Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	T	H	D	R	V	R	L	Q	L	Q	A	L	E	A	L	L	R	E	H	Q	H	W	R	N	D	E	P	Q	P	H	Q	F	N	S	T	Q	P	F	F	M	D	T	M	E	P	L	E	W	L	Q	W	V	L	I	P	R	M	H
Secondary structure
SS confidence
Disorder		?	?	?																			?	?	?	?	?	?		?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.
Sequence		D	L	L	D	N	K	Q	P	L	P	G	A	F	A	V	A	P	Y	Y	E	M	A	L	A	T	D	H	P	Q	R	A	L	I	L	A	E	L	E	K	L	D	A	L	F	A	D	D	A	S
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 2hgk chain A domain 1 Region: 1 - 109 Aligned: 109 Modelled: 109 Confidence: 100.0% Identity: 100% Fold: Bromodomain-like Superfamily: YqcC-like Family: YqcC-like Phyre2 PDB 2gc6 chain A Region: 45 - 64 Aligned: 20 Modelled: 20 Confidence: 31.5% Identity: 30% PDB header:ligase Chain: A: PDB Molecule:folylpolyglutamate synthase; PDBTitle: s73a mutant of l. casei fpgs Phyre2 PDB 3d1d chain C Region: 18 - 71 Aligned: 54 Modelled: 54 Confidence: 17.4% Identity: 17% PDB header:nuclear protein Chain: C: PDB Molecule:rna-induced transcriptional silencing complex PDBTitle: hexagonal crystal structure of tas3 c-terminal alpha motif Phyre2 PDB 1ewf chain A domain 2 Region: 51 - 75 Aligned: 25 Modelled: 25 Confidence: 17.1% Identity: 28% Fold: Aha1/BPI domain-like Superfamily: Bactericidal permeability-increasing protein, BPI Family: Bactericidal permeability-increasing protein, BPI Phyre2 PDB 1esw chain A Region: 43 - 64 Aligned: 22 Modelled: 22 Confidence: 16.5% Identity: 14% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Amylase, catalytic domain Phyre2 PDB 1w1o chain A domain 1 Region: 2 - 29 Aligned: 28 Modelled: 28 Confidence: 15.0% Identity: 18% Fold: Ferredoxin-like Superfamily: FAD-linked oxidases, C-terminal domain Family: Cytokinin dehydrogenase 1 Phyre2 PDB 2yu0 chain A Region: 71 - 103 Aligned: 32 Modelled: 33 Confidence: 11.1% Identity: 19% PDB header:signaling protein Chain: A: PDB Molecule:interferon-activable protein 205; PDBTitle: solution structures of the paad_dapin domain of mus2 musculus interferon-activatable protein 205 Phyre2 PDB 1bp1 chain A Region: 51 - 75 Aligned: 25 Modelled: 25 Confidence: 9.7% Identity: 28% PDB header:bactericidal Chain: A: PDB Molecule:bactericidal/permeability-increasing protein; PDBTitle: crystal structure of bpi, the human bactericidal2 permeability-increasing protein Phyre2 PDB 1x1n chain A domain 1 Region: 43 - 64 Aligned: 22 Modelled: 22 Confidence: 9.4% Identity: 14% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Amylase, catalytic domain Phyre2 PDB 2gc6 chain A domain 2 Region: 45 - 64 Aligned: 20 Modelled: 20 Confidence: 9.3% Identity: 30% Fold: Ribokinase-like Superfamily: MurD-like peptide ligases, catalytic domain Family: Folylpolyglutamate synthetase Phyre2 PDB 1tz7 chain A domain 1 Region: 43 - 64 Aligned: 22 Modelled: 22 Confidence: 8.7% Identity: 14% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Amylase, catalytic domain Phyre2 PDB 1jb0 chain I Region: 51 - 59 Aligned: 9 Modelled: 9 Confidence: 7.8% Identity: 44% Fold: Single transmembrane helix Superfamily: Subunit VIII of photosystem I reaction centre, PsaI Family: Subunit VIII of photosystem I reaction centre, PsaI Phyre2 PDB 1pnb chain B Region: 59 - 77 Aligned: 19 Modelled: 19 Confidence: 7.5% Identity: 11% PDB header:seed storage protein Chain: B: PDB Molecule:napin bnib; PDBTitle: structure of napin bnib, nmr, 10 structures Phyre2 PDB 3if4 chain C Region: 46 - 55 Aligned: 10 Modelled: 10 Confidence: 6.9% Identity: 30% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:integron cassette protein hfx_cass5; PDBTitle: structure from the mobile metagenome of north west arm2 sewage outfall: integron cassette protein hfx_cass5 Phyre2 PDB 1v38 chain A Region: 48 - 109 Aligned: 61 Modelled: 62 Confidence: 6.1% Identity: 13% Fold: SAM domain-like Superfamily: SAM/Pointed domain Family: SAM (sterile alpha motif) domain Phyre2 PDB 2r7g chain A domain 2 Region: 54 - 63 Aligned: 10 Modelled: 10 Confidence: 5.6% Identity: 20% Fold: Cyclin-like Superfamily: Cyclin-like Family: Retinoblastoma tumor suppressor domains Phyre2 PDB 3k1q chain A Region: 40 - 64 Aligned: 24 Modelled: 25 Confidence: 5.6% Identity: 13% PDB header:virus Chain: A: PDB Molecule:vp1, the protein that forms the mrna-capping PDBTitle: backbone model of an aquareovirus virion by cryo-electron2 microscopy and bioinformatics Phyre2 PDB 2fge chain A domain 3 Region: 9 - 36 Aligned: 28 Modelled: 28 Confidence: 5.3% Identity: 14% Fold: LuxS/MPP-like metallohydrolase Superfamily: LuxS/MPP-like metallohydrolase Family: MPP-like Phyre2 1 d2hgka1 2 c2gc6A_ 3 c3d1dC_ 4 d1ewfa2 5 d1eswa_ 6 d1w1oa1 7 c2yu0A_ 8 c1bp1A_ 9 d1x1na1 10 d2gc6a2 11 d1tz7a1 12 d1jb0i_ 13 c1pnbB_ 14 c3if4C_ 15 d1v38a_ 16 d2r7ga2 17 c3k1qA_ 18 d2fgea3

Detailed template information

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

1 d2hgka1 100.0 100 Fold:Bromodomain-like Superfamily:YqcC-like Family:YqcC-like 2 c2gc6A_ 31.5 30 PDB header:ligase Chain: A: PDB Molecule:folylpolyglutamate synthase; PDBTitle: s73a mutant of l. casei fpgs 3 c3d1dC_ 17.4 17 PDB header:nuclear protein Chain: C: PDB Molecule:rna-induced transcriptional silencing complex PDBTitle: hexagonal crystal structure of tas3 c-terminal alpha motif 4 d1ewfa2 17.1 28 Fold:Aha1/BPI domain-like Superfamily:Bactericidal permeability-increasing protein, BPI Family:Bactericidal permeability-increasing protein, BPI 5 d1eswa_ 16.5 14 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Amylase, catalytic domain 6 d1w1oa1 15.0 18 Fold:Ferredoxin-like Superfamily:FAD-linked oxidases, C-terminal domain Family:Cytokinin dehydrogenase 1 7 c2yu0A_ 11.1 19 PDB header:signaling protein Chain: A: PDB Molecule:interferon-activable protein 205; PDBTitle: solution structures of the paad_dapin domain of mus2 musculus interferon-activatable protein 205 8 c1bp1A_ 9.7 28 PDB header:bactericidal Chain: A: PDB Molecule:bactericidal/permeability-increasing protein; PDBTitle: crystal structure of bpi, the human bactericidal2 permeability-increasing protein 9 d1x1na1 9.4 14 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Amylase, catalytic domain 10 d2gc6a2 9.3 30 Fold:Ribokinase-like Superfamily:MurD-like peptide ligases, catalytic domain Family:Folylpolyglutamate synthetase 11 d1tz7a1 8.7 14 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Amylase, catalytic domain 12 d1jb0i_ 7.8 44 Fold:Single transmembrane helix Superfamily:Subunit VIII of photosystem I reaction centre, PsaI Family:Subunit VIII of photosystem I reaction centre, PsaI 13 c1pnbB_ 7.5 11 PDB header:seed storage protein Chain: B: PDB Molecule:napin bnib; PDBTitle: structure of napin bnib, nmr, 10 structures 14 c3if4C_ 6.9 30 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:integron cassette protein hfx_cass5; PDBTitle: structure from the mobile metagenome of north west arm2 sewage outfall: integron cassette protein hfx_cass5 15 d1v38a_ 6.1 13 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 16 d2r7ga2 5.6 20 Fold:Cyclin-like Superfamily:Cyclin-like Family:Retinoblastoma tumor suppressor domains 17 c3k1qA_ 5.6 13 PDB header:virus Chain: A: PDB Molecule:vp1, the protein that forms the mrna-capping PDBTitle: backbone model of an aquareovirus virion by cryo-electron2 microscopy and bioinformatics 18 d2fgea3 5.3 14 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:MPP-like

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

---

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