Secondary structure and disorder prediction

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Sequence		M	K	I	L	L	A	A	L	T	S	S	F	M	L	V	G	C	T	P	R	I	E	V	A	A	P	K	E	P	I	T	I	N	M	N	V	K	I	E	H	E	I	I	I	K	A	D	K	D	V	E	E	L	L	E	T	R	S	D	L
Secondary structure
SS confidence
Disorder		?	?	?											?	?		?	?	?					?																																?	?	?	?	?
Disorder confidence
		.
Sequence		F
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 2dii chain A Region: 45 - 61 Aligned: 17 Modelled: 17 Confidence: 28.2% Identity: 47% PDB header:transcription Chain: A: PDB Molecule:tfiih basal transcription factor complex p62 PDBTitle: solution structure of the bsd domain of human tfiih basal2 transcription factor complex p62 subunit Phyre2 PDB 3p9v chain A Region: 32 - 49 Aligned: 18 Modelled: 18 Confidence: 27.3% Identity: 22% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: high resolution crystal structure of protein maqu_3174 from2 marinobacter aquaeolei, northeast structural genomics consortium3 target mqr197 Phyre2 PDB 2dii chain A domain 1 Region: 45 - 61 Aligned: 17 Modelled: 17 Confidence: 24.7% Identity: 47% Fold: BSD domain-like Superfamily: BSD domain-like Family: BSD domain Phyre2 PDB 1zu1 chain A domain 1 Region: 48 - 61 Aligned: 14 Modelled: 14 Confidence: 23.4% Identity: 29% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: HkH motif-containing C2H2 finger Phyre2 PDB 2qwu chain B Region: 30 - 57 Aligned: 28 Modelled: 28 Confidence: 12.1% Identity: 25% PDB header:cell invasion Chain: B: PDB Molecule:intracellular growth locus, subunit c; PDBTitle: crystal structure of f. tularensis pathogenicity island2 protein c Phyre2 PDB 1y3n chain A domain 1 Region: 26 - 60 Aligned: 35 Modelled: 35 Confidence: 11.5% Identity: 9% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 1k78 chain A domain 2 Region: 46 - 61 Aligned: 16 Modelled: 16 Confidence: 8.2% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Paired domain Phyre2 PDB 2l76 chain A Region: 25 - 56 Aligned: 32 Modelled: 32 Confidence: 7.4% Identity: 6% PDB header:transcription Chain: A: PDB Molecule:nfatc2-interacting protein; PDBTitle: solution nmr structure of human nfatc2ip ubiquitin-like domain,2 nfatc2ip_244_338, nesg target ht65a/ocsp target hs00387_244_338/sgc-3 toronto Phyre2 PDB 1p42 chain A domain 1 Region: 5 - 30 Aligned: 24 Modelled: 26 Confidence: 6.5% Identity: 21% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC Phyre2 PDB 3i38 chain B Region: 13 - 34 Aligned: 20 Modelled: 22 Confidence: 6.5% Identity: 25% PDB header:chaperone Chain: B: PDB Molecule:putative chaperone dnaj; PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578 Phyre2 PDB 6pax chain A domain 2 Region: 46 - 61 Aligned: 16 Modelled: 16 Confidence: 6.0% Identity: 6% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Paired domain Phyre2 PDB 2o7h chain F Region: 45 - 60 Aligned: 16 Modelled: 16 Confidence: 5.4% Identity: 38% PDB header:transcription Chain: F: PDB Molecule:general control protein gcn4; PDBTitle: crystal structure of trimeric coiled coil gcn4 leucine zipper Phyre2 1 c2diiA_ 2 c3p9vA_ 3 d2diia1 4 d1zu1a1 5 c2qwuB_ 6 d1y3na1 7 d1k78a2 8 c2l76A_ 9 d1p42a1 10 c3i38B_ 11 d6paxa2 12 c2o7hF_

Detailed template information

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

1 c2diiA_ 28.2 47 PDB header:transcription Chain: A: PDB Molecule:tfiih basal transcription factor complex p62 PDBTitle: solution structure of the bsd domain of human tfiih basal2 transcription factor complex p62 subunit 2 c3p9vA_ 27.3 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: high resolution crystal structure of protein maqu_3174 from2 marinobacter aquaeolei, northeast structural genomics consortium3 target mqr197 3 d2diia1 24.7 47 Fold:BSD domain-like Superfamily:BSD domain-like Family:BSD domain 4 d1zu1a1 23.4 29 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:HkH motif-containing C2H2 finger 5 c2qwuB_ 12.1 25 PDB header:cell invasion Chain: B: PDB Molecule:intracellular growth locus, subunit c; PDBTitle: crystal structure of f. tularensis pathogenicity island2 protein c 6 d1y3na1 11.5 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 7 d1k78a2 8.2 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 8 c2l76A_ 7.4 6 PDB header:transcription Chain: A: PDB Molecule:nfatc2-interacting protein; PDBTitle: solution nmr structure of human nfatc2ip ubiquitin-like domain,2 nfatc2ip_244_338, nesg target ht65a/ocsp target hs00387_244_338/sgc-3 toronto 9 d1p42a1 6.5 21 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC 10 c3i38B_ 6.5 25 PDB header:chaperone Chain: B: PDB Molecule:putative chaperone dnaj; PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578 11 d6paxa2 6.0 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 12 c2o7hF_ 5.4 38 PDB header:transcription Chain: F: PDB Molecule:general control protein gcn4; PDBTitle: crystal structure of trimeric coiled coil gcn4 leucine zipper

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