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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

X: cradle loop barrel

Refs: Structure 14, 1489-1498; Current opinion in structural biology 18, 358-365

H: RIFT-related
T: acid protease

126354, 3-crossover-4

T: double psi

152436, 2-crossover-3, 5-crossover-6

T: AbrB

122'1'344'3', 2-crossover-3, 2'-crossover-3'

T: Bacterial fluorinating enzyme-C

1265437, 2-crossover-3, 6-crossover-7

T: FMN-binding split barrel

123654, 3-crossover-4

T: Surface presentation of antigens (SPOA)

123654, 3-crossover-4, swapping

T: Alanine racemase-C

125436, 2-crossover-3, 5-crossover-6

T: Aminomethyltransferase beta-barrel domain

143256, 1-crossover-2, 4-crossover-5

T: PUA domain

12543, 2-crossover-3

F: LON_substr_bdg

PF02190 CL0178

Representatives:

e2aneA1[A:8-117] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ATP-dependent protease La ; X-RAY DIFFRACTION 2.03Å

e1zboA1[A:2-198] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein BPP1347 ; X-RAY DIFFRACTION 2.6Å

contains a C-terminal alpha bundle subdomain

e3m65A1[A:4-209] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ATP-DEPENDENT PROTEASE LA 1 ; X-RAY DIFFRACTION 2.6Å

contains a C-terminal alpha bundle subdomain

e3m65B1[B:4-209] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ATP-DEPENDENT PROTEASE LA 1 ; X-RAY DIFFRACTION 2.6Å

e4ci1B1[B:47-320] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN CEREBLON ; X-RAY DIFFRACTION 2.98Å

contains a C-terminal alpha-bundle subdomain

e4tz4C1[C:48-319] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Protein cereblon ; X-RAY DIFFRACTION 3.010Å

contains a C-terminal alpha bundle subdomain

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.

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

extended segmentsextended, non-globular segments, frequently bind to other proteins to form complexes