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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

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

X: Rubredoxin-like

binds one zinc with two CxxC motifs on two beta-hairpins

H: Rubredoxin-related
T: Rubredoxin-related
F: Ribosomal_L40e

PF01020 CL0167

Representatives:

e2ayjA1[A:1-56] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

50S ribosomal protein L40e ; ligands: ZN ; SOLUTION NMR

e4v7eCm1[Cm:1-52] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

60S ribosomal protein L40E ; ELECTRON MICROSCOPY

e4d5ym1[m:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

60S RIBOSOMAL PROTEIN EL40 ; ELECTRON MICROSCOPY

e4d67m1[m:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

UBIQUITIN-60S RIBOSOMAL PROTEIN L40 ; ELECTRON MICROSCOPY

e4v3pLp1[Lp:13-53] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40-1 ; ELECTRON MICROSCOPY

e5gako1[o:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ELECTRON MICROSCOPY

e5m1jm51[m5:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ligands: MG,ZN ; ELECTRON MICROSCOPY

e5mc6AO1[AO:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ELECTRON MICROSCOPY

e5tgmQ01[Q0:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

60S ribosomal protein L40-A ; ligands: LEU,MG,PHE,ZN ; X-RAY DIFFRACTION 3.500Å

e5tgmq01[q0:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

60S ribosomal protein L40-A ; ligands: LEU,MG,ZN ; X-RAY DIFFRACTION 3.500Å

e7obrm1[m:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

60S RIBOSOMAL PROTEIN EL40 ; ligands: ZN ; ELECTRON MICROSCOPY

e6xu6Cm1[Cm:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ELECTRON MICROSCOPY

e7mdzm1[m:51-102] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

eL40 ; ligands: ZN ; ELECTRON MICROSCOPY

e6xu7Cm1[Cm:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ELECTRON MICROSCOPY

e6xu8Cm1[Cm:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ELECTRON MICROSCOPY

e7ls1g21[g2:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ligands: ZN ; ELECTRON MICROSCOPY

e7ls2g21[g2:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ligands: ZN ; ELECTRON MICROSCOPY

e7osaeL401[eL40:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin ; ligands: ZN ; X-RAY DIFFRACTION 3.0Å

e7osmeL401[eL40:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin ; ligands: MG,ZN ; X-RAY DIFFRACTION 3.0Å

e7r81o11[o1:4-52] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

60S ribosomal protein L40 ; ELECTRON MICROSCOPY

e7rr5Lm1[Lm:77-128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ubiquitin-60S ribosomal protein L40 ; ligands: ASP,ZN ; ELECTRON MICROSCOPY

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.

T: Hypothetical protein Ta0289-C

insertion in the CxxC motif

X: RING/U-box-like

binds two zincs. one in the same way as rubredoxin, probably related to rubredoxin. the other in a similar way as glucocorticoid receptor

X: Glucocorticoid receptor-like

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