Secondary structure and disorder prediction

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Sequence		M	R	I	I	S	K	R	R	A	M	T	I	Y	R	Q	H	P	E	S	R	I	F	R	Y	C	T	G	K	Y	Q	W	H	G	S	V	C	H	Y	T	G	R	D	V	P	D	I	T	G	V	L	A	V	Y	A	E	R	R	R	T	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?						?																																												?			?
Disorder confidence
		.	.	.	.	.	.
Sequence		A	D	R	M	L	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 1fbv chain A Region: 13 - 48 Aligned: 36 Modelled: 36 Confidence: 28.2% Identity: 31% PDB header:ligase Chain: A: PDB Molecule:signal transduction protein cbl; PDBTitle: structure of a cbl-ubch7 complex: ring domain function in2 ubiquitin-protein ligases Phyre2 PDB 3bux chain B domain 3 Region: 13 - 47 Aligned: 35 Modelled: 35 Confidence: 27.1% Identity: 31% Fold: SH2-like Superfamily: SH2 domain Family: SH2 domain Phyre2 PDB 2cbl chain A Region: 13 - 47 Aligned: 35 Modelled: 35 Confidence: 25.6% Identity: 31% PDB header:complex (proto-oncogene/peptide) Chain: A: PDB Molecule:proto-oncogene cbl; PDBTitle: n-terminal domain of cbl in complex with its binding site2 on zap-70 Phyre2 PDB 3bun chain B Region: 13 - 47 Aligned: 35 Modelled: 35 Confidence: 25.1% Identity: 31% PDB header:ligase/signaling protein Chain: B: PDB Molecule:e3 ubiquitin-protein ligase cbl; PDBTitle: crystal structure of c-cbl-tkb domain complexed with its2 binding motif in sprouty4 Phyre2 PDB 1bnl chain A Region: 22 - 34 Aligned: 13 Modelled: 13 Confidence: 15.6% Identity: 38% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: Endostatin Phyre2 PDB 2gyr chain B Region: 16 - 28 Aligned: 13 Modelled: 13 Confidence: 11.5% Identity: 38% PDB header:hormone/growth factor Chain: B: PDB Molecule:neurotrophic factor artemin, isoform 3; PDBTitle: crystal structure of human artemin Phyre2 PDB 1koe chain A Region: 22 - 34 Aligned: 13 Modelled: 13 Confidence: 10.5% Identity: 38% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: Endostatin Phyre2 PDB 2qh7 chain A Region: 19 - 27 Aligned: 9 Modelled: 9 Confidence: 8.6% Identity: 44% PDB header:metal binding protein Chain: A: PDB Molecule:zinc finger cdgsh-type domain 1; PDBTitle: mitoneet is a uniquely folded 2fe-2s outer mitochondrial membrane2 protein stabilized by pioglitazone Phyre2 PDB 3fnv chain B Region: 19 - 27 Aligned: 9 Modelled: 9 Confidence: 8.5% Identity: 44% PDB header:metal binding protein Chain: B: PDB Molecule:cdgsh iron sulfur domain-containing protein 2; PDBTitle: crystal structure of miner1: the redox-active 2fe-2s protein causative2 in wolfram syndrome 2 Phyre2 PDB 2zkq chain L Region: 40 - 49 Aligned: 10 Modelled: 10 Confidence: 8.0% Identity: 60% PDB header:ribosomal protein/rna Chain: L: PDB Molecule: PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map Phyre2 PDB 3op0 chain B Region: 13 - 47 Aligned: 35 Modelled: 35 Confidence: 7.9% Identity: 34% PDB header:signaling protein/signaling protein regu Chain: B: PDB Molecule:signal transduction protein cbl-c; PDBTitle: crystal structure of cbl-c (cbl-3) tkb domain in complex with egfr2 py1069 peptide Phyre2 PDB 2pe4 chain A Region: 21 - 41 Aligned: 18 Modelled: 21 Confidence: 7.7% Identity: 33% PDB header:hydrolase Chain: A: PDB Molecule:hyaluronidase-1; PDBTitle: structure of human hyaluronidase 1, a hyaluronan hydrolyzing enzyme2 involved in tumor growth and angiogenesis Phyre2 PDB 2uub chain L domain 1 Region: 30 - 49 Aligned: 19 Modelled: 20 Confidence: 7.4% Identity: 47% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Cold shock DNA-binding domain-like Phyre2 PDB 2xzm chain L Region: 40 - 49 Aligned: 10 Modelled: 10 Confidence: 7.3% Identity: 60% PDB header:ribosome Chain: L: PDB Molecule:40s ribosomal protein s12; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 Phyre2 PDB 2ilx chain A domain 1 Region: 22 - 43 Aligned: 22 Modelled: 22 Confidence: 6.7% Identity: 32% Fold: LigT-like Superfamily: LigT-like Family: 2',3'-cyclic nucleotide 3'-phosphodiesterase, catalytic domain Phyre2 PDB 2zom chain C Region: 21 - 36 Aligned: 16 Modelled: 16 Confidence: 6.5% Identity: 31% PDB header:unknown function Chain: C: PDB Molecule:protein cuta, chloroplast, putative, expressed; PDBTitle: crystal structure of cuta1 from oryza sativa Phyre2 PDB 1agq chain A Region: 16 - 28 Aligned: 13 Modelled: 13 Confidence: 6.5% Identity: 54% Fold: Cystine-knot cytokines Superfamily: Cystine-knot cytokines Family: Transforming growth factor (TGF)-beta Phyre2 PDB 1s1h chain L Region: 40 - 49 Aligned: 10 Modelled: 10 Confidence: 6.5% Identity: 50% PDB header:ribosome Chain: L: PDB Molecule:40s ribosomal protein s23; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1h,4 contains 40s subunit. the 60s ribosomal subunit is in file5 1s1i. Phyre2 PDB 1ok8 chain A domain 1 Region: 22 - 32 Aligned: 11 Modelled: 11 Confidence: 5.8% Identity: 36% Fold: Immunoglobulin-like beta-sandwich Superfamily: E set domains Family: Class II viral fusion proteins C-terminal domain Phyre2 PDB 3egp chain A Region: 22 - 32 Aligned: 11 Modelled: 11 Confidence: 5.7% Identity: 27% PDB header:viral protein Chain: A: PDB Molecule:envelope protein; PDBTitle: crystal structure analysis of dengue-1 envelope protein2 domain iii Phyre2 1 c1fbvA_ 2 d3buxb3 3 c2cblA_ 4 c3bunB_ 5 d1bnla_ 6 c2gyrB_ 7 d1koea_ 8 c2qh7A_ 9 c3fnvB_ 10 c2zkql_ 11 c3op0B_ 12 c2pe4A_ 13 d2uubl1 14 c2xzmL_ 15 d2ilxa1 16 c2zomC_ 17 d1agqa_ 18 c1s1hL_ 19 d1ok8a1 20 c3egpA_ 21 22 23

Detailed template information

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

1 c1fbvA_ 28.2 31 PDB header:ligase Chain: A: PDB Molecule:signal transduction protein cbl; PDBTitle: structure of a cbl-ubch7 complex: ring domain function in2 ubiquitin-protein ligases 2 d3buxb3 27.1 31 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 3 c2cblA_ 25.6 31 PDB header:complex (proto-oncogene/peptide) Chain: A: PDB Molecule:proto-oncogene cbl; PDBTitle: n-terminal domain of cbl in complex with its binding site2 on zap-70 4 c3bunB_ 25.1 31 PDB header:ligase/signaling protein Chain: B: PDB Molecule:e3 ubiquitin-protein ligase cbl; PDBTitle: crystal structure of c-cbl-tkb domain complexed with its2 binding motif in sprouty4 5 d1bnla_ 15.6 38 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:Endostatin 6 c2gyrB_ 11.5 38 PDB header:hormone/growth factor Chain: B: PDB Molecule:neurotrophic factor artemin, isoform 3; PDBTitle: crystal structure of human artemin 7 d1koea_ 10.5 38 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:Endostatin 8 c2qh7A_ 8.6 44 PDB header:metal binding protein Chain: A: PDB Molecule:zinc finger cdgsh-type domain 1; PDBTitle: mitoneet is a uniquely folded 2fe-2s outer mitochondrial membrane2 protein stabilized by pioglitazone 9 c3fnvB_ 8.5 44 PDB header:metal binding protein Chain: B: PDB Molecule:cdgsh iron sulfur domain-containing protein 2; PDBTitle: crystal structure of miner1: the redox-active 2fe-2s protein causative2 in wolfram syndrome 2 10 c2zkql_ 8.0 60 PDB header:ribosomal protein/rna Chain: L: PDB Molecule: PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 11 c3op0B_ 7.9 34 PDB header:signaling protein/signaling protein regu Chain: B: PDB Molecule:signal transduction protein cbl-c; PDBTitle: crystal structure of cbl-c (cbl-3) tkb domain in complex with egfr2 py1069 peptide 12 c2pe4A_ 7.7 33 PDB header:hydrolase Chain: A: PDB Molecule:hyaluronidase-1; PDBTitle: structure of human hyaluronidase 1, a hyaluronan hydrolyzing enzyme2 involved in tumor growth and angiogenesis 13 d2uubl1 7.4 47 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 14 c2xzmL_ 7.3 60 PDB header:ribosome Chain: L: PDB Molecule:40s ribosomal protein s12; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 15 d2ilxa1 6.7 32 Fold:LigT-like Superfamily:LigT-like Family:2',3'-cyclic nucleotide 3'-phosphodiesterase, catalytic domain 16 c2zomC_ 6.5 31 PDB header:unknown function Chain: C: PDB Molecule:protein cuta, chloroplast, putative, expressed; PDBTitle: crystal structure of cuta1 from oryza sativa 17 d1agqa_ 6.5 54 Fold:Cystine-knot cytokines Superfamily:Cystine-knot cytokines Family:Transforming growth factor (TGF)-beta 18 c1s1hL_ 6.5 50 PDB header:ribosome Chain: L: PDB Molecule:40s ribosomal protein s23; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1h,4 contains 40s subunit. the 60s ribosomal subunit is in file5 1s1i. 19 d1ok8a1 5.8 36 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Class II viral fusion proteins C-terminal domain 20 c3egpA_ 5.7 27 PDB header:viral protein Chain: A: PDB Molecule:envelope protein; PDBTitle: crystal structure analysis of dengue-1 envelope protein2 domain iii 21 d2cb2a1 not modelled 5.5 44 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:SOR-like 22 c2zfhA_ not modelled 5.5 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:cuta; PDBTitle: crystal structure of putative cuta1 from homo sapiens at 2.05a2 resolution 23 d1dy2a_ not modelled 5.1 42 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:Endostatin

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