Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	E	L	V	I	V	S	R	L	L	E	Y	P	D	A	A	L	W	Q	H	Q	Q	E	M	F	E	A	I	A	A	S	K	N	L	P	K	E	D	A	H	A	L	G	I	F	L	R	D	L	T	T	M	D	P	L	D	A	Q	A
Secondary structure
SS confidence
Disorder		?																																?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	Y	S	E	L	F	D	R	G	R	A	T	S	L	L	L	F	E	H	V	H	G	E	S	R	D	R	G	Q	A	M	V	D	L	L	A	Q	Y	E	Q	H	G	L	Q	L	N	S	R	E	L	P	D	H	L	P	L	Y	L	E	Y
Secondary structure
SS confidence
Disorder																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	A	Q	L	P	Q	S	E	A	V	E	G	L	K	D	I	A	P	I	L	A	L	L	S	A	R	L	Q	Q	R	E	S	R	Y	A	V	L	F	D	L	L	L	K	L	A	N	T	A	I	D	S	D	K	V	A	E	K	I	A	D
Secondary structure
SS confidence
Disorder																																																?	?	?	?	?	?								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.
Sequence		E	A	R	D	D	T	P	Q	A	L	D	A	V	W	E	E	E	Q	V	K	F	F	A	D	K	G	C	G	D	S	A	I	T	A	H	Q	R	R	F	A	G	A	V	A	P	Q	Y	L	N	I	T	T	G	G	Q	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 2o9x chain A domain 1 Region: 3 - 164 Aligned: 145 Modelled: 162 Confidence: 100.0% Identity: 24% Fold: TorD-like Superfamily: TorD-like Family: TorD-like Phyre2 PDB 2o9x chain A Region: 3 - 164 Aligned: 144 Modelled: 162 Confidence: 100.0% Identity: 22% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:reductase, assembly protein; PDBTitle: crystal structure of a putative redox enzyme maturation protein from2 archaeoglobus fulgidus Phyre2 PDB 1n1c chain A Region: 2 - 163 Aligned: 158 Modelled: 162 Confidence: 99.9% Identity: 22% Fold: TorD-like Superfamily: TorD-like Family: TorD-like Phyre2 PDB 1s9u chain A Region: 2 - 164 Aligned: 158 Modelled: 163 Confidence: 99.9% Identity: 17% Fold: TorD-like Superfamily: TorD-like Family: TorD-like Phyre2 PDB 2idg chain A domain 1 Region: 94 - 146 Aligned: 52 Modelled: 52 Confidence: 98.6% Identity: 23% Fold: TorD-like Superfamily: TorD-like Family: TorD-like Phyre2 PDB 1lva chain A domain 3 Region: 84 - 114 Aligned: 31 Modelled: 31 Confidence: 28.7% Identity: 23% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: C-terminal fragment of elongation factor SelB Phyre2 PDB 3ol4 chain B Region: 135 - 193 Aligned: 57 Modelled: 59 Confidence: 17.2% Identity: 19% 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 Phyre2 PDB 2di4 chain B Region: 127 - 170 Aligned: 44 Modelled: 44 Confidence: 14.6% Identity: 16% PDB header:hydrolase Chain: B: PDB Molecule:cell division protein ftsh homolog; PDBTitle: crystal structure of the ftsh protease domain Phyre2 PDB 2ce7 chain A domain 1 Region: 79 - 163 Aligned: 85 Modelled: 85 Confidence: 11.1% Identity: 15% Fold: FtsH protease domain-like Superfamily: FtsH protease domain-like Family: FtsH protease domain-like Phyre2 PDB 2ejn chain A domain 2 Region: 68 - 104 Aligned: 37 Modelled: 37 Confidence: 8.2% Identity: 22% Fold: Uteroglobin-like Superfamily: Uteroglobin-like Family: Uteroglobin-like Phyre2 PDB 2d6f chain C domain 2 Region: 83 - 113 Aligned: 30 Modelled: 31 Confidence: 7.9% Identity: 27% Fold: DCoH-like Superfamily: GAD domain-like Family: GAD domain Phyre2 PDB 2kvc chain A Region: 134 - 193 Aligned: 56 Modelled: 60 Confidence: 7.6% Identity: 25% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: solution structure of the mycobacterium tuberculosis protein rv0543c,2 a member of the duf3349 superfamily. seattle structural genomics3 center for infectious disease target mytud.17112.a Phyre2 PDB 2g3a chain A domain 1 Region: 95 - 113 Aligned: 18 Modelled: 19 Confidence: 7.5% Identity: 28% Fold: Acyl-CoA N-acyltransferases (Nat) Superfamily: Acyl-CoA N-acyltransferases (Nat) Family: N-acetyl transferase, NAT Phyre2 PDB 1ghe chain A Region: 95 - 113 Aligned: 18 Modelled: 19 Confidence: 7.3% Identity: 28% Fold: Acyl-CoA N-acyltransferases (Nat) Superfamily: Acyl-CoA N-acyltransferases (Nat) Family: N-acetyl transferase, NAT Phyre2 PDB 3ka1 chain A Region: 117 - 155 Aligned: 39 Modelled: 39 Confidence: 7.1% Identity: 13% PDB header:chaperone Chain: A: PDB Molecule:rbcx protein; PDBTitle: crystal structure of rbcx from thermosynechococcus elongatus Phyre2 PDB 1yx0 chain A domain 1 Region: 95 - 113 Aligned: 18 Modelled: 19 Confidence: 6.9% Identity: 28% Fold: Acyl-CoA N-acyltransferases (Nat) Superfamily: Acyl-CoA N-acyltransferases (Nat) Family: N-acetyl transferase, NAT Phyre2 PDB 2pen chain E Region: 117 - 155 Aligned: 39 Modelled: 39 Confidence: 6.6% Identity: 18% PDB header:chaperone Chain: E: PDB Molecule:orf134; PDBTitle: crystal structure of rbcx, crystal form i Phyre2 PDB 2peq chain A domain 1 Region: 117 - 155 Aligned: 39 Modelled: 39 Confidence: 6.5% Identity: 18% Fold: RbcX-like Superfamily: RbcX-like Family: RbcX-like Phyre2 PDB 2g9m chain B Region: 1 - 50 Aligned: 50 Modelled: 50 Confidence: 6.5% Identity: 18% PDB header:electron transport Chain: B: PDB Molecule:phycoerythrin; PDBTitle: crystal structure of the pigment protein phycoerythrin from2 cyanobacterium at 2.6a resolution Phyre2 PDB 2lky chain A Region: 134 - 193 Aligned: 56 Modelled: 60 Confidence: 5.9% Identity: 27% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of msmeg_1053, the second duf3349 annotated protein2 in the genome of mycobacterium smegmatis, seattle structural genomics3 center for infectious disease target mysma.17112.b Phyre2 1 d2o9xa1 2 c2o9xA_ 3 d1n1ca_ 4 d1s9ua_ 5 d2idga1 6 d1lvaa3 7 c3ol4B_ 8 c2di4B_ 9 d2ce7a1 10 d2ejna2 11 d2d6fc2 12 c2kvcA_ 13 d2g3aa1 14 d1ghea_ 15 c3ka1A_ 16 d1yx0a1 17 c2penE_ 18 d2peqa1 19 c2g9mB_ 20 c2lkyA_ 21 22 23 24 25 26

Detailed template information

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

1 d2o9xa1 100.0 24 Fold:TorD-like Superfamily:TorD-like Family:TorD-like 2 c2o9xA_ 100.0 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:reductase, assembly protein; PDBTitle: crystal structure of a putative redox enzyme maturation protein from2 archaeoglobus fulgidus 3 d1n1ca_ 99.9 22 Fold:TorD-like Superfamily:TorD-like Family:TorD-like 4 d1s9ua_ 99.9 17 Fold:TorD-like Superfamily:TorD-like Family:TorD-like 5 d2idga1 98.6 23 Fold:TorD-like Superfamily:TorD-like Family:TorD-like 6 d1lvaa3 28.7 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:C-terminal fragment of elongation factor SelB 7 c3ol4B_ 17.2 19 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 8 c2di4B_ 14.6 16 PDB header:hydrolase Chain: B: PDB Molecule:cell division protein ftsh homolog; PDBTitle: crystal structure of the ftsh protease domain 9 d2ce7a1 11.1 15 Fold:FtsH protease domain-like Superfamily:FtsH protease domain-like Family:FtsH protease domain-like 10 d2ejna2 8.2 22 Fold:Uteroglobin-like Superfamily:Uteroglobin-like Family:Uteroglobin-like 11 d2d6fc2 7.9 27 Fold:DCoH-like Superfamily:GAD domain-like Family:GAD domain 12 c2kvcA_ 7.6 25 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: solution structure of the mycobacterium tuberculosis protein rv0543c,2 a member of the duf3349 superfamily. seattle structural genomics3 center for infectious disease target mytud.17112.a 13 d2g3aa1 7.5 28 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:N-acetyl transferase, NAT 14 d1ghea_ 7.3 28 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:N-acetyl transferase, NAT 15 c3ka1A_ 7.1 13 PDB header:chaperone Chain: A: PDB Molecule:rbcx protein; PDBTitle: crystal structure of rbcx from thermosynechococcus elongatus 16 d1yx0a1 6.9 28 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:N-acetyl transferase, NAT 17 c2penE_ 6.6 18 PDB header:chaperone Chain: E: PDB Molecule:orf134; PDBTitle: crystal structure of rbcx, crystal form i 18 d2peqa1 6.5 18 Fold:RbcX-like Superfamily:RbcX-like Family:RbcX-like 19 c2g9mB_ 6.5 18 PDB header:electron transport Chain: B: PDB Molecule:phycoerythrin; PDBTitle: crystal structure of the pigment protein phycoerythrin from2 cyanobacterium at 2.6a resolution 20 c2lkyA_ 5.9 27 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of msmeg_1053, the second duf3349 annotated protein2 in the genome of mycobacterium smegmatis, seattle structural genomics3 center for infectious disease target mysma.17112.b 21 d2py8a1 not modelled 5.9 18 Fold:RbcX-like Superfamily:RbcX-like Family:RbcX-like 22 c3n4sC_ not modelled 5.7 33 PDB header:replication Chain: C: PDB Molecule:monopolin complex subunit csm1; PDBTitle: structure of csm1 c-terminal domain, p21212 form 23 c3lisB_ not modelled 5.6 11 PDB header:transcription Chain: B: PDB Molecule:csp231i c protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.csp231i (monoclinic form) 24 c2r7hA_ not modelled 5.5 22 PDB header:transferase Chain: A: PDB Molecule:putative d-alanine n-acetyltransferase of gnat family; PDBTitle: crystal structure of a putative acetyltransferase of the gnat family2 (dde_3044) from desulfovibrio desulfuricans subsp. at 1.85 a3 resolution 25 c2py8B_ not modelled 5.5 18 PDB header:chaperone Chain: B: PDB Molecule:hypothetical protein rbcx; PDBTitle: rbcx 26 d1qaza_ not modelled 5.3 29 Fold:alpha/alpha toroid Superfamily:Chondroitin AC/alginate lyase Family:Alginate lyase A1-III

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