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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

X: HTH
H: HTH
T: winged
F: Topoisom_bac

PF01131

Representatives:

e1mw9X2[X:157-214,X:473-592] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA Topoisomerase I ; ligands: SO4 ; X-RAY DIFFRACTION 1.67Å

e1cy1A2[A:156-213,A:472-591] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE I ; ligands: PO4,TMP ; X-RAY DIFFRACTION 2.3Å

e1cy0A2[A:156-213,A:472-572] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE I ; ligands: A3P ; X-RAY DIFFRACTION 2.45Å

e4cgyA3[A:196-262,A:514-639] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE 3-ALPHA ; X-RAY DIFFRACTION 2.85Å

e4chtA3[A:196-262,A:514-639] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE 3-ALPHA ; X-RAY DIFFRACTION 3.25Å

e4rulA5[A:157-221,A:480-592] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 1 ; ligands: GOL,SO4,ZN ; X-RAY DIFFRACTION 2.90Å

e2gaiA4[A:129-186,A:441-549] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE I ; X-RAY DIFFRACTION 1.7Å

e2gajA2[A:129-186,A:441-549] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE I ; X-RAY DIFFRACTION 1.95Å

e2gajB3[B:129-186,B:441-549] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE I ; X-RAY DIFFRACTION 1.95Å

e3pwtA4[A:156-213,A:472-595] Image Pymol Jmol Links: PDB, SCOP, CATH

DNA topoisomerase ; ligands: SO4 ; X-RAY DIFFRACTION 1.9Å

e5gvcA4[A:170-235,A:490-612] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 3-beta-1 ; X-RAY DIFFRACTION 2.44Å

e5gvcB3[B:170-235,B:490-612] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 3-beta-1 ; X-RAY DIFFRACTION 2.44Å

e5gveA1[A:170-235,A:490-611] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 3-beta-1 ; X-RAY DIFFRACTION 3.6Å

e1mw9X3[X:281-403] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA Topoisomerase I ; ligands: SO4 ; X-RAY DIFFRACTION 1.67Å

e2gaiB2[B:129-186,B:441-549] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE I ; X-RAY DIFFRACTION 1.7Å

e1i7dA2[A:152-216,A:487-620] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE III ; X-RAY DIFFRACTION 2.05Å

e1i7dA3[A:289-415] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA TOPOISOMERASE III ; X-RAY DIFFRACTION 2.05Å

e5d5hA3[A:154-213,A:513-633] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA topoisomerase 1 ; ligands: GOL,SO4 ; X-RAY DIFFRACTION 2.52Å

e1gl9C4[C:675-730,C:955-1054] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

REVERSE GYRASE ; X-RAY DIFFRACTION 3.200Å

e1gl9C5[C:771-892] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

REVERSE GYRASE ; X-RAY DIFFRACTION 3.200Å

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: DNA-binding domain of intron-encoded endonucleases

lacks the N-terminal helix, circularly permuted wing

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

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