Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	T	S	V	R	I	G	A	F	E	I	D	D	G	E	L	H	G	E	S	P	G	D	R	T	L	T	I	P	C	K	S	D	P	D	L	C	M	Q	L	D	A	W	D	A	E	T	S	I	P	A	L	L	N	G	E	H	S	V
Secondary structure
SS confidence
Disorder		?	?	?															?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.
Sequence		L	Y	R	T	R	Y	D	Q	Q	S	D	A	W	I	M	R	L	A
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 1pci chain A Region: 26 - 54 Aligned: 29 Modelled: 29 Confidence: 23.3% Identity: 14% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Papain-like Phyre2 PDB 1xau chain A Region: 31 - 54 Aligned: 24 Modelled: 24 Confidence: 21.1% Identity: 25% Fold: Immunoglobulin-like beta-sandwich Superfamily: Immunoglobulin Family: I set domains Phyre2 PDB 2hac chain A Region: 34 - 43 Aligned: 10 Modelled: 10 Confidence: 19.9% Identity: 50% PDB header:membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd3 zeta chain; PDBTitle: structure of zeta-zeta transmembrane dimer Phyre2 PDB 3pnr chain B Region: 19 - 54 Aligned: 36 Modelled: 36 Confidence: 16.4% Identity: 19% PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:pbicp-c; PDBTitle: structure of pbicp-c in complex with falcipain-2 Phyre2 PDB 1flt chain X Region: 21 - 60 Aligned: 36 Modelled: 40 Confidence: 15.4% Identity: 19% Fold: Immunoglobulin-like beta-sandwich Superfamily: Immunoglobulin Family: I set domains Phyre2 PDB 2aw2 chain A domain 1 Region: 31 - 54 Aligned: 24 Modelled: 24 Confidence: 15.1% Identity: 33% Fold: Immunoglobulin-like beta-sandwich Superfamily: Immunoglobulin Family: V set domains (antibody variable domain-like) Phyre2 PDB 2c0y chain A Region: 31 - 54 Aligned: 24 Modelled: 24 Confidence: 14.4% Identity: 8% PDB header:hydrolase Chain: A: PDB Molecule:procathepsin s; PDBTitle: the crystal structure of a cys25ala mutant of human2 procathepsin s Phyre2 PDB 1ysj chain A domain 1 Region: 42 - 67 Aligned: 26 Modelled: 26 Confidence: 13.5% Identity: 19% Fold: Phosphorylase/hydrolase-like Superfamily: Zn-dependent exopeptidases Family: Bacterial dinuclear zinc exopeptidases Phyre2 PDB 3raz chain A Region: 41 - 62 Aligned: 22 Modelled: 22 Confidence: 12.9% Identity: 18% PDB header:oxidoreductase Chain: A: PDB Molecule:thioredoxin-related protein; PDBTitle: the crystal structure of thioredoxin-related protein from neisseria2 meningitidis serogroup b Phyre2 PDB 3fju chain B Region: 29 - 36 Aligned: 8 Modelled: 8 Confidence: 11.6% Identity: 75% PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:carboxypeptidase a inhibitor; PDBTitle: ascaris suum carboxypeptidase inhibitor in complex with human2 carboxypeptidase a1 Phyre2 PDB 2nn6 chain E domain 2 Region: 3 - 38 Aligned: 36 Modelled: 36 Confidence: 11.4% Identity: 22% Fold: Ribonuclease PH domain 2-like Superfamily: Ribonuclease PH domain 2-like Family: Ribonuclease PH domain 2-like Phyre2 PDB 1xbs chain A Region: 27 - 76 Aligned: 46 Modelled: 50 Confidence: 11.0% Identity: 13% PDB header:transcription, cell cycle Chain: A: PDB Molecule:dim1-like protein; PDBTitle: crystal structure of human dim2: a dim1-like protein Phyre2 PDB 2opk chain C Region: 66 - 77 Aligned: 12 Modelled: 9 Confidence: 10.0% Identity: 33% PDB header:isomerase Chain: C: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a putative mannose-6-phosphate isomerase2 (reut_a1446) from ralstonia eutropha jmp134 at 2.10 a resolution Phyre2 PDB 2g8g chain A Region: 4 - 48 Aligned: 45 Modelled: 45 Confidence: 9.9% Identity: 20% PDB header:virus Chain: A: PDB Molecule:capsid; PDBTitle: structurally mapping the diverse phenotype of adeno-2 associated virus serotype 4 Phyre2 PDB 1ppo chain A Region: 30 - 54 Aligned: 25 Modelled: 25 Confidence: 8.7% Identity: 16% Fold: Cysteine proteinases Superfamily: Cysteine proteinases Family: Papain-like Phyre2 PDB 2vsc chain D Region: 25 - 72 Aligned: 40 Modelled: 48 Confidence: 7.8% Identity: 15% PDB header:cell adhesion Chain: D: PDB Molecule:leukocyte surface antigen cd47; PDBTitle: structure of the immunoglobulin-superfamily ectodomain of2 human cd47 Phyre2 PDB 1w4s chain A Region: 28 - 72 Aligned: 45 Modelled: 45 Confidence: 6.9% Identity: 13% PDB header:nuclear protein Chain: A: PDB Molecule:polybromo 1 protein; PDBTitle: crystal structure of the proximal bah domain of polybromo Phyre2 PDB 1b25 chain A domain 1 Region: 43 - 51 Aligned: 8 Modelled: 9 Confidence: 6.6% Identity: 63% Fold: Aldehyde ferredoxin oxidoreductase, C-terminal domains Superfamily: Aldehyde ferredoxin oxidoreductase, C-terminal domains Family: Aldehyde ferredoxin oxidoreductase, C-terminal domains Phyre2 PDB 3iv6 chain C Region: 1 - 18 Aligned: 18 Modelled: 18 Confidence: 6.4% Identity: 28% PDB header:oxidoreductase Chain: C: PDB Molecule:putative zn-dependent alcohol dehydrogenase; PDBTitle: crystal structure of putative zn-dependent alcohol dehydrogenases from2 rhodobacter sphaeroides. Phyre2 PDB 2eq5 chain D Region: 23 - 53 Aligned: 27 Modelled: 31 Confidence: 6.3% Identity: 30% PDB header:isomerase Chain: D: PDB Molecule:228aa long hypothetical hydantoin racemase; PDBTitle: crystal structure of hydantoin racemase from pyrococcus horikoshii ot3 Phyre2 1 d1pcia_ 2 d1xaua_ 3 c2hacA_ 4 c3pnrB_ 5 d1fltx_ 6 d2aw2a1 7 c2c0yA_ 8 d1ysja1 9 c3razA_ 10 c3fjuB_ 11 d2nn6e2 12 c1xbsA_ 13 c2opkC_ 14 c2g8gA_ 15 d1ppoa_ 16 c2vscD_ 17 c1w4sA_ 18 d1b25a1 19 c3iv6C_ 20 c2eq5D_ 21 22 23 24 25 26 27 28

Detailed template information

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

1 d1pcia_ 23.3 14 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Papain-like 2 d1xaua_ 21.1 25 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 3 c2hacA_ 19.9 50 PDB header:membrane protein Chain: A: PDB Molecule:t-cell surface glycoprotein cd3 zeta chain; PDBTitle: structure of zeta-zeta transmembrane dimer 4 c3pnrB_ 16.4 19 PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:pbicp-c; PDBTitle: structure of pbicp-c in complex with falcipain-2 5 d1fltx_ 15.4 19 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 6 d2aw2a1 15.1 33 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:V set domains (antibody variable domain-like) 7 c2c0yA_ 14.4 8 PDB header:hydrolase Chain: A: PDB Molecule:procathepsin s; PDBTitle: the crystal structure of a cys25ala mutant of human2 procathepsin s 8 d1ysja1 13.5 19 Fold:Phosphorylase/hydrolase-like Superfamily:Zn-dependent exopeptidases Family:Bacterial dinuclear zinc exopeptidases 9 c3razA_ 12.9 18 PDB header:oxidoreductase Chain: A: PDB Molecule:thioredoxin-related protein; PDBTitle: the crystal structure of thioredoxin-related protein from neisseria2 meningitidis serogroup b 10 c3fjuB_ 11.6 75 PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:carboxypeptidase a inhibitor; PDBTitle: ascaris suum carboxypeptidase inhibitor in complex with human2 carboxypeptidase a1 11 d2nn6e2 11.4 22 Fold:Ribonuclease PH domain 2-like Superfamily:Ribonuclease PH domain 2-like Family:Ribonuclease PH domain 2-like 12 c1xbsA_ 11.0 13 PDB header:transcription, cell cycle Chain: A: PDB Molecule:dim1-like protein; PDBTitle: crystal structure of human dim2: a dim1-like protein 13 c2opkC_ 10.0 33 PDB header:isomerase Chain: C: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a putative mannose-6-phosphate isomerase2 (reut_a1446) from ralstonia eutropha jmp134 at 2.10 a resolution 14 c2g8gA_ 9.9 20 PDB header:virus Chain: A: PDB Molecule:capsid; PDBTitle: structurally mapping the diverse phenotype of adeno-2 associated virus serotype 4 15 d1ppoa_ 8.7 16 Fold:Cysteine proteinases Superfamily:Cysteine proteinases Family:Papain-like 16 c2vscD_ 7.8 15 PDB header:cell adhesion Chain: D: PDB Molecule:leukocyte surface antigen cd47; PDBTitle: structure of the immunoglobulin-superfamily ectodomain of2 human cd47 17 c1w4sA_ 6.9 13 PDB header:nuclear protein Chain: A: PDB Molecule:polybromo 1 protein; PDBTitle: crystal structure of the proximal bah domain of polybromo 18 d1b25a1 6.6 63 Fold:Aldehyde ferredoxin oxidoreductase, C-terminal domains Superfamily:Aldehyde ferredoxin oxidoreductase, C-terminal domains Family:Aldehyde ferredoxin oxidoreductase, C-terminal domains 19 c3iv6C_ 6.4 28 PDB header:oxidoreductase Chain: C: PDB Molecule:putative zn-dependent alcohol dehydrogenase; PDBTitle: crystal structure of putative zn-dependent alcohol dehydrogenases from2 rhodobacter sphaeroides. 20 c2eq5D_ 6.3 30 PDB header:isomerase Chain: D: PDB Molecule:228aa long hypothetical hydantoin racemase; PDBTitle: crystal structure of hydantoin racemase from pyrococcus horikoshii ot3 21 d2vzsa2 not modelled 6.3 12 Fold:Immunoglobulin-like beta-sandwich Superfamily:beta-Galactosidase/glucuronidase domain Family:beta-Galactosidase/glucuronidase domain 22 c1ybiA_ not modelled 6.1 44 PDB header:toxin Chain: A: PDB Molecule:non-toxin haemagglutinin ha34; PDBTitle: crystal structure of ha33a, a neurotoxin-associated protein2 from clostridium botulinum type a 23 d1oaza_ not modelled 5.9 23 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 24 d1a79a2 not modelled 5.8 31 Fold:MutS N-terminal domain-like Superfamily:tRNA-intron endonuclease N-terminal domain-like Family:tRNA-intron endonuclease N-terminal domain-like 25 c2kllA_ not modelled 5.4 31 PDB header:cytokine Chain: A: PDB Molecule:interleukin-33; PDBTitle: solution structure of human interleukin-33 26 d2tssa1 not modelled 5.4 29 Fold:OB-fold Superfamily:Bacterial enterotoxins Family:Superantigen toxins, N-terminal domain 27 d1xmba1 not modelled 5.4 25 Fold:Phosphorylase/hydrolase-like Superfamily:Zn-dependent exopeptidases Family:Bacterial dinuclear zinc exopeptidases 28 c2wmpB_ not modelled 5.3 33 PDB header:chaperone Chain: B: PDB Molecule:papg protein; PDBTitle: structure of the e. coli chaperone papd in complex with the pilin2 domain of the papgii adhesin

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