Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	Q	V	T	E	N	K	V	I	S	A	P	V	P	M	T	P	L	Q	E	F	W	H	Y	F	K	R	N	K	G	A	V	V	G	L	V	Y	V	V	I	V	L	F	I	A	I	F	A	N	W	I	A	P	Y	N	P	A	E	Q
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	R	D	A	L	L	A	P	P	A	W	Q	E	G	G	S	M	A	H	L	L	G	T	D	D	V	G	R	D	V	L	S	R	L	M	Y	G	A	R	L	S	L	L	V	G	C	L	V	V	V	L	S	L	I	M	G	V	I	L	G
Secondary structure
SS confidence
Disorder									?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	I	A	G	Y	F	G	G	L	V	D	N	I	I	M	R	V	V	D	I	M	L	A	L	P	S	L	L	L	A	L	V	L	V	A	I	F	G	P	S	I	G	N	A	A	L	A	L	T	F	V	A	L	P	H	Y	V	R	L	T
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		R	A	A	V	L	V	E	V	N	R	D	Y	V	T	A	S	R	V	A	G	A	G	A	M	R	Q	M	F	I	N	I	F	P	N	C	L	A	P	L	I	V	Q	A	S	L	G	F	S	N	A	I	L	D	M	A	A	L	G	F	L
Secondary structure
SS confidence
Disorder									?	?														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	M	G	A	Q	P	P	T	P	E	W	G	T	M	L	S	D	V	L	Q	F	A	Q	S	A	W	W	V	V	T	F	P	G	L	A	I	L	L	T	V	L	A	F	N	L	M	G	D	G	L	R	D	A	L	D	P	K	L	K	Q
Secondary structure
SS confidence
Disorder																																																											?	?	?
Disorder confidence
Sequence
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 3fh6 chain F Region: 26 - 297 Aligned: 267 Modelled: 272 Confidence: 99.9% Identity: 14% 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 2onk chain C domain 1 Region: 25 - 290 Aligned: 236 Modelled: 242 Confidence: 99.9% Identity: 11% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2onk chain C Region: 25 - 290 Aligned: 236 Modelled: 242 Confidence: 99.9% Identity: 11% 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: 74 - 285 Aligned: 208 Modelled: 212 Confidence: 99.9% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3d31 chain D Region: 31 - 286 Aligned: 227 Modelled: 233 Confidence: 99.9% Identity: 16% PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans Phyre2 PDB 3d31 chain C domain 1 Region: 31 - 286 Aligned: 227 Modelled: 233 Confidence: 99.9% Identity: 16% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2r6g chain F Region: 67 - 286 Aligned: 216 Modelled: 220 Confidence: 99.9% 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 2r6g chain G domain 1 Region: 27 - 288 Aligned: 260 Modelled: 260 Confidence: 99.9% Identity: 12% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 3dhw chain A domain 1 Region: 92 - 288 Aligned: 190 Modelled: 197 Confidence: 99.8% Identity: 17% Fold: MetI-like Superfamily: MetI-like Family: MetI-like Phyre2 PDB 2jwa chain A Region: 97 - 132 Aligned: 36 Modelled: 36 Confidence: 30.3% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 1p7b chain B Region: 14 - 129 Aligned: 109 Modelled: 116 Confidence: 25.2% Identity: 10% PDB header:metal transport Chain: B: PDB Molecule:integral membrane channel and cytosolic domains; PDBTitle: crystal structure of an inward rectifier potassium channel Phyre2 PDB 1p7b chain A domain 2 Region: 8 - 128 Aligned: 114 Modelled: 121 Confidence: 15.9% Identity: 10% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 PDB 1wz4 chain A Region: 294 - 299 Aligned: 6 Modelled: 6 Confidence: 14.5% Identity: 50% PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope Phyre2 PDB 2b9s chain B Region: 286 - 298 Aligned: 13 Modelled: 13 Confidence: 13.8% Identity: 23% PDB header:isomerase/dna Chain: B: PDB Molecule:dna topoisomerase i-like protein; PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex Phyre2 PDB 1g2h chain A Region: 194 - 210 Aligned: 17 Modelled: 17 Confidence: 13.6% Identity: 6% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2lhu chain A Region: 180 - 209 Aligned: 30 Modelled: 30 Confidence: 13.4% Identity: 13% PDB header:structural protein Chain: A: PDB Molecule:mybpc3 protein; PDBTitle: structural insight into the unique cardiac myosin binding protein-c2 motif: a partially folded domain Phyre2 PDB 1ntc chain A Region: 194 - 210 Aligned: 17 Modelled: 17 Confidence: 13.1% Identity: 29% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1umq chain A Region: 180 - 210 Aligned: 31 Modelled: 31 Confidence: 12.4% Identity: 10% 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: 180 - 210 Aligned: 31 Modelled: 31 Confidence: 12.4% Identity: 10% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 2ftc chain P Region: 294 - 300 Aligned: 7 Modelled: 7 Confidence: 11.4% Identity: 57% PDB header:ribosome Chain: P: PDB Molecule:mitochondrial ribosomal protein l33 isoform a; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome Phyre2 1 c3fh6F_ 2 d2onkc1 3 c2onkC_ 4 d2r6gf2 5 c3d31D_ 6 d3d31c1 7 c2r6gF_ 8 d2r6gg1 9 d3dhwa1 10 c2jwaA_ 11 c1p7bB_ 12 d1p7ba2 13 c1wz4A_ 14 c2b9sB_ 15 d1g2ha_ 16 c2lhuA_ 17 d1ntca_ 18 c1umqA_ 19 d1umqa_ 20 c2ftcP_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34

Detailed template information

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

1 c3fh6F_ 99.9 14 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 2 d2onkc1 99.9 11 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 3 c2onkC_ 99.9 11 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 99.9 16 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 5 c3d31D_ 99.9 16 PDB header:transport protein Chain: D: PDB Molecule:sulfate/molybdate abc transporter, permease PDBTitle: modbc from methanosarcina acetivorans 6 d3d31c1 99.9 16 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 7 c2r6gF_ 99.9 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 8 d2r6gg1 99.9 12 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 9 d3dhwa1 99.8 17 Fold:MetI-like Superfamily:MetI-like Family:MetI-like 10 c2jwaA_ 30.3 14 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 11 c1p7bB_ 25.2 10 PDB header:metal transport Chain: B: PDB Molecule:integral membrane channel and cytosolic domains; PDBTitle: crystal structure of an inward rectifier potassium channel 12 d1p7ba2 15.9 10 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 13 c1wz4A_ 14.5 50 PDB header:gene regulation Chain: A: PDB Molecule:major surface antigen; PDBTitle: solution conformation of adr subtype hbv pre-s2 epitope 14 c2b9sB_ 13.8 23 PDB header:isomerase/dna Chain: B: PDB Molecule:dna topoisomerase i-like protein; PDBTitle: crystal structure of heterodimeric l. donovani2 topoisomerase i-vanadate-dna complex 15 d1g2ha_ 13.6 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 16 c2lhuA_ 13.4 13 PDB header:structural protein Chain: A: PDB Molecule:mybpc3 protein; PDBTitle: structural insight into the unique cardiac myosin binding protein-c2 motif: a partially folded domain 17 d1ntca_ 13.1 29 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 18 c1umqA_ 12.4 10 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 19 d1umqa_ 12.4 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 20 c2ftcP_ 11.4 57 PDB header:ribosome Chain: P: PDB Molecule:mitochondrial ribosomal protein l33 isoform a; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome 21 d2gyc11 not modelled 8.7 43 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein L33p 22 c2hx6A_ not modelled 7.9 21 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease; PDBTitle: solution structure analysis of the phage t42 endoribonuclease regb 23 d1fipa_ not modelled 7.3 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 24 c2voyB_ not modelled 7.3 8 PDB header:hydrolase Chain: B: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 25 d1etob_ not modelled 6.8 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 26 d1etxa_ not modelled 6.2 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 27 c2b9n6_ not modelled 6.1 43 PDB header:ribosome Chain: 6: PDB Molecule:50s ribosomal protein l33; PDBTitle: 50s ribosomal subunit from a crystal structure of release factor rf2,2 trnas and mrna bound to the ribosome. this file contains the 50s3 subunit from a crystal structure of release factor rf1, trnas and4 mrna bound to the ribosome and is described in remark 400. 28 d2zjr11 not modelled 6.1 43 Fold:Rubredoxin-like Superfamily:Zn-binding ribosomal proteins Family:Ribosomal protein L33p 29 d2ns0a1 not modelled 6.0 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RHA1 ro06458-like 30 c3e7lD_ not modelled 6.0 13 PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain 31 d2axtk1 not modelled 5.7 31 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein K, PsbK Family:PsbK-like 32 c1ql1A_ not modelled 5.6 12 PDB header:virus Chain: A: PDB Molecule:pf1 bacteriophage coat protein b; PDBTitle: inovirus (filamentous bacteriophage) strain pf1 major coat2 protein assembly 33 c3a0bK_ not modelled 5.2 28 PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of br-substituted photosystem ii complex 34 c3a0bk_ not modelled 5.2 28 PDB header:electron transport Chain: K: PDB Molecule:photosystem ii reaction center protein k; PDBTitle: crystal structure of br-substituted photosystem ii complex

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