Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	I	Q	N	E	M	P	G	Y	N	E	M	N	Q	Y	L	N	Q	Q	G	T	G	L	T	P	A	E	M	H	G	L	I	S	G	M	I	C	G	G	N	D	D	S	S	W	L	P	L	L	H	D	L	T	N	E	G	M	A	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?													?	?	?	?																																	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	H	E	L	A	Q	A	L	R	K	M	H	S	A	T	S	D	A	L	Q	D	D	G	F	L	F	Q	L	Y	L	P	D	G	D	D	V	S	V	F	D	R	A	D	A	L	A	G	W	V	N	H	F	L	L	G	L	G	V	T	Q
Secondary structure
SS confidence
Disorder																					?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		P	K	L	D	K	V	T	G	E	T	G	E	A	I	D	D	L	R	N	I	A	Q	L	G	Y	D	E	D	E	D	Q	E	E	L	E	M	S	L	E	E	I	I	E	Y	V	R	V	A	A	L	L	C	H	D	T	F	T	H	P	Q
Secondary structure
SS confidence
Disorder		?		?																			?	?		?	?	?	?	?	?	?	?																									?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.
Sequence		P	T	A	P	E	V	Q	K	P	T	L	H
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 1izm chain A Region: 7 - 177 Aligned: 169 Modelled: 171 Confidence: 100.0% Identity: 47% Fold: YgfB-like Superfamily: YgfB-like Family: YgfB-like Phyre2 PDB 2fbq chain A domain 2 Region: 59 - 165 Aligned: 83 Modelled: 107 Confidence: 33.0% Identity: 13% Fold: Tetracyclin repressor-like, C-terminal domain Superfamily: Tetracyclin repressor-like, C-terminal domain Family: Tetracyclin repressor-like, C-terminal domain Phyre2 PDB 3fqi chain A Region: 99 - 116 Aligned: 18 Modelled: 18 Confidence: 27.5% Identity: 39% PDB header:protein binding Chain: A: PDB Molecule:protein dom3z; PDBTitle: crystal structure of the mouse dom3z Phyre2 PDB 3fqg chain A Region: 101 - 116 Aligned: 16 Modelled: 16 Confidence: 27.1% Identity: 44% PDB header:protein binding Chain: A: PDB Molecule:protein din1; PDBTitle: crystal structure of the s. pombe rai1 Phyre2 PDB 2au5 chain A domain 1 Region: 56 - 151 Aligned: 95 Modelled: 96 Confidence: 19.6% Identity: 12% Fold: EF2947-like Superfamily: EF2947-like Family: EF2947-like Phyre2 PDB 1zgh chain A domain 1 Region: 147 - 167 Aligned: 21 Modelled: 20 Confidence: 18.3% Identity: 24% Fold: FMT C-terminal domain-like Superfamily: FMT C-terminal domain-like Family: Post formyltransferase domain Phyre2 PDB 2f2a chain C domain 1 Region: 131 - 166 Aligned: 35 Modelled: 36 Confidence: 15.7% Identity: 29% Fold: Non-globular all-alpha subunits of globular proteins Superfamily: Glu-tRNAGln amidotransferase C subunit Family: Glu-tRNAGln amidotransferase C subunit Phyre2 PDB 3h0m chain U Region: 131 - 166 Aligned: 35 Modelled: 36 Confidence: 15.2% Identity: 23% PDB header:ligase Chain: U: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit c; PDBTitle: structure of trna-dependent amidotransferase gatcab from2 aquifex aeolicus Phyre2 PDB 1ci4 chain A Region: 102 - 113 Aligned: 12 Modelled: 12 Confidence: 14.9% Identity: 33% Fold: SAM domain-like Superfamily: Barrier-to-autointegration factor, BAF Family: Barrier-to-autointegration factor, BAF Phyre2 PDB 3kfu chain J Region: 131 - 165 Aligned: 34 Modelled: 35 Confidence: 14.8% Identity: 24% PDB header:ligase/rna Chain: J: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit c; PDBTitle: crystal structure of the transamidosome Phyre2 PDB 2csb chain A domain 1 Region: 127 - 160 Aligned: 31 Modelled: 33 Confidence: 14.7% Identity: 32% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Topoisomerase V repeat domain Phyre2 PDB 3a0h chain X Region: 29 - 39 Aligned: 11 Modelled: 11 Confidence: 14.1% Identity: 27% PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 3a0b chain X Region: 29 - 39 Aligned: 11 Modelled: 11 Confidence: 14.1% Identity: 27% PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 3a0b chain X Region: 29 - 39 Aligned: 11 Modelled: 11 Confidence: 14.1% Identity: 27% PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 3a0h chain X Region: 29 - 39 Aligned: 11 Modelled: 11 Confidence: 14.1% Identity: 27% PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 1xn8 chain A Region: 129 - 177 Aligned: 41 Modelled: 49 Confidence: 12.9% Identity: 24% Fold: Hypothetical protein YqbG Superfamily: Hypothetical protein YqbG Family: Hypothetical protein YqbG Phyre2 PDB 1s5l chain X Region: 29 - 39 Aligned: 11 Modelled: 11 Confidence: 12.6% Identity: 27% PDB header:photosynthesis Chain: X: PDB Molecule:photosystem ii psbx protein; PDBTitle: architecture of the photosynthetic oxygen evolving center Phyre2 PDB 1lgh chain A Region: 41 - 51 Aligned: 11 Modelled: 11 Confidence: 12.2% Identity: 36% Fold: Light-harvesting complex subunits Superfamily: Light-harvesting complex subunits Family: Light-harvesting complex subunits Phyre2 PDB 1riq chain A domain 1 Region: 131 - 172 Aligned: 39 Modelled: 42 Confidence: 11.8% Identity: 15% Fold: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Superfamily: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Family: Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Phyre2 PDB 2ee7 chain A Region: 2 - 35 Aligned: 34 Modelled: 34 Confidence: 11.2% Identity: 12% PDB header:structural protein Chain: A: PDB Molecule:sperm flagellar protein 1; PDBTitle: solution structure of the ch domain from human sperm2 flagellar protein 1 Phyre2 1 d1izma_ 2 d2fbqa2 3 c3fqiA_ 4 c3fqgA_ 5 d2au5a1 6 d1zgha1 7 d2f2ac1 8 c3h0mU_ 9 d1ci4a_ 10 c3kfuJ_ 11 d2csba1 12 c3a0hX_ 13 c3a0bx_ 14 c3a0bX_ 15 c3a0hx_ 16 d1xn8a_ 17 c1s5lx_ 18 d1lgha_ 19 d1riqa1 20 c2ee7A_ 21 22 23 24 25 26 27

Detailed template information

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

1 d1izma_ 100.0 47 Fold:YgfB-like Superfamily:YgfB-like Family:YgfB-like 2 d2fbqa2 33.0 13 Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal domain 3 c3fqiA_ 27.5 39 PDB header:protein binding Chain: A: PDB Molecule:protein dom3z; PDBTitle: crystal structure of the mouse dom3z 4 c3fqgA_ 27.1 44 PDB header:protein binding Chain: A: PDB Molecule:protein din1; PDBTitle: crystal structure of the s. pombe rai1 5 d2au5a1 19.6 12 Fold:EF2947-like Superfamily:EF2947-like Family:EF2947-like 6 d1zgha1 18.3 24 Fold:FMT C-terminal domain-like Superfamily:FMT C-terminal domain-like Family:Post formyltransferase domain 7 d2f2ac1 15.7 29 Fold:Non-globular all-alpha subunits of globular proteins Superfamily:Glu-tRNAGln amidotransferase C subunit Family:Glu-tRNAGln amidotransferase C subunit 8 c3h0mU_ 15.2 23 PDB header:ligase Chain: U: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit c; PDBTitle: structure of trna-dependent amidotransferase gatcab from2 aquifex aeolicus 9 d1ci4a_ 14.9 33 Fold:SAM domain-like Superfamily:Barrier-to-autointegration factor, BAF Family:Barrier-to-autointegration factor, BAF 10 c3kfuJ_ 14.8 24 PDB header:ligase/rna Chain: J: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit c; PDBTitle: crystal structure of the transamidosome 11 d2csba1 14.7 32 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Topoisomerase V repeat domain 12 c3a0hX_ 14.1 27 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex 13 c3a0bx_ 14.1 27 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex 14 c3a0bX_ 14.1 27 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of br-substituted photosystem ii complex 15 c3a0hx_ 14.1 27 PDB header:electron transport Chain: X: PDB Molecule:photosystem ii reaction center protein x; PDBTitle: crystal structure of i-substituted photosystem ii complex 16 d1xn8a_ 12.9 24 Fold:Hypothetical protein YqbG Superfamily:Hypothetical protein YqbG Family:Hypothetical protein YqbG 17 c1s5lx_ 12.6 27 PDB header:photosynthesis Chain: X: PDB Molecule:photosystem ii psbx protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 18 d1lgha_ 12.2 36 Fold:Light-harvesting complex subunits Superfamily:Light-harvesting complex subunits Family:Light-harvesting complex subunits 19 d1riqa1 11.8 15 Fold:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Superfamily:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) Family:Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) 20 c2ee7A_ 11.2 12 PDB header:structural protein Chain: A: PDB Molecule:sperm flagellar protein 1; PDBTitle: solution structure of the ch domain from human sperm2 flagellar protein 1 21 d1dq3a3 not modelled 10.8 36 Fold:Homing endonuclease-like Superfamily:Homing endonucleases Family:Intein endonuclease 22 c2w84B_ not modelled 10.3 42 PDB header:protein transport Chain: B: PDB Molecule:peroxisomal targeting signal 1 receptor; PDBTitle: structure of pex14 in compex with pex5 23 c4a4zA_ not modelled 8.6 17 PDB header:hydrolase Chain: A: PDB Molecule:antiviral helicase ski2; PDBTitle: crystal structure of the s. cerevisiae dexh helicase ski2 bound to2 amppnp 24 c3aa0C_ not modelled 8.4 32 PDB header:protein binding Chain: C: PDB Molecule:21mer peptide from leucine-rich repeat-containing protein PDBTitle: crystal structure of actin capping protein in complex with the cp-2 binding motif derived from carmil 25 d1zs4a1 not modelled 7.0 8 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Bacteriophage CII protein 26 c2zzrA_ not modelled 5.5 17 PDB header:hydrolase Chain: A: PDB Molecule:unsaturated glucuronyl hydrolase; PDBTitle: crystal structure of unsaturated glucuronyl hydrolase from2 streptcoccus agalactiae 27 c2l0eA_ not modelled 5.5 25 PDB header:membrane protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: structural and functional analysis of tm vi of the nhe1 isoform of the2 na+/h+ exchanger

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