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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

a/b three-layered sandwichesrepeating beta-alpha units form a sandwich with a mainly parallel beta-sheet layer stacked between two alpha-helix layers

X: Rossmann-like
H: Rossmann-related
T: NAD(P)-binding Rossmann-fold domains
F: SDH_C

PF18317

Representatives:

e1vi2A1[A:107-288] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SHIKIMATE 5-DEHYDROGENASE 2 ; ligands: NAD ; X-RAY DIFFRACTION 2.1Å

e3tnlA1[A:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: CL,NAD,SKM ; X-RAY DIFFRACTION 1.45Å

e3tozA1[A:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: NAD,SO4 ; X-RAY DIFFRACTION 2.20Å

e3tozB1[B:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: NAD,SO4 ; X-RAY DIFFRACTION 2.20Å

e3tozC1[C:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: CL,NAD ; X-RAY DIFFRACTION 2.20Å

e3tozD1[D:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: NAD ; X-RAY DIFFRACTION 2.20Å

e3tozE1[E:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: CL,NAD ; X-RAY DIFFRACTION 2.20Å

e3tozF1[F:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: NAD ; X-RAY DIFFRACTION 2.20Å

e3tozG1[G:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: NAD ; X-RAY DIFFRACTION 2.20Å

e3tozH1[H:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: CL,NAD,SO4 ; X-RAY DIFFRACTION 2.20Å

e3tnlB1[B:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: NAD ; X-RAY DIFFRACTION 1.45Å

e3tnlC1[C:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: CL,NAD,SKM ; X-RAY DIFFRACTION 1.45Å

e3tnlD1[D:113-291] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate dehydrogenase ; ligands: NAD ; X-RAY DIFFRACTION 1.45Å

e1npdB1[B:107-288] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYPOTHETICAL SHIKIMATE 5-DEHYDROGENASE-LIKE PROTEIN YDIB ; ligands: NAD ; X-RAY DIFFRACTION 2.3Å

e3t4eA1[A:107-288] Image Pymol Jmol Links: PDB, SCOP, CATH

Quinate/shikimate dehydrogenase ; ligands: NAD,PO4 ; X-RAY DIFFRACTION 1.95Å

e1npdA1[A:107-287] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYPOTHETICAL SHIKIMATE 5-DEHYDROGENASE-LIKE PROTEIN YDIB ; ligands: NAD ; X-RAY DIFFRACTION 2.3Å

e1o9bA1[A:107-287] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYPOTHETICAL SHIKIMATE 5-DEHYDROGENASE-LIKE PROTEIN YDIB ; ligands: PO4 ; X-RAY DIFFRACTION 2.5Å

e1o9bB1[B:107-287] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

HYPOTHETICAL SHIKIMATE 5-DEHYDROGENASE-LIKE PROTEIN YDIB ; ligands: PO4 ; X-RAY DIFFRACTION 2.5Å

e1vi2B1[B:107-287] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SHIKIMATE 5-DEHYDROGENASE 2 ; ligands: NAD ; X-RAY DIFFRACTION 2.1Å

e3t4eB1[B:107-286] Image Pymol Jmol Links: PDB, SCOP, CATH

Quinate/shikimate dehydrogenase ; ligands: NAD,PO4 ; X-RAY DIFFRACTION 1.95Å

e4p4gA2[A:105-269] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase AroE (5-dehydroshikimate reductase) ; ligands: BR,SKM,SO4 ; X-RAY DIFFRACTION 1.700Å

e4p4gB2[B:105-269] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase AroE (5-dehydroshikimate reductase) ; ligands: SO4 ; X-RAY DIFFRACTION 1.700Å

e4p4lA1[A:105-268] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase AroE (5-dehydroshikimate reductase) ; ligands: SKM,SO4 ; X-RAY DIFFRACTION 2.000Å

e4p4lB2[B:105-268] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase AroE (5-dehydroshikimate reductase) ; ligands: SKM,SO4 ; X-RAY DIFFRACTION 2.000Å

e4p4lC1[C:105-268] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase AroE (5-dehydroshikimate reductase) ; ligands: SKM,SO4 ; X-RAY DIFFRACTION 2.000Å

e4p4nA1[A:105-268] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase AroE (5-dehydroshikimate reductase) ; ligands: SO4 ; X-RAY DIFFRACTION 1.950Å

e4p4nB2[B:105-265] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase AroE (5-dehydroshikimate reductase) ; ligands: SO4 ; X-RAY DIFFRACTION 1.950Å

e4p4nC2[C:105-267] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase AroE (5-dehydroshikimate reductase) ; ligands: SO4 ; X-RAY DIFFRACTION 1.950Å

e4xijA1[A:106-267] Image Pymol Jmol Links: PDB, SCOP, CATH

Shikimate 5-dehydrogenase ; ligands: EDO,SO4 ; X-RAY DIFFRACTION 1.450Å

e5swvC3[C:1418-1573] Image Pymol Jmol Links: PDB, SCOP, CATH

Pentafunctional AROM polypeptide ; 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.

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