Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	S	V	F	T	I	S	A	S	L	A	I	S	L	M	L	C	C	T	A	Q	A	N	D	H	K	L	L	G	A	I	A	M	P	R	N	E	T	N	D	L	A	L	K	L	P	V	C	R	I	V	K	R	I	Q	L	S	A	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?														?			?		?										?			?													?	?	?							?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		H	G	D	L	Q	L	S	G	A	S	V	Y	F	K	A	A	R	S	A	S	Q	S	L	N	I	P	S	E	I	K	E	G	Q	T	T	D	W	I	N	I	N	S	D	N	D	N	K	R	C	V	S	K	I	T	F	S	G	H	T	V
Secondary structure
SS confidence
Disorder		?	?	?															?										?	?		?	?	?	?	?	?	?			?					?															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.
Sequence		N	S	S	D	M	A	T	L	K	I	I	G	D	D
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 1jhj chain A Region: 55 - 133 Aligned: 78 Modelled: 79 Confidence: 58.5% Identity: 17% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: APC10-like Phyre2 PDB 3k7c chain C Region: 52 - 86 Aligned: 35 Modelled: 35 Confidence: 58.5% Identity: 23% PDB header:protein binding Chain: C: PDB Molecule:putative ntf2-like transpeptidase; PDBTitle: crystal structure of putative ntf2-like transpeptidase (np_281412.1)2 from campylobacter jejuni at 2.00 a resolution Phyre2 PDB 1gqp chain A Region: 70 - 132 Aligned: 59 Modelled: 63 Confidence: 39.7% Identity: 14% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: APC10-like Phyre2 PDB 1wwy chain A Region: 74 - 129 Aligned: 43 Modelled: 56 Confidence: 26.1% Identity: 33% PDB header:apoptosis Chain: A: PDB Molecule:thioredoxin-like protein 1; PDBTitle: solution structure of the duf1000 domain of a thioredoxin-like protein2 1 Phyre2 PDB 2edm chain A domain 1 Region: 39 - 81 Aligned: 40 Modelled: 43 Confidence: 18.9% Identity: 15% Fold: WSSV envelope protein-like Superfamily: WSSV envelope protein-like Family: WSSV envelope protein-like Phyre2 PDB 3zvk chain G Region: 75 - 89 Aligned: 15 Modelled: 15 Confidence: 15.6% Identity: 27% PDB header:antitoxin/toxin/dna Chain: G: PDB Molecule:antitoxin of toxin-antitoxin system vapb; PDBTitle: crystal structure of vapbc2 from rickettsia felis bound to2 a dna fragment from their promoter Phyre2 PDB 1gqp chain B Region: 52 - 132 Aligned: 79 Modelled: 80 Confidence: 12.9% Identity: 10% PDB header:cell cycle Chain: B: PDB Molecule:doc1/apc10; PDBTitle: apc10/doc1 subunit of s. cerevisiae Phyre2 PDB 2auw chain B Region: 56 - 93 Aligned: 35 Modelled: 38 Confidence: 12.1% Identity: 9% PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 Phyre2 PDB 1zbp chain A domain 1 Region: 51 - 130 Aligned: 79 Modelled: 80 Confidence: 11.8% Identity: 18% Fold: ImpE-like Superfamily: ImpE-like Family: ImpE-like Phyre2 PDB 2auw chain A domain 2 Region: 56 - 93 Aligned: 35 Modelled: 38 Confidence: 11.7% Identity: 9% Fold: NE0471 N-terminal domain-like Superfamily: NE0471 N-terminal domain-like Family: NE0471 N-terminal domain-like Phyre2 PDB 1kh0 chain A Region: 69 - 85 Aligned: 15 Modelled: 17 Confidence: 11.0% Identity: 27% Fold: beta-Grasp (ubiquitin-like) Superfamily: Immunoglobulin-binding domains Family: Immunoglobulin-binding domains Phyre2 PDB 2lfe chain A Region: 61 - 100 Aligned: 36 Modelled: 40 Confidence: 10.7% Identity: 28% PDB header:ligase Chain: A: PDB Molecule:e3 ubiquitin-protein ligase hecw2; PDBTitle: solution nmr structure of n-terminal domain of human e3 ubiquitin-2 protein ligase hecw2, northeast structural genomics consortium (nesg)3 target ht6306a Phyre2 PDB 1m0d chain A Region: 50 - 81 Aligned: 27 Modelled: 32 Confidence: 10.7% Identity: 19% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: Endonuclease I (Holliday junction resolvase) Phyre2 PDB 1xoy chain A Region: 72 - 119 Aligned: 35 Modelled: 48 Confidence: 9.4% Identity: 31% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: Hypothetical protein AT3g04780/F7O18 27 Phyre2 PDB 3tnd chain F Region: 75 - 89 Aligned: 15 Modelled: 15 Confidence: 8.8% Identity: 20% PDB header:translation, toxin Chain: F: PDB Molecule:antitoxin vapb; PDBTitle: crystal structure of shigella flexneri vapbc toxin-antitoxin complex Phyre2 PDB 3i08 chain D Region: 103 - 110 Aligned: 8 Modelled: 8 Confidence: 8.7% Identity: 50% PDB header:signaling protein Chain: D: PDB Molecule:neurogenic locus notch homolog protein 1; PDBTitle: crystal structure of the s1-cleaved notch1 negative2 regulatory region (nrr) Phyre2 PDB 3bv8 chain A Region: 112 - 134 Aligned: 23 Modelled: 23 Confidence: 8.2% Identity: 17% PDB header:transferase Chain: A: PDB Molecule:tetrahydrodipicolinate acetyltransferase; PDBTitle: crystal structure of the n-terminal domain of tetrahydrodipicolinate2 acetyltransferase from staphylococcus aureus Phyre2 PDB 2ux9 chain A domain 1 Region: 108 - 122 Aligned: 15 Modelled: 15 Confidence: 7.7% Identity: 13% Fold: Dodecin subunit-like Superfamily: Dodecin-like Family: Dodecin-like Phyre2 PDB 1jml chain A Region: 69 - 85 Aligned: 15 Modelled: 17 Confidence: 7.6% Identity: 27% Fold: beta-Grasp (ubiquitin-like) Superfamily: Immunoglobulin-binding domains Family: Immunoglobulin-binding domains Phyre2 PDB 1jo0 chain A Region: 27 - 47 Aligned: 21 Modelled: 21 Confidence: 7.6% Identity: 19% Fold: IF3-like Superfamily: YhbY-like Family: YhbY-like Phyre2 1 d1jhja_ 2 c3k7cC_ 3 d1gqpa_ 4 c1wwyA_ 5 d2edma1 6 c3zvkG_ 7 c1gqpB_ 8 c2auwB_ 9 d1zbpa1 10 d2auwa2 11 d1kh0a_ 12 c2lfeA_ 13 d1m0da_ 14 d1xoya_ 15 c3tndF_ 16 c3i08D_ 17 c3bv8A_ 18 d2ux9a1 19 d1jmla_ 20 d1jo0a_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36

Detailed template information

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

1 d1jhja_ 58.5 17 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:APC10-like 2 c3k7cC_ 58.5 23 PDB header:protein binding Chain: C: PDB Molecule:putative ntf2-like transpeptidase; PDBTitle: crystal structure of putative ntf2-like transpeptidase (np_281412.1)2 from campylobacter jejuni at 2.00 a resolution 3 d1gqpa_ 39.7 14 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:APC10-like 4 c1wwyA_ 26.1 33 PDB header:apoptosis Chain: A: PDB Molecule:thioredoxin-like protein 1; PDBTitle: solution structure of the duf1000 domain of a thioredoxin-like protein2 1 5 d2edma1 18.9 15 Fold:WSSV envelope protein-like Superfamily:WSSV envelope protein-like Family:WSSV envelope protein-like 6 c3zvkG_ 15.6 27 PDB header:antitoxin/toxin/dna Chain: G: PDB Molecule:antitoxin of toxin-antitoxin system vapb; PDBTitle: crystal structure of vapbc2 from rickettsia felis bound to2 a dna fragment from their promoter 7 c1gqpB_ 12.9 10 PDB header:cell cycle Chain: B: PDB Molecule:doc1/apc10; PDBTitle: apc10/doc1 subunit of s. cerevisiae 8 c2auwB_ 12.1 9 PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 9 d1zbpa1 11.8 18 Fold:ImpE-like Superfamily:ImpE-like Family:ImpE-like 10 d2auwa2 11.7 9 Fold:NE0471 N-terminal domain-like Superfamily:NE0471 N-terminal domain-like Family:NE0471 N-terminal domain-like 11 d1kh0a_ 11.0 27 Fold:beta-Grasp (ubiquitin-like) Superfamily:Immunoglobulin-binding domains Family:Immunoglobulin-binding domains 12 c2lfeA_ 10.7 28 PDB header:ligase Chain: A: PDB Molecule:e3 ubiquitin-protein ligase hecw2; PDBTitle: solution nmr structure of n-terminal domain of human e3 ubiquitin-2 protein ligase hecw2, northeast structural genomics consortium (nesg)3 target ht6306a 13 d1m0da_ 10.7 19 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Endonuclease I (Holliday junction resolvase) 14 d1xoya_ 9.4 31 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Hypothetical protein AT3g04780/F7O18 27 15 c3tndF_ 8.8 20 PDB header:translation, toxin Chain: F: PDB Molecule:antitoxin vapb; PDBTitle: crystal structure of shigella flexneri vapbc toxin-antitoxin complex 16 c3i08D_ 8.7 50 PDB header:signaling protein Chain: D: PDB Molecule:neurogenic locus notch homolog protein 1; PDBTitle: crystal structure of the s1-cleaved notch1 negative2 regulatory region (nrr) 17 c3bv8A_ 8.2 17 PDB header:transferase Chain: A: PDB Molecule:tetrahydrodipicolinate acetyltransferase; PDBTitle: crystal structure of the n-terminal domain of tetrahydrodipicolinate2 acetyltransferase from staphylococcus aureus 18 d2ux9a1 7.7 13 Fold:Dodecin subunit-like Superfamily:Dodecin-like Family:Dodecin-like 19 d1jmla_ 7.6 27 Fold:beta-Grasp (ubiquitin-like) Superfamily:Immunoglobulin-binding domains Family:Immunoglobulin-binding domains 20 d1jo0a_ 7.6 19 Fold:IF3-like Superfamily:YhbY-like Family:YhbY-like 21 c2l02B_ not modelled 7.4 8 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of protein bt2368 from bacteroides2 thetaiotaomicron, northeast structural genomics consortium target3 btr375 22 c2vxaL_ not modelled 7.3 13 PDB header:flavoprotein Chain: L: PDB Molecule:dodecin; PDBTitle: h.halophila dodecin in complex with riboflavin 23 d1k52a_ not modelled 7.0 27 Fold:beta-Grasp (ubiquitin-like) Superfamily:Immunoglobulin-binding domains Family:Immunoglobulin-binding domains 24 d1jaea1 not modelled 6.8 13 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 25 c3ulxA_ not modelled 6.8 29 PDB header:dna binding protein Chain: A: PDB Molecule:stress-induced transcription factor nac1; PDBTitle: crystal structural of the conserved domain of rice stress-responsive2 nac1 26 d1hz6a_ not modelled 6.7 27 Fold:beta-Grasp (ubiquitin-like) Superfamily:Immunoglobulin-binding domains Family:Immunoglobulin-binding domains 27 c1jy4A_ not modelled 6.2 22 PDB header:de novo protein Chain: A: PDB Molecule:b4dimer; PDBTitle: b4dimer: a de novo designed eight-stranded beta-sheet2 assembled using a disulfide bond 28 c2y9iB_ not modelled 6.1 8 PDB header:sugar binding protein Chain: B: PDB Molecule:carbohydrate binding family 6; PDBTitle: cbm62 in complex with xyloglucan oligosaccharide 29 c3onrI_ not modelled 6.0 23 PDB header:metal binding protein Chain: I: PDB Molecule:protein transport protein sece2; PDBTitle: crystal structure of the calcium chelating immunodominant antigen,2 calcium dodecin (rv0379),from mycobacterium tuberculosis with a novel3 calcium-binding site 30 c1dfwA_ not modelled 5.7 43 PDB header:immune system Chain: A: PDB Molecule:lung surfactant protein b; PDBTitle: conformational mapping of the n-terminal segment of2 surfactant protein b in lipid using 13c-enhanced fourier3 transform infrared spectroscopy (ftir) 31 d1zo0a1 not modelled 5.7 14 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:Ornithine decarboxylase antizyme-like 32 d1mhhe_ not modelled 5.3 20 Fold:beta-Grasp (ubiquitin-like) Superfamily:Immunoglobulin-binding domains Family:Immunoglobulin-binding domains 33 c3oqtP_ not modelled 5.3 12 PDB header:flavoprotein Chain: P: PDB Molecule:rv1498a protein; PDBTitle: crystal structure of rv1498a protein from mycobacterium tuberculosis 34 d1hkya_ not modelled 5.2 80 Fold:Hairpin loop containing domain-like Superfamily:Hairpin loop containing domain-like Family:Pan module (APPLE domain) 35 c1xctL_ not modelled 5.2 20 PDB header:immune system Chain: L: PDB Molecule:protein l; PDBTitle: complex hcv core-fab 19d9d6-protein l mutant (d55a, l57h, y64w) in2 space group p21212 36 d1tnsa_ not modelled 5.0 17 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Excisionase-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

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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