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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: NAD(P)-binding Rossmann-fold domains
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.

Representatives:

e3iupA2[A:153-377] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Putative NADPH:quinone oxidoreductase ; ligands: ACT,EDO,NDP ; X-RAY DIFFRACTION 1.70Å

e3u0bA4[A:26-196] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Oxidoreductase, short chain dehydrogenase/reductase family protein ; ligands: NA ; X-RAY DIFFRACTION 1.700Å

e1npyA1[A:103-269] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Hypothetical shikimate 5-dehydrogenase-like protein HI0607 ; X-RAY DIFFRACTION 1.75Å

e2fr1A2[A:1448-1656] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

erythromycin synthase, EryAI ; X-RAY DIFFRACTION 1.79Å

e1luaA1[A:98-288] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Methylene Tetrahydromethanopterin Dehydrogenase ; ligands: NAP ; X-RAY DIFFRACTION 1.8Å

e8ju8A1[A:1-139] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

; X-RAY DIFFRACTION 1.85Å

e1gr0A2[A:14-200,A:312-367] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

INOSITOL-3-PHOSPHATE SYNTHASE ; ligands: CAC,NAD,ZN ; X-RAY DIFFRACTION 1.950Å

e3dmyA1[A:101-175,A:503-555] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Protein fdrA ; X-RAY DIFFRACTION 2.0Å

circular permutation

e6c7nD2[D:565-588,D:608-622] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Malic enzyme ; X-RAY DIFFRACTION 2.000Å

e3dfuA1[A:2-129] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Uncharacterized Protein from 6-Phosphogluconate Dehydrogenase-Like Family ; ligands: GOL ; X-RAY DIFFRACTION 2.07Å

e1f06A2[A:1-118,A:269-320] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed,

MESO-DIAMINOPIMELATE D-DEHYDROGENASE ; ligands: NDP ; X-RAY DIFFRACTION 2.1Å

e2py6A2[A:14-208] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Methyltransferase FkbM ; ligands: CL,EDO ; X-RAY DIFFRACTION 2.15Å

e4j1qA1[A:1-167] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Polyketide synthase PksJ ; X-RAY DIFFRACTION 2.35Å

e3m1lA2[A:33-212] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

3-oxoacyl-(Acyl-carrier-protein) reductase ; X-RAY DIFFRACTION 2.52Å

e2i76A2[A:2-154] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Hypothetical protein ; ligands: NDP ; X-RAY DIFFRACTION 2.6Å

e2i76B2[B:2-154] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Hypothetical protein ; ligands: NDP ; X-RAY DIFFRACTION 2.6Å

e6eqoA8[A:1413-1566,A:1762-1790] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Acetyl-coenzyme A synthetase ; ligands: NAP ; X-RAY DIFFRACTION 2.700Å

e6eqoA9[A:1567-1761] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Acetyl-coenzyme A synthetase ; ligands: NAP ; X-RAY DIFFRACTION 2.700Å

e6o7aD2[D:564-698,D:726-771] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ion channel CASTOR ; X-RAY DIFFRACTION 3.30Å

e5bp4A3[A:1179-1405] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Mycocerosic acid synthase ; X-RAY DIFFRACTION 3.75Å

e3zenD11[D:2136-2432] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB

e4b3yA11[A:2136-2432] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB

e4bjfD9[D:2136-2432] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB

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