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
Refs: Structure 14, 1489-1498; Current opinion in structural biology 18, 358-365
Representatives:
e2xgjA5[A:675-802] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-DEPENDENT RNA HELICASE DOB1 ; X-RAY DIFFRACTION 2.9Å
e7qe0A2[A:840-976] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Helicase SKI2W ; ELECTRON MICROSCOPY
e4qu4A6[A:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; X-RAY DIFFRACTION 3.389Å
e4u4cA6[A:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; ligands: PG4,SO4 ; X-RAY DIFFRACTION 2.4Å
e5ooqB2[B:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; X-RAY DIFFRACTION 3.2Å
e5ooqA3[A:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; X-RAY DIFFRACTION 3.2Å
e5dzrA5[A:709-834] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
FRQ-interacting RNA helicase ; X-RAY DIFFRACTION 3.160Å
e5e02A3[A:709-834] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
FRQ-interacting RNA helicase ; X-RAY DIFFRACTION 3.800Å
e4xgtA5[A:709-834] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
FRQ-interacting RNA helicase ; X-RAY DIFFRACTION 3.090Å
e6fszMM5[MM:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; ELECTRON MICROSCOPY
e6ft6MM5[MM:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; ELECTRON MICROSCOPY
e6bb8A5[A:709-834] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
FRQ-interacting RNA helicase ; X-RAY DIFFRACTION 3.49Å
e6iehB4[B:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ligands: CL ; X-RAY DIFFRACTION 2.88Å
e6iegA6[A:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; X-RAY DIFFRACTION 3.546Å
e6iegB2[B:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; X-RAY DIFFRACTION 3.546Å
e6ro1A3[A:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ligands: SO4 ; X-RAY DIFFRACTION 3.07Å
e7ajtEN1[EN:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; ELECTRON MICROSCOPY
e7ajuEN6[EN:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; ELECTRON MICROSCOPY
e6lqsM44[M4:666-816] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
ATP-dependent RNA helicase DOB1 ; ELECTRON MICROSCOPY
e7d4iM46[M4:675-802] Image Pymol Jmol Links: PDB, SCOP, CATH
ATP-dependent RNA helicase DOB1 ; ELECTRON MICROSCOPY
e7s7bA6[A:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ELECTRON MICROSCOPY
e7s7bE6[E:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ELECTRON MICROSCOPY
e7s7cA1[A:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ELECTRON MICROSCOPY
e7z4yB5[B:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ELECTRON MICROSCOPY
e7z4yD6[D:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ELECTRON MICROSCOPY
e7z4zB1[B:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ELECTRON MICROSCOPY
e7s7cE1[E:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ELECTRON MICROSCOPY
e7z4zD1[D:655-771] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI
Exosome RNA helicase MTR4 ; ELECTRON MICROSCOPY
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