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
Representatives:
e2ayjA1[A:1-56] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
50S ribosomal protein L40e ; ligands: ZN ; SOLUTION NMR
e8glpLm1[Lm:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
60S ribosomal protein L40 (eL40) ; ligands: MET,SPD,ZN ; ELECTRON MICROSCOPY
e7xnxLm1[Lm:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin-60S ribosomal protein L40 ; ligands: ZN ; ELECTRON MICROSCOPY
e7xnyLm1[Lm:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin-60S ribosomal protein L40 ; ligands: ZN ; ELECTRON MICROSCOPY
e8br3LMM1[LMM:72-123] Image Pymol Jmol Links: PDB, SCOP, CATH
; ligands: ZN
e8br8Ls1[Ls:78-124] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin/Ribosomal protein L40e ; ELECTRON MICROSCOPY
e8brmLs1[Ls:78-124] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin/Ribosomal protein L40e ; ELECTRON MICROSCOPY
e8bsiLs1[Ls:79-123] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin/Ribosomal protein L40e ; ELECTRON MICROSCOPY
e8bsjLs1[Ls:78-124] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin/Ribosomal protein L40e ; ELECTRON MICROSCOPY
e8btdLs1[Ls:78-124] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin/Ribosomal protein L40e ; ELECTRON MICROSCOPY
e8btrLs1[Ls:78-124] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin/Ribosomal protein L40e ; ELECTRON MICROSCOPY
e8hkuL40E1[L40E:1-55] Image Pymol Jmol Links: PDB, SCOP, CATH
; ELECTRON MICROSCOPY
e8hkyL40E1[L40E:1-55] Image Pymol Jmol Links: PDB, SCOP, CATH
; ELECTRON MICROSCOPY
e8hl2L40E1[L40E:1-55] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
50S ribosomal protein L40E ; ELECTRON MICROSCOPY
e8hl5L40E1[L40E:1-55] Image Pymol Jmol Links: PDB, SCOP, CATH
; ELECTRON MICROSCOPY
e8azwY1[Y:78-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: MG,ZN ; ELECTRON MICROSCOPY
e8b2lY31[Y3:78-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ubiquitin-60S ribosomal protein L40 ; ligands: ZN ; ELECTRON MICROSCOPY
e8eubAm1[Am:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ELECTRON MICROSCOPY
e8ccsY1[Y:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin-60S ribosomal protein L40 ; ligands: ZN ; ELECTRON MICROSCOPY
e8bpol21[l2:51-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ZN ; ELECTRON MICROSCOPY
e8p2kBm1[Bm:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Ubiquitin-60S ribosomal protein L40 ; ligands: SPD,ZN ; ELECTRON MICROSCOPY
e8bhfZ11[Z1:51-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ZN ; ELECTRON MICROSCOPY
e8q5iAN1[AN:1-52] Image Pymol Jmol Links: PDB, SCOP, CATHDOI
; ligands: ZN ; ELECTRON MICROSCOPY
e8p5dLMM1[LMM:72-123] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
; ligands: ZN ; ELECTRON MICROSCOPY
PreviousPseudo group of domains that do not map to PFam family profiles. Domains inside should not be considered as in one family.
insertion in the CxxC motif
insertion in the CxxC motif
binds two zincs. one in the same way as rubredoxin, probably related to rubredoxin. the other in a similar way as glucocorticoid receptor
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