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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: Peptidase_M42

PF05343 CL0105

Representatives:

e1y0yA1[A:73-163] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

FRV OPERON PROTEIN FRVX ; X-RAY DIFFRACTION 1.6Å

e1vhoA1[A:70-152] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

endoglucanase ; ligands: CAC,SO4 ; X-RAY DIFFRACTION 1.86Å

e1vheA1[A:73-162] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE/GLUCANASE HOMOLOG ; X-RAY DIFFRACTION 1.9Å

e1xfoC1[C:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

FRV OPERON PROTEIN FRVX ; X-RAY DIFFRACTION 1.96Å

e1y0rA1[A:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Frv operon protein FrvX ; X-RAY DIFFRACTION 1.6Å

e1xfoB1[B:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

FRV OPERON PROTEIN FRVX ; X-RAY DIFFRACTION 1.96Å

e1xfoD1[D:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

FRV OPERON PROTEIN FRVX ; X-RAY DIFFRACTION 1.96Å

e2wznA2[A:76-166] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

354AA LONG HYPOTHETICAL OPERON PROTEIN FRV ; ligands: GOL ; X-RAY DIFFRACTION 1.9Å

e3kl9A1[A:69-159] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e2pe3B1[B:76-158] Image Pymol Jmol Links: PDB, SCOP, CATH

354AA LONG HYPOTHETICAL OPERON PROTEIN FRV ; X-RAY DIFFRACTION 2.0Å

e1yloB1[B:67-147] Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein SF2450 ; X-RAY DIFFRACTION 2.15Å

e1yloC1[C:67-147] Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein SF2450 ; X-RAY DIFFRACTION 2.15Å

e1yloD1[D:67-147] Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein SF2450 ; X-RAY DIFFRACTION 2.15Å

e1yloE1[E:67-147] Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein SF2450 ; X-RAY DIFFRACTION 2.15Å

e1yloF1[F:67-147] Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein SF2450 ; X-RAY DIFFRACTION 2.15Å

e2pe3C1[C:76-158] Image Pymol Jmol Links: PDB, SCOP, CATH

354AA LONG HYPOTHETICAL OPERON PROTEIN FRV ; X-RAY DIFFRACTION 2.0Å

e2pe3D1[D:76-158] Image Pymol Jmol Links: PDB, SCOP, CATH

354AA LONG HYPOTHETICAL OPERON PROTEIN FRV ; X-RAY DIFFRACTION 2.0Å

e2greI3[I:74-120,I:141-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2cf4A3[A:66-145] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROTEIN PH0519 ; X-RAY DIFFRACTION 3.08Å

e3isxA3[A:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH

Endoglucanase ; X-RAY DIFFRACTION 1.40Å

e2wyrF3[F:1721-1800] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrA4[A:66-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrC4[C:728-804] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrG4[G:2052-2128] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrB4[B:397-473] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrE4[E:1390-1466] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrH4[H:2383-2459] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrJ4[J:3045-3121] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrK4[K:3376-3452] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrD4[D:1059-1135] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrI4[I:2714-2790] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2wyrL4[L:3707-3783] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

COBALT-ACTIVATED PEPTIDASE TET1 ; X-RAY DIFFRACTION 2.24Å

e2greB1[B:74-120,B:141-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greC1[C:74-120,C:141-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greD1[D:74-120,D:140-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greE1[E:74-120,E:141-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greH1[H:74-120,H:140-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greK1[K:74-120,K:140-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greM1[M:74-120,M:141-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greN1[N:74-120,N:141-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greO1[O:74-120,O:140-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2greP1[P:74-120,P:141-186] Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

e2pe3A1[A:76-169] Image Pymol Jmol Links: PDB, SCOP, CATH

354AA LONG HYPOTHETICAL OPERON PROTEIN FRV ; X-RAY DIFFRACTION 2.0Å

e1xfoA2[A:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

FRV OPERON PROTEIN FRVX ; X-RAY DIFFRACTION 1.96Å

e3kl9B1[B:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9C1[C:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9D1[D:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9E1[E:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9F1[F:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9G1[G:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9H1[H:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9I1[I:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9J1[J:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9K1[K:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e3kl9L1[L:71-148] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glutamyl aminopeptidase ; X-RAY DIFFRACTION 2.700Å

e4wwvA2[A:75-165] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase from family M42 ; X-RAY DIFFRACTION 3.00Å

e4p6yA2[A:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yB2[B:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yC2[C:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yD1[D:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yE2[E:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yF2[F:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yG1[G:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yH2[H:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yI1[I:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yJ1[J:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yK1[K:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4p6yL1[L:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; X-RAY DIFFRACTION 2.20Å

e4wwvB2[B:75-165] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase from family M42 ; X-RAY DIFFRACTION 3.00Å

e5ds0A1[A:71-160] Image Pymol Jmol Links: PDB, SCOP, CATH

Peptidase M42 ; X-RAY DIFFRACTION 2.80Å

e4x8iA1[A:68-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Lysyl aminopeptidase ; ligands: GD ; X-RAY DIFFRACTION 2.500Å

e4x8iB1[B:68-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Lysyl aminopeptidase ; ligands: GD ; X-RAY DIFFRACTION 2.500Å

e4x8iC2[C:68-158] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Lysyl aminopeptidase ; ligands: GD ; X-RAY DIFFRACTION 2.500Å

e5l6zA1[A:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

leucylaminopeptidase ; ligands: CIT ; X-RAY DIFFRACTION 1.490Å

e5l6zB1[B:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

leucylaminopeptidase ; X-RAY DIFFRACTION 1.490Å

e5ne6A2[A:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE ; ligands: CIT ; X-RAY DIFFRACTION 2.000Å

e5ne7A2[A:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE ; X-RAY DIFFRACTION 1.840Å

e5ne7B1[B:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE ; ligands: CIT ; X-RAY DIFFRACTION 1.840Å

e5ne8A1[A:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE ; X-RAY DIFFRACTION 1.750Å

e5ne8B2[B:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE ; X-RAY DIFFRACTION 1.750Å

e5ne9A2[A:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.370Å

e5ne9B1[B:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.370Å

e5ne6B1[B:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.000Å

e6f3kA2[A:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLID-STATE NMR

e6r8nA2[A:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nB2[B:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nC1[C:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nD2[D:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nE1[E:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nF2[F:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nG2[G:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nH1[H:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nI2[I:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nJ1[J:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nK2[K:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6r8nL2[L:73-163] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Tetrahedral aminopeptidase ; SOLUTION NMR

e6nw5A1[A:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; ligands: SO4 ; X-RAY DIFFRACTION 1.700Å

e6nw5B2[B:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; ligands: SO4 ; X-RAY DIFFRACTION 1.700Å

e6nw5C1[C:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; ligands: SO4 ; X-RAY DIFFRACTION 1.700Å

e6nw5D2[D:65-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aminopeptidase ; ligands: SO4 ; X-RAY DIFFRACTION 1.700Å

e2fvgA1[A:65-148] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

endoglucanase ; X-RAY DIFFRACTION 2.01Å

e1yloA1[A:67-147] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein SF2450 ; X-RAY DIFFRACTION 2.15Å

e2greA1[A:74-121,A:141-186] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

DEBLOCKING AMINOPEPTIDASE ; X-RAY DIFFRACTION 2.65Å

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