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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: ClpS-like

contains a HTH motif

X: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
H: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
T: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
F: Glyoxalase

PF00903 CL0104

Representatives:

e1nkiA1[A:1-56] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

probable fosfomycin resistance protein ; ligands: MN,PPF ; X-RAY DIFFRACTION 0.95Å

e1nkiA2[A:57-134] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

probable fosfomycin resistance protein ; ligands: K,MN,PPF ; X-RAY DIFFRACTION 0.95Å

e1kw3B3[B:133-203] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-Dihydroxybiphenyl dioxygenase ; ligands: FE2 ; X-RAY DIFFRACTION 1.45Å

e1kw3B4[B:204-288] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-Dihydroxybiphenyl dioxygenase ; ligands: FE2,MPD ; X-RAY DIFFRACTION 1.45Å

e1f1uA4[A:208-323] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HOMOPROTOCATECHUATE 2,3-DIOXYGENASE ; ligands: MN ; X-RAY DIFFRACTION 1.5Å

e1xrkA1[A:2-55] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Bleomycin resistance protein ; ligands: BLM ; X-RAY DIFFRACTION 1.5Å

e1kllA1[A:3-66] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

mitomycin-binding protein ; ligands: MC ; X-RAY DIFFRACTION 1.50Å

e1kllA2[A:67-130] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

mitomycin-binding protein ; X-RAY DIFFRACTION 1.50Å

e1f9zA1[A:1-65] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYOXALASE I ; ligands: NI ; X-RAY DIFFRACTION 1.500Å

e1f9zA2[A:66-134] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYOXALASE I ; ligands: NI ; X-RAY DIFFRACTION 1.500Å

e1zswA1[A:1-71] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Glyoxalase family protein ; ligands: BME,ZN ; X-RAY DIFFRACTION 1.65Å

e1qipA1[A:8-113] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN (LACTOYLGLUTATHIONE LYASE) ; ligands: BME,GNB,ZN ; X-RAY DIFFRACTION 1.72Å

e1qipA2[A:114-183] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN (LACTOYLGLUTATHIONE LYASE) ; ligands: GNB,ZN ; X-RAY DIFFRACTION 1.72Å

e4pv5A1[A:115-182] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Lactoylglutathione lyase ; ligands: CBW,ZN ; X-RAY DIFFRACTION 2.2Å

e2pjsA2[A:56-115] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

UNCHARACTERIZED PROTEIN ATU1953 ; X-RAY DIFFRACTION 1.85Å

e1jc4A1[A:3-73] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methylmalonyl-CoA epimerase ; ligands: SO4 ; X-RAY DIFFRACTION 1.99Å

e1sqiA3[A:8-78] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-hydroxyphenylpyruvic acid dioxygenase ; X-RAY DIFFRACTION 2.15Å

e2i7rA2[A:56-115] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Conserved domain protein ; X-RAY DIFFRACTION 2.200Å

e1q0oA3[A:148-207] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

homoprotocatechuate 2,3-dioxygenase ; ligands: FE ; X-RAY DIFFRACTION 2.3Å

e1q0oA4[A:208-359] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

homoprotocatechuate 2,3-dioxygenase ; ligands: FE ; X-RAY DIFFRACTION 2.3Å

e1cjxA3[A:154-223] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-HYDROXYPHENYLPYRUVATE DIOXYGENASE ; ligands: ACT,FE2 ; X-RAY DIFFRACTION 2.40Å

e1cjxA4[A:224-356] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-HYDROXYPHENYLPYRUVATE DIOXYGENASE ; ligands: ACT,FE2 ; X-RAY DIFFRACTION 2.40Å

e1mpyA3[A:146-207] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; ligands: ACN,FE2 ; X-RAY DIFFRACTION 2.8Å

e1mpyA4[A:208-307] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; ligands: ACN,FE2 ; X-RAY DIFFRACTION 2.8Å

e1u6lA2[A:77-138] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein ; X-RAY DIFFRACTION 2.8Å

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.

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