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
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
binds one zinc with two CxxC motifs on two beta-hairpins
binds two zincs. one in the same way as rubredoxin, probably related to rubredoxin. the other in a similar way as glucocorticoid receptor
only binds one zinc, structurally very different
Representatives:
e1wd2A1[A:11-70] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ariadne-1 protein homolog ; ligands: ZN ; SOLUTION NMR
e2lwrA1[A:-1-482] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
SD01679p ; ligands: ZN ; SOLUTION NMR
e2m9yA1[A:323-396] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE ARIH1 ; ligands: ZN ; SOLUTION NMR
e2m48A1[A:416-482] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; SOLUTION NMR
e4k95A3[A:379-404,A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95G4[G:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4i1fA2[A:402-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 1.58Å
e4i1hA2[A:402-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.0Å
e4bm9A2[A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: GOL,SO4,ZN ; X-RAY DIFFRACTION 2.25Å
e4k7dC2[C:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.80Å
e4k7dB2[B:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.80Å
e4k7dA2[A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.80Å
e5c1zA4[A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: GOL,SO4,ZN ; X-RAY DIFFRACTION 1.79Å
e5cawA2[A:408-461] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.62Å
e5c9vA2[A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: SO4,ZN ; X-RAY DIFFRACTION 2.35Å
e5cawC2[C:408-461] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.62Å
e4k95B3[B:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95C3[C:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95D3[D:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95E3[E:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95F3[F:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95H3[H:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95I3[I:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95J3[J:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95K3[K:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e4k95L3[L:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 UBIQUITIN-PROTEIN LIGASE PARKIN ; ligands: ZN ; X-RAY DIFFRACTION 6.5Å
e5c1zB4[B:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: GOL,SO4,ZN ; X-RAY DIFFRACTION 1.79Å
e5c23A3[A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: GOL,SO4,ZN ; X-RAY DIFFRACTION 2.37Å
e5c23B4[B:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: GOL,SO4,ZN ; X-RAY DIFFRACTION 2.37Å
e4zynA6[A:408-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: SO4,ZN ; X-RAY DIFFRACTION 2.540Å
e4zynB6[B:410-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.540Å
e5n2wA2[A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin,E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.68Å
e5n38A5[A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin,E3 ubiquitin-protein ligase parkin ; ligands: ZN ; X-RAY DIFFRACTION 2.60Å
e6hueA3[A:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: GOL,SO4,ZN ; X-RAY DIFFRACTION 2.85Å
e6n13B4[B:388-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: ZN ; SOLUTION NMR
e6hueB4[B:411-465] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
E3 ubiquitin-protein ligase parkin ; ligands: SO4,ZN ; X-RAY DIFFRACTION 2.85Å
binds zinc with one beta-hairpin and one helix, the helix binds DNA
extended segmentsextended, non-globular segments, frequently bind to other proteins to form complexes