Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	A	N	T	E	A	Q	G	S	G	R	G	L	E	A	M	K	W	V	V	V	V	A	L	L	L	V	A	I	V	G	N	Y	L	Y	R	D	I	M	L	P	L	R	A	L	A	V	V	I	L	I	A	A	A	G	G	V	A	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?																																															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	T	T	K	G	K	A	T	V	A	F	A	R	E	A	R	T	E	V	R	K	V	I	W	P	T	R	Q	E	T	L	H	T	T	L	I	V	A	A	V	T	A	V	M	S	L	I	L	W	G	L	D	G	I	L	V	R	L	V	S
Secondary structure
SS confidence
Disorder				?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		F	I	T	G	L	R	F
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 2akh chain Z Region: 17 - 127 Aligned: 111 Modelled: 111 Confidence: 100.0% Identity: 100% PDB header:protein transport Chain: Z: PDB Molecule:preprotein translocase sece subunit; PDBTitle: normal mode-based flexible fitted coordinates of a non-2 translocating secyeg protein-conducting channel into the3 cryo-em map of a secyeg-nascent chain-70s ribosome complex4 from e. coli Phyre2 PDB 3din chain D Region: 74 - 124 Aligned: 51 Modelled: 51 Confidence: 99.7% Identity: 35% PDB header:membrane protein, protein transport Chain: D: PDB Molecule:preprotein translocase subunit sece; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase Phyre2 PDB 2zjs chain E Region: 75 - 120 Aligned: 46 Modelled: 46 Confidence: 98.9% Identity: 30% PDB header:protein transport/immune system Chain: E: PDB Molecule:preprotein translocase sece subunit; PDBTitle: crystal structure of secye translocon from thermus thermophilus with a2 fab fragment Phyre2 PDB 3dl8 chain D Region: 92 - 126 Aligned: 35 Modelled: 35 Confidence: 97.2% Identity: 31% PDB header:protein transport Chain: D: PDB Molecule:sece; PDBTitle: structure of the complex of aquifex aeolicus secyeg and2 bacillus subtilis seca Phyre2 PDB 2wwb chain B Region: 68 - 124 Aligned: 57 Modelled: 57 Confidence: 84.5% Identity: 21% PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sec61 subunit gamma; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome Phyre2 PDB 1rhz chain B Region: 66 - 122 Aligned: 57 Modelled: 57 Confidence: 83.0% Identity: 16% Fold: Single transmembrane helix Superfamily: Preprotein translocase SecE subunit Family: Preprotein translocase SecE subunit Phyre2 PDB 2r6g chain F domain 1 Region: 15 - 72 Aligned: 56 Modelled: 58 Confidence: 81.3% Identity: 20% Fold: MalF N-terminal region-like Superfamily: MalF N-terminal region-like Family: MalF N-terminal region-like Phyre2 PDB 2ww9 chain B Region: 68 - 122 Aligned: 55 Modelled: 55 Confidence: 75.6% Identity: 20% PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sss1; PDBTitle: cryo-em structure of the active yeast ssh1 complex bound to the2 yeast 80s ribosome Phyre2 PDB 1rh5 chain B Region: 70 - 122 Aligned: 53 Modelled: 53 Confidence: 45.5% Identity: 17% Fold: Single transmembrane helix Superfamily: Preprotein translocase SecE subunit Family: Preprotein translocase SecE subunit Phyre2 PDB 3mp7 chain B Region: 70 - 115 Aligned: 46 Modelled: 46 Confidence: 38.9% Identity: 17% PDB header:protein transport Chain: B: PDB Molecule:preprotein translocase subunit sece; PDBTitle: lateral opening of a translocon upon entry of protein suggests the2 mechanism of insertion into membranes Phyre2 PDB 1s5l chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: architecture of the photosynthetic oxygen evolving center Phyre2 PDB 1s5l chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: architecture of the photosynthetic oxygen evolving center Phyre2 PDB 2axt chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus Phyre2 PDB 2axt chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus Phyre2 PDB 3a0h chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 3a0h chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of i-substituted photosystem ii complex Phyre2 PDB 2axt chain L domain 1 Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% Fold: Single transmembrane helix Superfamily: Photosystem II reaction center protein L, PsbL Family: PsbL-like Phyre2 PDB 3a0b chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 3a0b chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of br-substituted photosystem ii complex Phyre2 PDB 3arc chain L Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 34.4% Identity: 17% PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution Phyre2 1 c2akhZ_ 2 c3dinD_ 3 c2zjsE_ 4 c3dl8D_ 5 c2wwbB_ 6 d1rhzb_ 7 d2r6gf1 8 c2ww9B_ 9 d1rh5b_ 10 c3mp7B_ 11 c1s5ll_ 12 c1s5lL_ 13 c2axtl_ 14 c2axtL_ 15 c3a0hl_ 16 c3a0hL_ 17 d2axtl1 18 c3a0bL_ 19 c3a0bl_ 20 c3arcL_ 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 c2akhZ_ 100.0 100 PDB header:protein transport Chain: Z: PDB Molecule:preprotein translocase sece subunit; PDBTitle: normal mode-based flexible fitted coordinates of a non-2 translocating secyeg protein-conducting channel into the3 cryo-em map of a secyeg-nascent chain-70s ribosome complex4 from e. coli 2 c3dinD_ 99.7 35 PDB header:membrane protein, protein transport Chain: D: PDB Molecule:preprotein translocase subunit sece; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase 3 c2zjsE_ 98.9 30 PDB header:protein transport/immune system Chain: E: PDB Molecule:preprotein translocase sece subunit; PDBTitle: crystal structure of secye translocon from thermus thermophilus with a2 fab fragment 4 c3dl8D_ 97.2 31 PDB header:protein transport Chain: D: PDB Molecule:sece; PDBTitle: structure of the complex of aquifex aeolicus secyeg and2 bacillus subtilis seca 5 c2wwbB_ 84.5 21 PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sec61 subunit gamma; PDBTitle: cryo-em structure of the mammalian sec61 complex bound to the2 actively translating wheat germ 80s ribosome 6 d1rhzb_ 83.0 16 Fold:Single transmembrane helix Superfamily:Preprotein translocase SecE subunit Family:Preprotein translocase SecE subunit 7 d2r6gf1 81.3 20 Fold:MalF N-terminal region-like Superfamily:MalF N-terminal region-like Family:MalF N-terminal region-like 8 c2ww9B_ 75.6 20 PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sss1; PDBTitle: cryo-em structure of the active yeast ssh1 complex bound to the2 yeast 80s ribosome 9 d1rh5b_ 45.5 17 Fold:Single transmembrane helix Superfamily:Preprotein translocase SecE subunit Family:Preprotein translocase SecE subunit 10 c3mp7B_ 38.9 17 PDB header:protein transport Chain: B: PDB Molecule:preprotein translocase subunit sece; PDBTitle: lateral opening of a translocon upon entry of protein suggests the2 mechanism of insertion into membranes 11 c1s5ll_ 34.4 17 PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 12 c1s5lL_ 34.4 17 PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 13 c2axtl_ 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus 14 c2axtL_ 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus 15 c3a0hl_ 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of i-substituted photosystem ii complex 16 c3a0hL_ 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of i-substituted photosystem ii complex 17 d2axtl1 34.4 17 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein L, PsbL Family:PsbL-like 18 c3a0bL_ 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of br-substituted photosystem ii complex 19 c3a0bl_ 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of br-substituted photosystem ii complex 20 c3arcL_ 34.4 17 PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 21 c3bz1L_ not modelled 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 12 of 2). this file contains first monomer of psii dimer 22 c3prrL_ not modelled 34.4 17 PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 2 of 2). this file contains second monomer of psii3 dimer 23 c3kziL_ not modelled 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of monomeric form of cyanobacterial photosystem ii 24 c3prqL_ not modelled 34.4 17 PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of cyanobacterial photosystem ii in complex with2 terbutryn (part 1 of 2). this file contains first monomer of psii3 dimer 25 c3bz2L_ not modelled 34.4 17 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of cyanobacterial photosystem ii (part 22 of 2). this file contains second monomer of psii dimer 26 c3arcl_ not modelled 26.0 17 PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 27 c1yq3C_ not modelled 24.1 12 PDB header:oxidoreductase Chain: C: PDB Molecule:succinate dehydrogenase cytochrome b, large subunit; PDBTitle: avian respiratory complex ii with oxaloacetate and ubiquinone 28 c2ehbD_ not modelled 11.7 18 PDB header:signalling protein/transferase Chain: D: PDB Molecule:cbl-interacting serine/threonine-protein kinase 24; PDBTitle: the structure of the c-terminal domain of the protein kinase atsos22 bound to the calcium sensor atsos3 29 d1jy1a2 not modelled 11.1 15 Fold:Phospholipase D/nuclease Superfamily:Phospholipase D/nuclease Family:Tyrosyl-DNA phosphodiesterase TDP1 30 c3fwbB_ not modelled 9.9 9 PDB header:cell cycle, transcription Chain: B: PDB Molecule:nuclear mrna export protein sac3; PDBTitle: sac3:sus1:cdc31 complex 31 c2okqB_ not modelled 7.5 13 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein ybaa; PDBTitle: crystal structure of unknown conserved ybaa protein from2 shigella flexneri 32 c3sq3C_ not modelled 7.3 38 PDB header:hydrolase Chain: C: PDB Molecule:tyrosyl-dna phosphodiesterase 1; PDBTitle: crystal structure analysis of the yeast tyrosyl-dna phosphodiesterase2 h182a mutant 33 c2qvoA_ not modelled 6.7 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein af_1382; PDBTitle: crystal structure of af1382 from archaeoglobus fulgidus 34 d1q32a2 not modelled 6.5 42 Fold:Phospholipase D/nuclease Superfamily:Phospholipase D/nuclease Family:Tyrosyl-DNA phosphodiesterase TDP1 35 d2okqa1 not modelled 6.0 13 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:YbaA-like 36 c1usdA_ not modelled 5.8 36 PDB header:signaling protein Chain: A: PDB Molecule:vasodilator-stimulated phosphoprotein; PDBTitle: human vasp tetramerisation domain l352m 37 c2wmhA_ not modelled 5.8 29 PDB header:hydrolase Chain: A: PDB Molecule:fucolectin-related protein; PDBTitle: crystal structure of the catalytic module of a family 982 glycoside hydrolase from streptococcus pneumoniae tigr4 in3 complex with the h-disaccharide blood group antigen. 38 d3buxb2 not modelled 5.8 19 Fold:N-cbl like Superfamily:N-terminal domain of cbl (N-cbl) Family:N-terminal domain of cbl (N-cbl) 39 c1nopB_ not modelled 5.7 17 PDB header:hydrolase/dna Chain: B: PDB Molecule:tyrosyl-dna phosphodiesterase 1; PDBTitle: crystal structure of human tyrosyl-dna phosphodiesterase2 (tdp1) in complex with vanadate, dna and a human3 topoisomerase i-derived peptide

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