Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	K	E	T	Q	P	I	D	R	E	T	L	L	K	E	A	N	K	I	I	R	E	H	E	D	T	L	A	G	I	E	A	T	G	V	T	Q	R	N	G	V	L	V	F	T	G	D	Y	F	L	D	E	Q	G	L	P	T	A	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?																											?																					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.
Sequence		S	T	A	V	F	N	M	F	K	H	L	A	H	V	L	S	E	K	Y	H	L	V	D
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 3m92 chain B Region: 2 - 82 Aligned: 81 Modelled: 81 Confidence: 100.0% Identity: 99% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ycin; PDBTitle: the structure of ycin, an unchracterized protein from shigella2 flexneri. Phyre2 PDB 2k5e chain A Region: 8 - 24 Aligned: 17 Modelled: 17 Confidence: 29.3% Identity: 29% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of putative uncharacterized protein2 gsu1278 from methanocaldococcus jannaschii, northeast3 structural genomics consortium (nesg) target gsr195 Phyre2 PDB 2k6s chain B Region: 10 - 33 Aligned: 24 Modelled: 24 Confidence: 22.2% Identity: 29% PDB header:protein transport Chain: B: PDB Molecule:rab11fip2 protein; PDBTitle: structure of rab11-fip2 c-terminal coiled-coil domain Phyre2 PDB 2rmr chain A Region: 6 - 30 Aligned: 25 Modelled: 25 Confidence: 18.2% Identity: 24% PDB header:transcription Chain: A: PDB Molecule:paired amphipathic helix protein sin3a; PDBTitle: solution structure of msin3a pah1 domain Phyre2 PDB 1jr1 chain A domain 4 Region: 14 - 24 Aligned: 11 Modelled: 11 Confidence: 17.2% Identity: 55% Fold: CBS-domain pair Superfamily: CBS-domain pair Family: CBS-domain pair Phyre2 PDB 2ld7 chain B Region: 6 - 30 Aligned: 25 Modelled: 25 Confidence: 14.9% Identity: 12% PDB header:transcription Chain: B: PDB Molecule:paired amphipathic helix protein sin3a; PDBTitle: solution structure of the msin3a pah3-sap30 sid complex Phyre2 PDB 3gls chain C Region: 33 - 69 Aligned: 37 Modelled: 37 Confidence: 10.3% Identity: 22% PDB header:hydrolase Chain: C: PDB Molecule:nad-dependent deacetylase sirtuin-3, PDBTitle: crystal structure of human sirt3 Phyre2 PDB 2kc2 chain A Region: 35 - 54 Aligned: 19 Modelled: 20 Confidence: 9.3% Identity: 26% PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: nmr structure of the f1 domain (residues 86-202) of the2 talin Phyre2 PDB 2a5y chain B domain 2 Region: 69 - 77 Aligned: 9 Modelled: 9 Confidence: 9.2% Identity: 44% Fold: DEATH domain Superfamily: DEATH domain Family: Caspase recruitment domain, CARD Phyre2 PDB 2v9v chain A domain 1 Region: 15 - 24 Aligned: 10 Modelled: 10 Confidence: 7.1% Identity: 50% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal fragment of elongation factor SelB Phyre2 PDB 3o27 chain B Region: 14 - 45 Aligned: 32 Modelled: 32 Confidence: 6.9% Identity: 16% PDB header:dna binding protein Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: the crystal structure of c68 from the hybrid virus-plasmid pssvx Phyre2 PDB 1v32 chain A Region: 65 - 78 Aligned: 14 Modelled: 14 Confidence: 6.8% Identity: 14% Fold: SWIB/MDM2 domain Superfamily: SWIB/MDM2 domain Family: SWIB/MDM2 domain Phyre2 PDB 1qhu chain A Region: 33 - 50 Aligned: 18 Modelled: 18 Confidence: 6.0% Identity: 22% PDB header:binding protein Chain: A: PDB Molecule:protein (hemopexin); PDBTitle: mammalian blood serum haemopexin deglycosylated and in2 complex with its ligand haem Phyre2 PDB 2gzd chain C Region: 21 - 38 Aligned: 18 Modelled: 17 Confidence: 6.0% Identity: 28% PDB header:protein transport Chain: C: PDB Molecule:rab11 family-interacting protein 2; PDBTitle: crystal structure of rab11 in complex with rab11-fip2 Phyre2 PDB 1zik chain B Region: 74 - 81 Aligned: 8 Modelled: 8 Confidence: 5.6% Identity: 75% PDB header:leucine zipper Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16lys in the dimeric2 state Phyre2 PDB 1zik chain A Region: 74 - 81 Aligned: 8 Modelled: 8 Confidence: 5.6% Identity: 75% PDB header:leucine zipper Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16lys in the dimeric2 state Phyre2 PDB 1k1s chain A domain 1 Region: 7 - 23 Aligned: 17 Modelled: 17 Confidence: 5.5% Identity: 29% Fold: Lesion bypass DNA polymerase (Y-family), little finger domain Superfamily: Lesion bypass DNA polymerase (Y-family), little finger domain Family: Lesion bypass DNA polymerase (Y-family), little finger domain Phyre2 PDB 1k28 chain D domain 2 Region: 45 - 53 Aligned: 9 Modelled: 9 Confidence: 5.4% Identity: 33% Fold: Phage tail proteins Superfamily: Phage tail proteins Family: Baseplate protein-like Phyre2 PDB 1xg8 chain A Region: 55 - 79 Aligned: 20 Modelled: 25 Confidence: 5.4% Identity: 35% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: YuzD-like Phyre2 PDB 1s1h chain L Region: 26 - 44 Aligned: 19 Modelled: 19 Confidence: 5.4% Identity: 16% PDB header:ribosome Chain: L: PDB Molecule:40s ribosomal protein s23; 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, 1s1h,4 contains 40s subunit. the 60s ribosomal subunit is in file5 1s1i. Phyre2 1 c3m92B_ 2 c2k5eA_ 3 c2k6sB_ 4 c2rmrA_ 5 d1jr1a4 6 c2ld7B_ 7 c3glsC_ 8 c2kc2A_ 9 d2a5yb2 10 d2v9va1 11 c3o27B_ 12 d1v32a_ 13 c1qhuA_ 14 c2gzdC_ 15 c1zikB_ 16 c1zikA_ 17 d1k1sa1 18 d1k28d2 19 d1xg8a_ 20 c1s1hL_ 21 22 23 24

Detailed template information

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

1 c3m92B_ 100.0 99 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ycin; PDBTitle: the structure of ycin, an unchracterized protein from shigella2 flexneri. 2 c2k5eA_ 29.3 29 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of putative uncharacterized protein2 gsu1278 from methanocaldococcus jannaschii, northeast3 structural genomics consortium (nesg) target gsr195 3 c2k6sB_ 22.2 29 PDB header:protein transport Chain: B: PDB Molecule:rab11fip2 protein; PDBTitle: structure of rab11-fip2 c-terminal coiled-coil domain 4 c2rmrA_ 18.2 24 PDB header:transcription Chain: A: PDB Molecule:paired amphipathic helix protein sin3a; PDBTitle: solution structure of msin3a pah1 domain 5 d1jr1a4 17.2 55 Fold:CBS-domain pair Superfamily:CBS-domain pair Family:CBS-domain pair 6 c2ld7B_ 14.9 12 PDB header:transcription Chain: B: PDB Molecule:paired amphipathic helix protein sin3a; PDBTitle: solution structure of the msin3a pah3-sap30 sid complex 7 c3glsC_ 10.3 22 PDB header:hydrolase Chain: C: PDB Molecule:nad-dependent deacetylase sirtuin-3, PDBTitle: crystal structure of human sirt3 8 c2kc2A_ 9.3 26 PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: nmr structure of the f1 domain (residues 86-202) of the2 talin 9 d2a5yb2 9.2 44 Fold:DEATH domain Superfamily:DEATH domain Family:Caspase recruitment domain, CARD 10 d2v9va1 7.1 50 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal fragment of elongation factor SelB 11 c3o27B_ 6.9 16 PDB header:dna binding protein Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: the crystal structure of c68 from the hybrid virus-plasmid pssvx 12 d1v32a_ 6.8 14 Fold:SWIB/MDM2 domain Superfamily:SWIB/MDM2 domain Family:SWIB/MDM2 domain 13 c1qhuA_ 6.0 22 PDB header:binding protein Chain: A: PDB Molecule:protein (hemopexin); PDBTitle: mammalian blood serum haemopexin deglycosylated and in2 complex with its ligand haem 14 c2gzdC_ 6.0 28 PDB header:protein transport Chain: C: PDB Molecule:rab11 family-interacting protein 2; PDBTitle: crystal structure of rab11 in complex with rab11-fip2 15 c1zikB_ 5.6 75 PDB header:leucine zipper Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16lys in the dimeric2 state 16 c1zikA_ 5.6 75 PDB header:leucine zipper Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16lys in the dimeric2 state 17 d1k1sa1 5.5 29 Fold:Lesion bypass DNA polymerase (Y-family), little finger domain Superfamily:Lesion bypass DNA polymerase (Y-family), little finger domain Family:Lesion bypass DNA polymerase (Y-family), little finger domain 18 d1k28d2 5.4 33 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like 19 d1xg8a_ 5.4 35 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:YuzD-like 20 c1s1hL_ 5.4 16 PDB header:ribosome Chain: L: PDB Molecule:40s ribosomal protein s23; 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, 1s1h,4 contains 40s subunit. the 60s ribosomal subunit is in file5 1s1i. 21 c3tsiC_ not modelled 5.4 42 PDB header:viral protein Chain: C: PDB Molecule:hemagglutinin-neuraminidase; PDBTitle: structure of the parainfluenza virus 5 (piv5) hemagglutinin-2 neuraminidase (hn) stalk domain 22 c2xzmL_ not modelled 5.0 16 PDB header:ribosome Chain: L: PDB Molecule:40s ribosomal protein s12; 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 23 c1zilA_ not modelled 5.0 63 PDB header:leucine zipper Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16gln in the dimeric2 state 24 c1zilB_ not modelled 5.0 63 PDB header:leucine zipper Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant asn16gln in the dimeric2 state

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