Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	N	V	K	T	L	I	A	A	A	I	L	S	S	M	S	F	A	S	F	A	A	V	E	V	Q	S	T	P	E	G	Q	Q	K	V	G	T	I	S	A	N	A	G	T	N	L	G	S	L	E	E	Q	L	A	Q	K	A	D	E
Secondary structure
SS confidence
Disorder		?	?	?	?													?	?			?	?	?	?		?	?	?	?	?	?	?	?	?	?							?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.
Sequence		M	G	A	K	S	F	R	I	T	S	V	T	G	P	N	T	L	H	G	T	A	V	I	Y	K
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 2noc chain A domain 1 Region: 1 - 85 Aligned: 84 Modelled: 85 Confidence: 100.0% Identity: 36% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 PDB 2jna chain A domain 1 Region: 1 - 85 Aligned: 84 Modelled: 85 Confidence: 100.0% Identity: 29% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 PDB 3dfe chain A Region: 50 - 75 Aligned: 26 Modelled: 26 Confidence: 37.9% Identity: 27% PDB header:signaling protein Chain: A: PDB Molecule:putative pii-like signaling protein; PDBTitle: crystal structure of a putative pii-like signaling protein2 (yp_323533.1) from anabaena variabilis atcc 29413 at 2.35 a3 resolution Phyre2 PDB 2k4q chain A Region: 27 - 83 Aligned: 57 Modelled: 57 Confidence: 28.9% Identity: 14% PDB header:viral protein Chain: A: PDB Molecule:major tail protein v; PDBTitle: the solution structure of gpv, the major tail protein from2 bacteriophage lambda Phyre2 PDB 3b9n chain B Region: 45 - 69 Aligned: 25 Modelled: 25 Confidence: 27.1% Identity: 12% PDB header:oxidoreductase Chain: B: PDB Molecule:alkane monoxygenase; PDBTitle: crystal structure of long-chain alkane monooxygenase (lada) Phyre2 PDB 1hl8 chain B Region: 52 - 75 Aligned: 24 Modelled: 24 Confidence: 18.5% Identity: 21% PDB header:hydrolase Chain: B: PDB Molecule:putative alpha-l-fucosidase; PDBTitle: crystal structure of thermotoga maritima alpha-fucosidase Phyre2 PDB 3sdo chain B Region: 45 - 68 Aligned: 24 Modelled: 24 Confidence: 14.1% Identity: 17% PDB header:oxidoreductase Chain: B: PDB Molecule:nitrilotriacetate monooxygenase; PDBTitle: structure of a nitrilotriacetate monooxygenase from burkholderia2 pseudomallei Phyre2 PDB 3eyp chain B Region: 52 - 75 Aligned: 24 Modelled: 24 Confidence: 13.6% Identity: 17% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative alpha-l-fucosidase; PDBTitle: crystal structure of putative alpha-l-fucosidase from bacteroides2 thetaiotaomicron Phyre2 PDB 3qkb chain B Region: 48 - 64 Aligned: 17 Modelled: 17 Confidence: 13.4% Identity: 24% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a protein with unknown function which belongs to2 pfam duf74 family (pepe_0654) from pediococcus pentosaceus atcc 257453 at 2.73 a resolution Phyre2 PDB 3mo4 chain B Region: 52 - 75 Aligned: 24 Modelled: 24 Confidence: 12.1% Identity: 13% PDB header:hydrolase Chain: B: PDB Molecule:alpha-1,3/4-fucosidase; PDBTitle: the crystal structure of an alpha-(1-3,4)-fucosidase from2 bifidobacterium longum subsp. infantis atcc 15697 Phyre2 PDB 2jz7 chain A Region: 36 - 63 Aligned: 27 Modelled: 28 Confidence: 10.8% Identity: 22% PDB header:selenium-binding protein Chain: A: PDB Molecule:selenium binding protein; PDBTitle: solution nmr structure of selenium-binding protein from2 methanococcus vannielii Phyre2 PDB 1luc chain B Region: 45 - 68 Aligned: 24 Modelled: 24 Confidence: 10.7% Identity: 8% Fold: TIM beta/alpha-barrel Superfamily: Bacterial luciferase-like Family: Bacterial luciferase (alkanal monooxygenase) Phyre2 PDB 1luc chain A Region: 45 - 69 Aligned: 25 Modelled: 25 Confidence: 10.7% Identity: 12% Fold: TIM beta/alpha-barrel Superfamily: Bacterial luciferase-like Family: Bacterial luciferase (alkanal monooxygenase) Phyre2 PDB 2y1b chain A Region: 46 - 70 Aligned: 25 Modelled: 25 Confidence: 10.4% Identity: 16% PDB header:membrane protein Chain: A: PDB Molecule:putative outer membrane protein, signal; PDBTitle: crystal structure of the e. coli outer membrane lipoprotein2 rcsf Phyre2 PDB 1cdw chain A domain 2 Region: 37 - 56 Aligned: 20 Modelled: 20 Confidence: 9.9% Identity: 10% Fold: TBP-like Superfamily: TATA-box binding protein-like Family: TATA-box binding protein (TBP), C-terminal domain Phyre2 PDB 1f07 chain A Region: 45 - 75 Aligned: 30 Modelled: 31 Confidence: 9.7% Identity: 17% Fold: TIM beta/alpha-barrel Superfamily: Bacterial luciferase-like Family: F420 dependent oxidoreductases Phyre2 PDB 1txk chain A domain 2 Region: 61 - 74 Aligned: 14 Modelled: 14 Confidence: 9.3% Identity: 29% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: MdoG-like Phyre2 PDB 1hl9 chain A domain 2 Region: 52 - 75 Aligned: 24 Modelled: 24 Confidence: 9.2% Identity: 21% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Putative alpha-L-fucosidase, catalytic domain Phyre2 PDB 1f02 chain T Region: 48 - 62 Aligned: 15 Modelled: 15 Confidence: 9.1% Identity: 47% PDB header:cell adhesion Chain: T: PDB Molecule:translocated intimin receptor; PDBTitle: crystal structure of c-terminal 282-residue fragment of2 intimin in complex with translocated intimin receptor3 (tir) intimin-binding domain Phyre2 PDB 1txk chain A Region: 61 - 74 Aligned: 14 Modelled: 14 Confidence: 8.9% Identity: 29% PDB header:biosynthetic protein Chain: A: PDB Molecule:glucans biosynthesis protein g; PDBTitle: crystal structure of escherichia coli opgg Phyre2 1 d2noca1 2 d2jnaa1 3 c3dfeA_ 4 c2k4qA_ 5 c3b9nB_ 6 c1hl8B_ 7 c3sdoB_ 8 c3eypB_ 9 c3qkbB_ 10 c3mo4B_ 11 c2jz7A_ 12 d1lucb_ 13 d1luca_ 14 c2y1bA_ 15 d1cdwa2 16 d1f07a_ 17 d1txka2 18 d1hl9a2 19 c1f02T_ 20 c1txkA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39

Detailed template information

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

1 d2noca1 100.0 36 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 2 d2jnaa1 100.0 29 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 3 c3dfeA_ 37.9 27 PDB header:signaling protein Chain: A: PDB Molecule:putative pii-like signaling protein; PDBTitle: crystal structure of a putative pii-like signaling protein2 (yp_323533.1) from anabaena variabilis atcc 29413 at 2.35 a3 resolution 4 c2k4qA_ 28.9 14 PDB header:viral protein Chain: A: PDB Molecule:major tail protein v; PDBTitle: the solution structure of gpv, the major tail protein from2 bacteriophage lambda 5 c3b9nB_ 27.1 12 PDB header:oxidoreductase Chain: B: PDB Molecule:alkane monoxygenase; PDBTitle: crystal structure of long-chain alkane monooxygenase (lada) 6 c1hl8B_ 18.5 21 PDB header:hydrolase Chain: B: PDB Molecule:putative alpha-l-fucosidase; PDBTitle: crystal structure of thermotoga maritima alpha-fucosidase 7 c3sdoB_ 14.1 17 PDB header:oxidoreductase Chain: B: PDB Molecule:nitrilotriacetate monooxygenase; PDBTitle: structure of a nitrilotriacetate monooxygenase from burkholderia2 pseudomallei 8 c3eypB_ 13.6 17 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative alpha-l-fucosidase; PDBTitle: crystal structure of putative alpha-l-fucosidase from bacteroides2 thetaiotaomicron 9 c3qkbB_ 13.4 24 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a protein with unknown function which belongs to2 pfam duf74 family (pepe_0654) from pediococcus pentosaceus atcc 257453 at 2.73 a resolution 10 c3mo4B_ 12.1 13 PDB header:hydrolase Chain: B: PDB Molecule:alpha-1,3/4-fucosidase; PDBTitle: the crystal structure of an alpha-(1-3,4)-fucosidase from2 bifidobacterium longum subsp. infantis atcc 15697 11 c2jz7A_ 10.8 22 PDB header:selenium-binding protein Chain: A: PDB Molecule:selenium binding protein; PDBTitle: solution nmr structure of selenium-binding protein from2 methanococcus vannielii 12 d1lucb_ 10.7 8 Fold:TIM beta/alpha-barrel Superfamily:Bacterial luciferase-like Family:Bacterial luciferase (alkanal monooxygenase) 13 d1luca_ 10.7 12 Fold:TIM beta/alpha-barrel Superfamily:Bacterial luciferase-like Family:Bacterial luciferase (alkanal monooxygenase) 14 c2y1bA_ 10.4 16 PDB header:membrane protein Chain: A: PDB Molecule:putative outer membrane protein, signal; PDBTitle: crystal structure of the e. coli outer membrane lipoprotein2 rcsf 15 d1cdwa2 9.9 10 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 16 d1f07a_ 9.7 17 Fold:TIM beta/alpha-barrel Superfamily:Bacterial luciferase-like Family:F420 dependent oxidoreductases 17 d1txka2 9.3 29 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:MdoG-like 18 d1hl9a2 9.2 21 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Putative alpha-L-fucosidase, catalytic domain 19 c1f02T_ 9.1 47 PDB header:cell adhesion Chain: T: PDB Molecule:translocated intimin receptor; PDBTitle: crystal structure of c-terminal 282-residue fragment of2 intimin in complex with translocated intimin receptor3 (tir) intimin-binding domain 20 c1txkA_ 8.9 29 PDB header:biosynthetic protein Chain: A: PDB Molecule:glucans biosynthesis protein g; PDBTitle: crystal structure of escherichia coli opgg 21 c2wvsD_ not modelled 8.7 33 PDB header:hydrolase Chain: D: PDB Molecule:alpha-l-fucosidase; PDBTitle: crystal structure of an alpha-l-fucosidase gh29 trapped2 covalent intermediate from bacteroides thetaiotaomicron in3 complex with 2-fluoro-fucosyl fluoride using an e288q4 mutant 22 c2w1sB_ not modelled 8.2 24 PDB header:hydrolase Chain: B: PDB Molecule:hyaluronoglucosaminidase; PDBTitle: unique ligand binding specificity of a family 322 carbohydrate-binding module from the mu toxin produced by3 clostridium perfringens 23 d1mp9a2 not modelled 7.6 5 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 24 d1nh2a2 not modelled 6.8 9 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 25 c3ir9A_ not modelled 6.8 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:peptide chain release factor subunit 1; PDBTitle: c-terminal domain of peptide chain release factor from2 methanosarcina mazei. 26 d1qnaa2 not modelled 6.7 9 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 27 c3eikB_ not modelled 6.6 10 PDB header:transcription Chain: B: PDB Molecule:tata-box-binding protein; PDBTitle: double stranded dna binding protein 28 d1mp9a1 not modelled 6.6 10 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 29 c1z69D_ not modelled 5.8 13 PDB header:oxidoreductase Chain: D: PDB Molecule:coenzyme f420-dependent n(5),n(10)- PDBTitle: crystal structure of methylenetetrahydromethanopterin2 reductase (mer) in complex with coenzyme f420 30 d1ycga1 not modelled 5.7 11 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 31 c1mp9B_ not modelled 5.7 5 PDB header:dna binding protein Chain: B: PDB Molecule:tata-binding protein; PDBTitle: tbp from a mesothermophilic archaeon, sulfolobus2 acidocaldarius 32 c2z8uQ_ not modelled 5.6 10 PDB header:transcription Chain: Q: PDB Molecule:tata-box-binding protein; PDBTitle: methanococcus jannaschii tbp 33 c2i7gA_ not modelled 5.5 8 PDB header:oxidoreductase Chain: A: PDB Molecule:monooxygenase; PDBTitle: crystal structure of monooxygenase from agrobacterium tumefaciens 34 c1d3uA_ not modelled 5.3 15 PDB header:gene regulation/dna Chain: A: PDB Molecule:tata-binding protein; PDBTitle: tata-binding protein/transcription factor (ii)b/bre+tata-2 box complex from pyrococcus woesei 35 d1aisa2 not modelled 5.2 13 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 36 d1nh2a1 not modelled 5.2 9 Fold:TBP-like Superfamily:TATA-box binding protein-like Family:TATA-box binding protein (TBP), C-terminal domain 37 c1rm1A_ not modelled 5.2 10 PDB header:transcription/dna Chain: A: PDB Molecule:tata-box binding protein; PDBTitle: structure of a yeast tfiia/tbp/tata-box dna complex 38 c1ngmM_ not modelled 5.2 10 PDB header:transcription/dna Chain: M: PDB Molecule:transcription initiation factor tfiid; PDBTitle: crystal structure of a yeast brf1-tbp-dna ternary complex 39 c3gzaB_ not modelled 5.1 25 PDB header:hydrolase Chain: B: PDB Molecule:putative alpha-l-fucosidase; PDBTitle: crystal structure of putative alpha-l-fucosidase (np_812709.1) from2 bacteroides thetaiotaomicron vpi-5482 at 1.60 a resolution

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