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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: BphC_D1

PF22632

Representatives:

e1kw3B1[B:1-55] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e1hanA1[A:2-55] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed,

2,3-DIHYDROXYBIPHENYL 1,2-DIOXYGENASE ; X-RAY DIFFRACTION 1.9Å

e3b59A2[A:3-61] Image Pymol Jmol Links: PDB, SCOP, CATH

Glyoxalase/bleomycin resistance protein/dioxygenase ; X-RAY DIFFRACTION 2.53Å

e2zi8A12[A:1-58] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROBABLE BIPHENYL-2,3-DIOL 1,2-DIOXYGENASE BPHC ; X-RAY DIFFRACTION 2.2Å

e3b59B4[B:3-61] Image Pymol Jmol Links: PDB, SCOP, CATH

Glyoxalase/bleomycin resistance protein/dioxygenase ; X-RAY DIFFRACTION 2.53Å

e3b59C1[C:3-61] Image Pymol Jmol Links: PDB, SCOP, CATH

Glyoxalase/bleomycin resistance protein/dioxygenase ; X-RAY DIFFRACTION 2.53Å

e1dhyA1[A:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-DIHYDROXYBIPHENYL 1,2-DIOXYGENASE ; X-RAY DIFFRACTION 2.3Å

e3b59D1[D:3-61] Image Pymol Jmol Links: PDB, SCOP, CATH

Glyoxalase/bleomycin resistance protein/dioxygenase ; X-RAY DIFFRACTION 2.53Å

e1eilA1[A:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-DIHYDROXYBIPHENYL 1,2-DIOXYGENASE ; ligands: SO4 ; X-RAY DIFFRACTION 2.0Å

e3b59E3[E:3-61] Image Pymol Jmol Links: PDB, SCOP, CATH

Glyoxalase/bleomycin resistance protein/dioxygenase ; X-RAY DIFFRACTION 2.53Å

e1eiqA1[A:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-DIHYDROXYBIPHENYL-1,2-DIOXYGENASE ; X-RAY DIFFRACTION 1.98Å

e1eirA1[A:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-DIHYDROXYBIPHENYL-1,2-DIOXYGENASE ; X-RAY DIFFRACTION 1.98Å

e3b59F4[F:3-61] Image Pymol Jmol Links: PDB, SCOP, CATH

Glyoxalase/bleomycin resistance protein/dioxygenase ; X-RAY DIFFRACTION 2.53Å

e6a52B2[B:1-56] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

dioxidase ChaP-H1 ; ligands: FE2 ; X-RAY DIFFRACTION 2.00Å

e1kw6B1[B:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-Dihydroxybiphenyl dioxygenase ; X-RAY DIFFRACTION 1.450Å

e6a52A2[A:2-56] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

dioxidase ChaP-H1 ; ligands: FE2 ; X-RAY DIFFRACTION 2.00Å

e1kw8B1[B:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-Dihydroxybiphenyl dioxygenase ; X-RAY DIFFRACTION 2.0Å

e1kw9B1[B:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-Dihydroxybiphenyl dioxygenase ; X-RAY DIFFRACTION 1.939Å

e1kwbB1[B:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-Dihydroxybiphenyl dioxygenase ; X-RAY DIFFRACTION 2.0Å

e1kwcB1[B:1-54] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-dihydroxybiphenyl dioxygenase ; X-RAY DIFFRACTION 2.1Å

e1kmyA1[A:2-55] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-DIHYDROXYBIPHENYL 1,2-DIOXYGENASE ; X-RAY DIFFRACTION 2.0Å

e1kndA1[A:2-55] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-DIHYDROXYBIPHENYL 1,2-DIOXYGENASE ; X-RAY DIFFRACTION 1.9Å

e1knfA1[A:2-55] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2,3-DIHYDROXYBIPHENYL 1,2-DIOXYGENASE ; X-RAY DIFFRACTION 1.9Å

e1lgtA1[A:2-55] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

BIPHENYL-2,3-DIOL 1,2-DIOXYGENASE ; X-RAY DIFFRACTION 1.69Å

e1lkdA1[A:2-55] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

BIPHENYL-2,3-DIOL 1,2-DIOXYGENASE ; X-RAY DIFFRACTION 1.69Å

e2zyqA13[A:2-57] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROBABLE BIPHENYL-2,3-DIOL 1,2-DIOXYGENASE BPHC ; X-RAY DIFFRACTION 2.0Å

e2zyqB13[B:2-57] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROBABLE BIPHENYL-2,3-DIOL 1,2-DIOXYGENASE BPHC ; ligands: TAR ; X-RAY DIFFRACTION 2.0Å

e2zi8B2[B:1-58] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROBABLE BIPHENYL-2,3-DIOL 1,2-DIOXYGENASE BPHC ; X-RAY DIFFRACTION 2.2Å

e6l3wA3[A:-1-55] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Extra-diol dioxygenase BphC ; X-RAY DIFFRACTION 2.600Å

e2wl3B8[B:1-137] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; ligands: GOL ; X-RAY DIFFRACTION 2.2Å

e2wl9C8[C:1-137] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; X-RAY DIFFRACTION 1.9Å

e2wl3A8[A:2-137] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; ligands: CA,GOL ; X-RAY DIFFRACTION 2.2Å

e2wl3C8[C:2-137] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; ligands: CA,GOL ; X-RAY DIFFRACTION 2.2Å

e2wl3D8[D:2-137] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; ligands: GOL ; X-RAY DIFFRACTION 2.2Å

e2wl9B8[B:2-137] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; X-RAY DIFFRACTION 1.9Å

e2wl9D8[D:2-137] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; X-RAY DIFFRACTION 1.9Å

e2wl9A2[A:1-137] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CATECHOL 2,3-DIOXYGENASE ; ligands: MG ; X-RAY DIFFRACTION 1.9Å

e2ehzA3[A:4-139] Image Pymol Jmol Links: PDB, SCOP, CATH

1,2-DIHYDROXYNAPHTHALENE DIOXYGENASE ; ligands: EDO,MCT ; X-RAY DIFFRACTION 1.35Å

e2ei0A2[A:5-139] Image Pymol Jmol Links: PDB, SCOP, CATH

1,2-DIHYDROXYNAPHTHALENE DIOXYGENASE ; ligands: GOL ; X-RAY DIFFRACTION 1.6Å

e2ei1A2[A:5-139] Image Pymol Jmol Links: PDB, SCOP, CATH

1,2-dihydroxynaphthalene dioxygenase ; ligands: GOL ; X-RAY DIFFRACTION 1.52Å

e2ei2A2[A:4-139] Image Pymol Jmol Links: PDB, SCOP, CATH

1,2-DIHYDROXYNAPHTHALENE DIOXYGENASE ; ligands: GOL ; X-RAY DIFFRACTION 1.69Å

e2ei3A2[A:5-139] Image Pymol Jmol Links: PDB, SCOP, CATH

1,2-DIHYDROXYNAPHTHALENE DIOXYGENASE ; ligands: BPY,GOL ; X-RAY DIFFRACTION 1.9Å

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