 19 Fold:Pili subunits Superfamily:Pili subunits Family:Pilin 19 d1vyva1 5.9 28 Fold:SH3-like barrel Superfamily:SH3-domain Family:SH3-domain 20 d1j4na_ 5.8 10 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 21 c2k1aA_ not modelled 5.5 3 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: bicelle-embedded integrin alpha(iib) transmembrane segment 22 c1ymgA_ not modelled 5.4 14 PDB header:membrane protein Chain: A: PDB Molecule:lens fiber major intrinsic protein; PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution 23 d1ymga1 not modelled 5.4 14 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 24 c2o6nA_ not modelled 5.4 25 PDB header:de novo protein Chain: A: PDB Molecule:rh4b designed peptide; PDBTitle: rh4b: designed right-handed coiled coil tetramer with all biological2 amino acids 25 c3a0hX_ not modelled 5.4 19 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex 26 c3a0hx_ not modelled 5.4 19 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex 27 c3a0bX_ not modelled 5.4 19 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex 28 c3a0bx_ not modelled 5.4 19 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex 29 c2d9sA_ not modelled 5.2 13 PDB header:ligase Chain: A: PDB Molecule:cbl e3 ubiquitin protein ligase; PDBTitle: solution structure of rsgi ruh-049, a uba domain from mouse2 cdna 30 d1se7a_ not modelled 5.0 14 Fold:DNA polymerase III theta subunit-like Superfamily:DNA polymerase III theta subunit-like Family:DNA polymerase III theta subunit-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