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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

X: LuxS, MPP, ThrRS/AlaRS common domain

looks like an elaborated ferredoxin

X: C-terminal domain in some PLP-dependent transferases
H: C-terminal domain in some PLP-dependent transferases
T: C-terminal domain in some PLP-dependent transferases
F: GcvP2_C

PF21478 CL0061

Representatives:

e4lhcB4[B:795-977] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYCINE DEHYDROGENASE [DECARBOXYLATING] ; ligands: BCT,EDO,GLY,PO4 ; X-RAY DIFFRACTION 1.9Å

e4lhcA6[A:773-977] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYCINE DEHYDROGENASE [DECARBOXYLATING] ; ligands: BCT,EDO,GLY,PO4 ; X-RAY DIFFRACTION 1.9Å

e4lhdA6[A:773-977] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYCINE DEHYDROGENASE [DECARBOXYLATING] ; ligands: BCT,EDO,GLY ; X-RAY DIFFRACTION 1.8Å

e4lhdB6[B:773-977] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYCINE DEHYDROGENASE [DECARBOXYLATING] ; ligands: BCT,EDO,GLY ; X-RAY DIFFRACTION 1.8Å

e4lglB6[B:773-975] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYCINE DEHYDROGENASE [DECARBOXYLATING] ; ligands: CL ; X-RAY DIFFRACTION 2.0Å

e4lglA2[A:797-978] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYCINE DEHYDROGENASE [DECARBOXYLATING] ; ligands: CL ; X-RAY DIFFRACTION 2.0Å

e6i33B3[B:822-1004] Image Pymol Jmol Links: PDB, SCOP, CATH

Glycine dehydrogenase (decarboxylating), mitochondrial ; X-RAY DIFFRACTION 2.3Å

e6i34A2[A:822-1005] Image Pymol Jmol Links: PDB, SCOP, CATH

Neanderthal Glycine decarboxylase ; ligands: GOL,PEG ; X-RAY DIFFRACTION 2.100Å

e6i34B2[B:822-1004] Image Pymol Jmol Links: PDB, SCOP, CATH

Neanderthal Glycine decarboxylase ; ligands: PEG ; X-RAY DIFFRACTION 2.100Å

e6i34C3[C:822-1005] Image Pymol Jmol Links: PDB, SCOP, CATH

Neanderthal Glycine decarboxylase ; ligands: GOL,PEG ; X-RAY DIFFRACTION 2.100Å

e6i34D2[D:822-1004] Image Pymol Jmol Links: PDB, SCOP, CATH

Neanderthal Glycine decarboxylase ; ligands: GOL,PEG ; X-RAY DIFFRACTION 2.100Å

e6i35B3[B:822-1004] Image Pymol Jmol Links: PDB, SCOP, CATH

Glycine dehydrogenase (decarboxylating), mitochondrial ; ligands: PEG ; X-RAY DIFFRACTION 2.0Å

e6i35D2[D:822-1004] Image Pymol Jmol Links: PDB, SCOP, CATH

Glycine dehydrogenase (decarboxylating), mitochondrial ; ligands: PEG ; X-RAY DIFFRACTION 2.0Å

e1wyuB1[B:341-472] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYCINE DEHYDROGENASE SUBUNIT 2 (P-PROTEIN) ; X-RAY DIFFRACTION 2.1Å

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.

X: ClpS-like

contains a HTH motif

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

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