Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	V	S	K	S	N	G	F	N	A	S	A	V	L	G	S	G	S	Y	N	E	N	K	S	S	K	H	M	E	L	L	A	H	S	I	L	K	L	I	C	K	E	A	A	S	E	T	Y	R	G	A	L	E	T	L	Q	K	M	M
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?										?		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	E	C	I	Y	Q	E	G	N	A	F	V	I	M	G	A	G	E	Q	L	K	R	I	K	Y	E	V	G	E	N	N	L	K	V	F	N	V	H	F	N	N	N	H	E	L	V	S	S	G	E	P	D	V	I	C	L	S	K	Q	V
Secondary structure
SS confidence
Disorder																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160
Sequence		W	E	N	L	L	I	K	L	K	L	E	N	N	E	N	V	F	S	E	T	K	K	L	S	N	K	N	N	A	D	Q	F	F	E	C	A	K	R	N	E
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 3c0n chain A domain 1 Region: 69 - 77 Aligned: 9 Modelled: 9 Confidence: 16.8% Identity: 67% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: Aerolysin/Pertussis toxin (APT) domain Phyre2 PDB 1auu chain A Region: 99 - 118 Aligned: 20 Modelled: 20 Confidence: 15.7% Identity: 25% Fold: GroES-like Superfamily: SacY-like RNA-binding domain Family: BglG-like antiterminator proteins Phyre2 PDB 1ho8 chain A Region: 29 - 61 Aligned: 24 Modelled: 33 Confidence: 15.4% Identity: 42% Fold: alpha-alpha superhelix Superfamily: ARM repeat Family: Regulatory subunit H of the V-type ATPase Phyre2 PDB 1gef chain A Region: 108 - 158 Aligned: 43 Modelled: 51 Confidence: 14.3% Identity: 19% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: Hjc-like Phyre2 PDB 3mdn chain D Region: 30 - 111 Aligned: 82 Modelled: 82 Confidence: 13.2% Identity: 13% PDB header:transferase Chain: D: PDB Molecule:glutamine aminotransferase class-ii domain protein; PDBTitle: structure of glutamine aminotransferase class-ii domain protein2 (spo2029) from silicibacter pomeroyi Phyre2 PDB 1n6z chain A Region: 83 - 97 Aligned: 15 Modelled: 15 Confidence: 12.4% Identity: 40% Fold: Hypothetical protein Yml108w Superfamily: Hypothetical protein Yml108w Family: Hypothetical protein Yml108w Phyre2 PDB 1e8c chain A domain 2 Region: 30 - 77 Aligned: 46 Modelled: 48 Confidence: 12.1% Identity: 15% Fold: MurD-like peptide ligases, peptide-binding domain Superfamily: MurD-like peptide ligases, peptide-binding domain Family: MurCDEF C-terminal domain Phyre2 PDB 3lr6 chain A Region: 32 - 66 Aligned: 35 Modelled: 35 Confidence: 10.4% Identity: 17% PDB header:structural protein Chain: A: PDB Molecule:major ampullate spidroin 1; PDBTitle: self-assembly of spider silk proteins is controlled by a ph-sensitive2 relay Phyre2 PDB 2o3i chain A domain 1 Region: 93 - 116 Aligned: 24 Modelled: 24 Confidence: 10.0% Identity: 29% Fold: CV3147-like Superfamily: CV3147-like Family: CV3147-like Phyre2 PDB 1dml chain G Region: 99 - 119 Aligned: 21 Modelled: 21 Confidence: 8.9% Identity: 33% PDB header:dna binding protein/transferase Chain: G: PDB Molecule:dna polymerase processivity factor; PDBTitle: crystal structure of herpes simplex ul42 bound to the c-2 terminus of hsv pol Phyre2 PDB 1q2z chain A Region: 26 - 64 Aligned: 38 Modelled: 39 Confidence: 8.6% Identity: 11% Fold: alpha-alpha superhelix Superfamily: C-terminal domain of Ku80 Family: C-terminal domain of Ku80 Phyre2 PDB 1lqy chain A Region: 34 - 117 Aligned: 84 Modelled: 84 Confidence: 8.6% Identity: 17% Fold: Peptide deformylase Superfamily: Peptide deformylase Family: Peptide deformylase Phyre2 PDB 2is9 chain A Region: 116 - 160 Aligned: 45 Modelled: 45 Confidence: 8.2% Identity: 22% PDB header:transcription Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: structure of yeast dcn-1 Phyre2 PDB 3bq3 chain A Region: 116 - 160 Aligned: 45 Modelled: 45 Confidence: 8.0% Identity: 22% PDB header:cell cycle, ligase Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: crystal structure of s. cerevisiae dcn1 Phyre2 PDB 2a6q chain B domain 1 Region: 100 - 125 Aligned: 26 Modelled: 26 Confidence: 7.9% Identity: 12% Fold: YefM-like Superfamily: YefM-like Family: YefM-like Phyre2 PDB 2wqq chain A Region: 70 - 97 Aligned: 28 Modelled: 28 Confidence: 7.5% Identity: 36% PDB header:transferase Chain: A: PDB Molecule:alpha-2,3-/2,8-sialyltransferase; PDBTitle: crystallographic analysis of monomeric cstii Phyre2 PDB 2cwl chain A domain 1 Region: 28 - 52 Aligned: 25 Modelled: 25 Confidence: 7.4% Identity: 32% Fold: Ferritin-like Superfamily: Ferritin-like Family: Manganese catalase (T-catalase) Phyre2 PDB 1ro7 chain A Region: 70 - 97 Aligned: 28 Modelled: 28 Confidence: 7.2% Identity: 36% Fold: Alpha-2,3/8-sialyltransferase CstII Superfamily: Alpha-2,3/8-sialyltransferase CstII Family: Alpha-2,3/8-sialyltransferase CstII Phyre2 PDB 1mg4 chain A Region: 66 - 85 Aligned: 19 Modelled: 20 Confidence: 7.2% Identity: 32% Fold: beta-Grasp (ubiquitin-like) Superfamily: Doublecortin (DC) Family: Doublecortin (DC) Phyre2 PDB 1vl1 chain A Region: 43 - 125 Aligned: 81 Modelled: 83 Confidence: 7.2% Identity: 15% Fold: NagB/RpiA/CoA transferase-like Superfamily: NagB/RpiA/CoA transferase-like Family: NagB-like Phyre2 1 d3c0na1 2 d1auua_ 3 d1ho8a_ 4 d1gefa_ 5 c3mdnD_ 6 d1n6za_ 7 d1e8ca2 8 c3lr6A_ 9 d2o3ia1 10 c1dmlG_ 11 d1q2za_ 12 d1lqya_ 13 c2is9A_ 14 c3bq3A_ 15 d2a6qb1 16 c2wqqA_ 17 d2cwla1 18 d1ro7a_ 19 d1mg4a_ 20 d1vl1a_ 21 22 23 24 25 26 27 28 29 30 31

Detailed template information

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

1 d3c0na1 16.8 67 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:Aerolysin/Pertussis toxin (APT) domain 2 d1auua_ 15.7 25 Fold:GroES-like Superfamily:SacY-like RNA-binding domain Family:BglG-like antiterminator proteins 3 d1ho8a_ 15.4 42 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:Regulatory subunit H of the V-type ATPase 4 d1gefa_ 14.3 19 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Hjc-like 5 c3mdnD_ 13.2 13 PDB header:transferase Chain: D: PDB Molecule:glutamine aminotransferase class-ii domain protein; PDBTitle: structure of glutamine aminotransferase class-ii domain protein2 (spo2029) from silicibacter pomeroyi 6 d1n6za_ 12.4 40 Fold:Hypothetical protein Yml108w Superfamily:Hypothetical protein Yml108w Family:Hypothetical protein Yml108w 7 d1e8ca2 12.1 15 Fold:MurD-like peptide ligases, peptide-binding domain Superfamily:MurD-like peptide ligases, peptide-binding domain Family:MurCDEF C-terminal domain 8 c3lr6A_ 10.4 17 PDB header:structural protein Chain: A: PDB Molecule:major ampullate spidroin 1; PDBTitle: self-assembly of spider silk proteins is controlled by a ph-sensitive2 relay 9 d2o3ia1 10.0 29 Fold:CV3147-like Superfamily:CV3147-like Family:CV3147-like 10 c1dmlG_ 8.9 33 PDB header:dna binding protein/transferase Chain: G: PDB Molecule:dna polymerase processivity factor; PDBTitle: crystal structure of herpes simplex ul42 bound to the c-2 terminus of hsv pol 11 d1q2za_ 8.6 11 Fold:alpha-alpha superhelix Superfamily:C-terminal domain of Ku80 Family:C-terminal domain of Ku80 12 d1lqya_ 8.6 17 Fold:Peptide deformylase Superfamily:Peptide deformylase Family:Peptide deformylase 13 c2is9A_ 8.2 22 PDB header:transcription Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: structure of yeast dcn-1 14 c3bq3A_ 8.0 22 PDB header:cell cycle, ligase Chain: A: PDB Molecule:defective in cullin neddylation protein 1; PDBTitle: crystal structure of s. cerevisiae dcn1 15 d2a6qb1 7.9 12 Fold:YefM-like Superfamily:YefM-like Family:YefM-like 16 c2wqqA_ 7.5 36 PDB header:transferase Chain: A: PDB Molecule:alpha-2,3-/2,8-sialyltransferase; PDBTitle: crystallographic analysis of monomeric cstii 17 d2cwla1 7.4 32 Fold:Ferritin-like Superfamily:Ferritin-like Family:Manganese catalase (T-catalase) 18 d1ro7a_ 7.2 36 Fold:Alpha-2,3/8-sialyltransferase CstII Superfamily:Alpha-2,3/8-sialyltransferase CstII Family:Alpha-2,3/8-sialyltransferase CstII 19 d1mg4a_ 7.2 32 Fold:beta-Grasp (ubiquitin-like) Superfamily:Doublecortin (DC) Family:Doublecortin (DC) 20 d1vl1a_ 7.2 15 Fold:NagB/RpiA/CoA transferase-like Superfamily:NagB/RpiA/CoA transferase-like Family:NagB-like 21 c1kkhA_ not modelled 7.1 24 PDB header:transferase Chain: A: PDB Molecule:mevalonate kinase; PDBTitle: crystal structure of the methanococcus jannaschii2 mevalonate kinase 22 c2k3qA_ not modelled 7.1 26 PDB header:structural protein Chain: A: PDB Molecule:tusp1; PDBTitle: solution structure of the n-terminal domain (tusp1-n) of the2 egg case silk from nephila antipodiana 23 d1ob8a_ not modelled 6.4 14 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Hjc-like 24 c2rp4C_ not modelled 6.0 41 PDB header:transcription Chain: C: PDB Molecule:transcription factor p53; PDBTitle: solution structure of the oligomerization domain in dmp53 25 d1ntga_ not modelled 5.9 35 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Myf domain 26 d1jx4a1 not modelled 5.3 36 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 27 c3c0mB_ not modelled 5.3 67 PDB header:toxin Chain: B: PDB Molecule:aerolysin; PDBTitle: crystal structure of the proaerolysin mutant y221g 28 d1nfpa_ not modelled 5.1 30 Fold:TIM beta/alpha-barrel Superfamily:Bacterial luciferase-like Family:Non-fluorescent flavoprotein (luxF, FP390) 29 c2p2vA_ not modelled 5.1 32 PDB header:transferase Chain: A: PDB Molecule:alpha-2,3-sialyltransferase; PDBTitle: crystal structure analysis of monofunctional alpha-2,3-2 sialyltransferase cst-i from campylobacter jejuni 30 d1mjda_ not modelled 5.1 26 Fold:beta-Grasp (ubiquitin-like) Superfamily:Doublecortin (DC) Family:Doublecortin (DC) 31 d3bdua1 not modelled 5.0 32 Fold:Sm-like fold Superfamily:Sm-like ribonucleoproteins Family:YgdI/YgdR-like

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