Secondary structure and disorder prediction

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Sequence		M	A	N	I	K	S	A	K	K	R	A	I	Q	S	E	K	A	R	K	H	N	A	S	R	R	S	M	M	R	T	F	I	K	K	V	Y	A	A	I	E	A	G	D	K	A	A	A	Q	K	A	F	N	E	M	Q	P	I	V	D	R
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.
Sequence		Q	A	A	K	G	L	I	H	K	N	K	A	A	R	H	K	A	N	L	T	A	Q	I	N	K	L	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 2gy9 chain T domain 1 Region: 5 - 87 Aligned: 83 Modelled: 83 Confidence: 100.0% Identity: 100% Fold: Spectrin repeat-like Superfamily: Ribosomal protein S20 Family: Ribosomal protein S20 Phyre2 PDB 2uub chain T domain 1 Region: 4 - 86 Aligned: 83 Modelled: 83 Confidence: 100.0% Identity: 33% Fold: Spectrin repeat-like Superfamily: Ribosomal protein S20 Family: Ribosomal protein S20 Phyre2 PDB 3bbn chain T Region: 4 - 86 Aligned: 83 Modelled: 83 Confidence: 100.0% Identity: 35% PDB header:ribosome Chain: T: PDB Molecule:ribosomal protein s20; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. Phyre2 PDB 1h6q chain A Region: 22 - 64 Aligned: 43 Modelled: 43 Confidence: 26.7% Identity: 14% Fold: Mss4-like Superfamily: Mss4-like Family: Translationally controlled tumor protein TCTP (histamine-releasing factor) Phyre2 PDB 1txj chain A Region: 22 - 64 Aligned: 43 Modelled: 43 Confidence: 24.4% Identity: 9% Fold: Mss4-like Superfamily: Mss4-like Family: Translationally controlled tumor protein TCTP (histamine-releasing factor) Phyre2 PDB 2oxo chain A Region: 35 - 73 Aligned: 39 Modelled: 39 Confidence: 21.7% Identity: 23% PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: crystallization and structure determination of the core-2 binding domain of bacteriophage lambda integrase Phyre2 PDB 3dza chain B Region: 36 - 61 Aligned: 26 Modelled: 26 Confidence: 19.8% Identity: 15% PDB header:unknown function Chain: B: PDB Molecule:uncharacterized putative membrane protein; PDBTitle: crystal structure of a putative membrane protein of unknown function2 (yfdx) from klebsiella pneumoniae subsp. at 1.65 a resolution Phyre2 PDB 2khv chain A Region: 29 - 74 Aligned: 46 Modelled: 46 Confidence: 18.9% Identity: 20% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phage integrase; PDBTitle: solution nmr structure of protein nmul_a0922 from2 nitrosospira multiformis. northeast structural genomics3 consortium target nmr38b. Phyre2 PDB 2kj8 chain A Region: 32 - 81 Aligned: 50 Modelled: 50 Confidence: 18.2% Identity: 16% PDB header:dna binding protein Chain: A: PDB Molecule:putative prophage cps-53 integrase; PDBTitle: nmr structure of fragment 87-196 from the putative phage2 integrase ints of e. coli: northeast structural genomics3 consortium target er652a, psi-2 Phyre2 PDB 2k54 chain A domain 1 Region: 26 - 51 Aligned: 26 Modelled: 26 Confidence: 17.8% Identity: 23% Fold: Cystatin-like Superfamily: NTF2-like Family: Atu0742-like Phyre2 PDB 1yz1 chain A domain 1 Region: 22 - 64 Aligned: 43 Modelled: 43 Confidence: 17.2% Identity: 7% Fold: Mss4-like Superfamily: Mss4-like Family: Translationally controlled tumor protein TCTP (histamine-releasing factor) Phyre2 PDB 3k1s chain E Region: 29 - 61 Aligned: 33 Modelled: 33 Confidence: 16.3% Identity: 18% PDB header:transferase Chain: E: PDB Molecule:pts system, cellobiose-specific iia component; PDBTitle: crystal structure of the pts cellobiose specific enzyme iia2 from bacillus anthracis Phyre2 PDB 2oo2 chain A domain 1 Region: 26 - 68 Aligned: 43 Modelled: 43 Confidence: 13.6% Identity: 16% Fold: immunoglobulin/albumin-binding domain-like Superfamily: AF1782-like Family: AF1782-like Phyre2 PDB 2dl1 chain A Region: 30 - 63 Aligned: 34 Modelled: 34 Confidence: 13.2% Identity: 21% PDB header:protein transport Chain: A: PDB Molecule:spartin; PDBTitle: solution structure of the mit domain from human spartin Phyre2 PDB 1xb2 chain B Region: 32 - 67 Aligned: 36 Modelled: 36 Confidence: 13.1% Identity: 28% PDB header:translation Chain: B: PDB Molecule:elongation factor ts, mitochondrial; PDBTitle: crystal structure of bos taurus mitochondrial elongation2 factor tu/ts complex Phyre2 PDB 3en8 chain A domain 1 Region: 27 - 51 Aligned: 25 Modelled: 25 Confidence: 12.9% Identity: 24% Fold: Cystatin-like Superfamily: NTF2-like Family: Rpa4348-like Phyre2 PDB 3lys chain C Region: 32 - 70 Aligned: 39 Modelled: 39 Confidence: 12.9% Identity: 10% PDB header:recombination Chain: C: PDB Molecule:prophage pi2 protein 01, integrase; PDBTitle: crystal structure of the n-terminal domain of the prophage2 pi2 protein 01 (integrase) from lactococcus lactis,3 northeast structural genomics consortium target kr124f Phyre2 PDB 2kj9 chain A Region: 35 - 73 Aligned: 39 Modelled: 39 Confidence: 10.3% Identity: 15% PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: nmr structure of intb phage-integrase-like protein fragment2 90-199 from erwinia carotova subsp. atroseptica: northeast3 structural genomics consortium target ewr217e Phyre2 PDB 1h7c chain A Region: 25 - 61 Aligned: 37 Modelled: 37 Confidence: 10.0% Identity: 8% Fold: Spectrin repeat-like Superfamily: Tubulin chaperone cofactor A Family: Tubulin chaperone cofactor A Phyre2 PDB 3soy chain A Region: 21 - 51 Aligned: 31 Modelled: 31 Confidence: 9.5% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:ntf2-like superfamily protein; PDBTitle: nuclear transport factor 2 (ntf2-like) superfamily protein from2 salmonella enterica subsp. enterica serovar typhimurium str. lt2 Phyre2 1 d2gy9t1 2 d2uubt1 3 c3bbnT_ 4 d1h6qa_ 5 d1txja_ 6 c2oxoA_ 7 c3dzaB_ 8 c2khvA_ 9 c2kj8A_ 10 d2k54a1 11 d1yz1a1 12 c3k1sE_ 13 d2oo2a1 14 c2dl1A_ 15 c1xb2B_ 16 d3en8a1 17 c3lysC_ 18 c2kj9A_ 19 d1h7ca_ 20 c3soyA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34

Detailed template information

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

1 d2gy9t1 100.0 100 Fold:Spectrin repeat-like Superfamily:Ribosomal protein S20 Family:Ribosomal protein S20 2 d2uubt1 100.0 33 Fold:Spectrin repeat-like Superfamily:Ribosomal protein S20 Family:Ribosomal protein S20 3 c3bbnT_ 100.0 35 PDB header:ribosome Chain: T: PDB Molecule:ribosomal protein s20; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. 4 d1h6qa_ 26.7 14 Fold:Mss4-like Superfamily:Mss4-like Family:Translationally controlled tumor protein TCTP (histamine-releasing factor) 5 d1txja_ 24.4 9 Fold:Mss4-like Superfamily:Mss4-like Family:Translationally controlled tumor protein TCTP (histamine-releasing factor) 6 c2oxoA_ 21.7 23 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: crystallization and structure determination of the core-2 binding domain of bacteriophage lambda integrase 7 c3dzaB_ 19.8 15 PDB header:unknown function Chain: B: PDB Molecule:uncharacterized putative membrane protein; PDBTitle: crystal structure of a putative membrane protein of unknown function2 (yfdx) from klebsiella pneumoniae subsp. at 1.65 a resolution 8 c2khvA_ 18.9 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phage integrase; PDBTitle: solution nmr structure of protein nmul_a0922 from2 nitrosospira multiformis. northeast structural genomics3 consortium target nmr38b. 9 c2kj8A_ 18.2 16 PDB header:dna binding protein Chain: A: PDB Molecule:putative prophage cps-53 integrase; PDBTitle: nmr structure of fragment 87-196 from the putative phage2 integrase ints of e. coli: northeast structural genomics3 consortium target er652a, psi-2 10 d2k54a1 17.8 23 Fold:Cystatin-like Superfamily:NTF2-like Family:Atu0742-like 11 d1yz1a1 17.2 7 Fold:Mss4-like Superfamily:Mss4-like Family:Translationally controlled tumor protein TCTP (histamine-releasing factor) 12 c3k1sE_ 16.3 18 PDB header:transferase Chain: E: PDB Molecule:pts system, cellobiose-specific iia component; PDBTitle: crystal structure of the pts cellobiose specific enzyme iia2 from bacillus anthracis 13 d2oo2a1 13.6 16 Fold:immunoglobulin/albumin-binding domain-like Superfamily:AF1782-like Family:AF1782-like 14 c2dl1A_ 13.2 21 PDB header:protein transport Chain: A: PDB Molecule:spartin; PDBTitle: solution structure of the mit domain from human spartin 15 c1xb2B_ 13.1 28 PDB header:translation Chain: B: PDB Molecule:elongation factor ts, mitochondrial; PDBTitle: crystal structure of bos taurus mitochondrial elongation2 factor tu/ts complex 16 d3en8a1 12.9 24 Fold:Cystatin-like Superfamily:NTF2-like Family:Rpa4348-like 17 c3lysC_ 12.9 10 PDB header:recombination Chain: C: PDB Molecule:prophage pi2 protein 01, integrase; PDBTitle: crystal structure of the n-terminal domain of the prophage2 pi2 protein 01 (integrase) from lactococcus lactis,3 northeast structural genomics consortium target kr124f 18 c2kj9A_ 10.3 15 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: nmr structure of intb phage-integrase-like protein fragment2 90-199 from erwinia carotova subsp. atroseptica: northeast3 structural genomics consortium target ewr217e 19 d1h7ca_ 10.0 8 Fold:Spectrin repeat-like Superfamily:Tubulin chaperone cofactor A Family:Tubulin chaperone cofactor A 20 c3soyA_ 9.5 13 PDB header:membrane protein Chain: A: PDB Molecule:ntf2-like superfamily protein; PDBTitle: nuclear transport factor 2 (ntf2-like) superfamily protein from2 salmonella enterica subsp. enterica serovar typhimurium str. lt2 21 c2khqA_ not modelled 9.1 17 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: solution nmr structure of a phage integrase ssp19472 fragment 59-159 from staphylococcus saprophyticus,3 northeast structural genomics consortium target syr103b 22 c3kspA_ not modelled 7.8 14 PDB header:unknown function Chain: A: PDB Molecule:calcium/calmodulin-dependent kinase ii association domain; PDBTitle: crystal structure of a putative ca/calmodulin-dependent kinase ii2 association domain (exig_1688) from exiguobacterium sibiricum 255-153 at 2.59 a resolution 23 d1ohpa1 not modelled 7.3 28 Fold:Cystatin-like Superfamily:NTF2-like Family:Ketosteroid isomerase-like 24 c3l8rA_ not modelled 6.9 10 PDB header:transferase Chain: A: PDB Molecule:putative pts system, cellobiose-specific iia PDBTitle: the crystal structure of ptca from s. mutans 25 d2a15a1 not modelled 6.7 12 Fold:Cystatin-like Superfamily:NTF2-like Family:Ketosteroid isomerase-like 26 d1u00a1 not modelled 6.6 15 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Heat shock protein 70kD (HSP70), C-terminal subdomain Family:Heat shock protein 70kD (HSP70), C-terminal subdomain 27 c2odmA_ not modelled 6.6 19 PDB header:unknown function Chain: A: PDB Molecule:upf0358 protein mw0995; PDBTitle: crystal structure of s. aureus ylan, an essential leucine rich protein2 involved in the control of cell shape 28 d2f86b1 not modelled 6.2 10 Fold:Cystatin-like Superfamily:NTF2-like Family:Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A 29 c1wcrA_ not modelled 6.0 15 PDB header:transferase Chain: A: PDB Molecule:pts system, n, n'-diacetylchitobiose-specific PDBTitle: trimeric structure of the enzyme iia from escherichia coli2 phosphotransferase system specific for n,n'-3 diacetylchitobiose 30 c3kh1B_ not modelled 5.9 15 PDB header:hydrolase Chain: B: PDB Molecule:predicted metal-dependent phosphohydrolase; PDBTitle: crystal structure of predicted metal-dependent2 phosphohydrolase (zp_00055740.2) from magnetospirillum3 magnetotacticum ms-1 at 1.37 a resolution 31 c2kkvA_ not modelled 5.5 18 PDB header:dna binding protein Chain: A: PDB Molecule:integrase; PDBTitle: solution nmr structure of an integrase domain from protein2 spa4288 from salmonella enterica, northeast structural3 genomics consortium target slr105h 32 d2ux0a1 not modelled 5.3 23 Fold:Cystatin-like Superfamily:NTF2-like Family:Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A 33 d1aipc1 not modelled 5.2 29 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:TS-N domain 34 c3i0yC_ not modelled 5.2 24 PDB header:isomerase Chain: C: PDB Molecule:putative polyketide cyclase; PDBTitle: crystal structure of a putative polyketide cyclase (xcc0381) from2 xanthomonas campestris pv. campestris at 1.50 a resolution

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