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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: SH3
H: SH3
T: SH3
F: MTR4_beta-barrel

PF13234 CL0010

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

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.

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