Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	N	L	I	A	E	L	L	F	K	L	A	Q	K	E	E	E	S	K	E	L	C	A	Q	V	E	A	L	E	I	I	V	T	A	M	L	R	N	M	A	Q	N	D	Q	Q	R	L	I	D	Q	V	E	G	A	L	Y	E	V	K
Secondary structure
SS confidence
Disorder		?													?	?																																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.
Sequence		P	D	A	S	I	P	D	D	D	T	E	L	L	R	D	Y	V	K	K	L	L	K	H	P	R	Q
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 1zxa chain B Region: 5 - 22 Aligned: 18 Modelled: 18 Confidence: 30.3% Identity: 56% PDB header:transferase Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme; PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia Phyre2 PDB 1t3j chain A Region: 16 - 51 Aligned: 36 Modelled: 36 Confidence: 20.6% Identity: 31% PDB header:membrane protein Chain: A: PDB Molecule:mitofusin 1; PDBTitle: mitofusin domain hr2 v686m/i708m mutant Phyre2 PDB 1r2a chain A Region: 64 - 83 Aligned: 20 Modelled: 20 Confidence: 18.9% Identity: 40% Fold: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Phyre2 PDB 2b8i chain A Region: 1 - 25 Aligned: 25 Modelled: 25 Confidence: 17.7% Identity: 40% PDB header:lipid binding protein Chain: A: PDB Molecule:pas factor; PDBTitle: crystal structure and functional studies reveal that pas2 factor from vibrio vulnificus is a novel member of the3 saposin-fold family Phyre2 PDB 2hwn chain A domain 1 Region: 65 - 83 Aligned: 19 Modelled: 19 Confidence: 16.3% Identity: 42% Fold: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family: Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Phyre2 PDB 2qsh chain A Region: 7 - 43 Aligned: 31 Modelled: 37 Confidence: 12.2% Identity: 23% PDB header:dna binding protein/dna Chain: A: PDB Molecule:dna repair protein rad4; PDBTitle: crystal structure of rad4-rad23 bound to a mismatch dna Phyre2 PDB 1p9i chain A Region: 12 - 29 Aligned: 18 Modelled: 18 Confidence: 9.2% Identity: 56% PDB header:unknown function Chain: A: PDB Molecule:cortexillin i/gcn4 hybrid peptide; PDBTitle: coiled-coil x-ray structure at 1.17 a resolution Phyre2 PDB 1v2z chain A Region: 37 - 52 Aligned: 16 Modelled: 16 Confidence: 8.5% Identity: 31% Fold: KaiA/RbsU domain Superfamily: KaiA/RbsU domain Family: Circadian clock protein KaiA, C-terminal domain Phyre2 PDB 1r8j chain A domain 1 Region: 37 - 52 Aligned: 16 Modelled: 16 Confidence: 7.3% Identity: 31% Fold: KaiA/RbsU domain Superfamily: KaiA/RbsU domain Family: Circadian clock protein KaiA, C-terminal domain Phyre2 PDB 1o0l chain A Region: 54 - 84 Aligned: 30 Modelled: 31 Confidence: 6.5% Identity: 37% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 3cqc chain B Region: 6 - 84 Aligned: 74 Modelled: 79 Confidence: 6.2% Identity: 19% PDB header:protein transport Chain: B: PDB Molecule:nuclear pore complex protein nup133; PDBTitle: nucleoporin nup107/nup133 interaction complex Phyre2 PDB 1peh chain A Region: 16 - 27 Aligned: 12 Modelled: 12 Confidence: 6.1% Identity: 58% PDB header:nucleotidyltransferase Chain: A: PDB Molecule:pepnh1; PDBTitle: nmr structure of the membrane-binding domain of ctp2 phosphocholine cytidylyltransferase, 10 structures Phyre2 PDB 1y14 chain B domain 2 Region: 38 - 54 Aligned: 17 Modelled: 17 Confidence: 5.5% Identity: 35% Fold: Dodecin subunit-like Superfamily: N-terminal, heterodimerisation domain of RBP7 (RpoE) Family: N-terminal, heterodimerisation domain of RBP7 (RpoE) Phyre2 1 c1zxaB_ 2 c1t3jA_ 3 d1r2aa_ 4 c2b8iA_ 5 d2hwna1 6 c2qshA_ 7 c1p9iA_ 8 d1v2za_ 9 d1r8ja1 10 d1o0la_ 11 c3cqcB_ 12 c1pehA_ 13 d1y14b2

Detailed template information

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

1 c1zxaB_ 30.3 56 PDB header:transferase Chain: B: PDB Molecule:cgmp-dependent protein kinase 1, alpha isozyme; PDBTitle: solution structure of the coiled-coil domain of cgmp-2 dependent protein kinase ia 2 c1t3jA_ 20.6 31 PDB header:membrane protein Chain: A: PDB Molecule:mitofusin 1; PDBTitle: mitofusin domain hr2 v686m/i708m mutant 3 d1r2aa_ 18.9 40 Fold:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit 4 c2b8iA_ 17.7 40 PDB header:lipid binding protein Chain: A: PDB Molecule:pas factor; PDBTitle: crystal structure and functional studies reveal that pas2 factor from vibrio vulnificus is a novel member of the3 saposin-fold family 5 d2hwna1 16.3 42 Fold:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Superfamily:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit Family:Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit 6 c2qshA_ 12.2 23 PDB header:dna binding protein/dna Chain: A: PDB Molecule:dna repair protein rad4; PDBTitle: crystal structure of rad4-rad23 bound to a mismatch dna 7 c1p9iA_ 9.2 56 PDB header:unknown function Chain: A: PDB Molecule:cortexillin i/gcn4 hybrid peptide; PDBTitle: coiled-coil x-ray structure at 1.17 a resolution 8 d1v2za_ 8.5 31 Fold:KaiA/RbsU domain Superfamily:KaiA/RbsU domain Family:Circadian clock protein KaiA, C-terminal domain 9 d1r8ja1 7.3 31 Fold:KaiA/RbsU domain Superfamily:KaiA/RbsU domain Family:Circadian clock protein KaiA, C-terminal domain 10 d1o0la_ 6.5 37 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 11 c3cqcB_ 6.2 19 PDB header:protein transport Chain: B: PDB Molecule:nuclear pore complex protein nup133; PDBTitle: nucleoporin nup107/nup133 interaction complex 12 c1pehA_ 6.1 58 PDB header:nucleotidyltransferase Chain: A: PDB Molecule:pepnh1; PDBTitle: nmr structure of the membrane-binding domain of ctp2 phosphocholine cytidylyltransferase, 10 structures 13 d1y14b2 5.5 35 Fold:Dodecin subunit-like Superfamily:N-terminal, heterodimerisation domain of RBP7 (RpoE) Family:N-terminal, heterodimerisation domain of RBP7 (RpoE)

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