Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	R	I	I	L	I	I	I	G	W	L	A	V	V	L	G	T	L	G	V	V	L	P	V	L	P	T	T	P	F	I	L	L	A	A	W	C	F	A	R	S	S	P	R	F	H	A	W	L	L	Y	R	S	W	F	G	S	Y	L
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	F	W	Q	K	H	H	A	M	P	R	G	V	K	P	R	A	I	L	L	I	L	L	T	F	A	I	S	L	W	F	V	Q	M	P	W	V	R	I	M	L	L	V	I	L	A	C	L	L	F	Y	M	W	R	I	P	V	I	D	E
Secondary structure
SS confidence
Disorder								?	?	?																																																		?	?
Disorder confidence
		.	.	.	.	.
Sequence		K	Q	E	K	H
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 2dcp chain A Region: 32 - 70 Aligned: 36 Modelled: 39 Confidence: 27.5% Identity: 14% PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein (rafl09-17-b18); PDBTitle: fully automated nmr structure determination of the enth-vhs2 domain at3g16270 from arabidopsis thaliana Phyre2 PDB 1p58 chain F Region: 44 - 83 Aligned: 40 Modelled: 40 Confidence: 25.6% Identity: 15% PDB header:virus Chain: F: PDB Molecule:envelope protein m; PDBTitle: complex organization of dengue virus membrane proteins as revealed by2 9.5 angstrom cryo-em reconstruction Phyre2 PDB 3bs7 chain A Region: 42 - 67 Aligned: 26 Modelled: 26 Confidence: 23.8% Identity: 12% PDB header:signaling protein Chain: A: PDB Molecule:protein aveugle; PDBTitle: crystal structure of the sterile alpha motif (sam) domain2 of hyphen/aveugle Phyre2 PDB 3da4 chain B Region: 27 - 45 Aligned: 19 Modelled: 19 Confidence: 20.5% Identity: 32% PDB header:antibiotic Chain: B: PDB Molecule:colicin-m; PDBTitle: crystal structure of colicin m, a novel phosphatase2 specifically imported by escherichia coli Phyre2 PDB 1pk1 chain C domain 1 Region: 42 - 67 Aligned: 26 Modelled: 26 Confidence: 19.0% Identity: 8% Fold: SAM domain-like Superfamily: SAM/Pointed domain Family: SAM (sterile alpha motif) domain Phyre2 PDB 1u1h chain A domain 2 Region: 23 - 29 Aligned: 7 Modelled: 7 Confidence: 17.0% Identity: 86% Fold: TIM beta/alpha-barrel Superfamily: UROD/MetE-like Family: Cobalamin-independent methionine synthase Phyre2 PDB 2v0e chain A domain 1 Region: 44 - 56 Aligned: 13 Modelled: 13 Confidence: 16.8% Identity: 15% Fold: GYF/BRK domain-like Superfamily: BRK domain-like Family: BRK domain-like Phyre2 PDB 2ckc chain A domain 1 Region: 44 - 56 Aligned: 13 Modelled: 13 Confidence: 16.2% Identity: 15% Fold: GYF/BRK domain-like Superfamily: BRK domain-like Family: BRK domain-like Phyre2 PDB 2ckc chain A Region: 44 - 56 Aligned: 13 Modelled: 13 Confidence: 16.2% Identity: 15% PDB header:hydrolase Chain: A: PDB Molecule:chromodomain-helicase-dna-binding protein 7; PDBTitle: solution structures of the brk domains of the human chromo2 helicase domain 7 and 8, reveals structural similarity3 with gyf domain suggesting a role in protein interaction Phyre2 PDB 1pk1 chain A Region: 42 - 67 Aligned: 26 Modelled: 26 Confidence: 16.2% Identity: 8% PDB header:transcription repression Chain: A: PDB Molecule:polyhomeotic-proximal chromatin protein; PDBTitle: hetero sam domain structure of ph and scm. Phyre2 PDB 2rdd chain B Region: 94 - 123 Aligned: 30 Modelled: 30 Confidence: 16.1% Identity: 23% PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. Phyre2 PDB 2cka chain A domain 1 Region: 44 - 57 Aligned: 14 Modelled: 14 Confidence: 14.6% Identity: 21% Fold: GYF/BRK domain-like Superfamily: BRK domain-like Family: BRK domain-like Phyre2 PDB 2cka chain A Region: 44 - 57 Aligned: 14 Modelled: 14 Confidence: 14.6% Identity: 21% PDB header:hydrolase Chain: A: PDB Molecule:chromodomain-helicase-dna-binding protein 8; PDBTitle: solution structures of the brk domains of the human chromo2 helicase domain 7 and 8, reveals structural similarity3 with gyf domain suggesting a role in protein interaction Phyre2 PDB 1tns chain A Region: 23 - 30 Aligned: 8 Modelled: 8 Confidence: 14.1% Identity: 63% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: Excisionase-like Phyre2 PDB 2nq5 chain A Region: 23 - 29 Aligned: 7 Modelled: 7 Confidence: 12.8% Identity: 86% PDB header:transferase Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate-- PDBTitle: crystal structure of methyltransferase from streptococcus2 mutans Phyre2 PDB 1qpm chain A Region: 23 - 30 Aligned: 8 Modelled: 8 Confidence: 12.1% Identity: 13% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: Excisionase-like Phyre2 PDB 2v0f chain A domain 1 Region: 44 - 56 Aligned: 13 Modelled: 13 Confidence: 12.1% Identity: 23% Fold: GYF/BRK domain-like Superfamily: BRK domain-like Family: BRK domain-like Phyre2 PDB 3bs5 chain A Region: 42 - 67 Aligned: 26 Modelled: 26 Confidence: 11.6% Identity: 12% PDB header:signaling protein/membrane protein Chain: A: PDB Molecule:protein aveugle; PDBTitle: crystal structure of hcnk2-sam/dhyp-sam complex Phyre2 PDB 2dl6 chain A domain 1 Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 11.4% Identity: 25% Fold: GYF/BRK domain-like Superfamily: BRK domain-like Family: BRK domain-like Phyre2 PDB 1u22 chain A Region: 23 - 29 Aligned: 7 Modelled: 7 Confidence: 11.0% Identity: 86% PDB header:transferase Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate-- PDBTitle: a. thaliana cobalamine independent methionine synthase Phyre2 1 c2dcpA_ 2 c1p58F_ 3 c3bs7A_ 4 c3da4B_ 5 d1pk1c1 6 d1u1ha2 7 d2v0ea1 8 d2ckca1 9 c2ckcA_ 10 c1pk1A_ 11 c2rddB_ 12 d2ckaa1 13 c2ckaA_ 14 d1tnsa_ 15 c2nq5A_ 16 d1qpma_ 17 d2v0fa1 18 c3bs5A_ 19 d2dl6a1 20 c1u22A_ 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

Detailed template information

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

1 c2dcpA_ 27.5 14 PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein (rafl09-17-b18); PDBTitle: fully automated nmr structure determination of the enth-vhs2 domain at3g16270 from arabidopsis thaliana 2 c1p58F_ 25.6 15 PDB header:virus Chain: F: PDB Molecule:envelope protein m; PDBTitle: complex organization of dengue virus membrane proteins as revealed by2 9.5 angstrom cryo-em reconstruction 3 c3bs7A_ 23.8 12 PDB header:signaling protein Chain: A: PDB Molecule:protein aveugle; PDBTitle: crystal structure of the sterile alpha motif (sam) domain2 of hyphen/aveugle 4 c3da4B_ 20.5 32 PDB header:antibiotic Chain: B: PDB Molecule:colicin-m; PDBTitle: crystal structure of colicin m, a novel phosphatase2 specifically imported by escherichia coli 5 d1pk1c1 19.0 8 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 6 d1u1ha2 17.0 86 Fold:TIM beta/alpha-barrel Superfamily:UROD/MetE-like Family:Cobalamin-independent methionine synthase 7 d2v0ea1 16.8 15 Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like 8 d2ckca1 16.2 15 Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like 9 c2ckcA_ 16.2 15 PDB header:hydrolase Chain: A: PDB Molecule:chromodomain-helicase-dna-binding protein 7; PDBTitle: solution structures of the brk domains of the human chromo2 helicase domain 7 and 8, reveals structural similarity3 with gyf domain suggesting a role in protein interaction 10 c1pk1A_ 16.2 8 PDB header:transcription repression Chain: A: PDB Molecule:polyhomeotic-proximal chromatin protein; PDBTitle: hetero sam domain structure of ph and scm. 11 c2rddB_ 16.1 23 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. 12 d2ckaa1 14.6 21 Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like 13 c2ckaA_ 14.6 21 PDB header:hydrolase Chain: A: PDB Molecule:chromodomain-helicase-dna-binding protein 8; PDBTitle: solution structures of the brk domains of the human chromo2 helicase domain 7 and 8, reveals structural similarity3 with gyf domain suggesting a role in protein interaction 14 d1tnsa_ 14.1 63 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Excisionase-like 15 c2nq5A_ 12.8 86 PDB header:transferase Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate-- PDBTitle: crystal structure of methyltransferase from streptococcus2 mutans 16 d1qpma_ 12.1 13 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Excisionase-like 17 d2v0fa1 12.1 23 Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like 18 c3bs5A_ 11.6 12 PDB header:signaling protein/membrane protein Chain: A: PDB Molecule:protein aveugle; PDBTitle: crystal structure of hcnk2-sam/dhyp-sam complex 19 d2dl6a1 11.4 25 Fold:GYF/BRK domain-like Superfamily:BRK domain-like Family:BRK domain-like 20 c1u22A_ 11.0 86 PDB header:transferase Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate-- PDBTitle: a. thaliana cobalamine independent methionine synthase 21 c3d3uA_ not modelled 10.4 5 PDB header:transferase Chain: A: PDB Molecule:4-hydroxybutyrate coa-transferase; PDBTitle: crystal structure of 4-hydroxybutyrate coa-transferase (abft-2) from2 porphyromonas gingivalis. northeast structural genomics consortium3 target pgr26 22 c2ef8A_ not modelled 10.2 14 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is 23 d1adra_ not modelled 10.1 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 24 c3hrqB_ not modelled 9.0 16 PDB header:biosynthetic protein Chain: B: PDB Molecule:aflatoxin biosynthesis polyketide synthase; PDBTitle: the product template domain from pksa with palmitate bound 25 d1kw4a_ not modelled 8.7 8 Fold:SAM domain-like Superfamily:SAM/Pointed domain Family:SAM (sterile alpha motif) domain 26 d2axtk1 not modelled 8.5 44 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein K, PsbK Family:PsbK-like 27 d1dlca3 not modelled 8.5 17 Fold:Toxins' membrane translocation domains Superfamily:delta-Endotoxin (insectocide), N-terminal domain Family:delta-Endotoxin (insectocide), N-terminal domain 28 c2kixD_ not modelled 8.4 33 PDB header:transport protein Chain: D: PDB Molecule:bm2 protein; PDBTitle: channel domain of bm2 protein from influenza b virus 29 d1y7ya1 not modelled 8.2 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 30 c2jlnA_ not modelled 8.0 14 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 31 c3dihA_ not modelled 7.9 19 PDB header:toxin Chain: A: PDB Molecule:phospholipase a2 homolog, ammodytin l; PDBTitle: crystal structure of ammodytin l 32 c3l7sA_ not modelled 7.8 86 PDB header:transferase Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--homocysteine PDBTitle: crystal structure of mete coordinated with zinc from streptococcus2 mutans 33 c2l35B_ not modelled 7.3 33 PDB header:protein binding Chain: B: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12-nkg2c transmembrane heterotrimer 34 c2l34B_ not modelled 7.0 33 PDB header:protein binding Chain: B: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12 transmembrane homodimer 35 c2l34A_ not modelled 7.0 33 PDB header:protein binding Chain: A: PDB Molecule:tyro protein tyrosine kinase-binding protein; PDBTitle: structure of the dap12 transmembrane homodimer 36 d2gmha2 not modelled 6.9 14 Fold:FAD-linked reductases, C-terminal domain Superfamily:FAD-linked reductases, C-terminal domain Family:Electron transfer flavoprotein-ubiquinone oxidoreductase-like 37 c3ivpD_ not modelled 6.7 14 PDB header:dna binding protein Chain: D: PDB Molecule:putative transposon-related dna-binding protein; PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630. 38 c1a87A_ not modelled 6.6 22 PDB header:bacteriocin Chain: A: PDB Molecule:colicin n; PDBTitle: colicin n 39 d1a87a_ not modelled 6.6 22 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 40 d2r1jl1 not modelled 6.5 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 41 c3gk7A_ not modelled 6.4 11 PDB header:transferase Chain: A: PDB Molecule:4-hydroxybutyrate coa-transferase; PDBTitle: crystal structure of 4-hydroxybutyrate coa-transferase from2 clostridium aminobutyricum 42 c2oasA_ not modelled 6.4 16 PDB header:transferase Chain: A: PDB Molecule:4-hydroxybutyrate coenzyme a transferase; PDBTitle: crystal structure of 4-hydroxybutyrate coenzyme a transferase (atoa)2 in complex with coa from shewanella oneidensis, northeast structural3 genomics target sor119. 43 c1nauA_ not modelled 6.3 29 PDB header:hormone/growth factor Chain: A: PDB Molecule:glucagon; PDBTitle: nmr solution structure of the glucagon antagonist [deshis1,2 desphe6, glu9]glucagon amide in the presence of3 perdeuterated dodecylphosphocholine micelles 44 c2kdrX_ not modelled 6.3 43 PDB header:viral protein, membrane protein Chain: X: PDB Molecule:non-structural protein 4b; PDBTitle: solution structure of hcv ns4b(227-254) 45 c3hefB_ not modelled 5.8 13 PDB header:viral protein Chain: B: PDB Molecule:gene 1 protein; PDBTitle: crystal structure of the bacteriophage sf6 terminase small2 subunit 46 d1inza_ not modelled 5.4 15 Fold:alpha-alpha superhelix Superfamily:ENTH/VHS domain Family:ENTH domain 47 d1pa0a_ not modelled 5.3 14 Fold:Phospholipase A2, PLA2 Superfamily:Phospholipase A2, PLA2 Family:Vertebrate phospholipase A2 48 c1v85A_ not modelled 5.3 15 PDB header:apoptosis Chain: A: PDB Molecule:similar to ring finger protein 36; PDBTitle: sterile alpha motif (sam) domain of mouse bifunctional2 apoptosis regulator 49 d1gmza_ not modelled 5.2 19 Fold:Phospholipase A2, PLA2 Superfamily:Phospholipase A2, PLA2 Family:Vertebrate phospholipase A2 50 d1r89a3 not modelled 5.2 10 Fold:Ferredoxin-like Superfamily:PAP/Archaeal CCA-adding enzyme, C-terminal domain Family:Archaeal tRNA CCA-adding enzyme 51 c3k8pC_ not modelled 5.1 36 PDB header:transport protein/transport protein Chain: C: PDB Molecule:dsl1; PDBTitle: structural basis for vesicle tethering by the dsl1 complex 52 c3bq7A_ not modelled 5.1 24 PDB header:transferase Chain: A: PDB Molecule:diacylglycerol kinase delta; PDBTitle: sam domain of diacylglycerol kinase delta1 (e35g) 53 d1hx8a2 not modelled 5.1 15 Fold:alpha-alpha superhelix Superfamily:ENTH/VHS domain Family:Phosphoinositide-binding clathrin adaptor, N-terminal domain 54 d1jb0a_ not modelled 5.1 53 Fold:Photosystem I subunits PsaA/PsaB Superfamily:Photosystem I subunits PsaA/PsaB Family:Photosystem I subunits PsaA/PsaB

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