Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	A	F	W	R	N	A	A	L	L	A	V	S	L	L	P	F	S	S	A	N	A	L	A	L	Q	A	K	Q	Y	G	D	F	D	R	Y	V	L	A	L	S	W	Q	T	G	F	C	Q	S	Q	H	D	R	N	R	N	E	R	D
Secondary structure
SS confidence
Disorder		?	?	?	?													?	?	?	?	?	?	?	?	?	?	?	?		?																							?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	C	R	L	Q	T	E	T	T	N	K	A	D	F	L	T	V	H	G	L	W	P	G	L	P	K	S	V	A	A	R	G	V	D	E	R	R	W	M	R	F	G	C	A	T	R	P	I	P	N	L	P	E	A	R	A	S	R	M	C
Secondary structure
SS confidence
Disorder								?	?	?	?	?	?																																			?	?		?			?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	S	P	E	T	G	L	S	L	E	T	A	A	K	L	S	E	V	M	P	G	A	G	G	R	S	C	L	E	R	Y	E	Y	A	K	H	G	A	C	F	G	F	D	P	D	A	Y	F	G	T	M	V	R	L	N	Q	E	I	K	E
Secondary structure
SS confidence
Disorder		?		?	?	?	?	?	?																?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	E	A	G	K	F	L	A	D	N	Y	G	K	T	V	S	R	R	D	F	D	A	A	F	A	K	S	W	G	K	E	N	V	K	A	V	K	L	T	C	Q	G	N	P	A	Y	L	T	E	I	Q	I	S	I	K	A	D	A	I	N
Secondary structure
SS confidence
Disorder								?		?	?	?	?	?																			?	?																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.
Sequence		A	P	L	S	A	N	S	F	L	P	Q	P	H	P	G	N	C	G	K	T	F	V	I	D	K	A	G	Y
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 2pqx chain A Region: 24 - 268 Aligned: 245 Modelled: 245 Confidence: 100.0% Identity: 100% PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease i; PDBTitle: e. coli rnase 1 (in vivo folded) Phyre2 PDB 1sgl chain A Region: 33 - 266 Aligned: 190 Modelled: 203 Confidence: 100.0% Identity: 20% Fold: Ribonuclease Rh-like Superfamily: Ribonuclease Rh-like Family: Ribonuclease Rh-like Phyre2 PDB 1iyb chain A Region: 29 - 265 Aligned: 198 Modelled: 228 Confidence: 100.0% Identity: 23% Fold: Ribonuclease Rh-like Superfamily: Ribonuclease Rh-like Family: Ribonuclease Rh-like Phyre2 PDB 1dix chain A Region: 28 - 265 Aligned: 196 Modelled: 205 Confidence: 100.0% Identity: 19% Fold: Ribonuclease Rh-like Superfamily: Ribonuclease Rh-like Family: Ribonuclease Rh-like Phyre2 PDB 1vd3 chain A Region: 31 - 266 Aligned: 194 Modelled: 207 Confidence: 100.0% Identity: 19% PDB header:hydrolase Chain: A: PDB Molecule:rnase ngr3; PDBTitle: ribonuclease nt in complex with 2'-ump Phyre2 PDB 1jy5 chain A Region: 31 - 264 Aligned: 185 Modelled: 199 Confidence: 100.0% Identity: 21% Fold: Ribonuclease Rh-like Superfamily: Ribonuclease Rh-like Family: Ribonuclease Rh-like Phyre2 PDB 1ioo chain A Region: 33 - 263 Aligned: 180 Modelled: 187 Confidence: 100.0% Identity: 24% Fold: Ribonuclease Rh-like Superfamily: Ribonuclease Rh-like Family: Ribonuclease Rh-like Phyre2 PDB 1ucd chain A Region: 34 - 263 Aligned: 181 Modelled: 202 Confidence: 100.0% Identity: 24% Fold: Ribonuclease Rh-like Superfamily: Ribonuclease Rh-like Family: Ribonuclease Rh-like Phyre2 PDB 1iqq chain A Region: 34 - 263 Aligned: 187 Modelled: 192 Confidence: 100.0% Identity: 20% Fold: Ribonuclease Rh-like Superfamily: Ribonuclease Rh-like Family: Ribonuclease Rh-like Phyre2 PDB 3d3z chain A Region: 31 - 267 Aligned: 192 Modelled: 200 Confidence: 100.0% Identity: 19% PDB header:hydrolase Chain: A: PDB Molecule:actibind; PDBTitle: crystal structure of actibind a t2 rnase Phyre2 PDB 1bol chain A Region: 37 - 265 Aligned: 181 Modelled: 199 Confidence: 100.0% Identity: 19% Fold: Ribonuclease Rh-like Superfamily: Ribonuclease Rh-like Family: Ribonuclease Rh-like Phyre2 PDB 2ciw chain A domain 1 Region: 183 - 209 Aligned: 27 Modelled: 27 Confidence: 26.8% Identity: 26% Fold: EF Hand-like Superfamily: Cloroperoxidase Family: Cloroperoxidase Phyre2 PDB 1dfx chain A domain 1 Region: 76 - 81 Aligned: 6 Modelled: 6 Confidence: 26.8% Identity: 50% Fold: Immunoglobulin-like beta-sandwich Superfamily: Superoxide reductase-like Family: Superoxide reductase-like Phyre2 PDB 2amu chain A Region: 77 - 81 Aligned: 5 Modelled: 5 Confidence: 25.3% Identity: 80% PDB header:oxidoreductase Chain: A: PDB Molecule:putative superoxide reductase; PDBTitle: crystal structure of a putative superoxide reductase (tm0658) from2 thermotoga maritima at 2.00 a resolution Phyre2 PDB 1dqi chain A Region: 77 - 81 Aligned: 5 Modelled: 5 Confidence: 24.9% Identity: 80% Fold: Immunoglobulin-like beta-sandwich Superfamily: Superoxide reductase-like Family: Superoxide reductase-like Phyre2 PDB 1y07 chain A Region: 76 - 81 Aligned: 6 Modelled: 6 Confidence: 23.7% Identity: 50% PDB header:oxidoreductase Chain: A: PDB Molecule:desulfoferrodoxin (rbo); PDBTitle: crystal structure of the superoxide reductase from2 treponema pallidum Phyre2 PDB 1vzi chain A domain 1 Region: 77 - 81 Aligned: 5 Modelled: 5 Confidence: 23.7% Identity: 60% Fold: Immunoglobulin-like beta-sandwich Superfamily: Superoxide reductase-like Family: Superoxide reductase-like Phyre2 PDB 1vzh chain B Region: 77 - 81 Aligned: 5 Modelled: 5 Confidence: 20.2% Identity: 60% PDB header:oxidoreductase Chain: B: PDB Molecule:desulfoferrodoxin; PDBTitle: structure of superoxide reductase bound to ferrocyanide and2 active site expansion upon x-ray induced photoreduction Phyre2 PDB 3oqg chain A Region: 152 - 175 Aligned: 21 Modelled: 24 Confidence: 14.4% Identity: 38% PDB header:hydrolase/dna Chain: A: PDB Molecule:hpy188i; PDBTitle: restriction endonuclease hpy188i in complex with substrate dna Phyre2 PDB 2cj0 chain A Region: 183 - 209 Aligned: 27 Modelled: 27 Confidence: 14.1% Identity: 26% PDB header:oxidoreductase Chain: A: PDB Molecule:chloroperoxidase; PDBTitle: chloroperoxidase complexed with nitrate Phyre2 1 c2pqxA_ 2 d1sgla_ 3 d1iyba_ 4 d1dixa_ 5 c1vd3A_ 6 d1jy5a_ 7 d1iooa_ 8 d1ucda_ 9 d1iqqa_ 10 c3d3zA_ 11 d1bola_ 12 d2ciwa1 13 d1dfxa1 14 c2amuA_ 15 d1dqia_ 16 c1y07A_ 17 d1vzia1 18 c1vzhB_ 19 c3oqgA_ 20 c2cj0A_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42

Detailed template information

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

1 c2pqxA_ 100.0 100 PDB header:hydrolase Chain: A: PDB Molecule:ribonuclease i; PDBTitle: e. coli rnase 1 (in vivo folded) 2 d1sgla_ 100.0 20 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 3 d1iyba_ 100.0 23 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 4 d1dixa_ 100.0 19 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 5 c1vd3A_ 100.0 19 PDB header:hydrolase Chain: A: PDB Molecule:rnase ngr3; PDBTitle: ribonuclease nt in complex with 2'-ump 6 d1jy5a_ 100.0 21 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 7 d1iooa_ 100.0 24 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 8 d1ucda_ 100.0 24 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 9 d1iqqa_ 100.0 20 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 10 c3d3zA_ 100.0 19 PDB header:hydrolase Chain: A: PDB Molecule:actibind; PDBTitle: crystal structure of actibind a t2 rnase 11 d1bola_ 100.0 19 Fold:Ribonuclease Rh-like Superfamily:Ribonuclease Rh-like Family:Ribonuclease Rh-like 12 d2ciwa1 26.8 26 Fold:EF Hand-like Superfamily:Cloroperoxidase Family:Cloroperoxidase 13 d1dfxa1 26.8 50 Fold:Immunoglobulin-like beta-sandwich Superfamily:Superoxide reductase-like Family:Superoxide reductase-like 14 c2amuA_ 25.3 80 PDB header:oxidoreductase Chain: A: PDB Molecule:putative superoxide reductase; PDBTitle: crystal structure of a putative superoxide reductase (tm0658) from2 thermotoga maritima at 2.00 a resolution 15 d1dqia_ 24.9 80 Fold:Immunoglobulin-like beta-sandwich Superfamily:Superoxide reductase-like Family:Superoxide reductase-like 16 c1y07A_ 23.7 50 PDB header:oxidoreductase Chain: A: PDB Molecule:desulfoferrodoxin (rbo); PDBTitle: crystal structure of the superoxide reductase from2 treponema pallidum 17 d1vzia1 23.7 60 Fold:Immunoglobulin-like beta-sandwich Superfamily:Superoxide reductase-like Family:Superoxide reductase-like 18 c1vzhB_ 20.2 60 PDB header:oxidoreductase Chain: B: PDB Molecule:desulfoferrodoxin; PDBTitle: structure of superoxide reductase bound to ferrocyanide and2 active site expansion upon x-ray induced photoreduction 19 c3oqgA_ 14.4 38 PDB header:hydrolase/dna Chain: A: PDB Molecule:hpy188i; PDBTitle: restriction endonuclease hpy188i in complex with substrate dna 20 c2cj0A_ 14.1 26 PDB header:oxidoreductase Chain: A: PDB Molecule:chloroperoxidase; PDBTitle: chloroperoxidase complexed with nitrate 21 c2zkrs_ not modelled 12.8 14 PDB header:ribosomal protein/rna Chain: S: PDB Molecule:rna expansion segment es39 part ii; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 22 c1s1iT_ not modelled 10.3 11 PDB header:ribosome Chain: T: PDB Molecule:60s ribosomal protein l25; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h. 23 c2cfaB_ not modelled 9.3 7 PDB header:transferase Chain: B: PDB Molecule:thymidylate synthase; PDBTitle: structure of viral flavin-dependant thymidylate synthase2 thyx 24 c3bboV_ not modelled 9.2 11 PDB header:ribosome Chain: V: PDB Molecule:ribosomal protein l23; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome 25 d2dl2a1 not modelled 8.8 10 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 26 c4a10A_ not modelled 8.5 14 PDB header:oxidoreductase Chain: A: PDB Molecule:octenoyl-coa reductase/carboxylase; PDBTitle: apo-structure of 2-octenoyl-coa carboxylase reductase cinf from2 streptomyces sp. 27 d1m4ka1 not modelled 8.3 10 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 28 c2j42A_ not modelled 8.2 23 PDB header:toxin Chain: A: PDB Molecule:c2 toxin component-ii; PDBTitle: low quality crystal structure of the transport component c2-2 ii of the c2-toxin from clostridium botulinum 29 c4a17R_ not modelled 7.8 15 PDB header:ribosome Chain: R: PDB Molecule:rpl23a; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna,3 5.8s rrna and proteins of molecule 2. 30 c3q13A_ not modelled 7.7 22 PDB header:cell adhesion Chain: A: PDB Molecule:spondin-1; PDBTitle: the structure of the ca2+-binding, glycosylated f-spondin domain of f-2 spondin, a c2-domain variant from extracellular matrix 31 d1nkra1 not modelled 7.2 10 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 32 d1h7na_ not modelled 6.7 20 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:5-aminolaevulinate dehydratase, ALAD (porphobilinogen synthase) 33 c3f9xA_ not modelled 6.7 25 PDB header:transferase Chain: A: PDB Molecule:histone-lysine n-methyltransferase setd8; PDBTitle: structural insights into lysine multiple methylation by set2 domain methyltransferases, set8-y334f / h4-lys20me2 /3 adohcy 34 d1vqos1 not modelled 6.2 11 Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:L23p 35 c1xa0B_ not modelled 5.8 7 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative nadph dependent oxidoreductases; PDBTitle: crystal structure of mcsg target apc35536 from bacillus2 stearothermophilus 36 d1f66c_ not modelled 5.6 16 Fold:Histone-fold Superfamily:Histone-fold Family:Nucleosome core histones 37 c1f66C_ not modelled 5.6 16 PDB header:structural protein/dna Chain: C: PDB Molecule:histone h2a.z; PDBTitle: 2.6 a crystal structure of a nucleosome core particle2 containing the variant histone h2a.z 38 d2qamt1 not modelled 5.5 9 Fold:Ribosomal proteins S24e, L23 and L15e Superfamily:Ribosomal proteins S24e, L23 and L15e Family:L23p 39 d1tp6a_ not modelled 5.5 9 Fold:Cystatin-like Superfamily:NTF2-like Family:PA1314-like 40 d1xtpa_ not modelled 5.2 9 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:AD-003 protein-like 41 d1m4ua_ not modelled 5.2 56 Fold:Cystine-knot cytokines Superfamily:Cystine-knot cytokines Family:Noggin 42 c2ww9K_ not modelled 5.1 13 PDB header:ribosome Chain: K: PDB Molecule:60s ribosomal protein l25; PDBTitle: cryo-em structure of the active yeast ssh1 complex bound to the2 yeast 80s ribosome

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