Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	H	R	Y	L	R	E	K	C	F	A	L	N	L	N	W	K	C	K	L	F	L	T	P	P	K	S	F	W	G	T	T	H	A	Y	N	F	C	P	I	H	F	L	Q	A	L	P	S	L	P	L	S	R	N	V	E	V	A	Y
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	M	P	L	I	F	V	D	V	N	G	P	S	D	V	E	V	V	R	S	F	D	V	S	T	Y	L	P	L	M	P	F	S	A	R	A	L	D	F	M	I	T	K	S	A	H	F	S	A	A	T	Y	C	G	S	F	S	T	F	P
Secondary structure
SS confidence
Disorder																																												?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.
Sequence		A	H	A	V	I	V	K	T	V	A	A	A	N	N	L	P	G	F	I	F	I	P	Y	W	V	Y
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 1gr0 chain A domain 1 Region: 39 - 83 Aligned: 43 Modelled: 45 Confidence: 29.5% Identity: 23% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain Phyre2 PDB 1uwc chain A Region: 105 - 141 Aligned: 37 Modelled: 37 Confidence: 14.1% Identity: 22% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Fungal lipases Phyre2 PDB 1mkf chain A Region: 19 - 43 Aligned: 24 Modelled: 25 Confidence: 13.5% Identity: 33% Fold: Viral chemokine binding protein m3 Superfamily: Viral chemokine binding protein m3 Family: Viral chemokine binding protein m3 Phyre2 PDB 1oe4 chain A Region: 26 - 46 Aligned: 21 Modelled: 21 Confidence: 12.8% Identity: 29% Fold: Uracil-DNA glycosylase-like Superfamily: Uracil-DNA glycosylase-like Family: Single-strand selective monofunctional uracil-DNA glycosylase SMUG1 Phyre2 PDB 3dml chain A Region: 50 - 86 Aligned: 37 Modelled: 37 Confidence: 11.5% Identity: 11% PDB header:oxidoreductase Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the periplasmic thioredoxin soxs from2 paracoccus pantotrophus (reduced form) Phyre2 PDB 3ofe chain B Region: 64 - 76 Aligned: 13 Modelled: 12 Confidence: 10.0% Identity: 38% PDB header:chaperone Chain: B: PDB Molecule:ldlr chaperone boca; PDBTitle: structured domain of drosophila melanogaster boca p41 2 2 crystal form Phyre2 PDB 2qn6 chain A domain 1 Region: 68 - 84 Aligned: 17 Modelled: 17 Confidence: 8.9% Identity: 41% Fold: Reductase/isomerase/elongation factor common domain Superfamily: Translation proteins Family: Elongation factors Phyre2 PDB 2yr1 chain B Region: 54 - 79 Aligned: 26 Modelled: 26 Confidence: 8.7% Identity: 35% PDB header:lyase Chain: B: PDB Molecule:3-dehydroquinate dehydratase; PDBTitle: crystal structure of 3-dehydroquinate dehydratase from geobacillus2 kaustophilus hta426 Phyre2 PDB 1gqn chain A Region: 54 - 79 Aligned: 26 Modelled: 26 Confidence: 8.2% Identity: 31% Fold: TIM beta/alpha-barrel Superfamily: Aldolase Family: Class I aldolase Phyre2 PDB 2eoy chain A Region: 7 - 14 Aligned: 8 Modelled: 8 Confidence: 7.7% Identity: 63% PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 473; PDBTitle: solution structure of the c2h2 type zinc finger (region 557-2 589) of human zinc finger protein 473 Phyre2 PDB 2p6b chain A domain 1 Region: 107 - 125 Aligned: 19 Modelled: 19 Confidence: 7.0% Identity: 26% Fold: Metallo-dependent phosphatases Superfamily: Metallo-dependent phosphatases Family: Protein serine/threonine phosphatase Phyre2 PDB 2p6b chain C Region: 107 - 125 Aligned: 19 Modelled: 19 Confidence: 7.0% Identity: 26% PDB header:hydrolase/hydrolase regulator Chain: C: PDB Molecule:calmodulin-dependent calcineurin a subunit alpha PDBTitle: crystal structure of human calcineurin in complex with2 pvivit peptide Phyre2 PDB 2exu chain A Region: 126 - 141 Aligned: 16 Modelled: 16 Confidence: 6.4% Identity: 25% PDB header:transcription Chain: A: PDB Molecule:transcription initiation protein spt4/spt5; PDBTitle: crystal structure of saccharomyces cerevisiae transcription elongation2 factors spt4-spt5ngn domain Phyre2 PDB 3js3 chain C Region: 53 - 79 Aligned: 27 Modelled: 27 Confidence: 6.3% Identity: 22% PDB header:lyase Chain: C: PDB Molecule:3-dehydroquinate dehydratase; PDBTitle: crystal structure of type i 3-dehydroquinate dehydratase (arod) from2 clostridium difficile with covalent reaction intermediate Phyre2 PDB 1zu1 chain A domain 1 Region: 88 - 113 Aligned: 26 Modelled: 26 Confidence: 6.2% Identity: 23% Fold: beta-beta-alpha zinc fingers Superfamily: beta-beta-alpha zinc fingers Family: HkH motif-containing C2H2 finger Phyre2 PDB 2jog chain A Region: 107 - 125 Aligned: 19 Modelled: 19 Confidence: 5.6% Identity: 26% PDB header:hydrolase Chain: A: PDB Molecule:calmodulin-dependent calcineurin a subunit alpha PDBTitle: structure of the calcineurin-nfat complex Phyre2 PDB 2l3i chain A Region: 16 - 22 Aligned: 7 Modelled: 7 Confidence: 5.5% Identity: 71% PDB header:antimicrobial protein Chain: A: PDB Molecule:aoxki4a, antimicrobial peptide in spider venom; PDBTitle: oxki4a, spider derived antimicrobial peptide Phyre2 PDB 3h7h chain B Region: 126 - 141 Aligned: 16 Modelled: 16 Confidence: 5.3% Identity: 31% PDB header:transcription Chain: B: PDB Molecule:transcription elongation factor spt5; PDBTitle: crystal structure of the human transcription elongation factor dsif,2 hspt4/hspt5 (176-273) Phyre2 PDB 4a56 chain A Region: 2 - 10 Aligned: 9 Modelled: 9 Confidence: 5.3% Identity: 56% PDB header:protein transport Chain: A: PDB Molecule:pullulanase secretion protein puls; PDBTitle: crystal structure of the type 2 secretion system pilotin2 from klebsiella oxytoca Phyre2 PDB 3n2o chain A Region: 30 - 92 Aligned: 51 Modelled: 51 Confidence: 5.2% Identity: 22% PDB header:lyase Chain: A: PDB Molecule:biosynthetic arginine decarboxylase; PDBTitle: x-ray crystal structure of arginine decarboxylase complexed with2 arginine from vibrio vulnificus Phyre2 1 d1gr0a1 2 d1uwca_ 3 d1mkfa_ 4 d1oe4a_ 5 c3dmlA_ 6 c3ofeB_ 7 d2qn6a1 8 c2yr1B_ 9 d1gqna_ 10 c2eoyA_ 11 d2p6ba1 12 c2p6bC_ 13 c2exuA_ 14 c3js3C_ 15 d1zu1a1 16 c2jogA_ 17 c2l3iA_ 18 c3h7hB_ 19 c4a56A_ 20 c3n2oA_ 21 22

Detailed template information

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

1 d1gr0a1 29.5 23 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 2 d1uwca_ 14.1 22 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Fungal lipases 3 d1mkfa_ 13.5 33 Fold:Viral chemokine binding protein m3 Superfamily:Viral chemokine binding protein m3 Family:Viral chemokine binding protein m3 4 d1oe4a_ 12.8 29 Fold:Uracil-DNA glycosylase-like Superfamily:Uracil-DNA glycosylase-like Family:Single-strand selective monofunctional uracil-DNA glycosylase SMUG1 5 c3dmlA_ 11.5 11 PDB header:oxidoreductase Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of the periplasmic thioredoxin soxs from2 paracoccus pantotrophus (reduced form) 6 c3ofeB_ 10.0 38 PDB header:chaperone Chain: B: PDB Molecule:ldlr chaperone boca; PDBTitle: structured domain of drosophila melanogaster boca p41 2 2 crystal form 7 d2qn6a1 8.9 41 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:Elongation factors 8 c2yr1B_ 8.7 35 PDB header:lyase Chain: B: PDB Molecule:3-dehydroquinate dehydratase; PDBTitle: crystal structure of 3-dehydroquinate dehydratase from geobacillus2 kaustophilus hta426 9 d1gqna_ 8.2 31 Fold:TIM beta/alpha-barrel Superfamily:Aldolase Family:Class I aldolase 10 c2eoyA_ 7.7 63 PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 473; PDBTitle: solution structure of the c2h2 type zinc finger (region 557-2 589) of human zinc finger protein 473 11 d2p6ba1 7.0 26 Fold:Metallo-dependent phosphatases Superfamily:Metallo-dependent phosphatases Family:Protein serine/threonine phosphatase 12 c2p6bC_ 7.0 26 PDB header:hydrolase/hydrolase regulator Chain: C: PDB Molecule:calmodulin-dependent calcineurin a subunit alpha PDBTitle: crystal structure of human calcineurin in complex with2 pvivit peptide 13 c2exuA_ 6.4 25 PDB header:transcription Chain: A: PDB Molecule:transcription initiation protein spt4/spt5; PDBTitle: crystal structure of saccharomyces cerevisiae transcription elongation2 factors spt4-spt5ngn domain 14 c3js3C_ 6.3 22 PDB header:lyase Chain: C: PDB Molecule:3-dehydroquinate dehydratase; PDBTitle: crystal structure of type i 3-dehydroquinate dehydratase (arod) from2 clostridium difficile with covalent reaction intermediate 15 d1zu1a1 6.2 23 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:HkH motif-containing C2H2 finger 16 c2jogA_ 5.6 26 PDB header:hydrolase Chain: A: PDB Molecule:calmodulin-dependent calcineurin a subunit alpha PDBTitle: structure of the calcineurin-nfat complex 17 c2l3iA_ 5.5 71 PDB header:antimicrobial protein Chain: A: PDB Molecule:aoxki4a, antimicrobial peptide in spider venom; PDBTitle: oxki4a, spider derived antimicrobial peptide 18 c3h7hB_ 5.3 31 PDB header:transcription Chain: B: PDB Molecule:transcription elongation factor spt5; PDBTitle: crystal structure of the human transcription elongation factor dsif,2 hspt4/hspt5 (176-273) 19 c4a56A_ 5.3 56 PDB header:protein transport Chain: A: PDB Molecule:pullulanase secretion protein puls; PDBTitle: crystal structure of the type 2 secretion system pilotin2 from klebsiella oxytoca 20 c3n2oA_ 5.2 22 PDB header:lyase Chain: A: PDB Molecule:biosynthetic arginine decarboxylase; PDBTitle: x-ray crystal structure of arginine decarboxylase complexed with2 arginine from vibrio vulnificus 21 c3utkA_ not modelled 5.2 56 PDB header:protein transport Chain: A: PDB Molecule:lipoprotein outs; PDBTitle: structure of the pilotin of the type ii secretion system 22 c3solA_ not modelled 5.2 56 PDB header:protein transport Chain: A: PDB Molecule:type ii secretion pathway related protein; PDBTitle: crystal structure of the type 2 secretion system pilotin gsps

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