Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	K	N	M	A	G	I	L	S	A	A	A	V	L	T	M	L	A	G	C	T	A	Y	D	R	T	K	D	Q	F	V	Q	P	V	V	K	D	V	K	K	G	M	S	R	A	Q	V	A	Q	I	A	G	K	P	S	S	E	V	S
Secondary structure
SS confidence
Disorder		?	?	?	?																																				?	?		?	?							?						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.
Sequence		M	I	H	A	R	G	T	C	Q	T	Y	I	L	G	Q	R	D	G	K	A	E	T	Y	F	V	A	L	D	D	T	G	H	V	I	N	S	G	Y	Q	T	C	A	E	Y	D	T	D	P	Q	A	A	K
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 2pxg chain A Region: 18 - 97 Aligned: 77 Modelled: 80 Confidence: 96.9% Identity: 23% PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein; PDBTitle: nmr solution structure of omla Phyre2 PDB 2kxx chain A Region: 36 - 95 Aligned: 58 Modelled: 60 Confidence: 96.5% Identity: 22% PDB header:protein binding Chain: A: PDB Molecule:small protein a; PDBTitle: nmr structure of escherichia coli bame, a lipoprotein component of the2 beta-barrel assembly machinery complex Phyre2 PDB 3gmx chain B Region: 42 - 96 Aligned: 50 Modelled: 55 Confidence: 79.0% Identity: 24% PDB header:protein binding Chain: B: PDB Molecule:blp; PDBTitle: crystal structure of beta-lactamse inhibitory protein-like2 protein (blp) at 1.05 angstrom resolution Phyre2 PDB 3d4e chain A Region: 38 - 87 Aligned: 50 Modelled: 50 Confidence: 74.7% Identity: 14% PDB header:hydrolase Chain: A: PDB Molecule:putative beta-lactamase inhibitor protein; PDBTitle: crystal structure of putative beta-lactamase inhibitor protein2 (np_721579.1) from streptococcus mutans at 1.40 a resolution Phyre2 PDB 2g2u chain B domain 1 Region: 37 - 78 Aligned: 41 Modelled: 42 Confidence: 67.2% Identity: 24% Fold: BLIP-like Superfamily: beta-lactamase-inhibitor protein, BLIP Family: beta-lactamase-inhibitor protein, BLIP Phyre2 PDB 3gmv chain X Region: 42 - 53 Aligned: 12 Modelled: 12 Confidence: 64.4% Identity: 42% PDB header:protein binding Chain: X: PDB Molecule:beta-lactamase inhibitory protein blip-i; PDBTitle: crystal structure of beta-lactamse inhibitory protein-i2 (blip-i) in apo form Phyre2 PDB 2w7n chain A Region: 36 - 51 Aligned: 16 Modelled: 16 Confidence: 19.8% Identity: 25% PDB header:transcription/dna Chain: A: PDB Molecule:trfb transcriptional repressor protein; PDBTitle: crystal structure of kora bound to operator dna: insight2 into repressor cooperation in rp4 gene regulation Phyre2 PDB 2ppx chain A domain 1 Region: 34 - 57 Aligned: 24 Modelled: 24 Confidence: 17.6% Identity: 13% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 2ppx chain A Region: 34 - 57 Aligned: 24 Modelled: 24 Confidence: 17.6% Identity: 13% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1735; PDBTitle: crystal structure of a hth xre-family like protein from agrobacterium2 tumefaciens Phyre2 PDB 2fhd chain A Region: 65 - 94 Aligned: 29 Modelled: 27 Confidence: 14.6% Identity: 17% PDB header:cell cycle Chain: A: PDB Molecule:dna repair protein rhp9/crb2; PDBTitle: crystal structure of crb2 tandem tudor domains Phyre2 PDB 3d0w chain D Region: 22 - 52 Aligned: 31 Modelled: 31 Confidence: 11.9% Identity: 16% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:yflh protein; PDBTitle: crystal structure of yflh protein from bacillus subtilis.2 northeast structural genomics consortium target sr326 Phyre2 PDB 2a7y chain A Region: 77 - 94 Aligned: 17 Modelled: 18 Confidence: 11.4% Identity: 35% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein rv2302/mt2359; PDBTitle: solution structure of the conserved hypothetical protein2 rv2302 from the bacterium mycobacterium tuberculosis Phyre2 PDB 2a7y chain A domain 1 Region: 77 - 94 Aligned: 17 Modelled: 18 Confidence: 11.4% Identity: 35% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: Rv2302-like Phyre2 PDB 1bw6 chain A Region: 35 - 58 Aligned: 24 Modelled: 24 Confidence: 10.1% Identity: 17% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Centromere-binding Phyre2 PDB 2kq5 chain A Region: 34 - 57 Aligned: 23 Modelled: 24 Confidence: 9.7% Identity: 30% PDB header:unknown function Chain: A: PDB Molecule:avirulence protein; PDBTitle: solution nmr structure of a section of the repeat domain of the type2 iii effector protein ptha Phyre2 PDB 2xzm chain O Region: 21 - 48 Aligned: 28 Modelled: 28 Confidence: 9.1% Identity: 29% PDB header:ribosome Chain: O: PDB Molecule:rps13e; 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 Phyre2 PDB 3f6w chain E Region: 40 - 59 Aligned: 20 Modelled: 20 Confidence: 8.7% Identity: 30% PDB header:dna binding protein Chain: E: PDB Molecule:xre-family like protein; PDBTitle: xre-family like protein from pseudomonas syringae pv. tomato str.2 dc3000 Phyre2 PDB 1tfr chain A domain 1 Region: 69 - 82 Aligned: 14 Modelled: 14 Confidence: 8.7% Identity: 7% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 3eip chain A Region: 69 - 88 Aligned: 20 Modelled: 20 Confidence: 8.4% Identity: 40% Fold: FKBP-like Superfamily: Colicin E3 immunity protein Family: Colicin E3 immunity protein Phyre2 PDB 3o4a chain C Region: 79 - 96 Aligned: 18 Modelled: 18 Confidence: 7.9% Identity: 11% PDB header:de novo protein Chain: C: PDB Molecule:de novo designed beta-trefoil architecture with symmetric PDBTitle: crystal structure of symfoil-2: de novo designed beta-trefoil2 architecture with symmetric primary structure Phyre2 1 c2pxgA_ 2 c2kxxA_ 3 c3gmxB_ 4 c3d4eA_ 5 d2g2ub1 6 c3gmvX_ 7 c2w7nA_ 8 d2ppxa1 9 c2ppxA_ 10 c2fhdA_ 11 c3d0wD_ 12 c2a7yA_ 13 d2a7ya1 14 d1bw6a_ 15 c2kq5A_ 16 c2xzmO_ 17 c3f6wE_ 18 d1tfra1 19 d3eipa_ 20 c3o4aC_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35

Detailed template information

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

1 c2pxgA_ 96.9 23 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein; PDBTitle: nmr solution structure of omla 2 c2kxxA_ 96.5 22 PDB header:protein binding Chain: A: PDB Molecule:small protein a; PDBTitle: nmr structure of escherichia coli bame, a lipoprotein component of the2 beta-barrel assembly machinery complex 3 c3gmxB_ 79.0 24 PDB header:protein binding Chain: B: PDB Molecule:blp; PDBTitle: crystal structure of beta-lactamse inhibitory protein-like2 protein (blp) at 1.05 angstrom resolution 4 c3d4eA_ 74.7 14 PDB header:hydrolase Chain: A: PDB Molecule:putative beta-lactamase inhibitor protein; PDBTitle: crystal structure of putative beta-lactamase inhibitor protein2 (np_721579.1) from streptococcus mutans at 1.40 a resolution 5 d2g2ub1 67.2 24 Fold:BLIP-like Superfamily:beta-lactamase-inhibitor protein, BLIP Family:beta-lactamase-inhibitor protein, BLIP 6 c3gmvX_ 64.4 42 PDB header:protein binding Chain: X: PDB Molecule:beta-lactamase inhibitory protein blip-i; PDBTitle: crystal structure of beta-lactamse inhibitory protein-i2 (blip-i) in apo form 7 c2w7nA_ 19.8 25 PDB header:transcription/dna Chain: A: PDB Molecule:trfb transcriptional repressor protein; PDBTitle: crystal structure of kora bound to operator dna: insight2 into repressor cooperation in rp4 gene regulation 8 d2ppxa1 17.6 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 9 c2ppxA_ 17.6 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1735; PDBTitle: crystal structure of a hth xre-family like protein from agrobacterium2 tumefaciens 10 c2fhdA_ 14.6 17 PDB header:cell cycle Chain: A: PDB Molecule:dna repair protein rhp9/crb2; PDBTitle: crystal structure of crb2 tandem tudor domains 11 c3d0wD_ 11.9 16 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:yflh protein; PDBTitle: crystal structure of yflh protein from bacillus subtilis.2 northeast structural genomics consortium target sr326 12 c2a7yA_ 11.4 35 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein rv2302/mt2359; PDBTitle: solution structure of the conserved hypothetical protein2 rv2302 from the bacterium mycobacterium tuberculosis 13 d2a7ya1 11.4 35 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:Rv2302-like 14 d1bw6a_ 10.1 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 15 c2kq5A_ 9.7 30 PDB header:unknown function Chain: A: PDB Molecule:avirulence protein; PDBTitle: solution nmr structure of a section of the repeat domain of the type2 iii effector protein ptha 16 c2xzmO_ 9.1 29 PDB header:ribosome Chain: O: PDB Molecule:rps13e; 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 17 c3f6wE_ 8.7 30 PDB header:dna binding protein Chain: E: PDB Molecule:xre-family like protein; PDBTitle: xre-family like protein from pseudomonas syringae pv. tomato str.2 dc3000 18 d1tfra1 8.7 7 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 19 d3eipa_ 8.4 40 Fold:FKBP-like Superfamily:Colicin E3 immunity protein Family:Colicin E3 immunity protein 20 c3o4aC_ 7.9 11 PDB header:de novo protein Chain: C: PDB Molecule:de novo designed beta-trefoil architecture with symmetric PDBTitle: crystal structure of symfoil-2: de novo designed beta-trefoil2 architecture with symmetric primary structure 21 d1ihka_ not modelled 7.7 31 Fold:beta-Trefoil Superfamily:Cytokine Family:Fibroblast growth factors (FGF) 22 c3mtjA_ not modelled 7.2 28 PDB header:oxidoreductase Chain: A: PDB Molecule:homoserine dehydrogenase; PDBTitle: the crystal structure of a homoserine dehydrogenase from thiobacillus2 denitrificans to 2.15a 23 d2oq1a2 not modelled 7.2 18 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 24 d2a6ca1 not modelled 7.0 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 25 c3f1rA_ not modelled 7.0 38 PDB header:hormone Chain: A: PDB Molecule:fibroblast growth factor 20; PDBTitle: crystal structure of fgf20 dimer 26 d1ijwc_ not modelled 7.0 50 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Recombinase DNA-binding domain 27 d1f35a_ not modelled 6.9 40 Fold:Olfactory marker protein Superfamily:Olfactory marker protein Family:Olfactory marker protein 28 c3bs3A_ not modelled 6.4 22 PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis 29 d2hjqa1 not modelled 6.3 38 Fold:LEM/SAP HeH motif Superfamily:Rho N-terminal domain-like Family:YqbF C-terminal domain-like 30 d2axwa1 not modelled 6.0 9 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 31 d1pxza_ not modelled 5.6 13 Fold:Single-stranded right-handed beta-helix Superfamily:Pectin lyase-like Family:Pectate lyase-like 32 c2iurD_ not modelled 5.6 41 PDB header:oxidoreductase Chain: D: PDB Molecule:aromatic amine dehydrogenase beta subunit; PDBTitle: crystal structure of n-quinol form of aromatic amine2 dehydrogenase (aadh) from alcaligenes faecalis, form a3 cocrystal 33 c2p04B_ not modelled 5.3 13 PDB header:transferase Chain: B: PDB Molecule:signal transduction histidine kinase; PDBTitle: 2.1 ang structure of the dimerized pas domain of signal transduction2 histidine kinase from nostoc punctiforme pcc 73102 with homology to3 the h-noxa/h-noba domain of the soluble guanylyl cyclase 34 c1w78A_ not modelled 5.2 15 PDB header:synthase Chain: A: PDB Molecule:folc bifunctional protein; PDBTitle: e.coli folc in complex with dhpp and adp 35 c2o1uA_ not modelled 5.2 44 PDB header:chaperone Chain: A: PDB Molecule:endoplasmin; PDBTitle: structure of full length grp94 with amp-pnp bound

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

---

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