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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

X: beta-barrel domain in acetyl-CoA synthetase-like proteins
H: beta-barrel domain in acetyl-CoA synthetase-like proteins
T: beta-barrel domain in acetyl-CoA synthetase-like proteins
F: GH3

PF03321 CL0378

Representatives:

e4b2gB2[B:357-435] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GH3-1 AUXIN CONJUGATING ENZYME ; ligands: V1N ; X-RAY DIFFRACTION 2.37Å

e4eplA3[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 2.00Å

e4epmA3[A:346-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-substituted benzoates-glutamate ligase GH3.12 ; ligands: AMP,SO4 ; X-RAY DIFFRACTION 2.10Å

e4l39B3[B:346-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-substituted benzoates-glutamate ligase GH3.12 ; ligands: APC ; X-RAY DIFFRACTION 2.81Å

e4l39A3[A:346-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-substituted benzoates-glutamate ligase GH3.12 ; ligands: APC,MG ; X-RAY DIFFRACTION 2.81Å

e4eqlB2[B:346-418] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-SUBSTITUTED BENZOATES-GLUTAMATE LIGASE GH3.12 ; ligands: AMP ; X-RAY DIFFRACTION 1.8Å

e4b2gA6[A:357-435] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GH3-1 AUXIN CONJUGATING ENZYME ; ligands: V1N ; X-RAY DIFFRACTION 2.37Å

e4eq4A6[A:346-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-SUBSTITUTED BENZOATES-GLUTAMATE LIGASE GH3.12 ; ligands: AMP ; X-RAY DIFFRACTION 2.07Å

e4eq4B6[B:346-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-SUBSTITUTED BENZOATES-GLUTAMATE LIGASE GH3.12 ; ligands: AMP ; X-RAY DIFFRACTION 2.07Å

e4ewvA3[A:346-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-SUBSTITUTED BENZOATES-GLUTAMATE LIGASE GH3.12 ; ligands: APC,MN ; X-RAY DIFFRACTION 2.9Å

e4ewvB3[B:346-417] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-SUBSTITUTED BENZOATES-GLUTAMATE LIGASE GH3.12 ; ligands: APC ; X-RAY DIFFRACTION 2.9Å

e4eqlA3[A:346-418] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-SUBSTITUTED BENZOATES-GLUTAMATE LIGASE GH3.12 ; ligands: AMP ; X-RAY DIFFRACTION 1.8Å

e5echA2[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 2.140Å

e5echD3[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 2.140Å

e5eciA3[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.560Å

e5eciD3[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.560Å

e5eckA1[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.540Å

e5eckD3[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.540Å

e5eclA1[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.850Å

e5eclD2[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; ligands: ILE,MG ; X-RAY DIFFRACTION 1.850Å

e5ecmA1[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.600Å

e5ecmD2[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.600Å

e5ecnA3[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.720Å

e5ecnD3[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.720Å

e5ecoA2[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.800Å

e5ecoD3[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.800Å

e5ecpA3[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; ligands: ATP,MET ; X-RAY DIFFRACTION 2.25Å

e5ecpD1[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 2.25Å

e5ecqA1[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.660Å

e5ecqD2[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.660Å

e5ecrA3[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.720Å

e5ecrD3[D:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 1.720Å

e5kodB3[B:359-446] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Indole-3-acetic acid-amido synthetase GH3.5 ; ligands: AMP ; X-RAY DIFFRACTION 2.20Å

e5kodC3[C:359-446] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Indole-3-acetic acid-amido synthetase GH3.5 ; ligands: AMP ; X-RAY DIFFRACTION 2.20Å

e5kodA1[A:359-446] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Indole-3-acetic acid-amido synthetase GH3.5 ; ligands: AMP ; X-RAY DIFFRACTION 2.20Å

e5kodD1[D:359-375,D:396-446] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Indole-3-acetic acid-amido synthetase GH3.5 ; ligands: AMP ; X-RAY DIFFRACTION 2.20Å

e5gzzA1[A:351-424] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Jasmonic acid-amido synthetase JAR1 ; X-RAY DIFFRACTION 2.400Å

e6avhD2[D:347-427] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GH3.15 acyl acid amido synthetase ; ligands: AMP ; X-RAY DIFFRACTION 3.011Å

e6avhA1[A:347-427] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GH3.15 acyl acid amido synthetase ; ligands: AMP ; X-RAY DIFFRACTION 3.011Å

e6avhB3[B:347-427] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GH3.15 acyl acid amido synthetase ; ligands: AMP ; X-RAY DIFFRACTION 3.011Å

e6avhC2[C:347-427] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GH3.15 acyl acid amido synthetase ; ligands: AMP ; X-RAY DIFFRACTION 3.011Å

e6e1qA2[A:347-427] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

AtGH3.15 acyl acid amido synthetase ; X-RAY DIFFRACTION 2.148Å

e6omsB3[B:346-418] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-substituted benzoates-glutamate ligase GH3.12 ; ligands: AMP ; X-RAY DIFFRACTION 1.94Å

e6omsA3[A:346-418] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

4-substituted benzoates-glutamate ligase GH3.12 ; ligands: AMP ; X-RAY DIFFRACTION 1.94Å

e7dk8A2[A:359-435] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Probable indole-3-acetic acid-amido synthetase GH3.8 ; ligands: AMP ; X-RAY DIFFRACTION 1.99Å

e7vkaA3[A:359-446] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Indole-3-acetic acid-amido synthetase GH3.6 ; ligands: AMP ; X-RAY DIFFRACTION 2.400Å

e7vkaB2[B:359-446] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Indole-3-acetic acid-amido synthetase GH3.6 ; ligands: AMP ; X-RAY DIFFRACTION 2.400Å

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.

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