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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: GFP-like
H: GFP-like
T: GFP-like
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.

e6ofkA1[A:2-241] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green Fluorescent Protein (GFP); S65T; ih circular permutant (50-51) ; ligands: CRO ; X-RAY DIFFRACTION 1.15Å

e6ofkB1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green Fluorescent Protein (GFP); S65T; ih circular permutant (50-51) ; ligands: ACT,CRO ; X-RAY DIFFRACTION 1.15Å

e6ogcA1[A:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(2,3-F2Y), H148D; circular permutant (50-51) ; X-RAY DIFFRACTION 1.178Å

e6ogcB1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(2,3-F2Y), H148D; circular permutant (50-51) ; X-RAY DIFFRACTION 1.178Å

e6oflA1[A:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein (GFP); S65T, Y66(3-ClY); ih circular permutant (50-51) ; X-RAY DIFFRACTION 1.25Å

e6oflB1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein (GFP); S65T, Y66(3-ClY); ih circular permutant (50-51) ; X-RAY DIFFRACTION 1.25Å

e6un5A1[A:2-242] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein,Green fluorescent protein ; X-RAY DIFFRACTION 1.358Å

e6un5B1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein,Green fluorescent protein ; X-RAY DIFFRACTION 1.358Å

e2hpwA1[A:5-235] Image Pymol Jmol Links: PDB, SCOP, CATH

Green fluorescent protein ; X-RAY DIFFRACTION 1.47Å

e6ofmA1[A:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein (GFP); S65T, Y66(3-CH3Y); ih circular permutant (50-51) ; X-RAY DIFFRACTION 1.48Å

e6ofmB1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein (GFP); S65T, Y66(3-CH3Y); ih circular permutant (50-51) ; X-RAY DIFFRACTION 1.48Å

e6un6A1[A:2-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.500Å

e6un6B1[B:2-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.500Å

e6un7A1[A:2-242] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.500Å

e6un7B1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.500Å

e6og8A1[A:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, H148D with globally incorporated 3-F1Y; circular permutant (50-51) ; X-RAY DIFFRACTION 1.599Å

e6og8B1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, H148D with globally incorporated 3-F1Y; circular permutant (50-51) ; X-RAY DIFFRACTION 1.599Å

e2g6yA1[A:3-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 1.6Å

e2g6yB1[B:1-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 1.6Å

e2g6yC1[C:2-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 1.6Å

e2g6yD1[D:3-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 1.6Å

e6ogaA1[A:1-242] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(3-Br1Y), H148D; circular permutant (50-51) ; ligands: ACT,GOL ; X-RAY DIFFRACTION 1.6Å

e6ogaB1[B:2-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(3-Br1Y), H148D; circular permutant (50-51) ; ligands: ACT ; X-RAY DIFFRACTION 1.6Å

e6ofnA1[A:2-242] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein (GFP); S65T, T203(3-OMeY); ih circular permutant (50-51) ; X-RAY DIFFRACTION 1.649Å

e6ofnB1[B:2-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein (GFP); S65T, T203(3-OMeY); ih circular permutant (50-51) ; X-RAY DIFFRACTION 1.649Å

e6ogbA1[A:0-242] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(3-I1Y), H148D; circular permutant (50-51) ; ligands: ACT,GOL ; X-RAY DIFFRACTION 1.65Å

e6ogbB1[B:2-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(3-I1Y), H148D; circular permutant (50-51) ; ligands: ACT,GOL ; X-RAY DIFFRACTION 1.65Å

e4zf5A1[A:1-242] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.7Å

e4zf5B1[B:1-242] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.7Å

e4hvfA1[A:1-220] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein blFP-Y6 ; ligands: GOL ; X-RAY DIFFRACTION 1.700Å

e4hvfB1[B:1-220] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein blFP-Y6 ; X-RAY DIFFRACTION 1.700Å

e4hvfC1[C:1-220] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein blFP-Y6 ; ligands: GOL ; X-RAY DIFFRACTION 1.700Å

e4hvfD1[D:-6-220] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein blFP-Y6 ; X-RAY DIFFRACTION 1.700Å

e6og9A1[A:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(3,5-F2Y), H148D; circular permutant (50-51) ; X-RAY DIFFRACTION 1.798Å

e6og9B1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Crystal structure of Green Fluorescent Protein (GFP); S65T, Y66(3,5-F2Y), H148D; circular permutant (50-51) ; X-RAY DIFFRACTION 1.798Å

e4zf4A1[A:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.8Å

e4zf4B1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.8Å

e3p28A1[A:5-241] Image Pymol Jmol Links: PDB, SCOP, CATH

Green fluorescent protein ; X-RAY DIFFRACTION 1.80Å

e2dd7A1[A:2-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GREEN FLUORESCENT PROTEIN ; ligands: CL ; X-RAY DIFFRACTION 1.9Å

e2dd7B1[B:2-217] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

GREEN FLUORESCENT PROTEIN ; ligands: CXS ; X-RAY DIFFRACTION 1.9Å

e4zf3A1[A:1-241] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.9Å

e4zf3B1[B:1-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 1.9Å

e2g6xA1[A:3-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.0Å

e2g6xB1[B:1-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.0Å

e2g6xC1[C:2-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.0Å

e2g6xD1[D:3-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.0Å

e2g16B1[B:66-230] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Green fluorescent protein ; X-RAY DIFFRACTION 2.00Å

e4he4A1[A:1-234] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

YELLOW FLUORESCENT PROTEIN ; X-RAY DIFFRACTION 2.05Å

e4he4B1[B:1-234] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

YELLOW FLUORESCENT PROTEIN ; X-RAY DIFFRACTION 2.05Å

e6s68B1[B:7-233] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aequorea cf. australis fluorescent protein 2 (AausFP2) ; X-RAY DIFFRACTION 2.06Å

e2g3oA1[A:3-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.100Å

e2g3oB1[B:3-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.100Å

e2g3oC1[C:2-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.100Å

e2g3oD1[D:2-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.100Å

e2g3oE1[E:2-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.100Å

e2g3oF1[F:2-219] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein 2 ; X-RAY DIFFRACTION 2.100Å

e2dd9A1[A:2-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein ; ligands: CXS ; X-RAY DIFFRACTION 2.3Å

e2dd9B1[B:2-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein ; ligands: CL,CXS ; X-RAY DIFFRACTION 2.3Å

e2dd9C1[C:2-217] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein ; ligands: CXS ; X-RAY DIFFRACTION 2.3Å

e2dd9D1[D:2-218] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

green fluorescent protein ; ligands: CXS ; X-RAY DIFFRACTION 2.3Å

e6s67A1[A:7-232] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aequorea cf. australis fluorescent protein 1 (AausFP1) ; ligands: GOL ; X-RAY DIFFRACTION 2.47Å

e6s67B1[B:7-232] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aequorea cf. australis fluorescent protein 1 (AausFP1) ; ligands: GOL ; X-RAY DIFFRACTION 2.47Å

e6s67C1[C:7-232] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aequorea cf. australis fluorescent protein 1 (AausFP1) ; ligands: GOL ; X-RAY DIFFRACTION 2.47Å

e6s67D1[D:7-232] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Aequorea cf. australis fluorescent protein 1 (AausFP1) ; ligands: GOL ; X-RAY DIFFRACTION 2.47Å

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