Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	R	S	T	P	V	F	N	S	Q	A	A	H	T	F	K	F	P	G	V	I	S	H	N	N	Q	S	P	T	A	G	M	T	C	D	H	L	I	K	W	P	D	R	A	S	L	K	G	K	F	C	S	Y	L	A	G	V	C	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																						?	?	?	?	?	?	?																							?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	S	S	V	V	I	Q	N	V	N	A	G	N	K	S	L	D	H	S	E	I	T	F	R	H	L	A	F	F	C	T	I	Y	H	L	H	Q	S	D	R	T	D	A	H	S	P	L	V	Q	V	K	T	F	P	D	T	G	G	F	V
Secondary structure
SS confidence
Disorder		?	?					?	?					?	?	?	?	?																			?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	Y	R	K	N	A	D	V	G	I	E	H	K	L	Q	H	Q	N	D	S	L	S	C	I	P	G	C	S	L	L	S	I	K	S	A	L	T	L	F	P	S	N	H	S	S	H	V	S	P	A	G	V	M	I	R	V	R	P	T	A
Secondary structure
SS confidence
Disorder										?	?				?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?		?	?	?	?	?	?	?	?	?	?	?	?					?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.
Sequence		I	T	S	T	R	F	T	F	S	G	N	A	T	A	F	G	S	L	T	A	W	L	R	L	L	R	N	T	V	V	S	I	I	C	L	L	M	W	I	C	L	V	Y	I	H	C	G	I	D	A	G	I	C	Q	R	D	I	R	L
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 3d85 chain D domain 1 Region: 108 - 119 Aligned: 12 Modelled: 12 Confidence: 45.0% Identity: 50% Fold: Immunoglobulin-like beta-sandwich Superfamily: Immunoglobulin Family: I set domains Phyre2 PDB 2voy chain G Region: 208 - 219 Aligned: 12 Modelled: 12 Confidence: 34.7% Identity: 42% PDB header:hydrolase Chain: G: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus Phyre2 PDB 1r46 chain A domain 1 Region: 96 - 179 Aligned: 84 Modelled: 84 Confidence: 32.3% Identity: 18% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 PDB 3p24 chain C Region: 110 - 203 Aligned: 72 Modelled: 73 Confidence: 25.6% Identity: 19% PDB header:hydrolase Chain: C: PDB Molecule:bft-3; PDBTitle: structure of profragilysin-3 from bacteroides fragilis Phyre2 PDB 2knc chain B Region: 209 - 225 Aligned: 17 Modelled: 17 Confidence: 22.8% Identity: 35% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2kvg chain A Region: 42 - 58 Aligned: 17 Modelled: 17 Confidence: 20.5% Identity: 35% PDB header:transcription Chain: A: PDB Molecule:zinc finger and btb domain-containing protein 32; PDBTitle: structure of the three-cys2his2 domain of mouse testis zinc2 finger protein Phyre2 PDB 2jgs chain A Region: 44 - 71 Aligned: 23 Modelled: 28 Confidence: 20.3% Identity: 43% PDB header:biotin-binding protein Chain: A: PDB Molecule:circular permutant of avidin; PDBTitle: circular permutant of avidin Phyre2 PDB 3fkh chain B Region: 172 - 188 Aligned: 17 Modelled: 17 Confidence: 18.8% Identity: 35% PDB header:oxidoreductase Chain: B: PDB Molecule:putative pyridoxamine 5'-phosphate oxidase; PDBTitle: crystal structure of putative pyridoxamine 5'-phosphate oxidase2 (np_601736.1) from corynebacterium glutamicum atcc 13032 kitasato at3 2.51 a resolution Phyre2 PDB 1htw chain A Region: 37 - 46 Aligned: 10 Modelled: 10 Confidence: 17.4% Identity: 30% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: YjeE-like Phyre2 PDB 3idw chain A Region: 223 - 235 Aligned: 13 Modelled: 13 Confidence: 15.3% Identity: 46% PDB header:endocytosis Chain: A: PDB Molecule:actin cytoskeleton-regulatory complex protein sla1; PDBTitle: crystal structure of sla1 homology domain 2 Phyre2 PDB 2g9t chain T Region: 29 - 51 Aligned: 23 Modelled: 23 Confidence: 13.8% Identity: 30% PDB header:viral protein Chain: T: PDB Molecule: PDBTitle: crystal structure of the sars coronavirus nsp10 at 2.1a Phyre2 PDB 2a45 chain L Region: 41 - 60 Aligned: 20 Modelled: 20 Confidence: 13.3% Identity: 30% PDB header:hydrolase/hydrolase inhibitor Chain: L: PDB Molecule:fibrinogen gamma chain; PDBTitle: crystal structure of the complex between thrombin and the central "e"2 region of fibrin Phyre2 PDB 2okq chain A domain 1 Region: 38 - 45 Aligned: 8 Modelled: 8 Confidence: 11.6% Identity: 25% Fold: Ferredoxin-like Superfamily: Dimeric alpha+beta barrel Family: YbaA-like Phyre2 PDB 3nic chain A Region: 73 - 122 Aligned: 50 Modelled: 50 Confidence: 11.5% Identity: 28% PDB header:hydrolase/dna Chain: A: PDB Molecule:eco29kir; PDBTitle: dna binding and cleavage by the giy-yig endonuclease r.eco29ki2 inactive variant y49f Phyre2 PDB 2ea9 chain A domain 1 Region: 35 - 51 Aligned: 17 Modelled: 17 Confidence: 11.1% Identity: 47% Fold: Profilin-like Superfamily: YeeU-like Family: YagB/YeeU/YfjZ-like Phyre2 PDB 1lwu chain B domain 1 Region: 24 - 124 Aligned: 101 Modelled: 101 Confidence: 10.3% Identity: 17% Fold: Fibrinogen C-terminal domain-like Superfamily: Fibrinogen C-terminal domain-like Family: Fibrinogen C-terminal domain-like Phyre2 PDB 2okq chain B Region: 39 - 45 Aligned: 7 Modelled: 7 Confidence: 10.0% Identity: 29% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ybaa; PDBTitle: crystal structure of unknown conserved ybaa protein from2 shigella flexneri Phyre2 PDB 2ph7 chain B Region: 163 - 176 Aligned: 14 Modelled: 14 Confidence: 9.6% Identity: 36% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein af_2093; PDBTitle: crystal structure of af2093 from archaeoglobus fulgidus Phyre2 PDB 1ei3 chain E Region: 54 - 122 Aligned: 69 Modelled: 69 Confidence: 9.2% Identity: 12% PDB header: PDB COMPND: Phyre2 PDB 2gbx chain F Region: 76 - 90 Aligned: 15 Modelled: 15 Confidence: 9.2% Identity: 40% PDB header:oxidoreductase Chain: F: PDB Molecule:biphenyl 2,3-dioxygenase beta subunit; PDBTitle: crystal structure of biphenyl 2,3-dioxygenase from sphingomonas2 yanoikuyae b1 bound to biphenyl Phyre2 1 d3d85d1 2 c2voyG_ 3 d1r46a1 4 c3p24C_ 5 c2kncB_ 6 c2kvgA_ 7 c2jgsA_ 8 c3fkhB_ 9 d1htwa_ 10 c3idwA_ 11 c2g9tT_ 12 c2a45L_ 13 d2okqa1 14 c3nicA_ 15 d2ea9a1 16 d1lwub1 17 c2okqB_ 18 c2ph7B_ 19 c1ei3E_ 20 c2gbxF_ 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

Detailed template information

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

1 d3d85d1 45.0 50 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 2 c2voyG_ 34.7 42 PDB header:hydrolase Chain: G: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 3 d1r46a1 32.3 18 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 4 c3p24C_ 25.6 19 PDB header:hydrolase Chain: C: PDB Molecule:bft-3; PDBTitle: structure of profragilysin-3 from bacteroides fragilis 5 c2kncB_ 22.8 35 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 6 c2kvgA_ 20.5 35 PDB header:transcription Chain: A: PDB Molecule:zinc finger and btb domain-containing protein 32; PDBTitle: structure of the three-cys2his2 domain of mouse testis zinc2 finger protein 7 c2jgsA_ 20.3 43 PDB header:biotin-binding protein Chain: A: PDB Molecule:circular permutant of avidin; PDBTitle: circular permutant of avidin 8 c3fkhB_ 18.8 35 PDB header:oxidoreductase Chain: B: PDB Molecule:putative pyridoxamine 5'-phosphate oxidase; PDBTitle: crystal structure of putative pyridoxamine 5'-phosphate oxidase2 (np_601736.1) from corynebacterium glutamicum atcc 13032 kitasato at3 2.51 a resolution 9 d1htwa_ 17.4 30 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:YjeE-like 10 c3idwA_ 15.3 46 PDB header:endocytosis Chain: A: PDB Molecule:actin cytoskeleton-regulatory complex protein sla1; PDBTitle: crystal structure of sla1 homology domain 2 11 c2g9tT_ 13.8 30 PDB header:viral protein Chain: T: PDB Molecule: PDBTitle: crystal structure of the sars coronavirus nsp10 at 2.1a 12 c2a45L_ 13.3 30 PDB header:hydrolase/hydrolase inhibitor Chain: L: PDB Molecule:fibrinogen gamma chain; PDBTitle: crystal structure of the complex between thrombin and the central "e"2 region of fibrin 13 d2okqa1 11.6 25 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:YbaA-like 14 c3nicA_ 11.5 28 PDB header:hydrolase/dna Chain: A: PDB Molecule:eco29kir; PDBTitle: dna binding and cleavage by the giy-yig endonuclease r.eco29ki2 inactive variant y49f 15 d2ea9a1 11.1 47 Fold:Profilin-like Superfamily:YeeU-like Family:YagB/YeeU/YfjZ-like 16 d1lwub1 10.3 17 Fold:Fibrinogen C-terminal domain-like Superfamily:Fibrinogen C-terminal domain-like Family:Fibrinogen C-terminal domain-like 17 c2okqB_ 10.0 29 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ybaa; PDBTitle: crystal structure of unknown conserved ybaa protein from2 shigella flexneri 18 c2ph7B_ 9.6 36 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein af_2093; PDBTitle: crystal structure of af2093 from archaeoglobus fulgidus 19 c1ei3E_ 9.2 12 PDB header: PDB COMPND: 20 c2gbxF_ 9.2 40 PDB header:oxidoreductase Chain: F: PDB Molecule:biphenyl 2,3-dioxygenase beta subunit; PDBTitle: crystal structure of biphenyl 2,3-dioxygenase from sphingomonas2 yanoikuyae b1 bound to biphenyl 21 c3izxE_ not modelled 9.2 11 PDB header:virus Chain: E: PDB Molecule:viral structural protein 5; PDBTitle: 3.1 angstrom cryoem structure of cytoplasmic polyhedrosis virus 22 d1u5tb1 not modelled 8.7 38 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Vacuolar sorting protein domain 23 d2h28a1 not modelled 8.1 35 Fold:Profilin-like Superfamily:YeeU-like Family:YagB/YeeU/YfjZ-like 24 c1tolA_ not modelled 8.1 18 PDB header:viral protein Chain: A: PDB Molecule:protein (fusion protein consisting of minor coat PDBTitle: fusion of n-terminal domain of the minor coat protein from2 gene iii in phage m13, and c-terminal domain of e. coli3 protein-tola 25 c3qa8A_ not modelled 8.0 25 PDB header:immune system, signaling protein Chain: A: PDB Molecule:mgc80376 protein; PDBTitle: crystal structure of inhibitor of kappa b kinase beta 26 c1jdmA_ not modelled 8.0 44 PDB header:membrane protein Chain: A: PDB Molecule:sarcolipin; PDBTitle: nmr structure of sarcolipin 27 c2vbeA_ not modelled 7.8 71 PDB header:viral protein Chain: A: PDB Molecule:tailspike-protein; PDBTitle: tailspike protein of bacteriophage sf6 28 c1deqO_ not modelled 7.6 20 PDB header: PDB COMPND: 29 d1f60a2 not modelled 7.6 22 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Family:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain 30 d2inwa1 not modelled 7.5 35 Fold:Profilin-like Superfamily:YeeU-like Family:YagB/YeeU/YfjZ-like 31 c2kbcA_ not modelled 7.4 63 PDB header:hormone Chain: A: PDB Molecule:insl5_a-chain; PDBTitle: solution structure of human insulin-like peptide 5 (insl5) 32 c2k1vA_ not modelled 7.4 63 PDB header:hormone Chain: A: PDB Molecule:insulin-like peptide insl5; PDBTitle: r3/i5 relaxin chimera 33 c2jmbA_ not modelled 7.3 50 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein atu4866; PDBTitle: solution structure of the protein atu4866 from agrobacterium2 tumefaciens 34 c2kzvA_ not modelled 7.1 28 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of cv_0373(175-257) protein from2 chromobacterium violaceum, northeast structural genomics consortium3 target cvr118a 35 c3rykB_ not modelled 6.8 30 PDB header:isomerase Chain: B: PDB Molecule:dtdp-4-dehydrorhamnose 3,5-epimerase; PDBTitle: 1.63 angstrom resolution crystal structure of dtdp-4-dehydrorhamnose2 3,5-epimerase (rfbc) from bacillus anthracis str. ames with tdp and3 ppi bound 36 c2wryA_ not modelled 6.6 14 PDB header:immune system Chain: A: PDB Molecule:interleukin-1beta; PDBTitle: crystal structure of chicken cytokine interleukin 1 beta 37 d1zunb2 not modelled 6.4 28 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Family:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain 38 d2bo9b2 not modelled 6.0 20 Fold:Cystatin-like Superfamily:Cystatin/monellin Family:Latexin-like 39 d1l8na1 not modelled 5.8 18 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:alpha-D-glucuronidase/Hyaluronidase catalytic domain 40 d2f0ca2 not modelled 5.7 53 Fold:Triple-stranded beta-helix Superfamily:Phage fibre proteins Family:Lactophage receptor-binding protein domain 41 c1s8kA_ not modelled 5.6 45 PDB header:toxin Chain: A: PDB Molecule:toxin bmkk4; PDBTitle: solution structure of bmkk4, a novel potassium channel2 blocker from scorpion buthus martensii karsch, 253 structures 42 d1jnya2 not modelled 5.4 33 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Family:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain 43 c2zx3B_ not modelled 5.3 30 PDB header:immune system, sugar binding protein Chain: B: PDB Molecule:csl3; PDBTitle: rhamnose-binding lectin csl3 44 d1cmwa1 not modelled 5.3 40 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 45 c1fqjC_ not modelled 5.2 30 PDB header:signaling protein Chain: C: PDB Molecule:retinal rod rhodopsin-sensitive cgmp 3',5'- PDBTitle: crystal structure of the heterotrimeric complex of the rgs2 domain of rgs9, the gamma subunit of phosphodiesterase and3 the gt/i1 chimera alpha subunit [(rgs9)-(pdegamma)-4 (gt/i1alpha)-(gdp)-(alf4-)-(mg2+)]

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