Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	E	F	F	P	L	A	S	A	A	G	M	T	V	G	L	A	V	C	A	L	I	V	G	L	A	L	A	M	F	F	A	V	W	E	S	A	K	W	R	P	V	A	W	A	G	S	A	L	V	T	I	L	R	G	L	P	E	I
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	V	V	L	F	I	Y	F	G	S	S	Q	L	L	L	T	L	S	D	G	F	T	I	N	L	G	F	V	Q	I	P	V	Q	M	D	I	E	N	F	D	V	S	P	F	L	C	G	V	I	A	L	S	L	L	Y	A	A	Y	A	S
Secondary structure
SS confidence
Disorder																	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Q	T	L	R	G	A	L	K	A	V	P	V	G	Q	W	E	S	G	Q	A	L	G	L	S	K	S	A	I	F	F	R	L	V	M	P	Q	M	W	R	H	A	L	P	G	L	G	N	Q	W	L	V	L	L	K	D	T	A	L	V	S
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.
Sequence		L	I	S	V	N	D	L	M	L	Q	T	K	S	I	A	T	R	T	Q	E	P	F	T	W	Y	I	V	A	A	A	I	Y	L	V	I	T	L	L	S	Q	Y	I	L	K	R	I	D	L	R	A	T	R	F	E	R	R	P	S
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 2r6g chain F Region: 6 - 222 Aligned: 212 Modelled: 216 Confidence: 100.0% Identity: 15% PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter Phyre2 PDB 2onk chain C domain 1 Region: 5 - 226 Aligned: 206 Modelled: 206 Confidence: 100.0% Identity: 17% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 5 - 226 Aligned: 206 Modelled: 206 Confidence: 100.0% Identity: 17% PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda Phyre2 PDB 2r6g chain F domain 2 Region: 7 - 222 Aligned: 211 Modelled: 215 Confidence: 100.0% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain C domain 1 Region: 5 - 224 Aligned: 206 Modelled: 206 Confidence: 100.0% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 5 - 224 Aligned: 206 Modelled: 206 Confidence: 100.0% Identity: 14% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 3fh6 chain F Region: 6 - 229 Aligned: 219 Modelled: 218 Confidence: 100.0% Identity: 15% PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli Phyre2 PDB 2r6g chain G domain 1 Region: 1 - 238 Aligned: 218 Modelled: 218 Confidence: 99.9% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3dhw chain A domain 1 Region: 5 - 224 Aligned: 202 Modelled: 203 Confidence: 99.9% Identity: 14% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 1ntc chain A Region: 121 - 152 Aligned: 32 Modelled: 32 Confidence: 37.9% Identity: 22% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1umq chain A Region: 121 - 152 Aligned: 32 Modelled: 32 Confidence: 33.5% Identity: 9% PDB header:dna-binding protein Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein; PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity Phyre2 PDB 1umq chain A Region: 121 - 152 Aligned: 32 Modelled: 32 Confidence: 33.5% Identity: 9% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 3e7l chain D Region: 121 - 152 Aligned: 32 Modelled: 32 Confidence: 23.3% Identity: 9% PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain Phyre2 PDB 1fip chain A Region: 121 - 152 Aligned: 32 Modelled: 32 Confidence: 22.5% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1eto chain B Region: 121 - 152 Aligned: 32 Modelled: 32 Confidence: 22.2% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2cw1 chain A Region: 131 - 145 Aligned: 15 Modelled: 15 Confidence: 18.4% Identity: 40% PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein Phyre2 PDB 1etx chain A Region: 122 - 152 Aligned: 31 Modelled: 31 Confidence: 18.0% Identity: 10% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2jwa chain A Region: 12 - 45 Aligned: 34 Modelled: 34 Confidence: 15.6% Identity: 12% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 2ns0 chain A domain 1 Region: 136 - 153 Aligned: 18 Modelled: 17 Confidence: 13.7% Identity: 11% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: RHA1 ro06458-like Phyre2 PDB 1g2h chain A Region: 121 - 152 Aligned: 31 Modelled: 32 Confidence: 12.5% Identity: 32% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 1 c2r6gF_ 2 d2onkc1 3 c2onkC_ 4 d2r6gf2 5 d3d31c1 6 c3d31D_ 7 c3fh6F_ 8 d2r6gg1 9 d3dhwa1 10 d1ntca_ 11 c1umqA_ 12 d1umqa_ 13 c3e7lD_ 14 d1fipa_ 15 d1etob_ 16 c2cw1A_ 17 d1etxa_ 18 c2jwaA_ 19 d2ns0a1 20 d1g2ha_ 21 22 23 24 25 26 27 28 29 30

Detailed template information

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

1 c2r6gF_ 100.0 15 PDB header:hydrolase/transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: the crystal structure of the e. coli maltose transporter 2 d2onkc1 100.0 17 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 3 c2onkC_ 100.0 17 PDB header:membrane protein Chain: C: PDB Molecule:molybdate/tungstate abc transporter, permease PDBTitle: abc transporter modbc in complex with its binding protein2 moda 4 d2r6gf2 100.0 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 d3d31c1 100.0 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 6 c3d31D_ 100.0 14 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 7 c3fh6F_ 100.0 15 PDB header:transport protein Chain: F: PDB Molecule:maltose transport system permease protein malf; PDBTitle: crystal structure of the resting state maltose transporter from e.2 coli 8 d2r6gg1 99.9 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 9 d3dhwa1 99.9 14 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 d1ntca_ 37.9 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 11 c1umqA_ 33.5 9 PDB header:dna-binding protein Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein; PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity 12 d1umqa_ 33.5 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 13 c3e7lD_ 23.3 9 PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain 14 d1fipa_ 22.5 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 15 d1etob_ 22.2 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 16 c2cw1A_ 18.4 40 PDB header:de novo protein Chain: A: PDB Molecule:sn4m; PDBTitle: solution structure of the de novo-designed lambda cro fold2 protein 17 d1etxa_ 18.0 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 18 c2jwaA_ 15.6 12 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 19 d2ns0a1 13.7 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RHA1 ro06458-like 20 d1g2ha_ 12.5 32 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 21 c2hx6A_ not modelled 10.5 15 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease; PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb 22 c1hjiB_ not modelled 8.5 40 PDB header:bacteriophage hk022 Chain: B: PDB Molecule:nun-protein; PDBTitle: bacteriophage hk022 nun-protein-nutboxb-rna complex 23 c3qnqD_ not modelled 8.3 12 PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system 24 c2ht2B_ not modelled 6.0 6 PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex 25 c2d7dB_ not modelled 5.8 15 PDB header:hydrolase/dna Chain: B: PDB Molecule:40-mer from uvrabc system protein b; PDBTitle: structural insights into the cryptic dna dependent atp-ase2 activity of uvrb 26 c1twcF_ not modelled 5.5 29 PDB header:transcription Chain: F: PDB Molecule:dna-directed rna polymerases i, ii, and iii 23 PDBTitle: rna polymerase ii complexed with gtp 27 d1txka2 not modelled 5.5 50 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:MdoG-like 28 d1twff_ not modelled 5.5 29 Fold:RPB6/omega subunit-like Superfamily:RPB6/omega subunit-like Family:RPB6 29 c2pmzW_ not modelled 5.4 7 PDB header:translation, transferase Chain: W: PDB Molecule:dna-directed rna polymerase subunit k; PDBTitle: archaeal rna polymerase from sulfolobus solfataricus 30 c2wb1J_ not modelled 5.3 20 PDB header:transcription Chain: J: PDB Molecule:dna-directed rna polymerase rpo13 subunit; PDBTitle: the complete structure of the archaeal 13-subunit dna-2 directed rna polymerase

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