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X - Possible homology level

H - Homology level

T - Topology level

F - Family level

* - Provisional representative

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Evolutionary classification of protein domain structures

alpha arraysalpha-helix arrays with mainly perpendicular helices

alpha bundlesalpha-helix bundles with mainly parallel helices

alpha superhelicesrepeating alpha-helix hairpins form a superhelix

alpha duplicates or obligate multimersalpha duplicates or monomers associate together to form a compact domain

alpha complex topologyalpha domain with complex and unique topology that cannot be described as array or bundle or superhelix

beta barrelssingle beta-sheet folded upon itself to form a barrel

beta meanderssingle beta-sheet with mainly meander topology

beta sandwichestwo beta-sheets stacked together to form a sandwich

beta duplicates or obligate multimersbeta duplicates or monomers associate together to form a compact domain

beta complex topologybeta domains with complex and unique topology that cannot be described as barrel or sandwich or meander

a+b two layersone alpha-helix layer and one beta-sheet layer

a+b three layersone mainly antiparallel beta-sheet layer sandwiched between two alpha-helix layers

a+b four layerstwo beta-sheet layers sandwiched between two alpha-helix layers

a+b complex topologyalpha and beta domain with complex and unique topology that cannot be described in layers

a+b duplicates or obligate multimersalpha and beta duplicates or monomers associated together to form a compact domain

a/b barrelsrepeating beta-alpha units form a barrel

a/b three-layered sandwichesrepeating beta-alpha units form a sandwich with a mainly parallel beta-sheet layer stacked between two alpha-helix layers

X: Rossmann-like
H: Rossmann-related
T: FAD/NAD(P)-binding domain
F: GIDA

PF01134 CL0063

Representatives:

e2culA1[A:2-231] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glucose-inhibited division protein A-related protein, probable oxidoreductase ; ligands: FAD ; X-RAY DIFFRACTION 1.65Å

e3g5qA1[A:1-160,A:306-438] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

METHYLENETETRAHYDROFOLATE--TRNA-(URACIL-5-)- METHYLTRANSFERASE TRMFO ; ligands: FAD,MRD ; X-RAY DIFFRACTION 2.1Å

e3cp8A9[A:0-194,A:325-439] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRNA URIDINE 5-CARBOXYMETHYLAMINOMETHYL MODIFICATION ENZYME GIDA ; ligands: FAD ; X-RAY DIFFRACTION 3.2Å

e3cp8C9[C:0-194,C:325-439] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRNA URIDINE 5-CARBOXYMETHYLAMINOMETHYL MODIFICATION ENZYME GIDA ; ligands: FAD ; X-RAY DIFFRACTION 3.2Å

e3cp8B9[B:0-194,B:325-439] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRNA URIDINE 5-CARBOXYMETHYLAMINOMETHYL MODIFICATION ENZYME GIDA ; ligands: FAD ; X-RAY DIFFRACTION 3.2Å

e2zxhA5[A:6-199,A:336-450] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

tRNA uridine 5-carboxymethylaminomethyl modification enzyme mnmG ; ligands: FAD,PO4 ; X-RAY DIFFRACTION 3.2Å

e2zxhB5[B:6-199,B:336-450] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

tRNA uridine 5-carboxymethylaminomethyl modification enzyme mnmG ; ligands: FAD,PO4 ; X-RAY DIFFRACTION 3.2Å

e2zxiD9[D:-1-199,D:336-450] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRNA URIDINE 5-CARBOXYMETHYLAMINOMETHYL MODIFICATION ENZYME MNMG ; ligands: FAD ; X-RAY DIFFRACTION 2.3Å

e3cesC1[C:1-185,C:316-430] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

tRNA uridine 5-carboxymethylaminomethyl modification enzyme gidA ; X-RAY DIFFRACTION 2.412Å

e2zxiB1[B:-1-199,B:336-450] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRNA URIDINE 5-CARBOXYMETHYLAMINOMETHYL MODIFICATION ENZYME MNMG ; ligands: FAD ; X-RAY DIFFRACTION 2.3Å

e3g5rA1[A:1-160,A:306-436] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

METHYLENETETRAHYDROFOLATE--TRNA-(URACIL-5-)- METHYLTRANSFERASE TRMFO ; ligands: CA,EDO,FAD,THG ; X-RAY DIFFRACTION 1.6Å

e3g5sA1[A:1-160,A:306-436] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

METHYLENETETRAHYDROFOLATE--TRNA-(URACIL-5-)- METHYLTRANSFERASE TRMFO ; ligands: EDO,FAD,GSH,MG ; X-RAY DIFFRACTION 1.05Å

e2zxiC2[C:-1-199,C:336-450] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRNA URIDINE 5-CARBOXYMETHYLAMINOMETHYL MODIFICATION ENZYME MNMG ; ligands: FAD ; X-RAY DIFFRACTION 2.3Å

e3cp8D3[D:0-196,D:327-439] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRNA URIDINE 5-CARBOXYMETHYLAMINOMETHYL MODIFICATION ENZYME GIDA ; ligands: FAD ; X-RAY DIFFRACTION 3.2Å

e2zxiA1[A:1-199,A:351-465] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRNA URIDINE 5-CARBOXYMETHYLAMINOMETHYL MODIFICATION ENZYME MNMG ; ligands: FAD ; X-RAY DIFFRACTION 2.3Å

e3cesA1[A:1-198,A:344-458] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

tRNA uridine 5-carboxymethylaminomethyl modification enzyme gidA ; X-RAY DIFFRACTION 2.412Å

F: Unmapped domains

Pseudo group of domains that do not map to PFam family profiles. Domains inside should not be considered as in one family.

mixed a+b and a/balpha and beta domain consists of both a+b and a/b regions

few secondary structure elementsstabilized by cofactors or disulfides

extended segmentsextended, non-globular segments, frequently bind to other proteins to form complexes