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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: Alpha-beta plaits
H: Ferredoxin domains in multidrug efflux transporter
T: Multidrug efflux transporter AcrB pore domain
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.

Representatives:

e4y0lA1[A:424-511] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Putative membrane protein mmpL11 ; ligands: IOD,SO4 ; X-RAY DIFFRACTION 2.400Å

e6ajfA2[A:40-170] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Drug exporters of the RND superfamily-like protein,Endolysin ; ligands: L6T ; X-RAY DIFFRACTION 2.698Å

e6ajfA4[A:427-547] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Drug exporters of the RND superfamily-like protein,Endolysin ; ligands: L6T ; X-RAY DIFFRACTION 2.698Å

e4k0jA3[A:133-180,A:265-323] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HEAVY METAL CATION TRICOMPONENT EFFLUX PUMP ZNEA(CZCA- LIKE) ; ligands: ZN ; X-RAY DIFFRACTION 3.0Å

e4k0jA7[A:664-706,A:796-848] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HEAVY METAL CATION TRICOMPONENT EFFLUX PUMP ZNEA(CZCA- LIKE) ; X-RAY DIFFRACTION 3.0Å

e6r4lA4[A:775-992] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NPC intracellular cholesterol transporter 1-related protein 1 ; ligands: ERG,NAG ; X-RAY DIFFRACTION 3.300Å

e5u73A4[A:862-1089] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Niemann-Pick C1 protein ; ligands: NAG ; X-RAY DIFFRACTION 3.348Å

e4k0eA3[A:133-180,A:265-324] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Heavy metal cation tricomponent efflux pump ZneA(CzcA-like) ; ligands: ZN ; X-RAY DIFFRACTION 3.7Å

e4k0eA7[A:662-706,A:795-848] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Heavy metal cation tricomponent efflux pump ZneA(CzcA-like) ; X-RAY DIFFRACTION 3.7Å

e3k07A5[A:675-718,A:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein cusA ; X-RAY DIFFRACTION 3.52Å

e3ne5A5[A:664-707,A:798-857] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein cusA ; X-RAY DIFFRACTION 2.898Å

e4mt1A8[A:656-709,A:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Drug efflux protein ; X-RAY DIFFRACTION 3.540Å

e4dnrA8[A:677-722,A:809-861] Image Pymol Jmol Links: PDB, SCOP, CATH

Cation efflux system protein CusA ; X-RAY DIFFRACTION 3.680Å

e3k0iA7[A:675-718,A:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH

Cation efflux system protein cusA ; X-RAY DIFFRACTION 4.116Å

e3ksoA7[A:675-718,A:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein cusA ; X-RAY DIFFRACTION 4.350Å

e3kssA7[A:675-718,A:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein cusA ; X-RAY DIFFRACTION 3.88Å

e4k0jC7[C:625-667,C:757-809] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HEAVY METAL CATION TRICOMPONENT EFFLUX PUMP ZNEA(CZCA- LIKE) ; X-RAY DIFFRACTION 3.0Å

e4k0jD7[D:625-667,D:757-809] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HEAVY METAL CATION TRICOMPONENT EFFLUX PUMP ZNEA(CZCA- LIKE) ; X-RAY DIFFRACTION 3.0Å

e4k0jE7[E:625-667,E:757-809] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HEAVY METAL CATION TRICOMPONENT EFFLUX PUMP ZNEA(CZCA- LIKE) ; X-RAY DIFFRACTION 3.0Å

e4k0jF7[F:625-667,F:757-809] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HEAVY METAL CATION TRICOMPONENT EFFLUX PUMP ZNEA(CZCA- LIKE) ; X-RAY DIFFRACTION 3.0Å

e4k0eC7[C:625-667,C:757-809] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Heavy metal cation tricomponent efflux pump ZneA(CzcA-like) ; X-RAY DIFFRACTION 3.7Å

e4dntA8[A:677-722,A:809-861] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; X-RAY DIFFRACTION 3.100Å

e4dopA1[A:677-722,A:809-861] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; X-RAY DIFFRACTION 4.200Å

e3t51A7[A:664-707,A:798-857] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ligands: CU ; X-RAY DIFFRACTION 3.9Å

e3t53A7[A:664-707,A:798-857] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ligands: CU ; X-RAY DIFFRACTION 3.370Å

e3t56A3[A:664-707,A:798-857] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ligands: CU ; X-RAY DIFFRACTION 3.420Å

e5lq3A6[A:669-719,A:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.550Å

e5lq3B7[B:669-719,B:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.550Å

e5lq3D7[D:669-719,D:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.550Å

e5lq3E3[E:669-719,E:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.550Å

e5lq3C4[C:669-719,C:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.550Å

e5lq3F4[F:669-719,F:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.550Å

e5t0oA7[A:669-719,A:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.150Å

e5t0oB2[B:669-719,B:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.150Å

e5t0oC2[C:669-719,C:806-858] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CmeB ; X-RAY DIFFRACTION 3.150Å

e6owsA2[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e6owsB1[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e6owsC5[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e6vksA1[A:656-709,A:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e6vksB2[B:656-709,B:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e6vksC6[C:656-709,C:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e6vktA3[A:656-709,A:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e6vktB2[B:656-709,B:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e6vktC8[C:656-709,C:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kf5A3[A:675-718,A:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kgdA2[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kf5B6[B:675-718,B:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf5C8[C:675-718,C:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf7A5[A:675-718,A:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf7C3[C:675-718,C:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf8A4[A:675-718,A:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf6A3[A:675-718,A:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf6B5[B:675-718,B:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf6C8[C:675-718,C:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf7B7[B:675-718,B:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf8B8[B:675-718,B:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kf8C2[C:675-718,C:809-868] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Cation efflux system protein CusA ; ELECTRON MICROSCOPY

e7kgdB5[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kgdC8[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kgeA2[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kgeB7[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kgeC6[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kgfA8[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kgfB6[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kgfC8[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kggA6[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kggB3[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kggC1[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: ET ; ELECTRON MICROSCOPY

e7kghA2[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kghB1[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kghC7[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: ET ; ELECTRON MICROSCOPY

e7kgiA2[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: ET ; ELECTRON MICROSCOPY

e7kgiB5[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7kgiC1[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: ET ; ELECTRON MICROSCOPY

e7b8pA2[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7cz9A4[A:679-729,A:816-869] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: GOL,LMT ; X-RAY DIFFRACTION 1.85Å

e7cz9C1[C:679-729,C:816-869] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: GOL,LMT ; X-RAY DIFFRACTION 1.85Å

e7cz9D2[D:679-729,D:816-869] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: LMT ; X-RAY DIFFRACTION 1.85Å

e7cz9E1[E:679-729,E:816-869] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: GOL,LMT ; X-RAY DIFFRACTION 1.85Å

e7cz9F4[F:679-729,F:816-869] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: GOL,LMT ; X-RAY DIFFRACTION 1.85Å

e7cz9B5[B:679-729,B:816-869] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ligands: GOL,LMT ; X-RAY DIFFRACTION 1.85Å

e7b8pB3[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7b8pC3[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7b8qA6[A:652-701,A:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7b8qB3[B:652-701,B:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e7b8qC1[C:652-701,C:789-835] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8deuA8[A:656-709,A:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8deuB8[B:656-709,B:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8deuC5[C:656-709,C:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8devA4[A:656-709,A:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8devB7[B:656-709,B:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8devC6[C:656-709,C:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8dewA7[A:656-709,A:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8dewB3[B:656-709,B:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8dewC7[C:656-709,C:795-841] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Efflux pump membrane transporter ; ELECTRON MICROSCOPY

e8gk0B8[B:668-718,B:805-857] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

; ELECTRON MICROSCOPY

T: Multidrug efflux transporter AcrB TolC docking domain

possibly duplication of P domains, only ferredoxin strand 2 and 3 are displaced

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