Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	D	Q	Q	Q	P	P	V	Y	K	I	A	L	G	I	E	Y	D	G	S	K	Y	Y	G	W	Q	R	Q	N	E	V	R	S	V	Q	E	K	L	E	K	A	L	S	Q	V	A	N	E	P	I	T	V	F	C	A	G	R	T	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	G	V	H	G	T	G	Q	V	V	H	F	E	T	T	A	L	R	K	D	A	A	W	T	L	G	V	N	A	N	L	P	G	D	I	A	V	R	W	V	K	T	V	P	D	D	F	H	A	R	F	S	A	T	A	R	R	Y	R	Y
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	I	Y	N	H	R	L	R	P	A	V	L	S	K	G	V	T	H	F	Y	E	P	L	D	A	E	R	M	H	R	A	A	Q	C	L	L	G	E	N	D	F	T	S	F	R	A	V	Q	C	Q	S	R	T	P	W	R	N	V	M	H
Secondary structure
SS confidence
Disorder																																																	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		I	N	V	T	R	H	G	P	Y	V	V	V	D	I	K	A	N	A	F	V	H	H	M	V	R	N	I	V	G	S	L	M	E	V	G	A	H	N	Q	P	E	S	W	I	A	E	L	L	A	A	K	D	R	T	L	A	A	A	T	A
Secondary structure
SS confidence
Disorder																																																						?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270
Sequence		K	A	E	G	L	Y	L	V	A	V	D	Y	P	D	R	Y	D	L	P	K	P	P	M	G	P	L	F	L	A	D
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 1dj0 chain A Region: 7 - 270 Aligned: 264 Modelled: 264 Confidence: 100.0% Identity: 100% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase I TruA Phyre2 PDB 1vs3 chain B Region: 9 - 255 Aligned: 244 Modelled: 247 Confidence: 100.0% Identity: 34% PDB header:isomerase Chain: B: PDB Molecule:trna pseudouridine synthase a; PDBTitle: crystal structure of the trna pseudouridine synthase trua from thermus2 thermophilus hb8 Phyre2 PDB 2v9k chain A Region: 34 - 198 Aligned: 148 Modelled: 150 Confidence: 91.6% Identity: 17% PDB header:lyase Chain: A: PDB Molecule:uncharacterized protein flj32312; PDBTitle: crystal structure of human pus10, a novel pseudouridine2 synthase. Phyre2 PDB 1qys chain A Region: 35 - 61 Aligned: 27 Modelled: 27 Confidence: 54.5% Identity: 15% PDB header:de novo protein Chain: A: PDB Molecule:top7; PDBTitle: crystal structure of top7: a computationally designed2 protein with a novel fold Phyre2 PDB 2jvf chain A Region: 35 - 61 Aligned: 27 Modelled: 27 Confidence: 49.5% Identity: 22% PDB header:de novo protein Chain: A: PDB Molecule:de novo protein m7; PDBTitle: solution structure of m7, a computationally-designed2 artificial protein Phyre2 PDB 2hh8 chain A domain 1 Region: 116 - 166 Aligned: 51 Modelled: 51 Confidence: 41.2% Identity: 12% Fold: YdfO-like Superfamily: YdfO-like Family: YdfO-like Phyre2 PDB 1q9j chain A domain 1 Region: 135 - 160 Aligned: 26 Modelled: 26 Confidence: 21.9% Identity: 15% Fold: CoA-dependent acyltransferases Superfamily: CoA-dependent acyltransferases Family: NRPS condensation domain (amide synthase) Phyre2 PDB 2kru chain A Region: 198 - 229 Aligned: 32 Modelled: 32 Confidence: 20.7% Identity: 19% PDB header:oxidoreductase Chain: A: PDB Molecule:light-independent protochlorophyllide reductase PDBTitle: solution nmr structure of the pcp_red domain of light-2 independent protochlorophyllide reductase subunit b from3 chlorobium tepidum. northeast structural genomics4 consortium target ctr69a (casp target) Phyre2 PDB 1e8y chain A domain 3 Region: 11 - 60 Aligned: 48 Modelled: 50 Confidence: 19.1% Identity: 13% Fold: beta-Grasp (ubiquitin-like) Superfamily: Ubiquitin-like Family: Ras-binding domain, RBD Phyre2 PDB 1e88 chain A domain 3 Region: 55 - 64 Aligned: 10 Modelled: 10 Confidence: 18.0% Identity: 40% Fold: FnI-like domain Superfamily: FnI-like domain Family: Fibronectin type I module Phyre2 PDB 1nij chain A domain 2 Region: 68 - 155 Aligned: 87 Modelled: 88 Confidence: 17.3% Identity: 11% Fold: Hypothetical protein YjiA, C-terminal domain Superfamily: Hypothetical protein YjiA, C-terminal domain Family: Hypothetical protein YjiA, C-terminal domain Phyre2 PDB 1l5a chain A domain 1 Region: 136 - 160 Aligned: 25 Modelled: 25 Confidence: 13.3% Identity: 28% Fold: CoA-dependent acyltransferases Superfamily: CoA-dependent acyltransferases Family: NRPS condensation domain (amide synthase) Phyre2 PDB 2l09 chain A Region: 198 - 227 Aligned: 30 Modelled: 30 Confidence: 12.4% Identity: 3% PDB header:oxidoreductase Chain: A: PDB Molecule:asr4154 protein; PDBTitle: solution nmr structure of protein asr4154 from nostoc sp. pcc71202 northeast structural genomics consortium target id nsr143 Phyre2 PDB 1l5a chain A Region: 125 - 160 Aligned: 36 Modelled: 36 Confidence: 12.1% Identity: 19% PDB header:biosynthetic protein Chain: A: PDB Molecule:amide synthase; PDBTitle: crystal structure of vibh, an nrps condensation enzyme Phyre2 PDB 1u02 chain A Region: 13 - 59 Aligned: 46 Modelled: 47 Confidence: 12.1% Identity: 20% Fold: HAD-like Superfamily: HAD-like Family: Trehalose-phosphatase Phyre2 PDB 1y6v chain A domain 1 Region: 28 - 65 Aligned: 38 Modelled: 38 Confidence: 10.7% Identity: 16% Fold: Alkaline phosphatase-like Superfamily: Alkaline phosphatase-like Family: Alkaline phosphatase Phyre2 PDB 2xhg chain A Region: 124 - 160 Aligned: 37 Modelled: 37 Confidence: 9.9% Identity: 14% PDB header:isomerase Chain: A: PDB Molecule:tyrocidine synthetase a; PDBTitle: crystal structure of the epimerization domain from the initiation2 module of tyrocidine biosynthesis Phyre2 PDB 2gjv chain A domain 1 Region: 13 - 24 Aligned: 12 Modelled: 12 Confidence: 9.3% Identity: 33% Fold: Phage tail protein-like Superfamily: Phage tail protein-like Family: STM4215-like Phyre2 PDB 2gjv chain F Region: 13 - 24 Aligned: 12 Modelled: 12 Confidence: 9.3% Identity: 33% PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative cytoplasmic protein; PDBTitle: crystal structure of a protein of unknown function from salmonella2 typhimurium Phyre2 PDB 1q9j chain A Region: 135 - 160 Aligned: 26 Modelled: 26 Confidence: 7.7% Identity: 15% PDB header:ligase Chain: A: PDB Molecule:polyketide synthase associated protein 5; PDBTitle: structure of polyketide synthase associated protein 5 from2 mycobacterium tuberculosis Phyre2 1 d1dj0a_ 2 c1vs3B_ 3 c2v9kA_ 4 c1qysA_ 5 c2jvfA_ 6 d2hh8a1 7 d1q9ja1 8 c2kruA_ 9 d1e8ya3 10 d1e88a3 11 d1nija2 12 d1l5aa1 13 c2l09A_ 14 c1l5aA_ 15 d1u02a_ 16 d1y6va1 17 c2xhgA_ 18 d2gjva1 19 c2gjvF_ 20 c1q9jA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41

Detailed template information

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

1 d1dj0a_ 100.0 100 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase I TruA 2 c1vs3B_ 100.0 34 PDB header:isomerase Chain: B: PDB Molecule:trna pseudouridine synthase a; PDBTitle: crystal structure of the trna pseudouridine synthase trua from thermus2 thermophilus hb8 3 c2v9kA_ 91.6 17 PDB header:lyase Chain: A: PDB Molecule:uncharacterized protein flj32312; PDBTitle: crystal structure of human pus10, a novel pseudouridine2 synthase. 4 c1qysA_ 54.5 15 PDB header:de novo protein Chain: A: PDB Molecule:top7; PDBTitle: crystal structure of top7: a computationally designed2 protein with a novel fold 5 c2jvfA_ 49.5 22 PDB header:de novo protein Chain: A: PDB Molecule:de novo protein m7; PDBTitle: solution structure of m7, a computationally-designed2 artificial protein 6 d2hh8a1 41.2 12 Fold:YdfO-like Superfamily:YdfO-like Family:YdfO-like 7 d1q9ja1 21.9 15 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:NRPS condensation domain (amide synthase) 8 c2kruA_ 20.7 19 PDB header:oxidoreductase Chain: A: PDB Molecule:light-independent protochlorophyllide reductase PDBTitle: solution nmr structure of the pcp_red domain of light-2 independent protochlorophyllide reductase subunit b from3 chlorobium tepidum. northeast structural genomics4 consortium target ctr69a (casp target) 9 d1e8ya3 19.1 13 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:Ras-binding domain, RBD 10 d1e88a3 18.0 40 Fold:FnI-like domain Superfamily:FnI-like domain Family:Fibronectin type I module 11 d1nija2 17.3 11 Fold:Hypothetical protein YjiA, C-terminal domain Superfamily:Hypothetical protein YjiA, C-terminal domain Family:Hypothetical protein YjiA, C-terminal domain 12 d1l5aa1 13.3 28 Fold:CoA-dependent acyltransferases Superfamily:CoA-dependent acyltransferases Family:NRPS condensation domain (amide synthase) 13 c2l09A_ 12.4 3 PDB header:oxidoreductase Chain: A: PDB Molecule:asr4154 protein; PDBTitle: solution nmr structure of protein asr4154 from nostoc sp. pcc71202 northeast structural genomics consortium target id nsr143 14 c1l5aA_ 12.1 19 PDB header:biosynthetic protein Chain: A: PDB Molecule:amide synthase; PDBTitle: crystal structure of vibh, an nrps condensation enzyme 15 d1u02a_ 12.1 20 Fold:HAD-like Superfamily:HAD-like Family:Trehalose-phosphatase 16 d1y6va1 10.7 16 Fold:Alkaline phosphatase-like Superfamily:Alkaline phosphatase-like Family:Alkaline phosphatase 17 c2xhgA_ 9.9 14 PDB header:isomerase Chain: A: PDB Molecule:tyrocidine synthetase a; PDBTitle: crystal structure of the epimerization domain from the initiation2 module of tyrocidine biosynthesis 18 d2gjva1 9.3 33 Fold:Phage tail protein-like Superfamily:Phage tail protein-like Family:STM4215-like 19 c2gjvF_ 9.3 33 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative cytoplasmic protein; PDBTitle: crystal structure of a protein of unknown function from salmonella2 typhimurium 20 c1q9jA_ 7.7 15 PDB header:ligase Chain: A: PDB Molecule:polyketide synthase associated protein 5; PDBTitle: structure of polyketide synthase associated protein 5 from2 mycobacterium tuberculosis 21 c3ni2A_ not modelled 7.5 7 PDB header:ligase Chain: A: PDB Molecule:4-coumarate:coa ligase; PDBTitle: crystal structures and enzymatic mechanisms of a populus tomentosa 4-2 coumarate:coa ligase 22 c1e88A_ not modelled 7.5 40 PDB header:cell adhesion Chain: A: PDB Molecule:fibronectin; PDBTitle: solution structure of 6f11f22f2, a compact three-module2 fragment of the gelatin-binding domain of human fibronectin 23 d2fbla1 not modelled 7.4 21 Fold:CYTH-like phosphatases Superfamily:CYTH-like phosphatases Family:CYTH domain 24 c2wwaJ_ not modelled 7.4 19 PDB header:ribosome Chain: J: PDB Molecule:60s ribosomal protein l19; PDBTitle: cryo-em structure of idle yeast ssh1 complex bound to the2 yeast 80s ribosome 25 c2omlA_ not modelled 7.0 20 PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue 26 c2jv4A_ not modelled 6.8 15 PDB header:isomerase Chain: A: PDB Molecule:peptidyl-prolyl cis/trans isomerase; PDBTitle: structure characterisation of pina ww domain and comparison2 with other group iv ww domains, pin1 and ess1 27 d1xb2b2 not modelled 6.7 16 Fold:EF-Ts domain-like Superfamily:Elongation factor Ts (EF-Ts), dimerisation domain Family:Elongation factor Ts (EF-Ts), dimerisation domain 28 d1qlma_ not modelled 6.3 31 Fold:Methenyltetrahydromethanopterin cyclohydrolase Superfamily:Methenyltetrahydromethanopterin cyclohydrolase Family:Methenyltetrahydromethanopterin cyclohydrolase 29 c3dh3C_ not modelled 6.3 10 PDB header:isomerase/rna Chain: C: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of rluf in complex with a 22 nucleotide2 rna substrate 30 d2csha2 not modelled 6.1 20 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 31 c1kskA_ not modelled 6.1 20 PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: structure of rsua 32 d1owla1 not modelled 5.9 33 Fold:Cryptochrome/photolyase FAD-binding domain Superfamily:Cryptochrome/photolyase FAD-binding domain Family:Cryptochrome/photolyase FAD-binding domain 33 d1dnpa1 not modelled 5.7 27 Fold:Cryptochrome/photolyase FAD-binding domain Superfamily:Cryptochrome/photolyase FAD-binding domain Family:Cryptochrome/photolyase FAD-binding domain 34 c3l9aX_ not modelled 5.6 32 PDB header:structural genomics, unknown function Chain: X: PDB Molecule:uncharacterized protein; PDBTitle: structure of the c-terminal domain from a streptococcus2 mutans hypothetical 35 d1bdga2 not modelled 5.5 14 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 36 d1czan2 not modelled 5.4 17 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 37 c1unyA_ not modelled 5.3 42 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 38 d1iwga1 not modelled 5.3 14 Fold:Ferredoxin-like Superfamily:Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains Family:Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains 39 c2cooA_ not modelled 5.2 10 PDB header:transferase Chain: A: PDB Molecule:lipoamide acyltransferase component of branched- PDBTitle: solution structure of the e3_binding domain of2 dihydrolipoamide branched chaintransacylase 40 c3a52A_ not modelled 5.2 11 PDB header:hydrolase Chain: A: PDB Molecule:cold-active alkaline phosphatase; PDBTitle: crystal structure of cold-active alkailne phosphatase from2 psychrophile shewanella sp. 41 c3umvB_ not modelled 5.1 13 PDB header:lyase Chain: B: PDB Molecule:deoxyribodipyrimidine photo-lyase; PDBTitle: eukaryotic class ii cpd photolyase structure reveals a basis for2 improved uv-tolerance in plants

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