Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	I	F	I	P	I	L	I	F	V	A	L	V	I	V	G	A	G	V	K	I	V	P	Q	G	Y	Q	W	T	V	E	R	F	G	R	Y	T	K	T	L	Q	P	G	L	S	L	V	V	P	F	M	D	R	I	G	R	K	I	N
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	M	E	Q	V	L	D	I	P	S	Q	E	V	I	S	K	D	N	A	N	V	T	I	D	A	V	C	F	I	Q	V	I	D	A	P	R	A	A	Y	E	V	S	N	L	E	L	A	I	I	N	L	T	M	T	N	I	R	T	V	L
Secondary structure
SS confidence
Disorder									?	?	?	?				?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	S	M	E	L	D	E	M	L	S	Q	R	D	S	I	N	S	R	L	L	R	I	V	D	E	A	T	N	P	W	G	I	K	V	T	R	I	E	I	R	D	V	R	P	P	A	E	L	I	S	S	M	N	A	Q	M	K	A	E	R
Secondary structure
SS confidence
Disorder												?																													?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	K	R	A	Y	I	L	E	A	E	G	I	R	Q	A	E	I	L	K	A	E	G	E	K	Q	S	Q	I	L	K	A	E	G	E	R	Q	S	A	F	L	Q	A	E	A	R	E	R	S	A	E	A	E	A	R	A	T	K	M	V	S
Secondary structure
SS confidence
Disorder																					?											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		E	A	I	A	S	G	D	I	Q	A	V	N	Y	F	V	A	Q	K	Y	T	E	A	L	Q	Q	I	G	S	S	S	N	S	K	V	V	M	M	P	L	E	A	S	S	L	M	G	S	I	A	G	I	A	E	L	V	K	D	S	A	N
Secondary structure
SS confidence
Disorder						?	?	?																				?	?			?								?	?	?	?													?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.
Sequence		K	R	T	Q	P
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 3bk6 chain C Region: 51 - 208 Aligned: 157 Modelled: 158 Confidence: 99.9% Identity: 42% PDB header:membrane protein Chain: C: PDB Molecule:ph stomatin; PDBTitle: crystal structure of a core domain of stomatin from2 pyrococcus horikoshii Phyre2 PDB 2rpb chain A Region: 59 - 167 Aligned: 109 Modelled: 109 Confidence: 99.8% Identity: 50% PDB header:membrane protein Chain: A: PDB Molecule:hypothetical membrane protein; PDBTitle: the solution structure of membrane protein Phyre2 PDB 1win chain A Region: 59 - 178 Aligned: 120 Modelled: 120 Confidence: 99.8% Identity: 15% Fold: EF-Ts domain-like Superfamily: Band 7/SPFH domain Family: Band 7/SPFH domain Phyre2 PDB 2zv4 chain O Region: 21 - 265 Aligned: 245 Modelled: 245 Confidence: 98.4% Identity: 16% PDB header:structural protein Chain: O: PDB Molecule:major vault protein; PDBTitle: the structure of rat liver vault at 3.5 angstrom resolution Phyre2 PDB 3u5g chain B Region: 71 - 159 Aligned: 89 Modelled: 89 Confidence: 58.4% Identity: 19% PDB header:ribosome Chain: B: PDB Molecule:40s ribosomal protein s1-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution Phyre2 PDB 2xzm chain 4 Region: 71 - 159 Aligned: 89 Modelled: 89 Confidence: 43.2% Identity: 11% PDB header:ribosome Chain: 4: PDB Molecule:40s ribosomal protein s3a; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 Phyre2 PDB 3k5b chain B Region: 169 - 242 Aligned: 73 Modelled: 72 Confidence: 42.1% Identity: 21% PDB header:hydrolase Chain: B: PDB Molecule:v-type atp synthase, subunit (vapc-therm); PDBTitle: crystal structure of the peripheral stalk of thermus thermophilus h+-2 atpase/synthase Phyre2 PDB 1y4c chain A Region: 95 - 245 Aligned: 136 Modelled: 136 Confidence: 23.5% Identity: 16% PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp Phyre2 PDB 1nkt chain A domain 1 Region: 21 - 46 Aligned: 26 Modelled: 26 Confidence: 21.3% Identity: 31% Fold: Pre-protein crosslinking domain of SecA Superfamily: Pre-protein crosslinking domain of SecA Family: Pre-protein crosslinking domain of SecA Phyre2 PDB 1tf5 chain A domain 1 Region: 21 - 46 Aligned: 26 Modelled: 26 Confidence: 18.9% Identity: 31% Fold: Pre-protein crosslinking domain of SecA Superfamily: Pre-protein crosslinking domain of SecA Family: Pre-protein crosslinking domain of SecA Phyre2 PDB 2hsg chain A domain 1 Region: 120 - 152 Aligned: 33 Modelled: 33 Confidence: 12.8% Identity: 9% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: GalR/LacI-like bacterial regulator Phyre2 PDB 1lcd chain A Region: 120 - 152 Aligned: 33 Modelled: 33 Confidence: 11.8% Identity: 9% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: GalR/LacI-like bacterial regulator Phyre2 PDB 2bjc chain A domain 1 Region: 120 - 152 Aligned: 33 Modelled: 33 Confidence: 10.8% Identity: 9% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: GalR/LacI-like bacterial regulator Phyre2 PDB 2lcv chain A Region: 120 - 152 Aligned: 33 Modelled: 33 Confidence: 10.8% Identity: 15% PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional repressor cytr; PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation Phyre2 PDB 2k88 chain A Region: 172 - 217 Aligned: 46 Modelled: 46 Confidence: 10.5% Identity: 15% PDB header:hydrolase Chain: A: PDB Molecule:vacuolar proton pump subunit g; PDBTitle: association of subunit d (vma6p) and e (vma4p) with g2 (vma10p) and the nmr solution structure of subunit g (g1-3 59) of the saccharomyces cerevisiae v1vo atpase Phyre2 PDB 2l8n chain A Region: 120 - 152 Aligned: 33 Modelled: 33 Confidence: 9.6% Identity: 15% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional repressor cytr; PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna Phyre2 PDB 1qpz chain A domain 1 Region: 120 - 152 Aligned: 33 Modelled: 33 Confidence: 9.2% Identity: 6% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: GalR/LacI-like bacterial regulator Phyre2 PDB 1efa chain A domain 1 Region: 120 - 152 Aligned: 33 Modelled: 33 Confidence: 8.7% Identity: 9% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: GalR/LacI-like bacterial regulator Phyre2 PDB 1l2p chain A Region: 196 - 258 Aligned: 58 Modelled: 58 Confidence: 8.4% Identity: 31% Fold: Single transmembrane helix Superfamily: F1F0 ATP synthase subunit B, membrane domain Family: F1F0 ATP synthase subunit B, membrane domain Phyre2 PDB 2f1l chain A domain 1 Region: 34 - 69 Aligned: 36 Modelled: 36 Confidence: 8.1% Identity: 17% Fold: PRC-barrel domain Superfamily: PRC-barrel domain Family: RimM C-terminal domain-like Phyre2 1 c3bk6C_ 2 c2rpbA_ 3 d1wina_ 4 c2zv4O_ 5 c3u5gB_ 6 c2xzm4_ 7 c3k5bB_ 8 c1y4cA_ 9 d1nkta1 10 d1tf5a1 11 d2hsga1 12 d1lcda_ 13 d2bjca1 14 c2lcvA_ 15 c2k88A_ 16 c2l8nA_ 17 d1qpza1 18 d1efaa1 19 d1l2pa_ 20 d2f1la1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60

Detailed template information

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

1 c3bk6C_ 99.9 42 PDB header:membrane protein Chain: C: PDB Molecule:ph stomatin; PDBTitle: crystal structure of a core domain of stomatin from2 pyrococcus horikoshii 2 c2rpbA_ 99.8 50 PDB header:membrane protein Chain: A: PDB Molecule:hypothetical membrane protein; PDBTitle: the solution structure of membrane protein 3 d1wina_ 99.8 15 Fold:EF-Ts domain-like Superfamily:Band 7/SPFH domain Family:Band 7/SPFH domain 4 c2zv4O_ 98.4 16 PDB header:structural protein Chain: O: PDB Molecule:major vault protein; PDBTitle: the structure of rat liver vault at 3.5 angstrom resolution 5 c3u5gB_ 58.4 19 PDB header:ribosome Chain: B: PDB Molecule:40s ribosomal protein s1-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution 6 c2xzm4_ 43.2 11 PDB header:ribosome Chain: 4: PDB Molecule:40s ribosomal protein s3a; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 7 c3k5bB_ 42.1 21 PDB header:hydrolase Chain: B: PDB Molecule:v-type atp synthase, subunit (vapc-therm); PDBTitle: crystal structure of the peripheral stalk of thermus thermophilus h+-2 atpase/synthase 8 c1y4cA_ 23.5 16 PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp 9 d1nkta1 21.3 31 Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA 10 d1tf5a1 18.9 31 Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA 11 d2hsga1 12.8 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 12 d1lcda_ 11.8 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 13 d2bjca1 10.8 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 14 c2lcvA_ 10.8 15 PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional repressor cytr; PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation 15 c2k88A_ 10.5 15 PDB header:hydrolase Chain: A: PDB Molecule:vacuolar proton pump subunit g; PDBTitle: association of subunit d (vma6p) and e (vma4p) with g2 (vma10p) and the nmr solution structure of subunit g (g1-3 59) of the saccharomyces cerevisiae v1vo atpase 16 c2l8nA_ 9.6 15 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional repressor cytr; PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna 17 d1qpza1 9.2 6 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 18 d1efaa1 8.7 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 19 d1l2pa_ 8.4 31 Fold:Single transmembrane helix Superfamily:F1F0 ATP synthase subunit B, membrane domain Family:F1F0 ATP synthase subunit B, membrane domain 20 d2f1la1 8.1 17 Fold:PRC-barrel domain Superfamily:PRC-barrel domain Family:RimM C-terminal domain-like 21 c1wd6B_ not modelled 7.9 38 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ydhr; PDBTitle: crystal structure of jw1657 from escherichia coli 22 c2kk7A_ not modelled 7.9 23 PDB header:hydrolase Chain: A: PDB Molecule:v-type atp synthase subunit e; PDBTitle: nmr solution structure of the n terminal domain of subunit e2 (e1-52) of a1ao atp synthase from methanocaldococcus3 jannaschii 23 c3lj5H_ not modelled 7.6 15 PDB header:viral protein Chain: H: PDB Molecule:portal protein; PDBTitle: full length bacteriophage p22 portal protein 24 c3sbtB_ not modelled 7.1 8 PDB header:splicing Chain: B: PDB Molecule:a1 cistron-splicing factor aar2; PDBTitle: crystal structure of a aar2-prp8 complex 25 c2ptmA_ not modelled 6.9 17 PDB header:transport protein Chain: A: PDB Molecule:hyperpolarization-activated (ih) channel; PDBTitle: structure and rearrangements in the carboxy-terminal region of spih2 channels 26 c1o7fA_ not modelled 6.8 21 PDB header:regulation Chain: A: PDB Molecule:camp-dependent rap1 guanine-nucleotide exchange PDBTitle: crystal structure of the regulatory domain of epac2 27 c1wrgA_ not modelled 6.8 22 PDB header:membrane protein Chain: A: PDB Molecule:light-harvesting protein b-880, beta chain; PDBTitle: light-harvesting complex 1 beta subunit from wild-type2 rhodospirillum rubrum 28 c3sokB_ not modelled 6.6 22 PDB header:cell adhesion Chain: B: PDB Molecule:fimbrial protein; PDBTitle: dichelobacter nodosus pilin fima 29 c3h5tA_ not modelled 6.5 6 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from corynebacterium glutamicum 30 c2jp3A_ not modelled 6.4 28 PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles 31 c3arcl_ not modelled 6.3 12 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 32 c3arcL_ not modelled 6.2 12 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 33 c1s5lL_ not modelled 6.2 12 PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 34 c3kziL_ not modelled 6.2 12 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of monomeric form of cyanobacterial photosystem ii 35 c2axtl_ not modelled 6.2 12 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus 36 c3bz1L_ not modelled 6.2 12 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 37 c3a0hl_ not modelled 6.2 12 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of i-substituted photosystem ii complex 38 c3a0bl_ not modelled 6.2 12 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of br-substituted photosystem ii complex 39 c3a0hL_ not modelled 6.2 12 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of i-substituted photosystem ii complex 40 c3prqL_ not modelled 6.2 12 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 41 c3prrL_ not modelled 6.2 12 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 42 c1s5ll_ not modelled 6.2 12 PDB header:photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: architecture of the photosynthetic oxygen evolving center 43 d2axtl1 not modelled 6.2 12 Fold:Single transmembrane helix Superfamily:Photosystem II reaction center protein L, PsbL Family:PsbL-like 44 c3bz2L_ not modelled 6.2 12 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 45 c3a0bL_ not modelled 6.2 12 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of br-substituted photosystem ii complex 46 c2axtL_ not modelled 6.2 12 PDB header:electron transport Chain: L: PDB Molecule:photosystem ii reaction center l protein; PDBTitle: crystal structure of photosystem ii from thermosynechococcus elongatus 47 c2jo1A_ not modelled 6.1 28 PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles 48 d1uxda_ not modelled 6.0 3 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 49 d2pila_ not modelled 5.9 33 Fold:Pili subunits Superfamily:Pili subunits Family:Pilin 50 d2ix0a1 not modelled 5.9 28 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 51 d2h8pc1 not modelled 5.8 12 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 52 c3f6sI_ not modelled 5.6 13 PDB header:electron transport Chain: I: PDB Molecule:flavodoxin; PDBTitle: desulfovibrio desulfuricans (atcc 29577) oxidized flavodoxin2 alternate conformers 53 d1qd1a2 not modelled 5.6 9 Fold:Ferredoxin-like Superfamily:Formiminotransferase domain of formiminotransferase-cyclodeaminase. Family:Formiminotransferase domain of formiminotransferase-cyclodeaminase. 54 d2ha9a1 not modelled 5.4 14 Fold:PFL-like glycyl radical enzymes Superfamily:PFL-like glycyl radical enzymes Family:SP0239-like 55 d1oqwa_ not modelled 5.4 17 Fold:Pili subunits Superfamily:Pili subunits Family:Pilin 56 c2opkC_ not modelled 5.3 23 PDB header:isomerase Chain: C: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a putative mannose-6-phosphate isomerase2 (reut_a1446) from ralstonia eutropha jmp134 at 2.10 a resolution 57 d1i9za_ not modelled 5.3 13 Fold:DNase I-like Superfamily:DNase I-like Family:Inositol polyphosphate 5-phosphatase (IPP5) 58 c2f1lA_ not modelled 5.2 23 PDB header:unknown function Chain: A: PDB Molecule:16s rrna processing protein; PDBTitle: crystal structure of a putative 16s ribosomal rna processing protein2 rimm (pa3744) from pseudomonas aeruginosa at 2.46 a resolution 59 d1jeya1 not modelled 5.1 41 Fold:SPOC domain-like Superfamily:SPOC domain-like Family:Ku70 subunit middle domain 60 c1zvvA_ not modelled 5.1 9 PDB header:transcription/dna Chain: A: PDB Molecule:glucose-resistance amylase regulator; PDBTitle: crystal structure of a ccpa-crh-dna 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