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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

X: SSHS domain
H: SSHS domain in type II DNA topoisomerase
T: SSHS domain in type II DNA topoisomerase
F: TOPRIM_C

PF16898

Representatives:

e1bjtA3[A:562-604] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOPOISOMERASE II ; X-RAY DIFFRACTION 2.5Å

e8gccB3[B:547-599] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e8j9yA3[A:575-622] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e8j9zA1[A:575-622] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e8j9zB2[B:575-622] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e4fm9A1[A:576-615] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-alpha ; ligands: GOL,MG ; X-RAY DIFFRACTION 2.900Å

e1bgwA5[A:563-605] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TOPOISOMERASE ; X-RAY DIFFRACTION 2.7Å

e5gwkA3[A:576-615] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-alpha ; X-RAY DIFFRACTION 3.15Å

e5gwkB4[B:576-615] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-alpha ; X-RAY DIFFRACTION 3.15Å

e5zenA5[A:592-637] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-beta ; X-RAY DIFFRACTION 2.75Å

e5zqfA2[A:592-637] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-beta ; X-RAY DIFFRACTION 3.87Å

e6ca8A1[A:613-657] Image Pymol Jmol Links: PDB, SCOP, CATH

DNA topoisomerase 2 ; X-RAY DIFFRACTION 2.33Å

e5zadA2[A:592-637] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-beta ; X-RAY DIFFRACTION 2.20Å

e5zadB5[B:592-637] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-beta ; X-RAY DIFFRACTION 2.20Å

e6zy5B3[B:576-615] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-alpha ; ELECTRON MICROSCOPY

e6zy5A1[A:576-615] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-alpha ; ELECTRON MICROSCOPY

e6zy6A2[A:576-615] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-alpha ; ELECTRON MICROSCOPY

e6zy6B5[B:576-615] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2-alpha ; ELECTRON MICROSCOPY

e8gccA3[A:547-599] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e8j9yB1[B:575-622] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

e2rgrA4[A:562-604] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 2 ; X-RAY DIFFRACTION 3.000Å

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.

X: LuxS, MPP, ThrRS/AlaRS common domain

looks like an elaborated ferredoxin

X: ClpS-like

contains a HTH motif

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