Secondary structure and disorder prediction

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Sequence		M	N	N	N	E	P	D	T	L	P	D	P	A	I	G	Y	I	F	Q	N	D	I	V	A	L	K	Q	A	F	S	L	P	D	I	D	Y	A	D	I	S	Q	R	E	Q	L	A	A	A	L	K	R	W	P	L	L	A	E	F	A	Q
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?		?																																													?
Disorder confidence
		.	.
Sequence		Q	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 1gq2 chain A domain 2 Region: 26 - 53 Aligned: 28 Modelled: 28 Confidence: 27.2% Identity: 32% Fold: Aminoacid dehydrogenase-like, N-terminal domain Superfamily: Aminoacid dehydrogenase-like, N-terminal domain Family: Malic enzyme N-domain Phyre2 PDB 1pj3 chain A domain 2 Region: 26 - 53 Aligned: 28 Modelled: 28 Confidence: 21.8% Identity: 25% Fold: Aminoacid dehydrogenase-like, N-terminal domain Superfamily: Aminoacid dehydrogenase-like, N-terminal domain Family: Malic enzyme N-domain Phyre2 PDB 2aw5 chain A Region: 26 - 53 Aligned: 28 Modelled: 28 Confidence: 14.4% Identity: 29% PDB header:oxidoreductase Chain: A: PDB Molecule:nadp-dependent malic enzyme; PDBTitle: crystal structure of a human malic enzyme Phyre2 PDB 3ps9 chain A Region: 42 - 61 Aligned: 20 Modelled: 20 Confidence: 13.1% Identity: 50% PDB header:transferase Chain: A: PDB Molecule:trna 5-methylaminomethyl-2-thiouridine biosynthesis PDBTitle: crystal structure of mnmc from e. coli Phyre2 PDB 1gz3 chain B Region: 26 - 53 Aligned: 28 Modelled: 28 Confidence: 11.9% Identity: 25% PDB header:oxidoreductase Chain: B: PDB Molecule:nad-dependent malic enzyme; PDBTitle: molecular mechanism for the regulation of human mitochondrial2 nad(p)+-dependent malic enzyme by atp and fumarate Phyre2 PDB 1dt0 chain A domain 1 Region: 28 - 36 Aligned: 9 Modelled: 9 Confidence: 11.3% Identity: 56% Fold: Long alpha-hairpin Superfamily: Fe,Mn superoxide dismutase (SOD), N-terminal domain Family: Fe,Mn superoxide dismutase (SOD), N-terminal domain Phyre2 PDB 1qr6 chain A Region: 26 - 53 Aligned: 28 Modelled: 28 Confidence: 10.6% Identity: 25% PDB header:oxidoreductase Chain: A: PDB Molecule:malic enzyme 2; PDBTitle: human mitochondrial nad(p)-dependent malic enzyme Phyre2 PDB 1y67 chain A domain 1 Region: 28 - 36 Aligned: 9 Modelled: 9 Confidence: 10.1% Identity: 44% Fold: Long alpha-hairpin Superfamily: Fe,Mn superoxide dismutase (SOD), N-terminal domain Family: Fe,Mn superoxide dismutase (SOD), N-terminal domain Phyre2 PDB 1my6 chain A domain 1 Region: 28 - 36 Aligned: 9 Modelled: 9 Confidence: 9.0% Identity: 22% Fold: Long alpha-hairpin Superfamily: Fe,Mn superoxide dismutase (SOD), N-terminal domain Family: Fe,Mn superoxide dismutase (SOD), N-terminal domain Phyre2 PDB 1zke chain A domain 1 Region: 19 - 41 Aligned: 23 Modelled: 23 Confidence: 8.8% Identity: 30% Fold: ROP-like Superfamily: HP1531-like Family: HP1531-like Phyre2 PDB 1ix9 chain A domain 1 Region: 28 - 36 Aligned: 9 Modelled: 9 Confidence: 8.1% Identity: 33% Fold: Long alpha-hairpin Superfamily: Fe,Mn superoxide dismutase (SOD), N-terminal domain Family: Fe,Mn superoxide dismutase (SOD), N-terminal domain Phyre2 PDB 1reg chain X Region: 33 - 54 Aligned: 22 Modelled: 22 Confidence: 8.0% Identity: 27% Fold: Ferredoxin-like Superfamily: Translational regulator protein regA Family: Translational regulator protein regA Phyre2 PDB 1o0s chain A domain 2 Region: 22 - 53 Aligned: 32 Modelled: 32 Confidence: 7.8% Identity: 16% Fold: Aminoacid dehydrogenase-like, N-terminal domain Superfamily: Aminoacid dehydrogenase-like, N-terminal domain Family: Malic enzyme N-domain Phyre2 PDB 2j8b chain A domain 1 Region: 21 - 36 Aligned: 16 Modelled: 16 Confidence: 7.5% Identity: 6% Fold: Snake toxin-like Superfamily: Snake toxin-like Family: Extracellular domain of cell surface receptors Phyre2 PDB 3rnv chain A Region: 15 - 59 Aligned: 45 Modelled: 45 Confidence: 7.5% Identity: 24% PDB header:hydrolase Chain: A: PDB Molecule:helper component proteinase; PDBTitle: structure of the autocatalytic cysteine protease domain of potyvirus2 helper-component proteinase Phyre2 PDB 2hdl chain A Region: 32 - 39 Aligned: 8 Modelled: 8 Confidence: 7.1% Identity: 50% PDB header:cytokine Chain: A: PDB Molecule:small inducible cytokine b14; PDBTitle: solution structure of brak/cxcl14 Phyre2 PDB 2nyb chain A domain 1 Region: 28 - 36 Aligned: 9 Modelled: 9 Confidence: 7.1% Identity: 44% Fold: Long alpha-hairpin Superfamily: Fe,Mn superoxide dismutase (SOD), N-terminal domain Family: Fe,Mn superoxide dismutase (SOD), N-terminal domain Phyre2 PDB 3lrr chain B Region: 29 - 39 Aligned: 11 Modelled: 11 Confidence: 7.1% Identity: 27% PDB header:hydrolase/rna Chain: B: PDB Molecule:probable atp-dependent rna helicase ddx58; PDBTitle: crystal structure of human rig-i ctd bound to a 12 bp au rich 5' ppp2 dsrna Phyre2 PDB 2g6t chain A domain 1 Region: 33 - 48 Aligned: 16 Modelled: 16 Confidence: 6.8% Identity: 25% Fold: CAC2185-like Superfamily: CAC2185-like Family: CAC2185-like Phyre2 PDB 3ga3 chain A Region: 29 - 39 Aligned: 11 Modelled: 11 Confidence: 6.5% Identity: 27% PDB header:hydrolase Chain: A: PDB Molecule:interferon-induced helicase c domain-containing PDBTitle: crystal structure of the c-terminal domain of human mda5 Phyre2 1 d1gq2a2 2 d1pj3a2 3 c2aw5A_ 4 c3ps9A_ 5 c1gz3B_ 6 d1dt0a1 7 c1qr6A_ 8 d1y67a1 9 d1my6a1 10 d1zkea1 11 d1ix9a1 12 d1regx_ 13 d1o0sa2 14 d2j8ba1 15 c3rnvA_ 16 c2hdlA_ 17 d2nyba1 18 c3lrrB_ 19 d2g6ta1 20 c3ga3A_ 21 22 23 24

Detailed template information

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

1 d1gq2a2 27.2 32 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Malic enzyme N-domain 2 d1pj3a2 21.8 25 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Malic enzyme N-domain 3 c2aw5A_ 14.4 29 PDB header:oxidoreductase Chain: A: PDB Molecule:nadp-dependent malic enzyme; PDBTitle: crystal structure of a human malic enzyme 4 c3ps9A_ 13.1 50 PDB header:transferase Chain: A: PDB Molecule:trna 5-methylaminomethyl-2-thiouridine biosynthesis PDBTitle: crystal structure of mnmc from e. coli 5 c1gz3B_ 11.9 25 PDB header:oxidoreductase Chain: B: PDB Molecule:nad-dependent malic enzyme; PDBTitle: molecular mechanism for the regulation of human mitochondrial2 nad(p)+-dependent malic enzyme by atp and fumarate 6 d1dt0a1 11.3 56 Fold:Long alpha-hairpin Superfamily:Fe,Mn superoxide dismutase (SOD), N-terminal domain Family:Fe,Mn superoxide dismutase (SOD), N-terminal domain 7 c1qr6A_ 10.6 25 PDB header:oxidoreductase Chain: A: PDB Molecule:malic enzyme 2; PDBTitle: human mitochondrial nad(p)-dependent malic enzyme 8 d1y67a1 10.1 44 Fold:Long alpha-hairpin Superfamily:Fe,Mn superoxide dismutase (SOD), N-terminal domain Family:Fe,Mn superoxide dismutase (SOD), N-terminal domain 9 d1my6a1 9.0 22 Fold:Long alpha-hairpin Superfamily:Fe,Mn superoxide dismutase (SOD), N-terminal domain Family:Fe,Mn superoxide dismutase (SOD), N-terminal domain 10 d1zkea1 8.8 30 Fold:ROP-like Superfamily:HP1531-like Family:HP1531-like 11 d1ix9a1 8.1 33 Fold:Long alpha-hairpin Superfamily:Fe,Mn superoxide dismutase (SOD), N-terminal domain Family:Fe,Mn superoxide dismutase (SOD), N-terminal domain 12 d1regx_ 8.0 27 Fold:Ferredoxin-like Superfamily:Translational regulator protein regA Family:Translational regulator protein regA 13 d1o0sa2 7.8 16 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Malic enzyme N-domain 14 d2j8ba1 7.5 6 Fold:Snake toxin-like Superfamily:Snake toxin-like Family:Extracellular domain of cell surface receptors 15 c3rnvA_ 7.5 24 PDB header:hydrolase Chain: A: PDB Molecule:helper component proteinase; PDBTitle: structure of the autocatalytic cysteine protease domain of potyvirus2 helper-component proteinase 16 c2hdlA_ 7.1 50 PDB header:cytokine Chain: A: PDB Molecule:small inducible cytokine b14; PDBTitle: solution structure of brak/cxcl14 17 d2nyba1 7.1 44 Fold:Long alpha-hairpin Superfamily:Fe,Mn superoxide dismutase (SOD), N-terminal domain Family:Fe,Mn superoxide dismutase (SOD), N-terminal domain 18 c3lrrB_ 7.1 27 PDB header:hydrolase/rna Chain: B: PDB Molecule:probable atp-dependent rna helicase ddx58; PDBTitle: crystal structure of human rig-i ctd bound to a 12 bp au rich 5' ppp2 dsrna 19 d2g6ta1 6.8 25 Fold:CAC2185-like Superfamily:CAC2185-like Family:CAC2185-like 20 c3ga3A_ 6.5 27 PDB header:hydrolase Chain: A: PDB Molecule:interferon-induced helicase c domain-containing PDBTitle: crystal structure of the c-terminal domain of human mda5 21 c3ol4B_ not modelled 5.7 25 PDB header:unknown function Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of a putative uncharacterized protein from2 mycobacterium smegmatis, an ortholog of rv0543c 22 c1o0sB_ not modelled 5.2 16 PDB header:oxidoreductase Chain: B: PDB Molecule:nad-dependent malic enzyme; PDBTitle: crystal structure of ascaris suum malic enzyme complexed with nadh 23 d2hi3a1 not modelled 5.1 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 24 c1zmrA_ not modelled 5.0 18 PDB header:transferase Chain: A: PDB Molecule:phosphoglycerate kinase; PDBTitle: crystal structure of the e. coli phosphoglycerate kinase

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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