Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	S	T	N	L	I	Q	S	N	Y	G	D	L	N	I	K	S	L	A	F	D	S	F	K	E	R	L	Q	S	T	M	T	A	L	T	F	F	I	S	T	G	Q	C	D	C	D	E	I	A	E	S	N	F	N	Y	M	I	A	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	S	N	I	N	Y	D	A	S	K	P	G	A	P	A	L	S	F	D	T	Y	L	Q	D	N	V	K	Y	R	V	I	I	N	N	L	Y	G	S	E	I	R	I	R	G	I	N	K	D	F	I	G	M	D	V	T	S	V	F	R	P
Secondary structure
SS confidence
Disorder													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		E	K	M	T	N	L	I	S	I	K	N	R	L	V	I	H	Y	L	R	T	I	Y	Y	E	Q	N	Y	I	H	P	V	G	S	I	F	A	A	I	Q	K	N	E	S	L	L	K	F	P	S	I	I	S	M	L	N	I	N	L	L	F
Secondary structure
SS confidence
Disorder																																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		N	P	L	N	L	P	G	M	G	S	G	V	L	E	D	I	M	S	I	P	D	S	S	L	R	K	R	L	G	Y	E	V	L	S	F	S	L	Q	A	H	S	L	S	Q	E	C	I	D	K	L	D	I	F	F	A	D	D	L	F	K
Secondary structure
SS confidence
Disorder						?																																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.
Sequence		Y	E	S	V	C	I	A	A	M	E	H	L	K	S	K	A	T	A	P	I	Q	N	G	P	L	P	A
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 1oz2 chain A domain 2 Region: 90 - 152 Aligned: 37 Modelled: 42 Confidence: 26.3% Identity: 30% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 2wzo chain A Region: 131 - 152 Aligned: 22 Modelled: 22 Confidence: 23.5% Identity: 36% PDB header:cell cycle Chain: A: PDB Molecule:transforming growth factor beta regulator 1; PDBTitle: the structure of the fyr domain Phyre2 PDB 1pku chain A domain 1 Region: 203 - 243 Aligned: 41 Modelled: 41 Confidence: 23.4% Identity: 15% Fold: Ferredoxin-like Superfamily: Nucleoside diphosphate kinase, NDK Family: Nucleoside diphosphate kinase, NDK Phyre2 PDB 2vyt chain A Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 16.5% Identity: 33% PDB header:transcription Chain: A: PDB Molecule:sex comb on midleg-like protein 2; PDBTitle: the mbt repeats of human scml2 bind to peptides containing2 mono methylated lysine. Phyre2 PDB 2r58 chain A Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 13.9% Identity: 33% PDB header:transcription Chain: A: PDB Molecule:polycomb protein scm; PDBTitle: crystal structure of the two mbt repeats from sex-comb on midleg (scm)2 in complex with di-methyl lysine Phyre2 PDB 1j6r chain A Region: 197 - 230 Aligned: 34 Modelled: 34 Confidence: 13.1% Identity: 21% Fold: Methionine synthase activation domain-like Superfamily: Methionine synthase activation domain-like Family: Hypothetical protein TM0269 Phyre2 PDB 1oi1 chain A domain 2 Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 12.9% Identity: 33% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 1oi1 chain A domain 1 Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 12.8% Identity: 33% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 2fkk chain A Region: 148 - 155 Aligned: 8 Modelled: 8 Confidence: 12.6% Identity: 50% PDB header:viral protein Chain: A: PDB Molecule:baseplate structural protein gp10; PDBTitle: crystal structure of the c-terminal domain of the bacteriophage t42 gene product 10 Phyre2 PDB 2eqm chain A Region: 105 - 152 Aligned: 48 Modelled: 48 Confidence: 12.1% Identity: 19% PDB header:transcription Chain: A: PDB Molecule:phd finger protein 20-like 1; PDBTitle: solution structure of the tudor domain of phd finger2 protein 20-like 1 [homo sapiens] Phyre2 PDB 1wjr chain A Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 12.0% Identity: 33% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 1oz2 chain A domain 1 Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 12.0% Identity: 33% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 1wjs chain A Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 10.6% Identity: 42% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 2fl8 chain N Region: 148 - 155 Aligned: 8 Modelled: 8 Confidence: 9.7% Identity: 50% PDB header:virus/viral protein Chain: N: PDB Molecule:baseplate structural protein gp10; PDBTitle: fitting of the gp10 trimer structure into the cryoem map of the2 bacteriophage t4 baseplate in the hexagonal conformation. Phyre2 PDB 3bbb chain A domain 1 Region: 200 - 242 Aligned: 42 Modelled: 43 Confidence: 9.4% Identity: 14% Fold: Ferredoxin-like Superfamily: Nucleoside diphosphate kinase, NDK Family: Nucleoside diphosphate kinase, NDK Phyre2 PDB 1wjq chain A Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 9.3% Identity: 50% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 3mpd chain A Region: 203 - 242 Aligned: 40 Modelled: 40 Confidence: 9.2% Identity: 10% PDB header:transferase Chain: A: PDB Molecule:nucleoside diphosphate kinase; PDBTitle: crystal structure of nucleoside diphosphate kinase from2 encephalitozoon cuniculi, cubic form, apo Phyre2 PDB 1u8w chain A Region: 203 - 243 Aligned: 41 Modelled: 41 Confidence: 8.9% Identity: 10% Fold: Ferredoxin-like Superfamily: Nucleoside diphosphate kinase, NDK Family: Nucleoside diphosphate kinase, NDK Phyre2 PDB 1oz2 chain A domain 3 Region: 73 - 152 Aligned: 54 Modelled: 59 Confidence: 8.5% Identity: 20% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: MBT repeat Phyre2 PDB 3feo chain B Region: 141 - 152 Aligned: 12 Modelled: 12 Confidence: 8.3% Identity: 25% PDB header:metal binding protein Chain: B: PDB Molecule:mbt domain-containing protein 1; PDBTitle: the crystal structure of mbtd1 Phyre2 1 d1oz2a2 2 c2wzoA_ 3 d1pkua1 4 c2vytA_ 5 c2r58A_ 6 d1j6ra_ 7 d1oi1a2 8 d1oi1a1 9 c2fkkA_ 10 c2eqmA_ 11 d1wjra_ 12 d1oz2a1 13 d1wjsa_ 14 c2fl8N_ 15 d3bbba1 16 d1wjqa_ 17 c3mpdA_ 18 d1u8wa_ 19 d1oz2a3 20 c3feoB_ 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

Detailed template information

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

1 d1oz2a2 26.3 30 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 2 c2wzoA_ 23.5 36 PDB header:cell cycle Chain: A: PDB Molecule:transforming growth factor beta regulator 1; PDBTitle: the structure of the fyr domain 3 d1pkua1 23.4 15 Fold:Ferredoxin-like Superfamily:Nucleoside diphosphate kinase, NDK Family:Nucleoside diphosphate kinase, NDK 4 c2vytA_ 16.5 33 PDB header:transcription Chain: A: PDB Molecule:sex comb on midleg-like protein 2; PDBTitle: the mbt repeats of human scml2 bind to peptides containing2 mono methylated lysine. 5 c2r58A_ 13.9 33 PDB header:transcription Chain: A: PDB Molecule:polycomb protein scm; PDBTitle: crystal structure of the two mbt repeats from sex-comb on midleg (scm)2 in complex with di-methyl lysine 6 d1j6ra_ 13.1 21 Fold:Methionine synthase activation domain-like Superfamily:Methionine synthase activation domain-like Family:Hypothetical protein TM0269 7 d1oi1a2 12.9 33 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 8 d1oi1a1 12.8 33 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 9 c2fkkA_ 12.6 50 PDB header:viral protein Chain: A: PDB Molecule:baseplate structural protein gp10; PDBTitle: crystal structure of the c-terminal domain of the bacteriophage t42 gene product 10 10 c2eqmA_ 12.1 19 PDB header:transcription Chain: A: PDB Molecule:phd finger protein 20-like 1; PDBTitle: solution structure of the tudor domain of phd finger2 protein 20-like 1 [homo sapiens] 11 d1wjra_ 12.0 33 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 12 d1oz2a1 12.0 33 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 13 d1wjsa_ 10.6 42 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 14 c2fl8N_ 9.7 50 PDB header:virus/viral protein Chain: N: PDB Molecule:baseplate structural protein gp10; PDBTitle: fitting of the gp10 trimer structure into the cryoem map of the2 bacteriophage t4 baseplate in the hexagonal conformation. 15 d3bbba1 9.4 14 Fold:Ferredoxin-like Superfamily:Nucleoside diphosphate kinase, NDK Family:Nucleoside diphosphate kinase, NDK 16 d1wjqa_ 9.3 50 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 17 c3mpdA_ 9.2 10 PDB header:transferase Chain: A: PDB Molecule:nucleoside diphosphate kinase; PDBTitle: crystal structure of nucleoside diphosphate kinase from2 encephalitozoon cuniculi, cubic form, apo 18 d1u8wa_ 8.9 10 Fold:Ferredoxin-like Superfamily:Nucleoside diphosphate kinase, NDK Family:Nucleoside diphosphate kinase, NDK 19 d1oz2a3 8.5 20 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:MBT repeat 20 c3feoB_ 8.3 25 PDB header:metal binding protein Chain: B: PDB Molecule:mbt domain-containing protein 1; PDBTitle: the crystal structure of mbtd1 21 c3orqA_ not modelled 7.8 15 PDB header:ligase,biosynthetic protein Chain: A: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide synthetase; PDBTitle: crystal structure of n5-carboxyaminoimidazole synthetase from2 staphylococcus aureus complexed with adp 22 c3ceyA_ not modelled 7.7 42 PDB header:transcription regulator Chain: A: PDB Molecule:lethal(3)malignant brain tumor-like 2 protein; PDBTitle: crystal structure of l3mbtl2 23 c2ym9C_ not modelled 7.3 29 PDB header:cell invasion Chain: C: PDB Molecule:cell invasion protein sipd; PDBTitle: sipd from salmonella typhimurium 24 d1m9fd_ not modelled 7.3 35 Fold:Retrovirus capsid protein, N-terminal core domain Superfamily:Retrovirus capsid protein, N-terminal core domain Family:Retrovirus capsid protein, N-terminal core domain 25 d1q8ha_ not modelled 6.9 71 Fold:GLA-domain Superfamily:GLA-domain Family:GLA-domain 26 c1q8hA_ not modelled 6.9 71 PDB header:metal binding protein Chain: A: PDB Molecule:osteocalcin; PDBTitle: crystal structure of porcine osteocalcin 27 c3kztB_ not modelled 6.7 29 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of protein of unknown function (np_812423.1) from2 bacteroides thetaiotaomicron vpi-5482 at 2.10 a resolution 28 c3ngtJ_ not modelled 6.5 11 PDB header:transferase Chain: J: PDB Molecule:nucleoside diphosphate kinase; PDBTitle: structure of leishmania ndkb complexed with amp. 29 c1oz3C_ not modelled 6.5 60 PDB header:transcription Chain: C: PDB Molecule:lethal(3)malignant brain tumor-like protein; PDBTitle: crystal structure of 3-mbt repeats of lethal (3) malignant brain tumor2 (native-i) at 1.85 angstrom 30 d2jaaa1 not modelled 6.4 18 Fold:IpaD-like Superfamily:IpaD-like Family:IpaD-like 31 c3ut1A_ not modelled 6.4 50 PDB header:transcription Chain: A: PDB Molecule:lethal(3)malignant brain tumor-like protein 3; PDBTitle: crystal structure of the 3-mbt repeat domain of l3mbtl3 32 d1q3ma_ not modelled 6.3 71 Fold:GLA-domain Superfamily:GLA-domain Family:GLA-domain 33 d2o8ra3 not modelled 6.2 25 Fold:Phospholipase D/nuclease Superfamily:Phospholipase D/nuclease Family:Polyphosphate kinase C-terminal domain 34 c3bp1A_ not modelled 6.2 25 PDB header:oxidoreductase Chain: A: PDB Molecule:nadph-dependent 7-cyano-7-deazaguanine reductase; PDBTitle: crystal structure of putative 7-cyano-7-deazaguanine2 reductase quef from vibrio cholerae o1 biovar eltor 35 d2py5a1 not modelled 6.2 19 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:DnaQ-like 3'-5' exonuclease 36 d2pxrc1 not modelled 6.2 35 Fold:Retrovirus capsid protein, N-terminal core domain Superfamily:Retrovirus capsid protein, N-terminal core domain Family:Retrovirus capsid protein, N-terminal core domain 37 d1kp0a1 not modelled 6.0 33 Fold:Ribonuclease H-like motif Superfamily:Creatinase/prolidase N-terminal domain Family:Creatinase/prolidase N-terminal domain 38 d1s57a_ not modelled 5.8 13 Fold:Ferredoxin-like Superfamily:Nucleoside diphosphate kinase, NDK Family:Nucleoside diphosphate kinase, NDK 39 c1j1eB_ not modelled 5.8 14 PDB header:contractile protein Chain: B: PDB Molecule:troponin t; PDBTitle: crystal structure of the 52kda domain of human cardiac2 troponin in the ca2+ saturated form 40 c3zvmA_ not modelled 5.6 18 PDB header:hydrolase/transferase/dna Chain: A: PDB Molecule:bifunctional polynucleotide phosphatase/kinase; PDBTitle: the structural basis for substrate recognition by mammalian2 polynucleotide kinase 3' phosphatase 41 c3nzzA_ not modelled 5.5 29 PDB header:cell invasion Chain: A: PDB Molecule:cell invasion protein sipd; PDBTitle: crystal structure of the salmonella type iii secretion system tip2 protein sipd 42 c2kn8A_ not modelled 5.5 43 PDB header:protein binding, dna binding protein Chain: A: PDB Molecule:dna cleavage and packaging protein large subunit, ul89; PDBTitle: nmr structure of the c-terminal domain of pul89 43 c3r9lA_ not modelled 5.5 11 PDB header:transferase Chain: A: PDB Molecule:nucleoside diphosphate kinase; PDBTitle: crystal structure of nucleoside diphosphate kinase from giardia2 lamblia featuring a disordered dinucleotide binding site 44 d1iowa1 not modelled 5.5 20 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:D-Alanine ligase N-terminal domain 45 c1j1eC_ not modelled 5.2 47 PDB header:contractile protein Chain: C: PDB Molecule:troponin i; PDBTitle: crystal structure of the 52kda domain of human cardiac2 troponin in the ca2+ saturated form 46 c2izpB_ not modelled 5.1 29 PDB header:toxin Chain: B: PDB Molecule:putative membrane antigen; PDBTitle: bipd - an invasion prtein associated with the type-iii2 secretion system of burkholderia pseudomallei.

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