Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	M	N	A	F	F	P	A	M	A	L	M	V	L	V	G	C	S	I	P	S	P	V	Q	K	A	Q	R	V	K	V	D	P	L	R	S	L	N	M	E	A	L	C	K	D	Q	A	A	K	R	Y	N	T	G	E	Q	K	I	D
Secondary structure
SS confidence
Disorder		?	?														?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?														?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.
Sequence		V	T	A	F	E	Q	F	Q	G	S	Y	E	M	R	G	Y	T	F	R	K	E	Q	F	V	C	S	F	D	A	D	G	H	F	L	H	L	S	M	R
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 1gr0 chain A domain 1 Region: 71 - 90 Aligned: 20 Modelled: 20 Confidence: 24.0% Identity: 35% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain Phyre2 PDB 1fme chain A Region: 65 - 81 Aligned: 15 Modelled: 15 Confidence: 22.3% Identity: 53% PDB header:de novo protein Chain: A: PDB Molecule:fsd-ey peptide; PDBTitle: solution structure of fsd-ey, a novel peptide assuming a2 beta-beta-alpha fold Phyre2 PDB 2o62 chain A domain 1 Region: 61 - 97 Aligned: 37 Modelled: 37 Confidence: 19.9% Identity: 11% Fold: Lipocalins Superfamily: Lipocalins Family: All1756-like Phyre2 PDB 2ixs chain B Region: 32 - 96 Aligned: 57 Modelled: 65 Confidence: 16.4% Identity: 19% PDB header:hydrolase Chain: B: PDB Molecule:sdai restriction endonuclease; PDBTitle: structure of sdai restriction endonuclease Phyre2 PDB 2e72 chain A Region: 3 - 11 Aligned: 9 Modelled: 9 Confidence: 15.2% Identity: 33% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:pogo transposable element with znf domain; PDBTitle: solution structure of the zinc finger domain of human2 kiaa0461 Phyre2 PDB 1tf3 chain A domain 1 Region: 82 - 87 Aligned: 6 Modelled: 6 Confidence: 14.2% Identity: 50% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1tf6 chain A domain 1 Region: 82 - 87 Aligned: 6 Modelled: 6 Confidence: 10.7% Identity: 50% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: Classic zinc finger, C2H2 Phyre2 PDB 1uf2 chain A Region: 28 - 83 Aligned: 52 Modelled: 56 Confidence: 10.1% Identity: 27% Fold: Reovirus inner layer core protein p3 Superfamily: Reovirus inner layer core protein p3 Family: Phytoreovirus core Phyre2 PDB 1uf2 chain A Region: 28 - 83 Aligned: 52 Modelled: 56 Confidence: 10.1% Identity: 27% PDB header:virus Chain: A: PDB Molecule:core protein p3; PDBTitle: the atomic structure of rice dwarf virus (rdv) Phyre2 PDB 2k6r chain A Region: 73 - 81 Aligned: 9 Modelled: 9 Confidence: 10.1% Identity: 56% PDB header:de novo protein Chain: A: PDB Molecule:full sequence design 1 synthetic superstable; PDBTitle: protein folding on a highly rugged landscape: experimental2 observation of glassy dynamics and structural frustration Phyre2 PDB 1q5q chain H Region: 26 - 94 Aligned: 69 Modelled: 69 Confidence: 10.0% Identity: 10% Fold: Ntn hydrolase-like Superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family: Proteasome subunits Phyre2 PDB 2h6j chain I Region: 26 - 94 Aligned: 69 Modelled: 69 Confidence: 9.3% Identity: 10% PDB header:hydrolase Chain: I: PDB Molecule:proteasome beta-type subunit 1; PDBTitle: crystal structure of the beta f145a rhodococcus proteasome (casp2 target) Phyre2 PDB 1fsv chain A Region: 68 - 81 Aligned: 14 Modelled: 14 Confidence: 9.0% Identity: 43% PDB header:beta beta alpha motif Chain: A: PDB Molecule:full sequence design 1 of beta beta alpha motif; PDBTitle: full sequence design 1 (fsd-1) of beta beta alpha motif,2 nmr, minimized average structure Phyre2 PDB 1fsd chain A Region: 68 - 81 Aligned: 14 Modelled: 14 Confidence: 9.0% Identity: 43% PDB header:novel sequence Chain: A: PDB Molecule:full sequence design 1 of beta beta alpha motif; PDBTitle: full sequence design 1 (fsd-1) of beta beta alpha motif,2 nmr, 41 structures Phyre2 PDB 1fng chain A domain 2 Region: 83 - 95 Aligned: 13 Modelled: 13 Confidence: 8.5% Identity: 31% Fold: MHC antigen-recognition domain Superfamily: MHC antigen-recognition domain Family: MHC antigen-recognition domain Phyre2 PDB 1jk8 chain A domain 2 Region: 82 - 95 Aligned: 14 Modelled: 14 Confidence: 8.1% Identity: 21% Fold: MHC antigen-recognition domain Superfamily: MHC antigen-recognition domain Family: MHC antigen-recognition domain Phyre2 PDB 1mk2 chain B Region: 18 - 30 Aligned: 13 Modelled: 13 Confidence: 8.0% Identity: 46% PDB header:transcription Chain: B: PDB Molecule:madh-interacting protein; PDBTitle: smad3 sbd complex Phyre2 PDB 1uvq chain A domain 2 Region: 83 - 95 Aligned: 13 Modelled: 13 Confidence: 7.7% Identity: 15% Fold: MHC antigen-recognition domain Superfamily: MHC antigen-recognition domain Family: MHC antigen-recognition domain Phyre2 PDB 1s9v chain A domain 2 Region: 82 - 95 Aligned: 14 Modelled: 14 Confidence: 7.6% Identity: 21% Fold: MHC antigen-recognition domain Superfamily: MHC antigen-recognition domain Family: MHC antigen-recognition domain Phyre2 PDB 3gqi chain B Region: 68 - 99 Aligned: 32 Modelled: 32 Confidence: 7.6% Identity: 22% PDB header:transferase/transferase inhibitor Chain: B: PDB Molecule:phospholipase c-gamma-1; PDBTitle: crystal structure of activated receptor tyrosine kinase in2 complex with substrates Phyre2 1 d1gr0a1 2 c1fmeA_ 3 d2o62a1 4 c2ixsB_ 5 c2e72A_ 6 d1tf3a1 7 d1tf6a1 8 d1uf2a_ 9 c1uf2A_ 10 c2k6rA_ 11 d1q5qh_ 12 c2h6jI_ 13 c1fsvA_ 14 c1fsdA_ 15 d1fnga2 16 d1jk8a2 17 c1mk2B_ 18 d1uvqa2 19 d1s9va2 20 c3gqiB_ 21 22 23 24 25 26 27 28 29 30

Detailed template information

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

1 d1gr0a1 24.0 35 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 2 c1fmeA_ 22.3 53 PDB header:de novo protein Chain: A: PDB Molecule:fsd-ey peptide; PDBTitle: solution structure of fsd-ey, a novel peptide assuming a2 beta-beta-alpha fold 3 d2o62a1 19.9 11 Fold:Lipocalins Superfamily:Lipocalins Family:All1756-like 4 c2ixsB_ 16.4 19 PDB header:hydrolase Chain: B: PDB Molecule:sdai restriction endonuclease; PDBTitle: structure of sdai restriction endonuclease 5 c2e72A_ 15.2 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:pogo transposable element with znf domain; PDBTitle: solution structure of the zinc finger domain of human2 kiaa0461 6 d1tf3a1 14.2 50 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 7 d1tf6a1 10.7 50 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 8 d1uf2a_ 10.1 27 Fold:Reovirus inner layer core protein p3 Superfamily:Reovirus inner layer core protein p3 Family:Phytoreovirus core 9 c1uf2A_ 10.1 27 PDB header:virus Chain: A: PDB Molecule:core protein p3; PDBTitle: the atomic structure of rice dwarf virus (rdv) 10 c2k6rA_ 10.1 56 PDB header:de novo protein Chain: A: PDB Molecule:full sequence design 1 synthetic superstable; PDBTitle: protein folding on a highly rugged landscape: experimental2 observation of glassy dynamics and structural frustration 11 d1q5qh_ 10.0 10 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:Proteasome subunits 12 c2h6jI_ 9.3 10 PDB header:hydrolase Chain: I: PDB Molecule:proteasome beta-type subunit 1; PDBTitle: crystal structure of the beta f145a rhodococcus proteasome (casp2 target) 13 c1fsvA_ 9.0 43 PDB header:beta beta alpha motif Chain: A: PDB Molecule:full sequence design 1 of beta beta alpha motif; PDBTitle: full sequence design 1 (fsd-1) of beta beta alpha motif,2 nmr, minimized average structure 14 c1fsdA_ 9.0 43 PDB header:novel sequence Chain: A: PDB Molecule:full sequence design 1 of beta beta alpha motif; PDBTitle: full sequence design 1 (fsd-1) of beta beta alpha motif,2 nmr, 41 structures 15 d1fnga2 8.5 31 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 16 d1jk8a2 8.1 21 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 17 c1mk2B_ 8.0 46 PDB header:transcription Chain: B: PDB Molecule:madh-interacting protein; PDBTitle: smad3 sbd complex 18 d1uvqa2 7.7 15 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 19 d1s9va2 7.6 21 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 20 c3gqiB_ 7.6 22 PDB header:transferase/transferase inhibitor Chain: B: PDB Molecule:phospholipase c-gamma-1; PDBTitle: crystal structure of activated receptor tyrosine kinase in2 complex with substrates 21 d1es0a2 not modelled 7.4 23 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 22 c1vd8A_ not modelled 7.3 55 PDB header:transcription Chain: A: PDB Molecule:fibroin-modulator-binding-protein-1; PDBTitle: solution structure of fmbp-1 tandem repeat 2 23 c1wnmA_ not modelled 7.2 55 PDB header:transcription Chain: A: PDB Molecule:fibroin-modulator binding-protein-1; PDBTitle: nmr structure of fmbp-1 tandem repeat 2 in 30%(v/v) tfe2 solution 24 d1xa6a2 not modelled 6.8 14 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 25 d2o0qa1 not modelled 6.6 73 Fold:ADP-ribosylation Superfamily:ADP-ribosylation Family:CC0527-like 26 c2pidB_ not modelled 6.3 30 PDB header:ligase Chain: B: PDB Molecule:tyrosyl-trna synthetase; PDBTitle: crystal structure of human mitochondrial tyrosyl-trna synthetase in2 complex with an adenylate analog 27 d2gtlm1 not modelled 6.2 54 Fold:Streptavidin-like Superfamily:Extracellular hemoglobin linker subunit, receptor domain Family:Extracellular hemoglobin linker subunit, receptor domain 28 d1muja2 not modelled 6.1 15 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 29 d2p24a2 not modelled 5.5 15 Fold:MHC antigen-recognition domain Superfamily:MHC antigen-recognition domain Family:MHC antigen-recognition domain 30 d2gtlo1 not modelled 5.4 33 Fold:Streptavidin-like Superfamily:Extracellular hemoglobin linker subunit, receptor domain Family:Extracellular hemoglobin linker subunit, receptor domain

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