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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

X: LuxS, MPP, ThrRS/AlaRS common domain

looks like an elaborated ferredoxin

X: C-terminal domain in some PLP-dependent transferases
H: C-terminal domain in some PLP-dependent transferases
T: C-terminal domain in some PLP-dependent transferases
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:

e1w23A1[A:260-360] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PHOSPHOSERINE AMINOTRANSFERASE ; ligands: CL,MG,PEG ; X-RAY DIFFRACTION 1.080Å

e4uhmA2[A:349-448] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

OMEGA AMINO ACID-PYRUVATE AMINOTRANSFERASE ; ligands: GOL ; X-RAY DIFFRACTION 1.33Å

e1lc5A1[A:265-357] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

L-THREONINE-O-3-PHOSPHATE DECARBOXYLASE ; ligands: PO4 ; X-RAY DIFFRACTION 1.46Å

e1eluA1[A:300-393] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

L-CYSTEINE/L-CYSTINE C-S LYASE ; ligands: CSS,K,PDA ; X-RAY DIFFRACTION 1.55Å

e6cblA2[A:279-414] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Neamine transaminase NeoN ; ligands: DOW ; X-RAY DIFFRACTION 1.6Å

e2epjA2[A:325-434] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

GLUTAMATE-1-SEMIALDEHYDE 2,1-AMINOMUTASE ; X-RAY DIFFRACTION 1.7Å

e3f0hA3[A:258-357] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Aminotransferase ; ligands: UNL ; X-RAY DIFFRACTION 1.70Å

e3i4jA3[A:319-429] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Aminotransferase, class III ; X-RAY DIFFRACTION 1.70Å

e1vjoA1[A:281-381] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

alanine--glyoxylate aminotransferase ; X-RAY DIFFRACTION 1.700Å

e3ffrA3[A:260-361] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Phosphoserine aminotransferase SerC ; ligands: P33,SER ; X-RAY DIFFRACTION 1.75Å

e1m6sA1[A:248-343] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

L-allo-threonine aldolase ; X-RAY DIFFRACTION 1.8Å

e2x5fA3[A:328-428] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ASPARTATE_TYROSINE_PHENYLALANINE PYRIDOXAL-5' PHOSPHATE-DEPENDENT AMINOTRANSFERASE ; ligands: PO4 ; X-RAY DIFFRACTION 1.8Å

e3zrqA3[A:265-383] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

SERINE-PYRUVATE AMINOTRANSFERASE (AGXT) ; X-RAY DIFFRACTION 1.8Å

e4ritB2[B:366-480] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Pyridoxal-dependent decarboxylase ; ligands: CL,GOL ; X-RAY DIFFRACTION 1.8Å

e3g7qA3[A:301-416] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Valine-pyruvate aminotransferase ; ligands: CL,EDO ; X-RAY DIFFRACTION 1.80Å

e3if2A3[A:329-443] Image Pymol Jmol Links: PDB, SCOP, CATH

Aminotransferase ; ligands: GOL ; X-RAY DIFFRACTION 2.50Å

e3if2B1[B:329-443] Image Pymol Jmol Links: PDB, SCOP, CATH

Aminotransferase ; ligands: ACT,GOL ; X-RAY DIFFRACTION 2.50Å

e3pj0A3[A:0-22,A:253-358] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Lmo0305 protein ; ligands: MRD ; X-RAY DIFFRACTION 1.800Å

e3pj0C3[C:257-355] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Lmo0305 protein ; ligands: MRD,NA ; X-RAY DIFFRACTION 1.800Å

e2qmaA3[A:851-957] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

DIAMINOBUTYRATE-PYRUVATE TRANSAMINASE AND L-2,4- DIAMINOBUTYRATE DECARBOXYLASE ; X-RAY DIFFRACTION 1.81Å

e2r5eA1[A:313-429] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

KYNURENINE AMINOTRANSFERASE ; ligands: QLP ; X-RAY DIFFRACTION 1.84Å

e1c7nA1[A:290-394] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

CYSTALYSIN ; X-RAY DIFFRACTION 1.9Å

e2dr1A2[A:278-385] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

386AA LONG HYPOTHETICAL SERINE AMINOTRANSFERASE ; ligands: CL ; X-RAY DIFFRACTION 1.9Å

e2ykuA3[A:336-445] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

BETA-TRANSAMINASE ; ligands: EDO ; X-RAY DIFFRACTION 1.9Å

e1pmmA1[A:337-452] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLUTAMATE DECARBOXYLASE BETA ; X-RAY DIFFRACTION 2.0Å

e2x3lB2[B:265-359] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ORN/LYS/ARG DECARBOXYLASE FAMILY PROTEIN ; ligands: SM ; X-RAY DIFFRACTION 2.00Å

e1v72A1[A:258-350] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

ALDOLASE ; X-RAY DIFFRACTION 2.05Å

e2yriA2[A:250-352] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Aminotransferase, class V ; ligands: MMM ; X-RAY DIFFRACTION 2.05Å

e1wyuA1[A:341-437] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLYCINE DEHYDROGENASE (DECARBOXYLATING) SUBUNIT 1 ; X-RAY DIFFRACTION 2.1Å

e4lnjB2[B:244-332] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

LOW-SPECIFICITY L-THREONINE ALDOLASE ; X-RAY DIFFRACTION 2.1Å

e1svvA1[A:265-354] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

THREONINE ALDOLASE ; X-RAY DIFFRACTION 2.100Å

e1m32A1[A:264-365] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

2-aminoethylphosphonate-pyruvate aminotransferase ; ligands: POA ; X-RAY DIFFRACTION 2.15Å

e4xk1A1[A:261-360] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Phosphoserine aminotransferase ; ligands: FMT,GLU ; X-RAY DIFFRACTION 2.150Å

e3ezsA3[A:282-373] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

aminotransferase AspB ; X-RAY DIFFRACTION 2.19Å

e1iugA1[A:251-349] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

PUTATIVE ASPARTATE AMINOTRANSFERASE ; X-RAY DIFFRACTION 2.2Å

e3ke3A3[A:272-377] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

Putative serine-pyruvate aminotransferase ; ligands: ACT,EDO,SO4 ; X-RAY DIFFRACTION 2.20Å

e2cy8A3[A:325-368,A:388-446] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

D-phenylglycine aminotransferase ; X-RAY DIFFRACTION 2.3Å

e3wy7D1[D:285-382] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

8-amino-7-oxononanoate synthase ; X-RAY DIFFRACTION 2.30Å

e5utsA2[A:328-470] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

C-S Lyase Egt2 ; ligands: FMT ; X-RAY DIFFRACTION 2.30Å

e2gsaA1[A:327-433] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GLUTAMATE SEMIALDEHYDE AMINOTRANSFERASE ; X-RAY DIFFRACTION 2.4Å

e2gb3A1[A:283-392] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH

aspartate aminotransferase ; X-RAY DIFFRACTION 2.496Å

e2bkwA1[A:279-384] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

ALANINE-GLYOXYLATE AMINOTRANSFERASE 1 ; ligands: GLV ; X-RAY DIFFRACTION 2.570Å

e3wgbA2[A:246-336] * nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

L-allo-threonine aldolase ; ligands: GLY,PLG ; X-RAY DIFFRACTION 2.590Å

X: ClpS-like

contains a HTH motif

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