Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	D	K	A	I	L	W	A	L	I	S	A	S	T	K	E	G	R	K	A	C	S	L	S	Y	F	A	C	K	A	A	E	A	E	L	G	L	A	Y	M	A	A	N	D	N	K	E	F	L	T	S	L	S	N	I	M	R	Y	K
Secondary structure
SS confidence
Disorder		?	?	?	?			?					?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.
Sequence		I	D	A	G	L	S	E	S	Y	T	C	Y	L	L	S	K	G	K	I	I	R	P	Y	L	K	N	L	N	P	L	Q	L	A	A	D	C	I	E	T	V	N	K	I	K	D	K	N	K	K	N	H
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 2a7w chain A domain 1 Region: 48 - 77 Aligned: 30 Modelled: 30 Confidence: 60.0% Identity: 23% Fold: all-alpha NTP pyrophosphatases Superfamily: all-alpha NTP pyrophosphatases Family: HisE-like (PRA-PH) Phyre2 PDB 2a7w chain F Region: 48 - 77 Aligned: 30 Modelled: 30 Confidence: 58.6% Identity: 23% PDB header:hydrolase Chain: F: PDB Molecule:phosphoribosyl-atp pyrophosphatase; PDBTitle: crystal structure of phosphoribosyl-atp pyrophosphatase2 from chromobacterium violaceum (atcc 12472). nesg target3 cvr7 Phyre2 PDB 1yvw chain D Region: 50 - 77 Aligned: 28 Modelled: 28 Confidence: 32.5% Identity: 39% PDB header:hydrolase Chain: D: PDB Molecule:phosphoribosyl-atp pyrophosphatase; PDBTitle: crystal structure of phosphoribosyl-atp2 pyrophosphohydrolase from bacillus cereus. nesgc target3 bcr13. Phyre2 PDB 1yvw chain A domain 1 Region: 50 - 77 Aligned: 28 Modelled: 28 Confidence: 32.5% Identity: 39% Fold: all-alpha NTP pyrophosphatases Superfamily: all-alpha NTP pyrophosphatases Family: HisE-like (PRA-PH) Phyre2 PDB 1y6x chain A domain 1 Region: 48 - 77 Aligned: 30 Modelled: 30 Confidence: 27.5% Identity: 17% Fold: all-alpha NTP pyrophosphatases Superfamily: all-alpha NTP pyrophosphatases Family: HisE-like (PRA-PH) Phyre2 PDB 1yxb chain A domain 1 Region: 52 - 77 Aligned: 26 Modelled: 26 Confidence: 21.2% Identity: 19% Fold: all-alpha NTP pyrophosphatases Superfamily: all-alpha NTP pyrophosphatases Family: HisE-like (PRA-PH) Phyre2 PDB 2j1o chain A Region: 51 - 84 Aligned: 22 Modelled: 34 Confidence: 12.1% Identity: 45% PDB header:transferase Chain: A: PDB Molecule:geranylgeranyl pyrophosphate synthetase; PDBTitle: geranylgeranyl diphosphate synthase from sinapis alba Phyre2 PDB 2b8u chain A domain 1 Region: 47 - 60 Aligned: 14 Modelled: 14 Confidence: 11.3% Identity: 50% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Short-chain cytokines Phyre2 PDB 3m9u chain D Region: 51 - 84 Aligned: 22 Modelled: 34 Confidence: 11.0% Identity: 45% PDB header:transferase Chain: D: PDB Molecule:farnesyl-diphosphate synthase; PDBTitle: crystal structure of geranylgeranyl pyrophosphate synthase2 from lactobacillus brevis atcc 367 Phyre2 PDB 1eex chain A Region: 88 - 100 Aligned: 13 Modelled: 13 Confidence: 9.8% Identity: 54% Fold: TIM beta/alpha-barrel Superfamily: Cobalamin (vitamin B12)-dependent enzymes Family: Diol dehydratase, alpha subunit Phyre2 PDB 3ipi chain A Region: 51 - 84 Aligned: 22 Modelled: 34 Confidence: 9.1% Identity: 32% PDB header:transferase Chain: A: PDB Molecule:geranyltranstransferase; PDBTitle: crystal structure of a geranyltranstransferase from the2 methanosarcina mazei Phyre2 PDB 3uca chain B Region: 51 - 84 Aligned: 22 Modelled: 34 Confidence: 8.2% Identity: 50% PDB header:transferase Chain: B: PDB Molecule:geranyltranstransferase; PDBTitle: crystal structure of isoprenoid synthase (target efi-501974) from2 clostridium perfringens Phyre2 PDB 1vly chain A domain 2 Region: 34 - 80 Aligned: 46 Modelled: 46 Confidence: 7.6% Identity: 13% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1iwp chain A Region: 88 - 100 Aligned: 13 Modelled: 13 Confidence: 7.0% Identity: 54% Fold: TIM beta/alpha-barrel Superfamily: Cobalamin (vitamin B12)-dependent enzymes Family: Diol dehydratase, alpha subunit Phyre2 PDB 4a94 chain D Region: 27 - 37 Aligned: 11 Modelled: 11 Confidence: 6.7% Identity: 55% PDB header:hydrolase/hydrolase inhibitor Chain: D: PDB Molecule:carboxypeptidase inhibitor; PDBTitle: structure of the carboxypeptidase inhibitor from nerita versicolor2 in complex with human cpa4 Phyre2 PDB 2r37 chain A Region: 62 - 102 Aligned: 41 Modelled: 41 Confidence: 6.4% Identity: 10% PDB header:oxidoreductase Chain: A: PDB Molecule:glutathione peroxidase 3; PDBTitle: crystal structure of human glutathione peroxidase 3 (selenocysteine to2 glycine mutant) Phyre2 PDB 1bml chain C domain 1 Region: 72 - 83 Aligned: 12 Modelled: 12 Confidence: 6.2% Identity: 50% Fold: beta-Grasp (ubiquitin-like) Superfamily: Staphylokinase/streptokinase Family: Staphylokinase/streptokinase Phyre2 PDB 1l4d chain B Region: 72 - 83 Aligned: 12 Modelled: 12 Confidence: 6.1% Identity: 50% Fold: beta-Grasp (ubiquitin-like) Superfamily: Staphylokinase/streptokinase Family: Staphylokinase/streptokinase Phyre2 PDB 2h8o chain A Region: 51 - 84 Aligned: 22 Modelled: 34 Confidence: 5.9% Identity: 41% PDB header:transferase Chain: A: PDB Molecule:geranyltranstransferase; PDBTitle: the 1.6a crystal structure of the geranyltransferase from2 agrobacterium tumefaciens Phyre2 PDB 1l4z chain B Region: 72 - 83 Aligned: 12 Modelled: 12 Confidence: 5.8% Identity: 50% Fold: beta-Grasp (ubiquitin-like) Superfamily: Staphylokinase/streptokinase Family: Staphylokinase/streptokinase Phyre2 1 d2a7wa1 2 c2a7wF_ 3 c1yvwD_ 4 d1yvwa1 5 d1y6xa1 6 d1yxba1 7 c2j1oA_ 8 d2b8ua1 9 c3m9uD_ 10 d1eexa_ 11 c3ipiA_ 12 c3ucaB_ 13 d1vlya2 14 d1iwpa_ 15 c4a94D_ 16 c2r37A_ 17 d1bmlc1 18 d1l4db_ 19 c2h8oA_ 20 d1l4zb_ 21

Detailed template information

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

1 d2a7wa1 60.0 23 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:HisE-like (PRA-PH) 2 c2a7wF_ 58.6 23 PDB header:hydrolase Chain: F: PDB Molecule:phosphoribosyl-atp pyrophosphatase; PDBTitle: crystal structure of phosphoribosyl-atp pyrophosphatase2 from chromobacterium violaceum (atcc 12472). nesg target3 cvr7 3 c1yvwD_ 32.5 39 PDB header:hydrolase Chain: D: PDB Molecule:phosphoribosyl-atp pyrophosphatase; PDBTitle: crystal structure of phosphoribosyl-atp2 pyrophosphohydrolase from bacillus cereus. nesgc target3 bcr13. 4 d1yvwa1 32.5 39 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:HisE-like (PRA-PH) 5 d1y6xa1 27.5 17 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:HisE-like (PRA-PH) 6 d1yxba1 21.2 19 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:HisE-like (PRA-PH) 7 c2j1oA_ 12.1 45 PDB header:transferase Chain: A: PDB Molecule:geranylgeranyl pyrophosphate synthetase; PDBTitle: geranylgeranyl diphosphate synthase from sinapis alba 8 d2b8ua1 11.3 50 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Short-chain cytokines 9 c3m9uD_ 11.0 45 PDB header:transferase Chain: D: PDB Molecule:farnesyl-diphosphate synthase; PDBTitle: crystal structure of geranylgeranyl pyrophosphate synthase2 from lactobacillus brevis atcc 367 10 d1eexa_ 9.8 54 Fold:TIM beta/alpha-barrel Superfamily:Cobalamin (vitamin B12)-dependent enzymes Family:Diol dehydratase, alpha subunit 11 c3ipiA_ 9.1 32 PDB header:transferase Chain: A: PDB Molecule:geranyltranstransferase; PDBTitle: crystal structure of a geranyltranstransferase from the2 methanosarcina mazei 12 c3ucaB_ 8.2 50 PDB header:transferase Chain: B: PDB Molecule:geranyltranstransferase; PDBTitle: crystal structure of isoprenoid synthase (target efi-501974) from2 clostridium perfringens 13 d1vlya2 7.6 13 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 14 d1iwpa_ 7.0 54 Fold:TIM beta/alpha-barrel Superfamily:Cobalamin (vitamin B12)-dependent enzymes Family:Diol dehydratase, alpha subunit 15 c4a94D_ 6.7 55 PDB header:hydrolase/hydrolase inhibitor Chain: D: PDB Molecule:carboxypeptidase inhibitor; PDBTitle: structure of the carboxypeptidase inhibitor from nerita versicolor2 in complex with human cpa4 16 c2r37A_ 6.4 10 PDB header:oxidoreductase Chain: A: PDB Molecule:glutathione peroxidase 3; PDBTitle: crystal structure of human glutathione peroxidase 3 (selenocysteine to2 glycine mutant) 17 d1bmlc1 6.2 50 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 18 d1l4db_ 6.1 50 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 19 c2h8oA_ 5.9 41 PDB header:transferase Chain: A: PDB Molecule:geranyltranstransferase; PDBTitle: the 1.6a crystal structure of the geranyltransferase from2 agrobacterium tumefaciens 20 d1l4zb_ 5.8 50 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 21 c2fqaA_ not modelled 5.3 67 PDB header:plant protein Chain: A: PDB Molecule:violacin 1; PDBTitle: violacin a

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