Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	I	N	F	S	P	K	V	G	E	I	L	E	C	N	F	G	N	Y	P	V	S	Q	N	G	P	F	S	T	T	Y	Y	D	G	R	I	P	P	E	M	I	K	N	R	L	V	V	V	L	N	G	K	I	N	G	N	A	C	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?													?	?	?	?	?	?	?		?					?	?																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	V	P	L	S	T	T	R	D	Q	D	K	L	K	R	G	M	H	V	E	I	A	S	N	V	I	N	D	L	Q	F	F	D	Q	Q	I	R	W	A	K	A	D	L	V	Q	Q	V	S	R	N	R	L	N	R	A	R	T	Y	R	G
Secondary structure
SS confidence
Disorder									?	?	?	?	?	?	?										?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.
Sequence		Y	L	N	Q	C	L	P	H	E	L	V	A	D	I	Q	R	A	V	I	K	S	I	N	A	I	S	L	I	N
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 1ne8 chain A Region: 7 - 147 Aligned: 111 Modelled: 125 Confidence: 99.6% Identity: 16% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: Kid/PemK Phyre2 PDB 1m1f chain A Region: 8 - 143 Aligned: 102 Modelled: 120 Confidence: 99.5% Identity: 18% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: Kid/PemK Phyre2 PDB 1ub4 chain A Region: 4 - 143 Aligned: 97 Modelled: 97 Confidence: 99.3% Identity: 27% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: Kid/PemK Phyre2 PDB 1ym7 chain C Region: 10 - 42 Aligned: 33 Modelled: 33 Confidence: 56.4% Identity: 21% PDB header:transferase Chain: C: PDB Molecule:beta-adrenergic receptor kinase 1; PDBTitle: g protein-coupled receptor kinase 2 (grk2) Phyre2 PDB 3e7e chain A Region: 4 - 46 Aligned: 43 Modelled: 43 Confidence: 54.3% Identity: 19% PDB header:transferase Chain: A: PDB Molecule:mitotic checkpoint serine/threonine-protein kinase bub1; PDBTitle: structure and substrate recruitment of the human spindle checkpoint2 kinase bub Phyre2 PDB 3qa8 chain A Region: 8 - 46 Aligned: 39 Modelled: 39 Confidence: 38.9% Identity: 18% PDB header:immune system, signaling protein Chain: A: PDB Molecule:mgc80376 protein; PDBTitle: crystal structure of inhibitor of kappa b kinase beta Phyre2 PDB 2kyt chain A Region: 1 - 24 Aligned: 24 Modelled: 24 Confidence: 37.7% Identity: 25% PDB header:hydrolase Chain: A: PDB Molecule:group xvi phospholipase a2; PDBTitle: solution struture of the h-rev107 n-terminal domain Phyre2 PDB 3pfq chain A Region: 8 - 46 Aligned: 39 Modelled: 39 Confidence: 35.5% Identity: 21% PDB header:transferase Chain: A: PDB Molecule:protein kinase c beta type; PDBTitle: crystal structure and allosteric activation of protein kinase c beta2 ii Phyre2 PDB 3c4y chain A Region: 10 - 43 Aligned: 34 Modelled: 34 Confidence: 33.6% Identity: 26% PDB header:transferase Chain: A: PDB Molecule:rhodopsin kinase; PDBTitle: crystal structure of apo form of g protein coupled receptor kinase 12 at 7.51a Phyre2 PDB 1kjw chain A domain 2 Region: 45 - 137 Aligned: 90 Modelled: 93 Confidence: 25.3% Identity: 14% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: Nucleotide and nucleoside kinases Phyre2 PDB 2a1a chain B Region: 10 - 46 Aligned: 37 Modelled: 37 Confidence: 24.2% Identity: 16% PDB header:protein synthesis/transferase Chain: B: PDB Molecule:interferon-induced, double-stranded rna-activated protein PDBTitle: pkr kinase domain-eif2alpha complex Phyre2 PDB 3iz5 chain N Region: 45 - 64 Aligned: 20 Modelled: 20 Confidence: 15.9% Identity: 30% PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein l14 (l14e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome Phyre2 PDB 1fn9 chain A Region: 36 - 124 Aligned: 84 Modelled: 89 Confidence: 15.9% Identity: 23% Fold: Outer capsid protein sigma 3 Superfamily: Outer capsid protein sigma 3 Family: Outer capsid protein sigma 3 Phyre2 PDB 3izc chain N Region: 45 - 64 Aligned: 20 Modelled: 20 Confidence: 14.8% Identity: 25% PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein rpl14 (l14e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 2jqm chain A Region: 46 - 83 Aligned: 33 Modelled: 38 Confidence: 12.9% Identity: 33% PDB header:transferase Chain: A: PDB Molecule:envelope protein e; PDBTitle: yellow fever envelope protein domain iii nmr structure2 (s288-k398) Phyre2 PDB 4a19 chain F Region: 45 - 64 Aligned: 20 Modelled: 20 Confidence: 12.7% Identity: 25% PDB header:ribosome Chain: F: PDB Molecule:rpl14; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2. Phyre2 PDB 2qg5 chain D Region: 8 - 46 Aligned: 39 Modelled: 39 Confidence: 12.7% Identity: 13% PDB header:transferase Chain: D: PDB Molecule:calcium/calmodulin-dependent protein kinase; PDBTitle: cryptosporidium parvum calcium dependent protein kinase cgd7_1840 Phyre2 PDB 1qb5 chain D Region: 32 - 84 Aligned: 45 Modelled: 48 Confidence: 12.5% Identity: 24% Fold: OB-fold Superfamily: Bacterial enterotoxins Family: Bacterial AB5 toxins, B-subunits Phyre2 PDB 1x6o chain A domain 1 Region: 54 - 102 Aligned: 44 Modelled: 49 Confidence: 11.8% Identity: 25% Fold: SH3-like barrel Superfamily: Translation proteins SH3-like domain Family: eIF5a N-terminal domain-like Phyre2 PDB 3dzo chain A Region: 8 - 40 Aligned: 32 Modelled: 33 Confidence: 11.2% Identity: 22% PDB header:transferase Chain: A: PDB Molecule:rhoptry kinase domain; PDBTitle: crystal structure of a rhoptry kinase from toxoplasma gondii Phyre2 1 d1ne8a_ 2 d1m1fa_ 3 d1ub4a_ 4 c1ym7C_ 5 c3e7eA_ 6 c3qa8A_ 7 c2kytA_ 8 c3pfqA_ 9 c3c4yA_ 10 d1kjwa2 11 c2a1aB_ 12 c3iz5N_ 13 d1fn9a_ 14 c3izcN_ 15 c2jqmA_ 16 c4a19F_ 17 c2qg5D_ 18 d1qb5d_ 19 d1x6oa1 20 c3dzoA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57

Detailed template information

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

1 d1ne8a_ 99.6 16 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:Kid/PemK 2 d1m1fa_ 99.5 18 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:Kid/PemK 3 d1ub4a_ 99.3 27 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:Kid/PemK 4 c1ym7C_ 56.4 21 PDB header:transferase Chain: C: PDB Molecule:beta-adrenergic receptor kinase 1; PDBTitle: g protein-coupled receptor kinase 2 (grk2) 5 c3e7eA_ 54.3 19 PDB header:transferase Chain: A: PDB Molecule:mitotic checkpoint serine/threonine-protein kinase bub1; PDBTitle: structure and substrate recruitment of the human spindle checkpoint2 kinase bub 6 c3qa8A_ 38.9 18 PDB header:immune system, signaling protein Chain: A: PDB Molecule:mgc80376 protein; PDBTitle: crystal structure of inhibitor of kappa b kinase beta 7 c2kytA_ 37.7 25 PDB header:hydrolase Chain: A: PDB Molecule:group xvi phospholipase a2; PDBTitle: solution struture of the h-rev107 n-terminal domain 8 c3pfqA_ 35.5 21 PDB header:transferase Chain: A: PDB Molecule:protein kinase c beta type; PDBTitle: crystal structure and allosteric activation of protein kinase c beta2 ii 9 c3c4yA_ 33.6 26 PDB header:transferase Chain: A: PDB Molecule:rhodopsin kinase; PDBTitle: crystal structure of apo form of g protein coupled receptor kinase 12 at 7.51a 10 d1kjwa2 25.3 14 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nucleotide and nucleoside kinases 11 c2a1aB_ 24.2 16 PDB header:protein synthesis/transferase Chain: B: PDB Molecule:interferon-induced, double-stranded rna-activated protein PDBTitle: pkr kinase domain-eif2alpha complex 12 c3iz5N_ 15.9 30 PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein l14 (l14e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 13 d1fn9a_ 15.9 23 Fold:Outer capsid protein sigma 3 Superfamily:Outer capsid protein sigma 3 Family:Outer capsid protein sigma 3 14 c3izcN_ 14.8 25 PDB header:ribosome Chain: N: PDB Molecule:60s ribosomal protein rpl14 (l14e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 15 c2jqmA_ 12.9 33 PDB header:transferase Chain: A: PDB Molecule:envelope protein e; PDBTitle: yellow fever envelope protein domain iii nmr structure2 (s288-k398) 16 c4a19F_ 12.7 25 PDB header:ribosome Chain: F: PDB Molecule:rpl14; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 26s rrna and3 proteins of molecule 2. 17 c2qg5D_ 12.7 13 PDB header:transferase Chain: D: PDB Molecule:calcium/calmodulin-dependent protein kinase; PDBTitle: cryptosporidium parvum calcium dependent protein kinase cgd7_1840 18 d1qb5d_ 12.5 24 Fold:OB-fold Superfamily:Bacterial enterotoxins Family:Bacterial AB5 toxins, B-subunits 19 d1x6oa1 11.8 25 Fold:SH3-like barrel Superfamily:Translation proteins SH3-like domain Family:eIF5a N-terminal domain-like 20 c3dzoA_ 11.2 22 PDB header:transferase Chain: A: PDB Molecule:rhoptry kinase domain; PDBTitle: crystal structure of a rhoptry kinase from toxoplasma gondii 21 c3byvA_ not modelled 10.5 23 PDB header:transferase Chain: A: PDB Molecule:rhoptry kinase; PDBTitle: crystal structure of toxoplasma gondii specific rhoptry2 antigen kinase domain 22 c1kjwA_ not modelled 10.4 14 PDB header:neuropeptide Chain: A: PDB Molecule:postsynaptic density protein 95; PDBTitle: sh3-guanylate kinase module from psd-95 23 c3q60A_ not modelled 9.9 10 PDB header:transferase Chain: A: PDB Molecule:rop5b; PDBTitle: crystal structure of virulent allele rop5b pseudokinase domain bound2 to atp 24 d2je6i1 not modelled 9.6 27 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 25 d2joya1 not modelled 9.6 30 Fold:SH3-like barrel Superfamily:Translation proteins SH3-like domain Family:Ribosomal protein L14e 26 c2acxB_ not modelled 8.9 21 PDB header:transferase Chain: B: PDB Molecule:g protein-coupled receptor kinase 6; PDBTitle: crystal structure of g protein coupled receptor kinase 6 bound to2 amppnp 27 d1qcfa3 not modelled 8.7 16 Fold:Protein kinase-like (PK-like) Superfamily:Protein kinase-like (PK-like) Family:Protein kinases, catalytic subunit 28 c3nahC_ not modelled 8.6 5 PDB header:transferase Chain: C: PDB Molecule:rna dependent rna polymerase; PDBTitle: crystal structures and functional analysis of murine norovirus rna-2 dependent rna polymerase 29 c4a18N_ not modelled 8.6 21 PDB header:ribosome Chain: N: PDB Molecule:rpl27; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of molecule 1 30 c3ayhB_ not modelled 8.4 36 PDB header:transcription Chain: B: PDB Molecule:dna-directed rna polymerase iii subunit rpc8; PDBTitle: crystal structure of the c17/25 subcomplex from s. pombe rna2 polymerase iii 31 c2vwiC_ not modelled 8.3 16 PDB header:transferase Chain: C: PDB Molecule:serine/threonine-protein kinase osr1; PDBTitle: structure of the osr1 kinase, a hypertension drug target 32 d2g4ca1 not modelled 8.1 12 Fold:Anticodon-binding domain-like Superfamily:Class II aaRS ABD-related Family:Anticodon-binding domain of Class II aaRS 33 c2b43D_ not modelled 8.1 4 PDB header:viral protein Chain: D: PDB Molecule:non-structural polyprotein; PDBTitle: crystal structure of the norwalk virus rna dependent rna polymerase2 from strain hu/nlv/dresden174/1997/ge 34 d1k8ib2 not modelled 7.7 50 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 35 c2cgvA_ not modelled 7.5 17 PDB header:transferase Chain: A: PDB Molecule:serine/threonine-protein kinase chk1; PDBTitle: identification of chemically diverse chk1 inhibitors by2 receptor-based virtual screening 36 c1khiA_ not modelled 7.4 16 PDB header:structural protein Chain: A: PDB Molecule:hex1; PDBTitle: crystal structure of hex1 37 d1qpca_ not modelled 7.4 13 Fold:Protein kinase-like (PK-like) Superfamily:Protein kinase-like (PK-like) Family:Protein kinases, catalytic subunit 38 d1u09a_ not modelled 7.3 9 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:RNA-dependent RNA-polymerase 39 c2pziA_ not modelled 7.3 11 PDB header:transferase Chain: A: PDB Molecule:probable serine/threonine-protein kinase pkng; PDBTitle: crystal structure of protein kinase pkng from mycobacterium2 tuberculosis in complex with tetrahydrobenzothiophene ax20017 40 c3egpA_ not modelled 7.1 15 PDB header:viral protein Chain: A: PDB Molecule:envelope protein; PDBTitle: crystal structure analysis of dengue-1 envelope protein2 domain iii 41 c1imhD_ not modelled 7.1 16 PDB header:transcription/dna Chain: D: PDB Molecule:nuclear factor of activated t cells 5; PDBTitle: tonebp/dna complex 42 c2ckzB_ not modelled 7.1 43 PDB header:transferase Chain: B: PDB Molecule:dna-directed rna polymerase iii 25 kd PDBTitle: x-ray structure of rna polymerase iii subcomplex c17-c25. 43 c3ckxA_ not modelled 7.0 24 PDB header:transferase Chain: A: PDB Molecule:serine/threonine-protein kinase 24; PDBTitle: crystal structure of sterile 20-like kinase 3 (mst3, stk24)2 in complex with staurosporine 44 c1zp9A_ not modelled 6.8 5 PDB header:transferase Chain: A: PDB Molecule:rio1 kinase; PDBTitle: crystal structure of full-legnth a.fulgidus rio1 serine kinase bound2 to atp and mn2+ ions. 45 c2uutA_ not modelled 6.6 18 PDB header:hydrolase Chain: A: PDB Molecule:rna-directed rna polymerase; PDBTitle: the 2.4 angstrom resolution structure of the d346g mutant2 of the sapporo virus rdrp polymerase 46 c3uatA_ not modelled 6.5 15 PDB header:peptide binding protein Chain: A: PDB Molecule:disks large homolog 1; PDBTitle: guanylate kinase domains of the maguk family scaffold proteins as2 specific phospho-protein binding modules 47 c3lijA_ not modelled 6.5 22 PDB header:transferase Chain: A: PDB Molecule:calcium/calmodulin dependent protein kinase with PDBTitle: crystal structure of full length cpcdpk3 (cgd5_820) in2 complex with ca2+ and amppnp 48 c2ux8G_ not modelled 6.4 13 PDB header:transferase Chain: G: PDB Molecule:glucose-1-phosphate uridylyltransferase; PDBTitle: crystal structure of sphingomonas elodea atcc 31461 glucose-2 1-phosphate uridylyltransferase in complex with glucose-3 1-phosphate. 49 d1nsca_ not modelled 6.3 31 Fold:6-bladed beta-propeller Superfamily:Sialidases Family:Sialidases (neuraminidases) 50 c3f6kA_ not modelled 6.2 50 PDB header:signaling protein Chain: A: PDB Molecule:sortilin; PDBTitle: crystal structure of the vps10p domain of human sortilin/nts3 in2 complex with neurotensin 51 c2fo0A_ not modelled 6.2 12 PDB header:transferase Chain: A: PDB Molecule:proto-oncogene tyrosine-protein kinase abl1 (1b isoform); PDBTitle: organization of the sh3-sh2 unit in active and inactive forms of the2 c-abl tyrosine kinase 52 c3er0A_ not modelled 6.1 17 PDB header:translation Chain: A: PDB Molecule:eukaryotic translation initiation factor 5a-2; PDBTitle: crystal structure of the full length eif5a from2 saccharomyces cerevisiae 53 c2rf4A_ not modelled 5.6 36 PDB header:transferase Chain: A: PDB Molecule:dna-directed rna polymerase i subunit rpa4; PDBTitle: crystal structure of the rna polymerase i subcomplex a14/43 54 d1umga_ not modelled 5.3 19 Fold:Sulfolobus fructose-1,6-bisphosphatase-like Superfamily:Sulfolobus fructose-1,6-bisphosphatase-like Family:Sulfolobus fructose-1,6-bisphosphatase-like 55 c2htuA_ not modelled 5.2 31 PDB header:hydrolase Chain: A: PDB Molecule:neuraminidase; PDBTitle: n8 neuraminidase in complex with peramivir 56 d1unaa_ not modelled 5.2 39 Fold:RNA bacteriophage capsid protein Superfamily:RNA bacteriophage capsid protein Family:RNA bacteriophage capsid protein 57 c2b8kG_ not modelled 5.1 36 PDB header:transferase Chain: G: PDB Molecule:dna-directed rna polymerase ii 19 kda PDBTitle: 12-subunit rna polymerase ii

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