Secondary structure and disorder prediction

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Sequence		M	N	D	Q	M	F	V	E	T	L	I	I	T	S	S	F	F	A	I	A	V	V	L	V	L	S	V	L	L	I	E	R	T	G
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 2k21 chain A Region: 2 - 23 Aligned: 22 Modelled: 22 Confidence: 11.7% Identity: 18% PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily e PDBTitle: nmr structure of human kcne1 in lmpg micelles at ph 6.0 and2 40 degree c Phyre2 PDB 1pd7 chain B Region: 1 - 9 Aligned: 9 Modelled: 9 Confidence: 11.1% Identity: 56% PDB header:transcription Chain: B: PDB Molecule:mad1; PDBTitle: extended sid of mad1 bound to the pah2 domain of msin3b Phyre2 PDB 3a0h chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 2axt chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center t protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus Phyre2 PDB 2axt chain T domain 1 Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% Fold: Single transmembrane helix Superfamily: Photosystem II reaction center protein T, PsbT Family: PsbT-like Phyre2 PDB 2axt chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center t protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus Phyre2 PDB 3kzi chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of monomeric form of cyanobacterial photosystem ii Phyre2 PDB 3a0h chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 3arc chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport, photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution Phyre2 PDB 3a0b chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 1s5l chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii psbt protein; PDBTitle: architecture of the photosynthetic oxygen evolving center Phyre2 PDB 1s5l chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii psbt protein; PDBTitle: architecture of the photosynthetic oxygen evolving center Phyre2 PDB 3prr chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 2 of 2). this file contains second monomer of psii3 dimer Phyre2 PDB 3prq chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 1 of 2). this file contains first monomer of psii3 dimer Phyre2 PDB 3bz1 chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer Phyre2 PDB 3bz2 chain T Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 8.2% Identity: 47% PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 22 of 2). this file contains second monomer of psii dimer Phyre2 PDB 1qgr chain B Region: 2 - 6 Aligned: 5 Modelled: 5 Confidence: 6.0% Identity: 60% PDB header:transport receptor Chain: B: PDB Molecule:protein (importin alpha-2 subunit); PDBTitle: structure of importin beta bound to the ibb domain of2 importin alpha (ii crystal form, grown at low ph) Phyre2 1 c2k21A_ 2 c1pd7B_ 3 c3a0ht_ 4 c2axtt_ 5 d2axtt1 6 c2axtT_ 7 c3kziT_ 8 c3a0hT_ 9 c3arcT_ 10 c3a0bt_ 11 c1s5lt_ 12 c1s5lT_ 13 c3prrT_ 14 c3prqT_ 15 c3bz1T_ 16 c3bz2T_ 17 c1qgrB_

Detailed template information

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

1 c2k21A_ 11.7 18 PDB header:membrane protein Chain: A: PDB Molecule:potassium voltage-gated channel subfamily e PDBTitle: nmr structure of human kcne1 in lmpg micelles at ph 6.0 and2 40 degree c 2 c1pd7B_ 11.1 56 PDB header:transcription Chain: B: PDB Molecule:mad1; PDBTitle: extended sid of mad1 bound to the pah2 domain of msin3b 3 c3a0ht_ 8.2 47 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of i-substituted photosystem ii complex 4 c2axtt_ 8.2 47 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center t protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus 5 d2axtt1 8.2 47 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein T, PsbT Family:PsbT-like 6 c2axtT_ 8.2 47 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center t protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus 7 c3kziT_ 8.2 47 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of monomeric form of cyanobacterial photosystem ii 8 c3a0hT_ 8.2 47 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of i-substituted photosystem ii complex 9 c3arcT_ 8.2 47 PDB header:electron transport, photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 10 c3a0bt_ 8.2 47 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of br-substituted photosystem ii complex 11 c1s5lt_ 8.2 47 PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii psbt protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 12 c1s5lT_ 8.2 47 PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii psbt protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 13 c3prrT_ 8.2 47 PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 2 of 2). this file contains second monomer of psii3 dimer 14 c3prqT_ 8.2 47 PDB header:photosynthesis Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 1 of 2). this file contains first monomer of psii3 dimer 15 c3bz1T_ 8.2 47 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer 16 c3bz2T_ 8.2 47 PDB header:electron transport Chain: T: PDB Molecule:photosystem ii reaction center protein t; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 22 of 2). this file contains second monomer of psii dimer 17 c1qgrB_ 6.0 60 PDB header:transport receptor Chain: B: PDB Molecule:protein (importin alpha-2 subunit); PDBTitle: structure of importin beta bound to the ibb domain of2 importin alpha (ii crystal form, grown at low ph)

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