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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

X: Alpha-helical domain in upper collar protein
H: Alpha-helical domain in upper collar protein
T: Alpha-helical domain in upper collar protein
F: Phage_portal

PF04860

Representatives:

e3kdrA1[A:46-113,A:167-336] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

HK97 Family Phage Portal Protein ; ligands: GOL,PO4 ; X-RAY DIFFRACTION 2.900Å

e3kdrB2[B:45-113,B:167-337] Image Pymol Jmol Links: PDB, SCOP, CATH

HK97 Family Phage Portal Protein ; ligands: GOL,SO4 ; X-RAY DIFFRACTION 2.900Å

e3kdrC2[C:43-113,C:167-336] Image Pymol Jmol Links: PDB, SCOP, CATH

HK97 Family Phage Portal Protein ; ligands: SO4 ; X-RAY DIFFRACTION 2.900Å

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.

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