Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	Q	Q	T	P	L	Y	E	Q	H	T	L	C	G	A	R	M	V	D	F	H	G	W	M	M	P	L	H	Y	G	S	Q	I	D	E	H	H	A	V	R	T	D	A	G	M	F	D	V	S	H	M	T	I	V	D	L	R	G	S
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	T	R	E	F	L	R	Y	L	L	A	N	D	V	A	K	L	T	K	S	G	K	A	L	Y	S	G	M	L	N	A	S	G	G	V	I	D	D	L	I	V	Y	Y	F	T	E	D	F	F	R	L	V	V	N	S	A	T	R	E	K
Secondary structure
SS confidence
Disorder																	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	L	S	W	I	T	Q	H	A	E	P	F	G	I	E	I	T	V	R	D	D	L	S	M	I	A	V	Q	G	P	N	A	Q	A	K	A	A	T	L	F	N	D	A	Q	R	Q	A	V	E	G	M	K	P	F	F	G	V	Q	A	G
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	L	F	I	A	T	T	G	Y	T	G	E	A	G	Y	E	I	A	L	P	N	E	K	A	A	D	F	W	R	A	L	V	E	A	G	V	K	P	C	G	L	G	A	R	D	T	L	R	L	E	A	G	M	N	L	Y	G	Q	E	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		D	E	T	I	S	P	L	A	A	N	M	G	W	T	I	A	W	E	P	A	D	R	D	F	I	G	R	E	A	L	E	V	Q	R	E	H	G	T	E	K	L	V	G	L	V	M	T	E	K	G	V	L	R	N	E	L	P	V	R	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		T	D	A	Q	G	N	Q	H	E	G	I	I	T	S	G	T	F	S	P	T	L	G	Y	S	I	A	L	A	R	V	P	E	G	I	G	E	T	A	I	V	Q	I	R	N	R	E	M	P	V	K	V	T	K	P	V	F	V	R	N	G
Secondary structure
SS confidence
Disorder																																																											?	?	?
Disorder confidence
		.	.	.	.
Sequence		K	A	V	A
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 1vlo chain A Region: 4 - 363 Aligned: 360 Modelled: 360 Confidence: 100.0% Identity: 96% PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of aminomethyltransferase (t protein;2 tetrahydrofolate-dependent) of glycine cleavage system (np417381)3 from escherichia coli k12 at 1.70 a resolution Phyre2 PDB 1pj6 chain A Region: 3 - 363 Aligned: 354 Modelled: 361 Confidence: 100.0% Identity: 25% PDB header:oxidoreductase Chain: A: PDB Molecule:n,n-dimethylglycine oxidase; PDBTitle: crystal structure of dimethylglycine oxidase of arthrobacter2 globiformis in complex with folic acid Phyre2 PDB 1x31 chain A Region: 3 - 363 Aligned: 357 Modelled: 361 Confidence: 100.0% Identity: 26% PDB header:oxidoreductase Chain: A: PDB Molecule:sarcosine oxidase alpha subunit; PDBTitle: crystal structure of heterotetrameric sarcosine oxidase from2 corynebacterium sp. u-96 Phyre2 PDB 1v5v chain A Region: 1 - 362 Aligned: 354 Modelled: 362 Confidence: 100.0% Identity: 37% PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of a component of glycine cleavage system: t-protein2 from pyrococcus horikoshii ot3 at 1.5 a resolution Phyre2 PDB 1wor chain A Region: 3 - 363 Aligned: 353 Modelled: 361 Confidence: 100.0% Identity: 41% PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of t-protein of the glycine cleavage2 system Phyre2 PDB 1wsr chain A Region: 1 - 360 Aligned: 355 Modelled: 360 Confidence: 100.0% Identity: 32% PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of human t-protein of glycine cleavage2 system Phyre2 PDB 3gir chain A Region: 3 - 360 Aligned: 349 Modelled: 354 Confidence: 100.0% Identity: 34% PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of glycine cleavage system2 aminomethyltransferase t from bartonella henselae Phyre2 PDB 1yx2 chain B Region: 3 - 359 Aligned: 351 Modelled: 357 Confidence: 100.0% Identity: 39% PDB header:transferase Chain: B: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of the probable aminomethyltransferase2 from bacillus subtilis Phyre2 PDB 3tfh chain B Region: 1 - 357 Aligned: 349 Modelled: 355 Confidence: 100.0% Identity: 19% PDB header:transferase Chain: B: PDB Molecule:gcvt-like aminomethyltransferase protein; PDBTitle: dmsp-dependent demethylase from p. ubique - apo Phyre2 PDB 1vlo chain A domain 2 Region: 4 - 277 Aligned: 274 Modelled: 274 Confidence: 100.0% Identity: 96% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1pj5 chain A domain 4 Region: 3 - 277 Aligned: 271 Modelled: 275 Confidence: 100.0% Identity: 27% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1v5v chain A domain 2 Region: 1 - 278 Aligned: 274 Modelled: 278 Confidence: 100.0% Identity: 37% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1wos chain A domain 2 Region: 3 - 277 Aligned: 271 Modelled: 275 Confidence: 100.0% Identity: 42% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1vly chain A Region: 39 - 356 Aligned: 306 Modelled: 318 Confidence: 100.0% Identity: 15% PDB header:transferase Chain: A: PDB Molecule:unknown protein from 2d-page; PDBTitle: crystal structure of a putative aminomethyltransferase (ygfz) from2 escherichia coli at 1.30 a resolution Phyre2 PDB 1vly chain A domain 2 Region: 27 - 277 Aligned: 238 Modelled: 248 Confidence: 100.0% Identity: 16% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 2gag chain C Region: 25 - 215 Aligned: 178 Modelled: 191 Confidence: 100.0% Identity: 15% PDB header:oxidoreductase Chain: C: PDB Molecule:heterotetrameric sarcosine oxidase gamma-subunit; PDBTitle: heteroteterameric sarcosine: structure of a diflavin metaloenzyme at2 1.85 a resolution Phyre2 PDB 1vlo chain A domain 1 Region: 279 - 364 Aligned: 86 Modelled: 86 Confidence: 99.9% Identity: 98% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: Aminomethyltransferase beta-barrel domain Family: Aminomethyltransferase beta-barrel domain Phyre2 PDB 1v5v chain A domain 1 Region: 279 - 361 Aligned: 79 Modelled: 83 Confidence: 99.8% Identity: 35% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: Aminomethyltransferase beta-barrel domain Family: Aminomethyltransferase beta-barrel domain Phyre2 PDB 1pj5 chain A domain 1 Region: 279 - 363 Aligned: 81 Modelled: 85 Confidence: 99.7% Identity: 20% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: Aminomethyltransferase beta-barrel domain Family: Aminomethyltransferase beta-barrel domain Phyre2 PDB 1wos chain A domain 1 Region: 279 - 362 Aligned: 80 Modelled: 84 Confidence: 99.7% Identity: 38% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: Aminomethyltransferase beta-barrel domain Family: Aminomethyltransferase beta-barrel domain Phyre2 1 c1vloA_ 2 c1pj6A_ 3 c1x31A_ 4 c1v5vA_ 5 c1worA_ 6 c1wsrA_ 7 c3girA_ 8 c1yx2B_ 9 c3tfhB_ 10 d1vloa2 11 d1pj5a4 12 d1v5va2 13 d1wosa2 14 c1vlyA_ 15 d1vlya2 16 c2gagC_ 17 d1vloa1 18 d1v5va1 19 d1pj5a1 20 d1wosa1 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42

Detailed template information

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

1 c1vloA_ 100.0 96 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of aminomethyltransferase (t protein;2 tetrahydrofolate-dependent) of glycine cleavage system (np417381)3 from escherichia coli k12 at 1.70 a resolution 2 c1pj6A_ 100.0 25 PDB header:oxidoreductase Chain: A: PDB Molecule:n,n-dimethylglycine oxidase; PDBTitle: crystal structure of dimethylglycine oxidase of arthrobacter2 globiformis in complex with folic acid 3 c1x31A_ 100.0 26 PDB header:oxidoreductase Chain: A: PDB Molecule:sarcosine oxidase alpha subunit; PDBTitle: crystal structure of heterotetrameric sarcosine oxidase from2 corynebacterium sp. u-96 4 c1v5vA_ 100.0 37 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of a component of glycine cleavage system: t-protein2 from pyrococcus horikoshii ot3 at 1.5 a resolution 5 c1worA_ 100.0 41 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of t-protein of the glycine cleavage2 system 6 c1wsrA_ 100.0 32 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of human t-protein of glycine cleavage2 system 7 c3girA_ 100.0 34 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of glycine cleavage system2 aminomethyltransferase t from bartonella henselae 8 c1yx2B_ 100.0 39 PDB header:transferase Chain: B: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of the probable aminomethyltransferase2 from bacillus subtilis 9 c3tfhB_ 100.0 19 PDB header:transferase Chain: B: PDB Molecule:gcvt-like aminomethyltransferase protein; PDBTitle: dmsp-dependent demethylase from p. ubique - apo 10 d1vloa2 100.0 96 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 11 d1pj5a4 100.0 27 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 12 d1v5va2 100.0 37 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 13 d1wosa2 100.0 42 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 14 c1vlyA_ 100.0 15 PDB header:transferase Chain: A: PDB Molecule:unknown protein from 2d-page; PDBTitle: crystal structure of a putative aminomethyltransferase (ygfz) from2 escherichia coli at 1.30 a resolution 15 d1vlya2 100.0 16 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 16 c2gagC_ 100.0 15 PDB header:oxidoreductase Chain: C: PDB Molecule:heterotetrameric sarcosine oxidase gamma-subunit; PDBTitle: heteroteterameric sarcosine: structure of a diflavin metaloenzyme at2 1.85 a resolution 17 d1vloa1 99.9 98 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 18 d1v5va1 99.8 35 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 19 d1pj5a1 99.7 20 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 20 d1wosa1 99.7 38 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 21 d1vlya1 not modelled 97.0 8 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 22 c3gehA_ not modelled 96.1 15 PDB header:hydrolase Chain: A: PDB Molecule:trna modification gtpase mnme; PDBTitle: crystal structure of mnme from nostoc in complex with gdp, folinic2 acid and zn 23 c1xzqB_ not modelled 93.4 15 PDB header:hydrolase Chain: B: PDB Molecule:probable trna modification gtpase trme; PDBTitle: structure of the gtp-binding protein trme from thermotoga2 maritima complexed with 5-formyl-thf 24 c1xzqA_ not modelled 93.0 15 PDB header:hydrolase Chain: A: PDB Molecule:probable trna modification gtpase trme; PDBTitle: structure of the gtp-binding protein trme from thermotoga2 maritima complexed with 5-formyl-thf 25 d1xzpa3 not modelled 93.0 15 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:TrmE formyl-THF-binding domain 26 c3geiB_ not modelled 91.5 13 PDB header:hydrolase Chain: B: PDB Molecule:trna modification gtpase mnme; PDBTitle: crystal structure of mnme from chlorobium tepidum in complex2 with gcp 27 d3bzka5 not modelled 37.5 17 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Tex RuvX-like domain-like 28 c2ysrA_ not modelled 26.5 26 PDB header:signaling protein Chain: A: PDB Molecule:dep domain-containing protein 1; PDBTitle: solution structure of the dep domain from human dep domain-2 containing protein 1 29 c2pn0D_ not modelled 15.9 10 PDB header:transcription Chain: D: PDB Molecule:prokaryotic transcription elongation factor PDBTitle: prokaryotic transcription elongation factor grea/greb from2 nitrosomonas europaea 30 d2f23a2 not modelled 14.7 9 Fold:FKBP-like Superfamily:FKBP-like Family:GreA transcript cleavage factor, C-terminal domain 31 c2nyiB_ not modelled 12.1 15 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:unknown protein; PDBTitle: crystal structure of an unknown protein from galdieria2 sulphuraria 32 c1m98A_ not modelled 11.9 14 PDB header:unknown function Chain: A: PDB Molecule:orange carotenoid protein; PDBTitle: crystal structure of orange carotenoid protein 33 c2p4vA_ not modelled 11.2 21 PDB header:transcription Chain: A: PDB Molecule:transcription elongation factor greb; PDBTitle: crystal structure of the transcript cleavage factor, greb2 at 2.6a resolution 34 c2etnA_ not modelled 10.4 11 PDB header:transcription Chain: A: PDB Molecule:anti-cleavage anti-grea transcription factor PDBTitle: crystal structure of thermus aquaticus gfh1 35 c3ny7A_ not modelled 9.7 11 PDB header:membrane protein Chain: A: PDB Molecule:sulfate transporter; PDBTitle: stas domain of ychm bound to acp 36 d2etna2 not modelled 9.4 9 Fold:FKBP-like Superfamily:FKBP-like Family:GreA transcript cleavage factor, C-terminal domain 37 c3brcA_ not modelled 8.9 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved protein of unknown function; PDBTitle: crystal structure of a conserved protein of unknown function from2 methanobacterium thermoautotrophicum 38 d1w4ma_ not modelled 8.4 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DEP domain 39 c1wylA_ not modelled 7.1 20 PDB header:signaling protein Chain: A: PDB Molecule:nedd9 interacting protein with calponin homology PDBTitle: solution structure of the ch domain of human nedd92 interacting protein with calponin homology and lim domains 40 c1v1hB_ not modelled 6.8 30 PDB header:adenovirus Chain: B: PDB Molecule:fibritin, fiber protein; PDBTitle: adenovirus fibre shaft sequence n-terminally fused to the2 bacteriophage t4 fibritin foldon trimerisation motif with3 a short linker 41 d1fsha_ not modelled 6.4 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DEP domain 42 c3i31A_ not modelled 6.1 21 PDB header:rna binding protein,hydrolase Chain: A: PDB Molecule:heat resistant rna dependent atpase; PDBTitle: hera helicase rna binding domain is an rrm fold

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