Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	Y	Q	Q	A	G	R	I	A	V	L	K	R	I	L	G	W	V	I	F	I	P	A	L	I	S	T	L	I	S	L	L	K	F	M	N	T	R	Q	E	N	K	E	G	I	N	A	V	M	L	D	F	T	H	V	M	I	D	M
Secondary structure
SS confidence
Disorder		?	?																																						?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	Q	A	N	T	P	F	L	N	L	F	W	Y	N	S	P	T	P	N	F	N	G	G	V	N	V	M	F	W	V	I	F	I	L	I	F	V	G	L	A	L	Q	D	S	G	A	R	M	S	R	Q	A	R	F	L	R	E	G	V	E
Secondary structure
SS confidence
Disorder																		?	?	?	?																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.
Sequence		D	Q	L	I	L	E	K	A	K	G	E	E	G	L	T	R	E	Q	I	E	S	R	I	V	V	P	H	H	T	I	F	L	Q	F	F	S	L	Y	I	L	P	V	I	C	I	A	A	G	Y	V	F	F	S	L	L	G	F	I
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 2ejs chain A Region: 106 - 146 Aligned: 41 Modelled: 41 Confidence: 38.2% Identity: 29% PDB header:ligase Chain: A: PDB Molecule:autocrine motility factor receptor, isoform 2; PDBTitle: solution structure of ruh-076, a human cue domain Phyre2 PDB 1t3j chain A Region: 106 - 129 Aligned: 24 Modelled: 24 Confidence: 25.2% Identity: 17% PDB header:membrane protein Chain: A: PDB Molecule:mitofusin 1; PDBTitle: mitofusin domain hr2 v686m/i708m mutant Phyre2 PDB 3i5q chain A Region: 17 - 75 Aligned: 45 Modelled: 59 Confidence: 19.0% Identity: 22% PDB header:protein transport Chain: A: PDB Molecule:nucleoporin nup170; PDBTitle: nup170(aa1253-1502) at 2.2 a, s.cerevisiae Phyre2 PDB 1r3j chain C Region: 10 - 118 Aligned: 90 Modelled: 91 Confidence: 18.8% Identity: 14% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 PDB 3qsp chain B Region: 25 - 132 Aligned: 108 Modelled: 108 Confidence: 18.1% Identity: 20% PDB header:hydrolase Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: analysis of a new family of widely distributed metal-independent alpha2 mannosidases provides unique insight into the processing of n-linked3 glycans, streptococcus pneumoniae sp_2144 non-productive substrate4 complex with alpha-1,6-mannobiose Phyre2 PDB 2bg9 chain B Region: 18 - 176 Aligned: 134 Modelled: 145 Confidence: 16.8% Identity: 12% PDB header:ion channel/receptor Chain: B: PDB Molecule:acetylcholine receptor protein, beta chain; PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution. Phyre2 PDB 2e76 chain E Region: 87 - 101 Aligned: 15 Modelled: 15 Confidence: 15.1% Identity: 40% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus Phyre2 PDB 2e74 chain E domain 1 Region: 87 - 101 Aligned: 15 Modelled: 15 Confidence: 15.1% Identity: 40% Fold: Single transmembrane helix Superfamily: PetL subunit of the cytochrome b6f complex Family: PetL subunit of the cytochrome b6f complex Phyre2 PDB 2e74 chain E Region: 87 - 101 Aligned: 15 Modelled: 15 Confidence: 15.1% Identity: 40% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus Phyre2 PDB 1vf5 chain R Region: 87 - 101 Aligned: 15 Modelled: 15 Confidence: 15.1% Identity: 40% PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 2e75 chain E Region: 87 - 101 Aligned: 15 Modelled: 15 Confidence: 15.1% Identity: 40% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus Phyre2 PDB 1vf5 chain E Region: 87 - 101 Aligned: 15 Modelled: 15 Confidence: 15.1% Identity: 40% PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 1in0 chain A domain 2 Region: 102 - 143 Aligned: 41 Modelled: 42 Confidence: 12.4% Identity: 15% Fold: Ferredoxin-like Superfamily: YajQ-like Family: YajQ-like Phyre2 PDB 1wf9 chain A domain 1 Region: 112 - 129 Aligned: 18 Modelled: 18 Confidence: 10.5% Identity: 22% Fold: beta-Grasp (ubiquitin-like) Superfamily: Ubiquitin-like Family: Ubiquitin-related Phyre2 PDB 2oar chain A domain 1 Region: 43 - 129 Aligned: 85 Modelled: 87 Confidence: 10.0% Identity: 9% Fold: Gated mechanosensitive channel Superfamily: Gated mechanosensitive channel Family: Gated mechanosensitive channel Phyre2 PDB 2ba3 chain A Region: 119 - 135 Aligned: 16 Modelled: 17 Confidence: 8.9% Identity: 56% PDB header:dna binding protein Chain: A: PDB Molecule:nika; PDBTitle: nmr structure of nika n-terminal fragment Phyre2 PDB 1f6g chain A Region: 11 - 143 Aligned: 114 Modelled: 115 Confidence: 7.8% Identity: 14% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 PDB 2aor chain B Region: 120 - 149 Aligned: 29 Modelled: 30 Confidence: 7.4% Identity: 28% PDB header:hydrolase/dna Chain: B: PDB Molecule:dna mismatch repair protein muth; PDBTitle: crystal structure of muth-hemimethylated dna complex Phyre2 PDB 1cby chain A Region: 6 - 88 Aligned: 62 Modelled: 64 Confidence: 7.4% Identity: 21% Fold: CytB endotoxin-like Superfamily: CytB endotoxin-like Family: CytB endotoxin-like Phyre2 PDB 1cby chain A Region: 6 - 88 Aligned: 62 Modelled: 64 Confidence: 7.4% Identity: 21% PDB header:toxin Chain: A: PDB Molecule:delta-endotoxin cytb; PDBTitle: delta-endotoxin Phyre2 1 c2ejsA_ 2 c1t3jA_ 3 c3i5qA_ 4 d1r3jc_ 5 c3qspB_ 6 c2bg9B_ 7 c2e76E_ 8 d2e74e1 9 c2e74E_ 10 c1vf5R_ 11 c2e75E_ 12 c1vf5E_ 13 d1in0a2 14 d1wf9a1 15 d2oara1 16 c2ba3A_ 17 d1f6ga_ 18 c2aorB_ 19 d1cbya_ 20 c1cbyA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42

Detailed template information

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

1 c2ejsA_ 38.2 29 PDB header:ligase Chain: A: PDB Molecule:autocrine motility factor receptor, isoform 2; PDBTitle: solution structure of ruh-076, a human cue domain 2 c1t3jA_ 25.2 17 PDB header:membrane protein Chain: A: PDB Molecule:mitofusin 1; PDBTitle: mitofusin domain hr2 v686m/i708m mutant 3 c3i5qA_ 19.0 22 PDB header:protein transport Chain: A: PDB Molecule:nucleoporin nup170; PDBTitle: nup170(aa1253-1502) at 2.2 a, s.cerevisiae 4 d1r3jc_ 18.8 14 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 5 c3qspB_ 18.1 20 PDB header:hydrolase Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: analysis of a new family of widely distributed metal-independent alpha2 mannosidases provides unique insight into the processing of n-linked3 glycans, streptococcus pneumoniae sp_2144 non-productive substrate4 complex with alpha-1,6-mannobiose 6 c2bg9B_ 16.8 12 PDB header:ion channel/receptor Chain: B: PDB Molecule:acetylcholine receptor protein, beta chain; PDBTitle: refined structure of the nicotinic acetylcholine receptor2 at 4a resolution. 7 c2e76E_ 15.1 40 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus 8 d2e74e1 15.1 40 Fold:Single transmembrane helix Superfamily:PetL subunit of the cytochrome b6f complex Family:PetL subunit of the cytochrome b6f complex 9 c2e74E_ 15.1 40 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus 10 c1vf5R_ 15.1 40 PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 11 c2e75E_ 15.1 40 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus 12 c1vf5E_ 15.1 40 PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 13 d1in0a2 12.4 15 Fold:Ferredoxin-like Superfamily:YajQ-like Family:YajQ-like 14 d1wf9a1 10.5 22 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:Ubiquitin-related 15 d2oara1 10.0 9 Fold:Gated mechanosensitive channel Superfamily:Gated mechanosensitive channel Family:Gated mechanosensitive channel 16 c2ba3A_ 8.9 56 PDB header:dna binding protein Chain: A: PDB Molecule:nika; PDBTitle: nmr structure of nika n-terminal fragment 17 d1f6ga_ 7.8 14 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 18 c2aorB_ 7.4 28 PDB header:hydrolase/dna Chain: B: PDB Molecule:dna mismatch repair protein muth; PDBTitle: crystal structure of muth-hemimethylated dna complex 19 d1cbya_ 7.4 21 Fold:CytB endotoxin-like Superfamily:CytB endotoxin-like Family:CytB endotoxin-like 20 c1cbyA_ 7.4 21 PDB header:toxin Chain: A: PDB Molecule:delta-endotoxin cytb; PDBTitle: delta-endotoxin 21 c2wh7A_ not modelled 7.3 33 PDB header:hydrolase Chain: A: PDB Molecule:hyaluronidase-phage associated; PDBTitle: the partial structure of a group a streptpcoccal phage-2 encoded tail fibre hyaluronate lyase hylp2 22 c1in0B_ not modelled 7.1 15 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:yajq protein; PDBTitle: yajq protein (hi1034) 23 c3he5D_ not modelled 7.0 23 PDB header:de novo protein Chain: D: PDB Molecule:synzip2; PDBTitle: heterospecific coiled-coil pair synzip2:synzip1 24 c1y4eA_ not modelled 7.0 50 PDB header:membrane protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: nmr structure of transmembrane segment iv of the nhe12 isoform of the na+/h+ exchanger 25 c1o98A_ not modelled 6.9 40 PDB header:isomerase Chain: A: PDB Molecule:2,3-bisphosphoglycerate-independent PDBTitle: 1.4a crystal structure of phosphoglycerate mutase from2 bacillus stearothermophilus complexed with3 2-phosphoglycerate 26 d1sfsa_ not modelled 6.6 21 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:1,4-beta-N-acetylmuraminidase 27 c1sfsA_ not modelled 6.6 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: 1.07 a crystal structure of an uncharacterized b.2 stearothermophilus protein 28 c2h09A_ not modelled 6.5 25 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator mntr; PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli 29 c1iflA_ not modelled 6.5 16 PDB header:virus Chain: A: PDB Molecule:inovirus; PDBTitle: molecular models and structural comparisons of native and2 mutant class i filamentous bacteriophages ff (fd, f1, m13),3 if1 and ike 30 c2rmgA_ not modelled 6.5 27 PDB header:hormone Chain: A: PDB Molecule:urocortin-2; PDBTitle: human urocortin 2 31 c2l16A_ not modelled 6.2 17 PDB header:protein transport Chain: A: PDB Molecule:sec-independent protein translocase protein tatad; PDBTitle: solution structure of bacillus subtilits tatad protein in dpc micelles 32 c3f1bA_ not modelled 6.2 13 PDB header:transcription regulator Chain: A: PDB Molecule:tetr-like transcriptional regulator; PDBTitle: the crystal structure of a tetr-like transcriptional regulator from2 rhodococcus sp. rha1. 33 c2d2cR_ not modelled 5.9 43 PDB header:photosynthesis Chain: R: PDB Molecule:cytochrome b6-f complex subunit vi; PDBTitle: crystal structure of cytochrome b6f complex with dbmib from2 m. laminosus 34 c2d2cE_ not modelled 5.9 43 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit vi; PDBTitle: crystal structure of cytochrome b6f complex with dbmib from2 m. laminosus 35 d2dk5a1 not modelled 5.9 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RPO3F domain-like 36 d1na6a2 not modelled 5.7 32 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Type II restriction endonuclease catalytic domain 37 c2oarA_ not modelled 5.6 11 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) 38 d1ug2a_ not modelled 5.4 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 39 d1tzyb_ not modelled 5.3 14 Fold:Histone-fold Superfamily:Histone-fold Family:Nucleosome core histones 40 d1s4na_ not modelled 5.1 17 Fold:Nucleotide-diphospho-sugar transferases Superfamily:Nucleotide-diphospho-sugar transferases Family:Glycolipid 2-alpha-mannosyltransferase 41 d1hs7a_ not modelled 5.1 28 Fold:STAT-like Superfamily:t-snare proteins Family:t-snare proteins 42 d1kyqa2 not modelled 5.1 20 Fold:Siroheme synthase middle domains-like Superfamily:Siroheme synthase middle domains-like Family:Siroheme synthase middle domains-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