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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

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

X: TIM beta/alpha-barrel
H: TIM barrels
T: TIM barrels
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:

e2ddxA1[A:1-324] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

BETA-1,3-XYLANASE ; ligands: GOL,MG ; X-RAY DIFFRACTION 0.86Å

e4aw7A2[A:44-376] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GH86A BETA-PORPHYRANASE ; ligands: CL,IOD,K ; X-RAY DIFFRACTION 1.33Å

e4ckqA2[A:12-295] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CARBOHYDRATE BINDING FAMILY 6 ; ligands: MLA ; X-RAY DIFFRACTION 1.40Å

e5awoA1[A:11-367] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isomaltodextranase ; ligands: ACT ; X-RAY DIFFRACTION 1.44Å

e7mccA1[A:0-189] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AI-designed TIM-barrel F2C ; ligands: SO4 ; X-RAY DIFFRACTION 1.460Å

e1rh9A1[A:30-399] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ENDO-BETA-MANNANASE ; X-RAY DIFFRACTION 1.5Å

e1uuqA1[A:22-431] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MANNOSYL-OLIGOSACCHARIDE GLUCOSIDASE ; ligands: GOL,SO4 ; X-RAY DIFFRACTION 1.5Å

e2epoA2[A:83-414] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

N-acetyl-beta-D-glucosaminidase ; ligands: ACY ; X-RAY DIFFRACTION 1.55Å

e6m8nA1[A:36-402] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

P5AFcnA ; ligands: CA,MLI ; X-RAY DIFFRACTION 1.550Å

e2c0hA1[A:18-367] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

MANNAN ENDO-1,4-BETA-MANNOSIDASE ; ligands: SO4 ; X-RAY DIFFRACTION 1.6Å

e6yqxA1[A:2-184] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

de novo designed TIM barrel DeNovoTIM13 ; ligands: CL,GOL ; X-RAY DIFFRACTION 1.638Å

e1onwA2[A:63-346] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Isoaspartyl dipeptidase ; ligands: CL,EDO,ZN ; X-RAY DIFFRACTION 1.65Å

e2qeeC1[C:2-416] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

BH0493 protein ; ligands: CL,MG,ZN ; X-RAY DIFFRACTION 1.650Å

e2je8A5[A:331-678] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

BETA-MANNOSIDASE ; ligands: B3P,GOL ; X-RAY DIFFRACTION 1.7Å

e5opqA2[A:316-625] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

3,6-anhydro-D-galactosidase ; ligands: CL,MPD,TRS ; X-RAY DIFFRACTION 1.7Å

e4r33A1[A:15-398] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

NosL ; ligands: GOL,K,SAH,SF4,TRP ; X-RAY DIFFRACTION 1.78Å

e1eokA1[A:8-289] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ENDO-BETA-N-ACETYLGLUCOSAMINIDASE F3 ; ligands: SO4 ; X-RAY DIFFRACTION 1.8Å

e1yx1A1[A:3-252] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

HYPOTHETICAL PROTEIN PA2260 ; ligands: IPA ; X-RAY DIFFRACTION 1.8Å

e3a4wA1[A:407-707] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CHITINASE ; ligands: MG,SO4 ; X-RAY DIFFRACTION 1.8Å

e2vzsA5[A:336-674] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

EXO-BETA-D-GLUCOSAMINIDASE ; ligands: CD,GCS,GOL ; X-RAY DIFFRACTION 1.85Å

e6zv9B1[B:0-168] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

TFD-EE ; ligands: EDO,TB ; X-RAY DIFFRACTION 1.85Å

e4nuzA1[A:98-447] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endo-beta-N-acetylglucosaminidase F2 ; X-RAY DIFFRACTION 1.905Å

e4nuyA2[A:101-443] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endo-beta-N-acetylglucosaminidase F2 ; X-RAY DIFFRACTION 2.609Å

e6en3A3[A:48-447] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endo-beta-N-acetylglucosaminidase F2,Multifunctional-autoprocessing repeats-in-toxin ; ligands: BMA,GAL,MAN,NAG,NI ; X-RAY DIFFRACTION 2.9Å

e6e58A3[A:46-388] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Secreted Endo-beta-N-acetylglucosaminidase (EndoS) ; X-RAY DIFFRACTION 2.750Å

e6e58B3[B:46-388] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Secreted Endo-beta-N-acetylglucosaminidase (EndoS) ; X-RAY DIFFRACTION 2.750Å

e6mdsA3[A:46-388] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endo-beta-N-acetylglucosaminidase ; ligands: BMA,GAL,MAN,NAG ; X-RAY DIFFRACTION 2.500Å

e6mdsB3[B:46-388] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endo-beta-N-acetylglucosaminidase ; ligands: BMA,GAL,MAN,NAG ; X-RAY DIFFRACTION 2.500Å

e6mdvA3[A:46-388] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endo-beta-N-acetylglucosaminidase ; ligands: BMA,MAN,NAG ; X-RAY DIFFRACTION 2.500Å

e6mdvB3[B:46-388] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Endo-beta-N-acetylglucosaminidase ; ligands: BMA,MAN,NAG ; X-RAY DIFFRACTION 2.500Å

e6kpoA1[A:22-315] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chitinase ; ligands: ASN,PEG,PGE ; X-RAY DIFFRACTION 2.35Å

e5bopB1[B:2-12,B:37-192] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Octarellin V.1 ; X-RAY DIFFRACTION 1.95Å

e6hzfA2[A:133-893] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

BPa0997 ; ligands: NA,SER ; X-RAY DIFFRACTION 1.95Å

e5bvlA1[A:1-184] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

designed TIM barrel sTIM11 ; X-RAY DIFFRACTION 1.992Å

e1vcvA1[A:1-226] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PROBABLE DEOXYRIBOSE-PHOSPHATE ALDOLASE ; ligands: ZN ; X-RAY DIFFRACTION 2.0Å

e2icsA2[A:55-321] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Adenine Deaminase ; ligands: ADE,ZN ; X-RAY DIFFRACTION 2.17Å

e3e38A1[A:22-277] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

two-domain protein containing predicted PHP-like metal-dependent phosphoesterase ; ligands: CAC,GOL,ZN ; X-RAY DIFFRACTION 2.20Å

e6dlhA1[A:29-418] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Alpha-1,4-endofucoidanase ; ligands: CA,EDO,NA ; X-RAY DIFFRACTION 2.200Å

e2anuA1[A:5-233] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

hypothetical protein TM0559 ; ligands: CL,ZN ; X-RAY DIFFRACTION 2.26Å

e5ta1A2[A:40-418] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Glycoside Hydrolase ; ligands: CA,EDO,GOL ; X-RAY DIFFRACTION 2.30Å

e5ngwA1[A:11-370] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

OpGH99A ; ligands: BR ; X-RAY DIFFRACTION 2.40Å

e3mt1A3[A:2-240] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Putative carboxynorspermidine decarboxylase protein ; ligands: SO4 ; X-RAY DIFFRACTION 2.5Å

e5jvkA2[A:124-442] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Uncharacterized protein ; ligands: CXS,GOL,SO4 ; X-RAY DIFFRACTION 2.5Å

e5zb8B1[B:303-398] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PfuEndoQ ; X-RAY DIFFRACTION 2.500Å

e4njgA1[A:2-210] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

7-carboxy-7-deazaguanine synthase ; ligands: HHS,SAM,SF4 ; X-RAY DIFFRACTION 2.598Å

e3pugA1[A:2-282,A:331-354,A:387-432] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Malate Synthase ; ligands: CL,GLV,K,MG ; X-RAY DIFFRACTION 2.700Å

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