Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	Y	A	K	P	V	T	L	N	V	E	E	C	D	R	L	S	F	L	P	Y	L	F	G	N	D	F	L	Y	A	E	A	Y	V	Y	A	L	A	Q	K	M	M	P	E	Y	Q	G	G	F	W	H	F	I	R	L	P	D	G	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	Y	M	M	P	D	G	D	R	F	H	L	V	N	G	E	N	W	F	D	R	T	V	S	A	D	A	A	G	I	I	L	T	S	L	V	I	N	R	Q	L	W	L	Y	H	D	S	G	D	V	G	L	T	Q	L	Y	R	M	R	D
Secondary structure
SS confidence
Disorder																																													?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.
Sequence		A	Q	L	W	R	H	I	E	F	H	P	E	C	N	A	I	Y	A	A	L	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 2kmg chain A Region: 3 - 141 Aligned: 136 Modelled: 139 Confidence: 100.0% Identity: 38% PDB header:gene regulation Chain: A: PDB Molecule:klca; PDBTitle: the structure of the klca and ardb proteins show a novel2 fold and antirestriction activity against type i dna3 restriction systems in vivo but not in vitro Phyre2 PDB 2wj9 chain A Region: 5 - 141 Aligned: 124 Modelled: 137 Confidence: 100.0% Identity: 25% PDB header:hydrolase inhibitor Chain: A: PDB Molecule:intergenic-region protein; PDBTitle: ardb Phyre2 PDB 2v6a chain I domain 1 Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 48.9% Identity: 33% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1gk8 chain I Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 44.3% Identity: 33% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 8ruc chain I Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 38.7% Identity: 42% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1uzd chain C domain 1 Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 36.8% Identity: 42% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1wdd chain S Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 36.8% Identity: 42% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1ej7 chain S Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 35.3% Identity: 42% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1ueb chain A domain 2 Region: 62 - 89 Aligned: 28 Modelled: 28 Confidence: 33.5% Identity: 18% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Cold shock DNA-binding domain-like Phyre2 PDB 1b4u chain A Region: 95 - 138 Aligned: 42 Modelled: 44 Confidence: 32.5% Identity: 12% Fold: LigA subunit of an aromatic-ring-opening dioxygenase LigAB Superfamily: LigA subunit of an aromatic-ring-opening dioxygenase LigAB Family: LigA subunit of an aromatic-ring-opening dioxygenase LigAB Phyre2 PDB 1uzh chain C domain 1 Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 27.8% Identity: 25% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1ir1 chain S Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 26.7% Identity: 42% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 2tss chain A domain 2 Region: 45 - 62 Aligned: 17 Modelled: 18 Confidence: 24.5% Identity: 41% Fold: beta-Grasp (ubiquitin-like) Superfamily: Superantigen toxins, C-terminal domain Family: Superantigen toxins, C-terminal domain Phyre2 PDB 1ueb chain B Region: 62 - 89 Aligned: 28 Modelled: 28 Confidence: 23.8% Identity: 18% PDB header:rna binding protein Chain: B: PDB Molecule:elongation factor p; PDBTitle: crystal structure of translation elongation factor p from2 thermus thermophilus hb8 Phyre2 PDB 1rbl chain I Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 19.9% Identity: 25% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1svd chain M domain 1 Region: 44 - 57 Aligned: 14 Modelled: 14 Confidence: 19.1% Identity: 21% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1bxn chain I Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 18.7% Identity: 25% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1bwv chain S Region: 46 - 57 Aligned: 12 Modelled: 12 Confidence: 18.1% Identity: 25% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1n1b chain A domain 1 Region: 75 - 141 Aligned: 62 Modelled: 67 Confidence: 15.3% Identity: 19% Fold: alpha/alpha toroid Superfamily: Terpenoid cyclases/Protein prenyltransferases Family: Terpenoid cyclase N-terminal domain Phyre2 PDB 1m15 chain A domain 1 Region: 37 - 50 Aligned: 14 Modelled: 14 Confidence: 14.7% Identity: 36% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 1 c2kmgA_ 2 c2wj9A_ 3 d2v6ai1 4 d1gk8i_ 5 d8ruci_ 6 d1uzdc1 7 d1wdds_ 8 d1ej7s_ 9 d1ueba2 10 d1b4ua_ 11 d1uzhc1 12 d1ir1s_ 13 d2tssa2 14 c1uebB_ 15 d1rbli_ 16 d1svdm1 17 d1bxni_ 18 d1bwvs_ 19 d1n1ba1 20 d1m15a1 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

Detailed template information

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

1 c2kmgA_ 100.0 38 PDB header:gene regulation Chain: A: PDB Molecule:klca; PDBTitle: the structure of the klca and ardb proteins show a novel2 fold and antirestriction activity against type i dna3 restriction systems in vivo but not in vitro 2 c2wj9A_ 100.0 25 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:intergenic-region protein; PDBTitle: ardb 3 d2v6ai1 48.9 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 4 d1gk8i_ 44.3 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 5 d8ruci_ 38.7 42 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 6 d1uzdc1 36.8 42 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 7 d1wdds_ 36.8 42 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 8 d1ej7s_ 35.3 42 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 9 d1ueba2 33.5 18 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 10 d1b4ua_ 32.5 12 Fold:LigA subunit of an aromatic-ring-opening dioxygenase LigAB Superfamily:LigA subunit of an aromatic-ring-opening dioxygenase LigAB Family:LigA subunit of an aromatic-ring-opening dioxygenase LigAB 11 d1uzhc1 27.8 25 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 12 d1ir1s_ 26.7 42 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 13 d2tssa2 24.5 41 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 14 c1uebB_ 23.8 18 PDB header:rna binding protein Chain: B: PDB Molecule:elongation factor p; PDBTitle: crystal structure of translation elongation factor p from2 thermus thermophilus hb8 15 d1rbli_ 19.9 25 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 16 d1svdm1 19.1 21 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 17 d1bxni_ 18.7 25 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 18 d1bwvs_ 18.1 25 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 19 d1n1ba1 15.3 19 Fold:alpha/alpha toroid Superfamily:Terpenoid cyclases/Protein prenyltransferases Family:Terpenoid cyclase N-terminal domain 20 d1m15a1 14.7 36 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 21 c3treA_ not modelled 13.7 29 PDB header:translation Chain: A: PDB Molecule:elongation factor p; PDBTitle: structure of a translation elongation factor p (efp) from coxiella2 burnetii 22 c1ybyB_ not modelled 12.8 25 PDB header:translation Chain: B: PDB Molecule:translation elongation factor p; PDBTitle: conserved hypothetical protein cth-95 from clostridium2 thermocellum 23 c1bkbA_ not modelled 12.4 14 PDB header:translation Chain: A: PDB Molecule:translation initiation factor 5a; PDBTitle: initiation factor 5a from archebacterium pyrobaculum2 aerophilum 24 d1qh4a1 not modelled 12.1 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 25 d1vrpa1 not modelled 11.6 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 26 d1u6ra1 not modelled 11.4 29 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 27 d1i0ea1 not modelled 10.8 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 28 d1crka1 not modelled 10.7 7 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 29 d1g0wa1 not modelled 10.2 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 30 c1n20A_ not modelled 10.2 19 PDB header:isomerase Chain: A: PDB Molecule:(+)-bornyl diphosphate synthase; PDBTitle: (+)-bornyl diphosphate synthase: complex with mg and 3-aza-2 2,3-dihydrogeranyl diphosphate 31 d1qk1a1 not modelled 10.0 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 32 d1f3ud_ not modelled 9.9 27 Fold:triple barrel Superfamily:Rap30/74 interaction domains Family:Rap30/74 interaction domains 33 c3lo4B_ not modelled 9.6 56 PDB header:antimicrobial protein Chain: B: PDB Molecule:neutrophil defensin 1; PDBTitle: crystal structure of human alpha-defensin 1 (r24a mutant) 34 c3lo4A_ not modelled 9.6 56 PDB header:antimicrobial protein Chain: A: PDB Molecule:neutrophil defensin 1; PDBTitle: crystal structure of human alpha-defensin 1 (r24a mutant) 35 d1enfa2 not modelled 8.4 24 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 36 d1elpa2 not modelled 8.2 16 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 37 d1a7ha_ not modelled 8.0 21 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 38 d3buxb3 not modelled 7.9 50 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 39 c1xxgA_ not modelled 7.8 12 PDB header:immune system Chain: A: PDB Molecule:enterotoxin; PDBTitle: crystal structure of staphylococcal enterotoxin g 40 c1ck1A_ not modelled 6.6 24 PDB header:toxin Chain: A: PDB Molecule:protein (enterotoxin type c-3); PDBTitle: structure of staphylococcal enterotoxin c3 41 c3ms6A_ not modelled 6.0 36 PDB header:protein binding Chain: A: PDB Molecule:hepatitis b virus x-interacting protein; PDBTitle: crystal structure of hepatitis b x-interacting protein (hbxip) 42 c3qx3B_ not modelled 5.8 15 PDB header:isomerase/dna/isomerase inhibitor Chain: B: PDB Molecule:dna topoisomerase 2-beta; PDBTitle: human topoisomerase iibeta in complex with dna and etoposide 43 d1zira2 not modelled 5.7 13 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 44 d2z8la2 not modelled 5.6 20 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 45 d1ha4a_ not modelled 5.5 21 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 46 c3bunB_ not modelled 5.3 45 PDB header:ligase/signaling protein Chain: B: PDB Molecule:e3 ubiquitin-protein ligase cbl; PDBTitle: crystal structure of c-cbl-tkb domain complexed with its2 binding motif in sprouty4 47 c2cblA_ not modelled 5.3 45 PDB header:complex (proto-oncogene/peptide) Chain: A: PDB Molecule:proto-oncogene cbl; PDBTitle: n-terminal domain of cbl in complex with its binding site2 on zap-70 48 c1d6eC_ not modelled 5.2 19 PDB header:immune system/peptide inhibitor Chain: C: PDB Molecule:enterotoxin type b; PDBTitle: crystal structure of hla-dr4 complex with peptidomimetic and seb

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