Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	F	T	P	F	P	P	R	Q	P	T	A	S	A	R	L	P	L	T	L	M	T	L	D	D	W	A	L	A	T	I	T	G	A	D	S	E	K	Y	M	Q	G	Q	V	T	A	D	V	S	Q	M	A	E	D	Q	H	L	L	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?		?	?																																										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	H	C	D	A	K	G	K	M	W	S	N	L	R	L	F	R	D	G	D	G	F	A	W	I	E	R	R	S	V	R	E	P	Q	L	T	E	L	K	K	Y	A	V	F	S	K	V	T	I	A	P	D	D	E	R	V	L	L	G	V
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	G	F	Q	A	R	A	A	L	A	N	L	F	S	E	L	P	S	K	E	K	Q	V	V	K	E	G	A	T	T	L	L	W	F	E	H	P	A	E	R	F	L	I	V	T	D	E	A	T	A	N	M	L	T	D	K	L	R	G	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	E	L	N	N	S	Q	Q	W	L	A	L	N	I	E	A	G	F	P	V	I	D	A	A	N	S	G	Q	F	I	P	Q	A	T	N	L	Q	A	L	G	G	I	S	F	K	K	G	C	Y	T	G	Q	E	M	V	A	R	A	K	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		R	G	A	N	K	R	A	L	W	L	L	A	G	S	A	S	R	L	P	E	A	G	E	D	L	E	L	K	M	G	E	N	W	R	R	T	G	T	V	L	A	A	V	K	L	E	D	G	Q	V	V	V	Q	V	V	M	N	N	D	M
Secondary structure
SS confidence
Disorder																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.
Sequence		E	P	D	S	I	F	R	V	R	D	D	A	N	T	L	H	I	E	P	L	P	Y	S	L	E	E
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 1vly chain A Region: 3 - 325 Aligned: 323 Modelled: 323 Confidence: 100.0% Identity: 97% 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 3gir chain A Region: 11 - 326 Aligned: 311 Modelled: 316 Confidence: 100.0% Identity: 19% PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of glycine cleavage system2 aminomethyltransferase t from bartonella henselae Phyre2 PDB 1vlo chain A Region: 11 - 322 Aligned: 309 Modelled: 312 Confidence: 100.0% Identity: 15% 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: 11 - 326 Aligned: 307 Modelled: 316 Confidence: 100.0% Identity: 15% 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 1vly chain A domain 2 Region: 3 - 243 Aligned: 241 Modelled: 241 Confidence: 100.0% Identity: 98% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1yx2 chain B Region: 11 - 322 Aligned: 306 Modelled: 312 Confidence: 100.0% Identity: 19% PDB header:transferase Chain: B: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of the probable aminomethyltransferase2 from bacillus subtilis Phyre2 PDB 1v5v chain A Region: 11 - 326 Aligned: 308 Modelled: 316 Confidence: 100.0% Identity: 16% 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: 11 - 326 Aligned: 307 Modelled: 316 Confidence: 100.0% Identity: 16% PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of t-protein of the glycine cleavage2 system Phyre2 PDB 1x31 chain A Region: 11 - 326 Aligned: 313 Modelled: 316 Confidence: 100.0% Identity: 16% 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 1wsr chain A Region: 11 - 322 Aligned: 307 Modelled: 312 Confidence: 100.0% Identity: 16% PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of human t-protein of glycine cleavage2 system Phyre2 PDB 3tfh chain B Region: 11 - 322 Aligned: 304 Modelled: 312 Confidence: 100.0% Identity: 13% 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: 11 - 242 Aligned: 232 Modelled: 232 Confidence: 100.0% Identity: 17% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1pj5 chain A domain 4 Region: 11 - 243 Aligned: 230 Modelled: 233 Confidence: 100.0% Identity: 15% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1v5v chain A domain 2 Region: 11 - 243 Aligned: 230 Modelled: 233 Confidence: 100.0% Identity: 16% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 1wos chain A domain 2 Region: 8 - 241 Aligned: 231 Modelled: 234 Confidence: 100.0% Identity: 15% Fold: Folate-binding domain Superfamily: Folate-binding domain Family: Aminomethyltransferase folate-binding domain Phyre2 PDB 2gag chain C Region: 1 - 185 Aligned: 177 Modelled: 185 Confidence: 99.8% Identity: 9% 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 1vly chain A domain 1 Region: 244 - 325 Aligned: 82 Modelled: 82 Confidence: 99.5% Identity: 96% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: Aminomethyltransferase beta-barrel domain Family: Aminomethyltransferase beta-barrel domain Phyre2 PDB 1v5v chain A domain 1 Region: 246 - 326 Aligned: 77 Modelled: 81 Confidence: 99.1% Identity: 14% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: Aminomethyltransferase beta-barrel domain Family: Aminomethyltransferase beta-barrel domain Phyre2 PDB 1wos chain A domain 1 Region: 246 - 322 Aligned: 73 Modelled: 77 Confidence: 99.0% Identity: 19% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: Aminomethyltransferase beta-barrel domain Family: Aminomethyltransferase beta-barrel domain Phyre2 PDB 1vlo chain A domain 1 Region: 246 - 322 Aligned: 74 Modelled: 77 Confidence: 98.9% Identity: 7% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: Aminomethyltransferase beta-barrel domain Family: Aminomethyltransferase beta-barrel domain Phyre2 1 c1vlyA_ 2 c3girA_ 3 c1vloA_ 4 c1pj6A_ 5 d1vlya2 6 c1yx2B_ 7 c1v5vA_ 8 c1worA_ 9 c1x31A_ 10 c1wsrA_ 11 c3tfhB_ 12 d1vloa2 13 d1pj5a4 14 d1v5va2 15 d1wosa2 16 c2gagC_ 17 d1vlya1 18 d1v5va1 19 d1wosa1 20 d1vloa1 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 50 51 52 53

Detailed template information

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

1 c1vlyA_ 100.0 97 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 2 c3girA_ 100.0 19 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of glycine cleavage system2 aminomethyltransferase t from bartonella henselae 3 c1vloA_ 100.0 15 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 4 c1pj6A_ 100.0 15 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 5 d1vlya2 100.0 98 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 6 c1yx2B_ 100.0 19 PDB header:transferase Chain: B: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of the probable aminomethyltransferase2 from bacillus subtilis 7 c1v5vA_ 100.0 16 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 8 c1worA_ 100.0 16 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of t-protein of the glycine cleavage2 system 9 c1x31A_ 100.0 16 PDB header:oxidoreductase Chain: A: PDB Molecule:sarcosine oxidase alpha subunit; PDBTitle: crystal structure of heterotetrameric sarcosine oxidase from2 corynebacterium sp. u-96 10 c1wsrA_ 100.0 16 PDB header:transferase Chain: A: PDB Molecule:aminomethyltransferase; PDBTitle: crystal structure of human t-protein of glycine cleavage2 system 11 c3tfhB_ 100.0 13 PDB header:transferase Chain: B: PDB Molecule:gcvt-like aminomethyltransferase protein; PDBTitle: dmsp-dependent demethylase from p. ubique - apo 12 d1vloa2 100.0 17 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 13 d1pj5a4 100.0 15 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 14 d1v5va2 100.0 16 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 15 d1wosa2 100.0 15 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:Aminomethyltransferase folate-binding domain 16 c2gagC_ 99.8 9 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 d1vlya1 99.5 96 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 18 d1v5va1 99.1 14 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 19 d1wosa1 99.0 19 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 20 d1vloa1 98.9 7 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 21 d1pj5a1 not modelled 98.8 12 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:Aminomethyltransferase beta-barrel domain Family:Aminomethyltransferase beta-barrel domain 22 c1xzqA_ not modelled 95.3 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 23 c3gehA_ not modelled 95.0 11 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 24 c1xzqB_ not modelled 94.3 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 25 d1xzpa3 not modelled 94.0 15 Fold:Folate-binding domain Superfamily:Folate-binding domain Family:TrmE formyl-THF-binding domain 26 c3geiB_ not modelled 93.9 14 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 58.3 15 Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Tex RuvX-like domain-like 28 d1w4ma_ not modelled 25.3 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DEP domain 29 c2ysrA_ not modelled 16.4 40 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 30 d2bhua2 not modelled 14.9 15 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 31 c3brcA_ not modelled 13.6 22 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 32 d2hjsa1 not modelled 13.0 28 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 33 d1uhwa_ not modelled 12.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DEP domain 34 c2vqaC_ not modelled 12.1 8 PDB header:metal-binding protein Chain: C: PDB Molecule:sll1358 protein; PDBTitle: protein-folding location can regulate mn versus cu- or zn-2 binding. crystal structure of mnca. 35 c1nnoA_ not modelled 10.9 15 PDB header:oxidoreductase Chain: A: PDB Molecule:nitrite reductase; PDBTitle: conformational changes occurring upon no binding in nitrite2 reductase from pseudomonas aeruginosa 36 d1fsha_ not modelled 10.1 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DEP domain 37 d1xqba_ not modelled 9.8 15 Fold:YaeB-like Superfamily:YaeB-like Family:YaeB-like 38 c2imuA_ not modelled 9.7 58 PDB header:viral protein Chain: A: PDB Molecule:structural polyprotein (pp) p1; PDBTitle: nmr structure of pep46 from the infectious bursal disease2 virus (ibdv) in dodecylphosphocholin (dpc). 39 d2csoa1 not modelled 9.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DEP domain 40 c2gw4C_ not modelled 7.9 50 PDB header:luminescent protein Chain: C: PDB Molecule:kaede; PDBTitle: crystal structure of stony coral fluorescent protein kaede, red form 41 c2qlcC_ not modelled 7.2 21 PDB header:dna binding protein Chain: C: PDB Molecule:dna repair protein radc homolog; PDBTitle: the crystal structure of dna repair protein radc from chlorobium2 tepidum tls 42 d1uika2 not modelled 6.6 10 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Germin/Seed storage 7S protein 43 d2o3la1 not modelled 6.5 23 Fold:Left-handed superhelix Superfamily:BH3980-like Family:BH3980-like 44 d1v3fa_ not modelled 6.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DEP domain 45 d1o7fa1 not modelled 6.1 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DEP domain 46 c2oceA_ not modelled 6.1 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pa5201; PDBTitle: crystal structure of tex family protein pa5201 from2 pseudomonas aeruginosa 47 c2nv4A_ not modelled 5.9 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0066 protein af_0241; PDBTitle: crystal structure of upf0066 protein af0241 in complex with2 s-adenosylmethionine. northeast structural genomics3 consortium target gr27 48 c2nyiB_ not modelled 5.9 14 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:unknown protein; PDBTitle: crystal structure of an unknown protein from galdieria2 sulphuraria 49 d1mb4a1 not modelled 5.6 14 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 50 d1u8sa1 not modelled 5.4 21 Fold:Ferredoxin-like Superfamily:ACT-like Family:Glycine cleavage system transcriptional repressor 51 d1vqod1 not modelled 5.3 19 Fold:RL5-like Superfamily:RL5-like Family:Ribosomal protein L5 52 d2hh6a1 not modelled 5.2 14 Fold:Left-handed superhelix Superfamily:BH3980-like Family:BH3980-like 53 c2a56A_ not modelled 5.1 50 PDB header:luminescent protein Chain: A: PDB Molecule:gfp-like non-fluorescent chromoprotein fp595 chain 1; PDBTitle: fluorescent protein asfp595, a143s, on-state, 5min irradiation

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