Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	M	T	K	G	A	L	I	L	S	L	S	F	L	L	A	A	C	S	S	I	P	Q	N	I	K	G	N	N	Q	P	D	I	Q	K	S	F	V	A	V	H	N	Q	P	G	L	Y	V	G	Q	Q	A	R	F	G	G	K	V	I
Secondary structure
SS confidence
Disorder		?	?	?																	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?						?	?	?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	V	I	N	G	K	T	D	T	L	L	E	I	S	V	L	P	L	D	S	Y	A	K	P	D	I	E	A	N	Y	Q	G	R	L	L	A	R	Q	S	G	F	L	D	P	V	N	Y	R	N	H	F	V	T	I	L	G	T	I	Q	G
Secondary structure
SS confidence
Disorder																						?	?	?	?	?	?	?	?	?	?																												?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		E	Q	P	G	F	I	N	K	V	P	Y	N	F	L	E	V	N	M	Q	G	I	Q	V	W	H	L	R	E	V	V	N	T	T	Y	N	L	W	D	Y	G	Y	G	A	F	W	P	E	P	G	W	G	A	P	Y	Y	T	N	A	V	S
Secondary structure
SS confidence
Disorder		?	?				?	?																			?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.
Sequence		Q	V	T	P	E	L	V	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 1j6q chain A Region: 32 - 120 Aligned: 77 Modelled: 78 Confidence: 82.3% Identity: 17% PDB header:chaperone Chain: A: PDB Molecule:cytochrome c maturation protein e; PDBTitle: solution structure and characterization of the heme2 chaperone ccme Phyre2 PDB 1j6q chain A Region: 32 - 120 Aligned: 77 Modelled: 78 Confidence: 82.3% Identity: 17% Fold: OB-fold Superfamily: Heme chaperone CcmE Family: Heme chaperone CcmE Phyre2 PDB 1sr3 chain A Region: 32 - 119 Aligned: 75 Modelled: 88 Confidence: 66.0% Identity: 21% Fold: OB-fold Superfamily: Heme chaperone CcmE Family: Heme chaperone CcmE Phyre2 PDB 2kct chain A Region: 42 - 119 Aligned: 67 Modelled: 78 Confidence: 49.5% Identity: 16% PDB header:chaperone Chain: A: PDB Molecule:cytochrome c-type biogenesis protein ccme; PDBTitle: solution nmr structure of the ob-fold domain of heme2 chaperone ccme from desulfovibrio vulgaris. northeast3 structural genomics target dvr115g. Phyre2 PDB 2r9q chain D Region: 69 - 104 Aligned: 36 Modelled: 36 Confidence: 40.9% Identity: 22% PDB header:hydrolase Chain: D: PDB Molecule:2'-deoxycytidine 5'-triphosphate deaminase; PDBTitle: crystal structure of 2'-deoxycytidine 5'-triphosphate deaminase from2 agrobacterium tumefaciens Phyre2 PDB 3h43 chain F Region: 89 - 114 Aligned: 26 Modelled: 26 Confidence: 27.8% Identity: 19% PDB header:hydrolase Chain: F: PDB Molecule:proteasome-activating nucleotidase; PDBTitle: n-terminal domain of the proteasome-activating nucleotidase2 of methanocaldococcus jannaschii Phyre2 PDB 2wkd chain A Region: 96 - 137 Aligned: 32 Modelled: 42 Confidence: 27.7% Identity: 25% PDB header:dna binding protein Chain: A: PDB Molecule:orf34p2; PDBTitle: crystal structure of a double ile-to-met mutant of protein2 orf34 from lactococcus phage p2 Phyre2 PDB 1n9w chain A domain 1 Region: 43 - 73 Aligned: 31 Modelled: 31 Confidence: 26.4% Identity: 16% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Anticodon-binding domain Phyre2 PDB 2jwy chain A Region: 42 - 127 Aligned: 86 Modelled: 86 Confidence: 25.2% Identity: 13% PDB header:lipoprotein Chain: A: PDB Molecule:uncharacterized lipoprotein yaji; PDBTitle: solution nmr structure of uncharacterized lipoprotein yaji from2 escherichia coli. northeast structural genomics target er540 Phyre2 PDB 2wg6 chain L Region: 89 - 114 Aligned: 26 Modelled: 26 Confidence: 24.9% Identity: 8% PDB header:transcription,hydrolase Chain: L: PDB Molecule:general control protein gcn4, PDBTitle: proteasome-activating nucleotidase (pan) n-domain (57-134)2 from archaeoglobus fulgidus fused to gcn4, p61a mutant Phyre2 PDB 2z14 chain A Region: 47 - 118 Aligned: 72 Modelled: 72 Confidence: 24.6% Identity: 17% PDB header:signaling protein Chain: A: PDB Molecule:ef-hand domain-containing family member c2; PDBTitle: crystal structure of the n-terminal duf1126 in human ef-2 hand domain containing 2 protein Phyre2 PDB 2wp8 chain J Region: 57 - 122 Aligned: 65 Modelled: 66 Confidence: 23.5% Identity: 28% PDB header:hydrolase Chain: J: PDB Molecule:exosome complex exonuclease dis3; PDBTitle: yeast rrp44 nuclease Phyre2 PDB 2pi2 chain E domain 1 Region: 42 - 120 Aligned: 61 Modelled: 79 Confidence: 20.2% Identity: 15% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Single strand DNA-binding domain, SSB Phyre2 PDB 1l0w chain A domain 1 Region: 46 - 73 Aligned: 28 Modelled: 28 Confidence: 18.1% Identity: 18% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Anticodon-binding domain Phyre2 PDB 1wyd chain B Region: 41 - 143 Aligned: 83 Modelled: 89 Confidence: 17.9% Identity: 12% PDB header:ligase Chain: B: PDB Molecule:hypothetical aspartyl-trna synthetase; PDBTitle: crystal structure of aspartyl-trna synthetase from sulfolobus tokodaii Phyre2 PDB 2vnu chain D domain 1 Region: 93 - 122 Aligned: 30 Modelled: 30 Confidence: 17.9% Identity: 33% Fold: OB-fold Superfamily: Nucleic acid-binding proteins Family: Cold shock DNA-binding domain-like Phyre2 PDB 1t3t chain A domain 6 Region: 88 - 126 Aligned: 39 Modelled: 39 Confidence: 16.8% Identity: 18% Fold: PurM C-terminal domain-like Superfamily: PurM C-terminal domain-like Family: PurM C-terminal domain-like Phyre2 PDB 1vqw chain B Region: 16 - 116 Aligned: 99 Modelled: 100 Confidence: 14.4% Identity: 14% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein with similarity to flavin-containing PDBTitle: crystal structure of a protein with similarity to flavin-2 containing monooxygenases and to mammalian dimethylalanine3 monooxygenases Phyre2 PDB 1yrl chain D Region: 81 - 116 Aligned: 35 Modelled: 36 Confidence: 11.9% Identity: 20% PDB header:oxidoreductase Chain: D: PDB Molecule:ketol-acid reductoisomerase; PDBTitle: escherichia coli ketol-acid reductoisomerase Phyre2 PDB 3i7f chain A Region: 26 - 73 Aligned: 48 Modelled: 48 Confidence: 11.5% Identity: 6% PDB header:ligase Chain: A: PDB Molecule:aspartyl-trna synthetase; PDBTitle: aspartyl trna synthetase from entamoeba histolytica Phyre2 1 c1j6qA_ 2 d1j6qa_ 3 d1sr3a_ 4 c2kctA_ 5 c2r9qD_ 6 c3h43F_ 7 c2wkdA_ 8 d1n9wa1 9 c2jwyA_ 10 c2wg6L_ 11 c2z14A_ 12 c2wp8J_ 13 d2pi2e1 14 d1l0wa1 15 c1wydB_ 16 d2vnud1 17 d1t3ta6 18 c1vqwB_ 19 c1yrlD_ 20 c3i7fA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49

Detailed template information

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

1 c1j6qA_ 82.3 17 PDB header:chaperone Chain: A: PDB Molecule:cytochrome c maturation protein e; PDBTitle: solution structure and characterization of the heme2 chaperone ccme 2 d1j6qa_ 82.3 17 Fold:OB-fold Superfamily:Heme chaperone CcmE Family:Heme chaperone CcmE 3 d1sr3a_ 66.0 21 Fold:OB-fold Superfamily:Heme chaperone CcmE Family:Heme chaperone CcmE 4 c2kctA_ 49.5 16 PDB header:chaperone Chain: A: PDB Molecule:cytochrome c-type biogenesis protein ccme; PDBTitle: solution nmr structure of the ob-fold domain of heme2 chaperone ccme from desulfovibrio vulgaris. northeast3 structural genomics target dvr115g. 5 c2r9qD_ 40.9 22 PDB header:hydrolase Chain: D: PDB Molecule:2'-deoxycytidine 5'-triphosphate deaminase; PDBTitle: crystal structure of 2'-deoxycytidine 5'-triphosphate deaminase from2 agrobacterium tumefaciens 6 c3h43F_ 27.8 19 PDB header:hydrolase Chain: F: PDB Molecule:proteasome-activating nucleotidase; PDBTitle: n-terminal domain of the proteasome-activating nucleotidase2 of methanocaldococcus jannaschii 7 c2wkdA_ 27.7 25 PDB header:dna binding protein Chain: A: PDB Molecule:orf34p2; PDBTitle: crystal structure of a double ile-to-met mutant of protein2 orf34 from lactococcus phage p2 8 d1n9wa1 26.4 16 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 9 c2jwyA_ 25.2 13 PDB header:lipoprotein Chain: A: PDB Molecule:uncharacterized lipoprotein yaji; PDBTitle: solution nmr structure of uncharacterized lipoprotein yaji from2 escherichia coli. northeast structural genomics target er540 10 c2wg6L_ 24.9 8 PDB header:transcription,hydrolase Chain: L: PDB Molecule:general control protein gcn4, PDBTitle: proteasome-activating nucleotidase (pan) n-domain (57-134)2 from archaeoglobus fulgidus fused to gcn4, p61a mutant 11 c2z14A_ 24.6 17 PDB header:signaling protein Chain: A: PDB Molecule:ef-hand domain-containing family member c2; PDBTitle: crystal structure of the n-terminal duf1126 in human ef-2 hand domain containing 2 protein 12 c2wp8J_ 23.5 28 PDB header:hydrolase Chain: J: PDB Molecule:exosome complex exonuclease dis3; PDBTitle: yeast rrp44 nuclease 13 d2pi2e1 20.2 15 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 14 d1l0wa1 18.1 18 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 15 c1wydB_ 17.9 12 PDB header:ligase Chain: B: PDB Molecule:hypothetical aspartyl-trna synthetase; PDBTitle: crystal structure of aspartyl-trna synthetase from sulfolobus tokodaii 16 d2vnud1 17.9 33 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 17 d1t3ta6 16.8 18 Fold:PurM C-terminal domain-like Superfamily:PurM C-terminal domain-like Family:PurM C-terminal domain-like 18 c1vqwB_ 14.4 14 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein with similarity to flavin-containing PDBTitle: crystal structure of a protein with similarity to flavin-2 containing monooxygenases and to mammalian dimethylalanine3 monooxygenases 19 c1yrlD_ 11.9 20 PDB header:oxidoreductase Chain: D: PDB Molecule:ketol-acid reductoisomerase; PDBTitle: escherichia coli ketol-acid reductoisomerase 20 c3i7fA_ 11.5 6 PDB header:ligase Chain: A: PDB Molecule:aspartyl-trna synthetase; PDBTitle: aspartyl trna synthetase from entamoeba histolytica 21 c2zauB_ not modelled 11.3 15 PDB header:transferase Chain: B: PDB Molecule:selenide, water dikinase; PDBTitle: crystal structure of an n-terminally truncated2 selenophosphate synthetase from aquifex aeolicus 22 d1ps9a2 not modelled 10.8 18 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:C-terminal domain of adrenodoxin reductase-like 23 d2jn4a1 not modelled 10.3 35 Fold:NifT/FixU barrel-like Superfamily:NifT/FixU-like Family:NifT/FixU 24 c2jn4A_ not modelled 10.3 35 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein fixu, nift; PDBTitle: solution nmr structure of protein rp4601 from2 rhodopseudomonas palustris. northeast structural genomics3 consortium target rpt2; ontario center for structural4 proteomics target rp4601. 25 d1so0a_ not modelled 9.7 19 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:Aldose 1-epimerase (mutarotase) 26 c2p39A_ not modelled 9.4 19 PDB header:signaling protein Chain: A: PDB Molecule:fibroblast growth factor 23; PDBTitle: crystal structure of human fgf23 27 c1pwaA_ not modelled 9.4 27 PDB header:hormone/growth factor Chain: A: PDB Molecule:fibroblast growth factor-19; PDBTitle: crystal structure of fibroblast growth factor 19 28 d1pwaa_ not modelled 9.4 27 Fold:beta-Trefoil Superfamily:Cytokine Family:Fibroblast growth factors (FGF) 29 c2pqaB_ not modelled 9.2 13 PDB header:replication Chain: B: PDB Molecule:replication protein a 14 kda subunit; PDBTitle: crystal structure of full-length human rpa 14/32 heterodimer 30 c2zodB_ not modelled 9.1 15 PDB header:transferase Chain: B: PDB Molecule:selenide, water dikinase; PDBTitle: crystal structure of selenophosphate synthetase from2 aquifex aeolicus 31 c2pi2A_ not modelled 7.1 17 PDB header:replication, dna binding protein Chain: A: PDB Molecule:replication protein a 32 kda subunit; PDBTitle: full-length replication protein a subunits rpa14 and rpa32 32 d1geha2 not modelled 7.1 8 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 33 d1krta_ not modelled 7.0 8 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 34 d1yloa1 not modelled 6.9 13 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like Superfamily:Aminopeptidase/glucanase lid domain Family:Aminopeptidase/glucanase lid domain 35 d2z1ea2 not modelled 6.8 13 Fold:PurM C-terminal domain-like Superfamily:PurM C-terminal domain-like Family:PurM C-terminal domain-like 36 d1c0aa1 not modelled 6.6 21 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Anticodon-binding domain 37 c3m9bK_ not modelled 6.6 12 PDB header:chaperone Chain: K: PDB Molecule:proteasome-associated atpase; PDBTitle: crystal structure of the amino terminal coiled coil domain and the2 inter domain of the mycobacterium tuberculosis proteasomal atpase mpa 38 d2gycb1 not modelled 6.6 20 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:Ribosomal protein L3 39 d2ijra1 not modelled 6.6 28 Fold:Api92-like Superfamily:Api92-like Family:Api92-like 40 c1b8aB_ not modelled 6.4 22 PDB header:ligase Chain: B: PDB Molecule:protein (aspartyl-trna synthetase); PDBTitle: aspartyl-trna synthetase 41 c3stbC_ not modelled 6.2 9 PDB header:rna binding protein/immune system Chain: C: PDB Molecule:rna-editing complex protein mp42; PDBTitle: a complex of two editosome proteins and two nanobodies 42 d1b33n_ not modelled 6.1 50 Fold:Allophycocyanin linker chain (domain) Superfamily:Allophycocyanin linker chain (domain) Family:Allophycocyanin linker chain (domain) 43 d2ns0a1 not modelled 6.0 32 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:RHA1 ro06458-like 44 d2zoda2 not modelled 5.7 15 Fold:PurM C-terminal domain-like Superfamily:PurM C-terminal domain-like Family:PurM C-terminal domain-like 45 c3gwdA_ not modelled 5.6 26 PDB header:oxidoreductase Chain: A: PDB Molecule:cyclohexanone monooxygenase; PDBTitle: closed crystal structure of cyclohexanone monooxygenase 46 d2d69a2 not modelled 5.6 20 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 47 d2j01e1 not modelled 5.4 20 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:Ribosomal protein L3 48 c2esyA_ not modelled 5.4 45 PDB header:lipid binding protein Chain: A: PDB Molecule:lung surfactant protein c; PDBTitle: structure and influence on stability and activity of the n-2 terminal propetide part of lung surfactant protein c 49 d2gv8a2 not modelled 5.2 23 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:FAD/NAD-linked reductases, N-terminal and central domains

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