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
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
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
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