Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	I	T	D	L	V	L	I	L	F	I	A	A	L	L	A	F	A	I	Y	D	Q	F	I	M	P	R	R	N	G	P	T	L	L	A	I	P	L	L	R	R	G	R	I	D	S	V	I	F	V	G	L	I	V	I	L	I	Y	N
Secondary structure
SS confidence
Disorder		?	?	?	?	?																																		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	V	T	N	H	G	A	L	I	T	T	W	L	L	S	A	L	A	L	M	G	F	Y	I	F	W	I	R	V	P	K	I	I	F	K	Q	K	G	F	F	F	A	N	V	W	I	E	Y	S	R	I	K	A	M	N	L	S	E	D	G
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.
Sequence		V	L	V	M	Q	L	E	Q	R	R	L	L	I	R	V	R	N	I	D	D	L	E	K	I	Y	K	L	L	V	S	T	Q
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 1aop chain A domain 2 Region: 96 - 150 Aligned: 55 Modelled: 55 Confidence: 59.6% Identity: 16% Fold: Ferredoxin-like Superfamily: Nitrite/Sulfite reductase N-terminal domain-like Family: Duplicated SiR/NiR-like domains 1 and 3 Phyre2 PDB 2gj2 chain A Region: 108 - 145 Aligned: 38 Modelled: 38 Confidence: 41.3% Identity: 21% PDB header:metal binding protein Chain: A: PDB Molecule:wsv230; PDBTitle: crystal structure of vp9 from white spot syndrome virus Phyre2 PDB 3gyp chain A Region: 92 - 152 Aligned: 61 Modelled: 61 Confidence: 35.1% Identity: 15% PDB header:chaperone Chain: A: PDB Molecule:histone chaperone rtt106; PDBTitle: rtt106p Phyre2 PDB 2npt chain B domain 1 Region: 122 - 148 Aligned: 27 Modelled: 27 Confidence: 26.4% Identity: 30% Fold: beta-Grasp (ubiquitin-like) Superfamily: CAD & PB1 domains Family: PB1 domain Phyre2 PDB 2c60 chain A domain 1 Region: 122 - 148 Aligned: 27 Modelled: 27 Confidence: 25.7% Identity: 33% Fold: beta-Grasp (ubiquitin-like) Superfamily: CAD & PB1 domains Family: PB1 domain Phyre2 PDB 2c60 chain A Region: 122 - 148 Aligned: 27 Modelled: 27 Confidence: 25.0% Identity: 33% PDB header:transferase Chain: A: PDB Molecule:human mitogen-activated protein kinase kinase PDBTitle: crystal structure of human mitogen-activated protein kinase2 kinase kinase 3 isoform 2 phox domain at 1.25 a resolution Phyre2 PDB 2cu1 chain A domain 1 Region: 122 - 148 Aligned: 27 Modelled: 27 Confidence: 24.3% Identity: 30% Fold: beta-Grasp (ubiquitin-like) Superfamily: CAD & PB1 domains Family: PB1 domain Phyre2 PDB 2bol chain A Region: 115 - 126 Aligned: 12 Modelled: 12 Confidence: 22.8% Identity: 33% PDB header:heat shock protein Chain: A: PDB Molecule:small heat shock protein; PDBTitle: crystal structure and assembly of tsp36, a metazoan small2 heat shock protein Phyre2 PDB 1t77 chain A domain 2 Region: 106 - 152 Aligned: 47 Modelled: 47 Confidence: 21.8% Identity: 6% Fold: PH domain-like barrel Superfamily: PH domain-like Family: PreBEACH PH-like domain Phyre2 PDB 3fss chain A Region: 92 - 148 Aligned: 57 Modelled: 57 Confidence: 21.6% Identity: 16% PDB header:chaperone Chain: A: PDB Molecule:histone chaperone rtt106; PDBTitle: structure of the tandem ph domains of rtt106 Phyre2 PDB 2p7j chain A domain 1 Region: 99 - 129 Aligned: 30 Modelled: 31 Confidence: 20.6% Identity: 23% Fold: Profilin-like Superfamily: Sensory domain-like Family: YkuI C-terminal domain-like Phyre2 PDB 2klr chain A Region: 115 - 129 Aligned: 15 Modelled: 15 Confidence: 19.2% Identity: 40% PDB header:chaperone Chain: A: PDB Molecule:alpha-crystallin b chain; PDBTitle: solid-state nmr structure of the alpha-crystallin domain in alphab-2 crystallin oligomers Phyre2 PDB 3q9q chain B Region: 115 - 128 Aligned: 14 Modelled: 14 Confidence: 18.8% Identity: 29% PDB header:chaperone Chain: B: PDB Molecule:heat shock protein beta-1; PDBTitle: hspb1 fragment second crystal form Phyre2 PDB 2wj5 chain A Region: 115 - 129 Aligned: 15 Modelled: 15 Confidence: 18.2% Identity: 40% PDB header:chaperone Chain: A: PDB Molecule:heat shock protein beta-6; PDBTitle: rat alpha crystallin domain Phyre2 PDB 1kcx chain A domain 1 Region: 93 - 141 Aligned: 49 Modelled: 49 Confidence: 15.5% Identity: 29% Fold: Composite domain of metallo-dependent hydrolases Superfamily: Composite domain of metallo-dependent hydrolases Family: Hydantoinase (dihydropyrimidinase) Phyre2 PDB 2gcl chain A domain 1 Region: 92 - 148 Aligned: 57 Modelled: 57 Confidence: 12.8% Identity: 18% Fold: PH domain-like barrel Superfamily: PH domain-like Family: SSRP1-like Phyre2 PDB 2x8n chain A Region: 117 - 142 Aligned: 26 Modelled: 26 Confidence: 12.4% Identity: 35% PDB header:structural genomics Chain: A: PDB Molecule:cv0863; PDBTitle: solution nmr structure of uncharacterized protein cv08632 from chromobacterium violaceum. northeast structural3 genomics target (nesg) target cvt3. ocsp4 target cv0863. Phyre2 PDB 3gla chain A Region: 109 - 129 Aligned: 19 Modelled: 21 Confidence: 11.4% Identity: 32% PDB header:chaperone Chain: A: PDB Molecule:low molecular weight heat shock protein; PDBTitle: crystal structure of the hspa from xanthomonas axonopodis Phyre2 PDB 2ai4 chain A Region: 109 - 123 Aligned: 15 Modelled: 12 Confidence: 10.1% Identity: 47% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein so1698; PDBTitle: structure of protein of unknown function so1698 from shewanella2 oneidensis Phyre2 PDB 2ftw chain A domain 1 Region: 93 - 141 Aligned: 49 Modelled: 49 Confidence: 8.9% Identity: 27% Fold: Composite domain of metallo-dependent hydrolases Superfamily: Composite domain of metallo-dependent hydrolases Family: Hydantoinase (dihydropyrimidinase) Phyre2 1 d1aopa2 2 c2gj2A_ 3 c3gypA_ 4 d2nptb1 5 d2c60a1 6 c2c60A_ 7 d2cu1a1 8 c2bolA_ 9 d1t77a2 10 c3fssA_ 11 d2p7ja1 12 c2klrA_ 13 c3q9qB_ 14 c2wj5A_ 15 d1kcxa1 16 d2gcla1 17 c2x8nA_ 18 c3glaA_ 19 c2ai4A_ 20 d2ftwa1 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 d1aopa2 59.6 16 Fold:Ferredoxin-like Superfamily:Nitrite/Sulfite reductase N-terminal domain-like Family:Duplicated SiR/NiR-like domains 1 and 3 2 c2gj2A_ 41.3 21 PDB header:metal binding protein Chain: A: PDB Molecule:wsv230; PDBTitle: crystal structure of vp9 from white spot syndrome virus 3 c3gypA_ 35.1 15 PDB header:chaperone Chain: A: PDB Molecule:histone chaperone rtt106; PDBTitle: rtt106p 4 d2nptb1 26.4 30 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:PB1 domain 5 d2c60a1 25.7 33 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:PB1 domain 6 c2c60A_ 25.0 33 PDB header:transferase Chain: A: PDB Molecule:human mitogen-activated protein kinase kinase PDBTitle: crystal structure of human mitogen-activated protein kinase2 kinase kinase 3 isoform 2 phox domain at 1.25 a resolution 7 d2cu1a1 24.3 30 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:PB1 domain 8 c2bolA_ 22.8 33 PDB header:heat shock protein Chain: A: PDB Molecule:small heat shock protein; PDBTitle: crystal structure and assembly of tsp36, a metazoan small2 heat shock protein 9 d1t77a2 21.8 6 Fold:PH domain-like barrel Superfamily:PH domain-like Family:PreBEACH PH-like domain 10 c3fssA_ 21.6 16 PDB header:chaperone Chain: A: PDB Molecule:histone chaperone rtt106; PDBTitle: structure of the tandem ph domains of rtt106 11 d2p7ja1 20.6 23 Fold:Profilin-like Superfamily:Sensory domain-like Family:YkuI C-terminal domain-like 12 c2klrA_ 19.2 40 PDB header:chaperone Chain: A: PDB Molecule:alpha-crystallin b chain; PDBTitle: solid-state nmr structure of the alpha-crystallin domain in alphab-2 crystallin oligomers 13 c3q9qB_ 18.8 29 PDB header:chaperone Chain: B: PDB Molecule:heat shock protein beta-1; PDBTitle: hspb1 fragment second crystal form 14 c2wj5A_ 18.2 40 PDB header:chaperone Chain: A: PDB Molecule:heat shock protein beta-6; PDBTitle: rat alpha crystallin domain 15 d1kcxa1 15.5 29 Fold:Composite domain of metallo-dependent hydrolases Superfamily:Composite domain of metallo-dependent hydrolases Family:Hydantoinase (dihydropyrimidinase) 16 d2gcla1 12.8 18 Fold:PH domain-like barrel Superfamily:PH domain-like Family:SSRP1-like 17 c2x8nA_ 12.4 35 PDB header:structural genomics Chain: A: PDB Molecule:cv0863; PDBTitle: solution nmr structure of uncharacterized protein cv08632 from chromobacterium violaceum. northeast structural3 genomics target (nesg) target cvt3. ocsp4 target cv0863. 18 c3glaA_ 11.4 32 PDB header:chaperone Chain: A: PDB Molecule:low molecular weight heat shock protein; PDBTitle: crystal structure of the hspa from xanthomonas axonopodis 19 c2ai4A_ 10.1 47 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein so1698; PDBTitle: structure of protein of unknown function so1698 from shewanella2 oneidensis 20 d2ftwa1 8.9 27 Fold:Composite domain of metallo-dependent hydrolases Superfamily:Composite domain of metallo-dependent hydrolases Family:Hydantoinase (dihydropyrimidinase) 21 c1in0B_ not modelled 8.8 31 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:yajq protein; PDBTitle: yajq protein (hi1034) 22 c2wj7D_ not modelled 8.8 55 PDB header:chaperone Chain: D: PDB Molecule:alpha-crystallin b chain; PDBTitle: human alphab crystallin 23 c3l1eA_ not modelled 8.4 33 PDB header:chaperone Chain: A: PDB Molecule:alpha-crystallin a chain; PDBTitle: bovine alphaa crystallin zinc bound 24 c3flvA_ not modelled 7.8 15 PDB header:lipid binding protein Chain: A: PDB Molecule:acyl-coa-binding domain-containing protein 5; PDBTitle: the crystal structure of human acyl-coenzymea binding domain2 containing 5 25 c2copA_ not modelled 7.2 18 PDB header:lipid binding protein Chain: A: PDB Molecule:acyl-coenzyme a binding domain containing 6; PDBTitle: solution structure of rsgi ruh-040, an acbp domain from2 human cdna 26 c1st7A_ not modelled 6.8 15 PDB header:transport protein Chain: A: PDB Molecule:acyl-coa-binding protein; PDBTitle: solution structure of acyl coenzyme a binding protein from2 yeast 27 d2ooda1 not modelled 6.6 30 Fold:Composite domain of metallo-dependent hydrolases Superfamily:Composite domain of metallo-dependent hydrolases Family:SAH/MTA deaminase-like 28 c3fp5A_ not modelled 6.4 12 PDB header:lipid binding protein Chain: A: PDB Molecule:acyl-coa binding protein; PDBTitle: crystal structure of acbp from moniliophthora perniciosa 29 d1hb6a_ not modelled 6.4 15 Fold:Acyl-CoA binding protein-like Superfamily:Acyl-CoA binding protein Family:Acyl-CoA binding protein 30 d1gtfa_ not modelled 6.4 55 Fold:Double-stranded beta-helix Superfamily:TRAP-like Family:Trp RNA-binding attenuation protein (TRAP) 31 d1in0a2 not modelled 6.1 19 Fold:Ferredoxin-like Superfamily:YajQ-like Family:YajQ-like 32 d2pv4a1 not modelled 6.1 41 Fold:Sama2622-like Superfamily:Sama2622-like Family:Sama2622-like 33 d1pxza_ not modelled 5.9 17 Fold:Single-stranded right-handed beta-helix Superfamily:Pectin lyase-like Family:Pectate lyase-like 34 d1wapa_ not modelled 5.8 55 Fold:Double-stranded beta-helix Superfamily:TRAP-like Family:Trp RNA-binding attenuation protein (TRAP) 35 c2zxyA_ not modelled 5.3 13 PDB header:oxygen binding, transport protein Chain: A: PDB Molecule:cytochrome c552; PDBTitle: crystal structure of cytochrome c555 from aquifex aeolicus

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