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

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

X: Transducin (heterotrimeric G protein), gamma chain

X: Anti-sigma factor FlgM

X: Epsilon subunit of mitochondrial F1F0-ATP synthase

X: RNA polymerase sigma-54 factor N-terminal region

X: Ezh2 N-terminal domain

X: Pre-mRNA-splicing helicase BRR2 NC-clamp

X: Alpha-crystallin B chain N-terminal domain

X: Pre-mRNA-processing factor 31 C-terminal region

X: U4/U6 small nuclear ribonucleoprotein PRP3 N-terminal region

X: Baseplate wedge protein gp7 domain VI

X: Herpes DNA polymerase N-terminal domain

X: Copper resistance protein ScsC N-terminal region

X: Cell division factor MciZ

X: Proteinase A inhibitor IA3

X: Glu-tRNAGln amidotransferase C subunit

X: RelB-like

X: Intraflagellar transport protein 46 C-terminal domain

X: Intraflagellar transport protein 52 C-terminal domain

X: Exosome complex exonuclease RRP6 N-terminal domain

X: Exosome complex protein LRP1

X: Anti sigma factor NepR-related

X: Lag-3 N-terminal region

X: Adhesin P1 N-terminal domain

X: Fe-only hydrogenase smaller subunit

X: Methanol dehydrogenase subunit

X: Moesin tail domain

X: Ribosomal protein L39e

X: Mitoribosomal protein mS26

X: Mitoribosomal protein mS31

X: Mitoribosomal protein mS33

X: Mitoribosomal protein mS38

X: Mitoribosomal protein mL42

X: Mitoribosomal protein mL52

X: Mitoribosomal protein mL63

X: C-terminal helical region in 60S ribosomal protein L4 (L4p)

X: Ribosomal protein L41-A

X: NC100

X: Stathmin

X: Clathrin light chain B

X: N-terminal domain of bifunctional PutA protein

X: Stage V sporulation protein M

X: YgaP transmembrane domain

X: Nicastrin transmembrane helix

X: Photosystem II reaction centre subunit H, transmembrane region

X: Bd-type quinol oxidase transmembrane helix subunit

X: Mitochondrial complex I, B9 subunit

X: Mitochondrial complex I, AGGG subunit

X: Mitochondrial complex I, KFYI subunit

X: Mitochondrial complex I, MNLL subunit

X: Mitochondrial complex I, MWFE subunit

X: Mitochondrial complex I, SGDH subunit

X: Mitochondrial complex I, B14.5b subunit

X: Mitochondrial complex I, B16.6 subunit

X: CAA3-type cytochrome c oxidase subunit IV

X: Mitochondrial cytochrome c oxidase subunit IV

X: Mitochondrial cytochrome c oxidase subunit VIa

X: Mitochondrial cytochrome c oxidase subunit VIc

X: Mitochondrial cytochrome c oxidase subunit VIIa

X: Mitochondrial cytochrome c oxidase subunit VIIb

X: Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa)

X: Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX)

X: Bacterial aa3 type cytochrome c oxidase subunit IV

X: Bacterial ba3 type cytochrome c oxidase subunit IIa

X: cytochrome c1 transmembrane anchor

X: iron-sulfur subunit (ISP) transmembrane anchor

X: Multidrug efflux pump accessory protein AcrZ

X: Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor

X: PetG subunit of the cytochrome b6f complex

X: PetL subunit of the cytochrome b6f complex

X: PetM subunit of the cytochrome b6f complex

X: PetN subunit of the cytochrome b6f complex

X: Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)

X: Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)

X: Subunit XI (6.4 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)

X: Subunit III of photosystem I reaction centre, PsaF

X: Subunit VIII of photosystem I reaction centre, PsaI

X: Subunit IX of photosystem I reaction centre, PsaJ

X: Subunit XII of photosystem I reaction centre, PsaM

X: Subunit PsaX of photosystem I reaction centre

X: Subunit VI of Photosystem I reaction centre

X: Subunit N of Photosystem I reaction centre

X: Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor

X: Preprotein translocase SecE subunit

X: Sec-beta subunit

X: Oligosaccharyltransferase subunit ost4p

X: Photosystem II reaction center protein L, PsbL

X: Photosystem II reaction center protein J, PsbJ

X: Photosystem II 10 kDa phosphoprotein PsbH

X: Photosystem II reaction center protein T, PsbT

X: Photosystem II reaction center protein M, PsbM

X: Photosystem II reaction center protein K, PsbK

X: Photosystem II reaction center protein I, PsbI

X: Photosystem II reaction center protein ycf12

X: Photosystem II reaction center W protein, chloroplastic

X: Photosystem II PsbX protein

X: Photosystem II protein Y, psbY

X: Chlorosome Protein A

X: Cytochrome b559 subunits

X: Cytochrome c oxidase subunit II-like, transmembrane region

X: Glycophorin-A transmembrane domain

X: NADH-quinone oxidoreductase subunit A

X: NADH-quinone oxidoreductase subunit J

X: Agnoprotein

X: Viral membrane protein P3

X: Viral membrane protein P6

X: Transmembrane protein 141

X: Transmembrane protein 14A

X: HIG1 domain family member 1A

X: Interferon alpha-inducible protein 27-like protein 1

X: Intrinsic membrane protein pufX

X: F1F0 ATP synthase subunit C

X: Magnesium transport protein CorA, transmembrane region

X: Sensor proteins transmembrane domains

X: PsbZ-like

X: F-type ATP synthase subunit b

X: ATP synthase D chain-like

X: Mitochondrial ATP synthase coupling factor 6

X: Small-conductance potassium channel

X: Gated mechanosensitive channel

X: Bacterial light-harvesting complex subunits

X: Chlorophyll a-b binding protein

H: Chlorophyll a-b binding protein

T: Chlorophyll a-b binding protein

F: Chloroa_b-bind

PF00504

Representatives:

e1rwtA1[A:14-231] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll A-B binding protein, chloroplast ; ligands: CHL,CLA,DGD,LHG,LUT,NEX,XAT ; X-RAY DIFFRACTION 2.7Å

e7wzn11[1:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7wznZ1[Z:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7zq911[1:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zq9Z1[Z:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqc11[1:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqcZ1[Z:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqd11[1:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqdZ1[Z:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqd121[12:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqdZ21[Z2:35-228] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7r3k71[7:29-241] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: 3PH,BCR,CHL,CLA,DGA,ERG,LHG,LMG,LMT,LUT,PLM ; ELECTRON MICROSCOPY

e7wyi71[7:29-240] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7wzn71[7:29-240] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7zq971[7:29-241] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqc71[7:29-241] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqd71[7:29-241] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqd721[72:29-241] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7r3k51[5:31-257] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: 3PH,BCR,C7Z,CHL,CLA,LHG,LMT,LUT,RRX ; ELECTRON MICROSCOPY

e7wyi51[5:32-256] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7wzn51[5:32-256] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7zq951[5:31-257] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,NEX,XAT ; ELECTRON MICROSCOPY

e7zqc51[5:31-257] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,NEX,XAT ; ELECTRON MICROSCOPY

e7zqd51[5:31-257] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,NEX,XAT ; ELECTRON MICROSCOPY

e7zqd521[52:31-257] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,NEX,XAT ; ELECTRON MICROSCOPY

e7zq991[9:27-212] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT ; ELECTRON MICROSCOPY

e7zq9921[92:27-210] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT ; ELECTRON MICROSCOPY

e7zqd91[9:27-212] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT ; ELECTRON MICROSCOPY

e7zqd921[92:27-212] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT ; ELECTRON MICROSCOPY

e7wyi41[4:58-263] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7wzn41[4:58-263] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7r3k81[8:27-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: 3PH,BCR,CHL,CLA,ERG,LHG,LMT,LUT,SQD ; ELECTRON MICROSCOPY

e7wyi81[8:27-243] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7wzn81[8:27-243] Image Pymol Jmol Links: PDB, SCOP, CATH

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA ; ELECTRON MICROSCOPY

e7zq981[8:27-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqc81[8:27-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqd81[8:27-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqd821[82:27-243] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7zqc91[9:27-131,9:153-212] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LUT ; ELECTRON MICROSCOPY

e7xqp71[7:102-314] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LUT,NEX,XAT ; ELECTRON MICROSCOPY

e7xqp31[3:102-317] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LMU,LUT,XAT ; ELECTRON MICROSCOPY

e7xqp21[2:63-273] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LUT,XAT ; ELECTRON MICROSCOPY

e7xqp61[6:64-268] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,LHG,LMG,LUT,XAT ; ELECTRON MICROSCOPY

e7yca21[2:38-242] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: BCR,CHL,CLA,IWJ,LHG,LMG,Q6L,XAT ; ELECTRON MICROSCOPY

e7xqpa1[a:47-264] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LUT,XAT ; ELECTRON MICROSCOPY

e7xqpb1[b:47-264] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMU,LUT,NEX,XAT ; ELECTRON MICROSCOPY

e7xqp91[9:109-311] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LMG,LUT,NEX,XAT ; ELECTRON MICROSCOPY

e7xqp11[1:46-237] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LUT,XAT ; ELECTRON MICROSCOPY

e7xqp51[5:46-237] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Chlorophyll a-b binding protein, chloroplastic ; ligands: CHL,CLA,LHG,LUT,XAT ; ELECTRON MICROSCOPY

e7yca11[1:31-103,1:123-225] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

Lhca1 ; ligands: CHL,CLA,IWJ,LHG,XAT ; ELECTRON MICROSCOPY

e8hg3S1[S:53-233] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI