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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

F: EF-G_D2

PF22042

Representatives:

e2dy1A1[A:275-377] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

ELONGATION FACTOR G ; X-RAY DIFFRACTION 1.6Å

e5kcs1w4[1w:241-340] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetracycline resistance protein TetM from transposon Tn916 ; ELECTRON MICROSCOPY

e1wdtA1[A:275-377] Image Pymol Jmol Links: PDB, SCOP, CATH

elongation factor G homolog ; X-RAY DIFFRACTION 2.2Å

e4b43A2[A:244-355] Image Pymol Jmol Links: PDB, SCOP, CATH

TRANSLATION INITIATION FACTOR IF-2 ; ligands: GOL,IOD,MG ; X-RAY DIFFRACTION 1.94Å

e4b44A2[A:244-354] Image Pymol Jmol Links: PDB, SCOP, CATH

TRANSLATION INITIATION FACTOR IF-2 ; X-RAY DIFFRACTION 2.70Å

e3tr5B6[B:277-386] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; ligands: CA ; X-RAY DIFFRACTION 2.100Å

e3vr1A12[A:279-389] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PEPTIDE CHAIN RELEASE FACTOR 3 ; X-RAY DIFFRACTION 3.0Å

e3uoqW6[W:282-390] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB

e1zo1I9[I:397-499] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

translation initiation factor 2 ; ELECTRON MICROSCOPY

e4b47A5[A:244-355] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRANSLATION INITIATION FACTOR IF-2 ; X-RAY DIFFRACTION 2.30Å

e4b48A5[A:244-354] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRANSLATION INITIATION FACTOR IF-2 ; X-RAY DIFFRACTION 2.8Å

e4kjzA9[A:234-334] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRANSLATION INITIATION FACTOR IF-2 ; X-RAY DIFFRACTION 2.8Å

e4kjzD13[D:234-334] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRANSLATION INITIATION FACTOR IF-2 ; X-RAY DIFFRACTION 2.8Å

e4kjzB13[B:234-334] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRANSLATION INITIATION FACTOR IF-2 ; X-RAY DIFFRACTION 2.8Å

e3j4jA7[A:244-344] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e3tr5C15[C:277-386] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; ligands: CA ; X-RAY DIFFRACTION 2.100Å

e3tr5D15[D:277-386] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; ligands: CA ; X-RAY DIFFRACTION 2.100Å

e3vr1B18[B:279-389] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PEPTIDE CHAIN RELEASE FACTOR 3 ; X-RAY DIFFRACTION 3.0Å

e3vr1D18[D:279-389] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PEPTIDE CHAIN RELEASE FACTOR 3 ; X-RAY DIFFRACTION 3.0Å

e3vr1C18[C:279-389] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PEPTIDE CHAIN RELEASE FACTOR 3 ; X-RAY DIFFRACTION 3.0Å

e3zvoY12[Y:281-390] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB

e3vqtB5[B:279-389] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; X-RAY DIFFRACTION 1.520Å

e3vqtC5[C:279-389] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; X-RAY DIFFRACTION 1.520Å

e3tr5A9[A:277-386] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; ligands: CA ; X-RAY DIFFRACTION 2.100Å

e2h5eA8[A:282-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor RF-3 ; X-RAY DIFFRACTION 2.8Å

e2h5eB8[B:282-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor RF-3 ; X-RAY DIFFRACTION 2.8Å

e3vqtA9[A:279-389] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; X-RAY DIFFRACTION 1.520Å

e3vqtD5[D:279-389] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; X-RAY DIFFRACTION 1.520Å

e3sfsW12[W:282-395] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB

e2o0fA1[A:282-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; ELECTRON MICROSCOPY

e4b3xA2[A:244-363] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRANSLATION INITIATION FACTOR IF-2 ; ligands: GOL ; X-RAY DIFFRACTION 1.95Å

e4v8oAY2[AY:281-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PEPTIDE CHAIN RELEASE FACTOR 3 ; X-RAY DIFFRACTION 3.80Å

e4v85AW3[AW:282-395] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; X-RAY DIFFRACTION 3.2Å

e4v89AW3[AW:282-395] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; X-RAY DIFFRACTION 3.7Å

e3j25A4[A:241-340] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetracycline resistance protein tetM ; ELECTRON MICROSCOPY

e3j9yw5[w:241-340] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetracycline resistance protein TetM ; ELECTRON MICROSCOPY

e4v6vA11[A1:241-337] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetracycline resistance protein TetO ; ELECTRON MICROSCOPY

e3j3612[1:241-337] Image Pymol Jmol Links: PDB, SCOP, CATH Obsolete PDB

e5lmva3[a:243-340] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e5me0W1[W:561-658] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e5me1W1[W:561-658] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e6gwtw2[w:282-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; ELECTRON MICROSCOPY

e6gxmw2[w:281-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor RF3 ; ELECTRON MICROSCOPY

e6gb2BC1[BC:350-444] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2, mitochondrial ; ELECTRON MICROSCOPY

e6gxnw2[w:281-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor RF3 ; ELECTRON MICROSCOPY

e6gxow3[w:281-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor RF3 ; ELECTRON MICROSCOPY

e6gxpw3[w:281-390] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor RF3 ; ELECTRON MICROSCOPY

e6n0iB5[B:290-411] Image Pymol Jmol Links: PDB, SCOP, CATH

Elongation factor G 2 ; ligands: PEG ; X-RAY DIFFRACTION 2.60Å

e6n0iA1[A:290-411] Image Pymol Jmol Links: PDB, SCOP, CATH

Elongation factor G 2 ; X-RAY DIFFRACTION 2.60Å

e6notA1[A:284-401] Image Pymol Jmol Links: PDB, SCOP, CATH

Elongation factor G ; X-RAY DIFFRACTION 2.400Å

e6notB5[B:284-401] Image Pymol Jmol Links: PDB, SCOP, CATH

Elongation factor G ; X-RAY DIFFRACTION 2.400Å

e6o7kf4[f:561-658] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e6o9kz1[z:561-658] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e6rw573[7:350-444] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2, mitochondrial ; ELECTRON MICROSCOPY

e6lkqv3[v:282-395] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Peptide chain release factor 3 ; X-RAY DIFFRACTION 3.1Å

e7nshBC2[BC:352-453,BC:476-484] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ribosome-releasing factor 2, mitochondrial ; ELECTRON MICROSCOPY

e7l20w5[w:352-484] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Ribosome-releasing factor 2, mitochondrial ; ELECTRON MICROSCOPY

e7siqA3[A:279-388] Image Pymol Jmol Links: PDB, SCOP, CATH

Peptide chain release factor 3 ; X-RAY DIFFRACTION 2.950Å

e7unvx4[x:513-613] Image Pymol Jmol Links: PDB, SCOP, CATHDOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e7unwx5[x:513-613] Image Pymol Jmol Links: PDB, SCOP, CATHDOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e7po273[7:350-444] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2, mitochondrial ; ELECTRON MICROSCOPY

e7unqx1[x:512-609] Image Pymol Jmol Links: PDB, SCOP, CATHDOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e7unrx2[x:512-609] Image Pymol Jmol Links: PDB, SCOP, CATHDOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e7untx3[x:512-609] Image Pymol Jmol Links: PDB, SCOP, CATHDOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e7unux4[x:512-609] Image Pymol Jmol Links: PDB, SCOP, CATHDOI

Translation initiation factor IF-2 ; ELECTRON MICROSCOPY

e8dmfA5[A:279-394] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetracycline resistance protein TetQ ; ELECTRON MICROSCOPY

e7m5d72[7:282-395] Image Pymol Jmol Links: PDB, SCOP, CATH

Peptide chain release factor 3 ; ELECTRON MICROSCOPY

e7uvpA2[A:279-394] Image Pymol Jmol Links: PDB, SCOP, CATH

Tetracycline resistance protein TetQ ; ELECTRON MICROSCOPY

e4kjzC3[C:244-344] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TRANSLATION INITIATION FACTOR IF-2 ; X-RAY DIFFRACTION 2.8Å

e3izyP2[P:350-444] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Translation initiation factor IF-2, mitochondrial ; ELECTRON MICROSCOPY

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: Aminomethyltransferase beta-barrel domain

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

T: PUA domain

12543, 2-crossover-3

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