Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	S	G	L	E	R	L	S	N	L	L	S	K	K	D	S	V	F	V	S	D	L	L	R	E	A	K	V	N	E	L	D	E	T	L	S	T	T	R	L	N	H	L	I	D	K	G	Y	E	R	I	T	L	Q	L	D	L	G	G
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.
Sequence		E	S	P	G	Y	L	E	K	D	K	H	Y	R	E	A	D	A	A	L	L	N	V	I	Y	P	T	N	L	S	K	I	N	T	R	R	K	E	Q	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 3hxx chain A Region: 4 - 26 Aligned: 23 Modelled: 23 Confidence: 24.5% Identity: 39% PDB header:ligase Chain: A: PDB Molecule:alanyl-trna synthetase; PDBTitle: crystal structure of catalytic fragment of e. coli alars in complex2 with amppcp Phyre2 PDB 2fb6 chain A Region: 40 - 53 Aligned: 14 Modelled: 14 Confidence: 20.6% Identity: 14% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: structure of conserved protein of unknown function bt1422 from2 bacteroides thetaiotaomicron Phyre2 PDB 1yfs chain B Region: 4 - 26 Aligned: 23 Modelled: 23 Confidence: 19.7% Identity: 39% PDB header:ligase Chain: B: PDB Molecule:alanyl-trna synthetase; PDBTitle: the crystal structure of alanyl-trna synthetase in complex2 with l-alanine Phyre2 PDB 2zzf chain A Region: 4 - 23 Aligned: 20 Modelled: 20 Confidence: 12.1% Identity: 30% PDB header:ligase Chain: A: PDB Molecule:alanyl-trna synthetase; PDBTitle: crystal structure of alanyl-trna synthetase without2 oligomerization domain Phyre2 PDB 3rf1 chain B Region: 1 - 19 Aligned: 19 Modelled: 19 Confidence: 11.3% Identity: 42% PDB header:ligase Chain: B: PDB Molecule:glycyl-trna synthetase alpha subunit; PDBTitle: the crystal structure of glycyl-trna synthetase subunit alpha from2 campylobacter jejuni subsp. jejuni nctc 11168 Phyre2 PDB 2i3s chain F Region: 80 - 93 Aligned: 14 Modelled: 14 Confidence: 10.1% Identity: 50% PDB header:cell cycle Chain: F: PDB Molecule:checkpoint serine/threonine-protein kinase; PDBTitle: bub3 complex with bub1 glebs motif Phyre2 PDB 1j5w chain A Region: 1 - 19 Aligned: 19 Modelled: 19 Confidence: 9.8% Identity: 42% Fold: Class II aaRS and biotin synthetases Superfamily: Class II aaRS and biotin synthetases Family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain Phyre2 PDB 1ejx chain B Region: 45 - 79 Aligned: 35 Modelled: 35 Confidence: 9.4% Identity: 20% Fold: beta-clip Superfamily: Urease, beta-subunit Family: Urease, beta-subunit Phyre2 PDB 2pso chain A domain 1 Region: 52 - 68 Aligned: 17 Modelled: 17 Confidence: 7.7% Identity: 35% Fold: TBP-like Superfamily: Bet v1-like Family: STAR domain Phyre2 PDB 4ubp chain B Region: 45 - 79 Aligned: 35 Modelled: 35 Confidence: 7.1% Identity: 26% Fold: beta-clip Superfamily: Urease, beta-subunit Family: Urease, beta-subunit Phyre2 PDB 1e9y chain A domain 1 Region: 45 - 79 Aligned: 35 Modelled: 35 Confidence: 6.7% Identity: 20% Fold: beta-clip Superfamily: Urease, beta-subunit Family: Urease, beta-subunit Phyre2 PDB 2k4b chain A Region: 10 - 49 Aligned: 40 Modelled: 40 Confidence: 6.1% Identity: 15% PDB header:dna binding protein Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: copr repressor structure Phyre2 PDB 2vn2 chain B Region: 27 - 58 Aligned: 32 Modelled: 32 Confidence: 6.1% Identity: 19% PDB header:replication Chain: B: PDB Molecule:chromosome replication initiation protein; PDBTitle: crystal structure of the n-terminal domain of dnad protein2 from geobacillus kaustophilus hta426 Phyre2 PDB 1avo chain A Region: 7 - 42 Aligned: 36 Modelled: 36 Confidence: 5.6% Identity: 36% PDB header:proteasome activator Chain: A: PDB Molecule:11s regulator; PDBTitle: proteasome activator reg(alpha) Phyre2 PDB 1jb0 chain K Region: 32 - 48 Aligned: 17 Modelled: 17 Confidence: 5.3% Identity: 47% Fold: Photosystem I reaction center subunit X, PsaK Superfamily: Photosystem I reaction center subunit X, PsaK Family: Photosystem I reaction center subunit X, PsaK Phyre2 1 c3hxxA_ 2 c2fb6A_ 3 c1yfsB_ 4 c2zzfA_ 5 c3rf1B_ 6 c2i3sF_ 7 d1j5wa_ 8 d1ejxb_ 9 d2psoa1 10 d4ubpb_ 11 d1e9ya1 12 c2k4bA_ 13 c2vn2B_ 14 c1avoA_ 15 d1jb0k_

Detailed template information

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

1 c3hxxA_ 24.5 39 PDB header:ligase Chain: A: PDB Molecule:alanyl-trna synthetase; PDBTitle: crystal structure of catalytic fragment of e. coli alars in complex2 with amppcp 2 c2fb6A_ 20.6 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: structure of conserved protein of unknown function bt1422 from2 bacteroides thetaiotaomicron 3 c1yfsB_ 19.7 39 PDB header:ligase Chain: B: PDB Molecule:alanyl-trna synthetase; PDBTitle: the crystal structure of alanyl-trna synthetase in complex2 with l-alanine 4 c2zzfA_ 12.1 30 PDB header:ligase Chain: A: PDB Molecule:alanyl-trna synthetase; PDBTitle: crystal structure of alanyl-trna synthetase without2 oligomerization domain 5 c3rf1B_ 11.3 42 PDB header:ligase Chain: B: PDB Molecule:glycyl-trna synthetase alpha subunit; PDBTitle: the crystal structure of glycyl-trna synthetase subunit alpha from2 campylobacter jejuni subsp. jejuni nctc 11168 6 c2i3sF_ 10.1 50 PDB header:cell cycle Chain: F: PDB Molecule:checkpoint serine/threonine-protein kinase; PDBTitle: bub3 complex with bub1 glebs motif 7 d1j5wa_ 9.8 42 Fold:Class II aaRS and biotin synthetases Superfamily:Class II aaRS and biotin synthetases Family:Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain 8 d1ejxb_ 9.4 20 Fold:beta-clip Superfamily:Urease, beta-subunit Family:Urease, beta-subunit 9 d2psoa1 7.7 35 Fold:TBP-like Superfamily:Bet v1-like Family:STAR domain 10 d4ubpb_ 7.1 26 Fold:beta-clip Superfamily:Urease, beta-subunit Family:Urease, beta-subunit 11 d1e9ya1 6.7 20 Fold:beta-clip Superfamily:Urease, beta-subunit Family:Urease, beta-subunit 12 c2k4bA_ 6.1 15 PDB header:dna binding protein Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: copr repressor structure 13 c2vn2B_ 6.1 19 PDB header:replication Chain: B: PDB Molecule:chromosome replication initiation protein; PDBTitle: crystal structure of the n-terminal domain of dnad protein2 from geobacillus kaustophilus hta426 14 c1avoA_ 5.6 36 PDB header:proteasome activator Chain: A: PDB Molecule:11s regulator; PDBTitle: proteasome activator reg(alpha) 15 d1jb0k_ 5.3 47 Fold:Photosystem I reaction center subunit X, PsaK Superfamily:Photosystem I reaction center subunit X, PsaK Family:Photosystem I reaction center subunit X, PsaK

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