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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

X: HhH/H2TH
H: SAM/DNA-glycosylase
T: SAM domain-like
F: RNA_pol_Rpb4

PF03874 CL0426

Representatives:

e1go3F1[F:1-107] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE SUBUNIT F ; X-RAY DIFFRACTION 1.750Å

e2c35A1[A:14-142] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II 16 KDA POLYPEPTIDE ; X-RAY DIFFRACTION 2.700Å

e7okxD1[D:60-180] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7nkxD1[D:1-69,D:132-221] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB4 ; ELECTRON MICROSCOPY

e7okyD1[D:60-180] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7ol0D1[D:60-180] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7oo3D1[D:14-139] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RPOL4c domain-containing protein ; ELECTRON MICROSCOPY

e7oobD1[D:14-139] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RPOL4c domain-containing protein ; ELECTRON MICROSCOPY

e7oopD1[D:14-141] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RPOL4c domain-containing protein ; ELECTRON MICROSCOPY

e7opcD1[D:14-141] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RPOL4c domain-containing protein ; ELECTRON MICROSCOPY

e7opdD1[D:14-141] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RPOL4c domain-containing protein ; ELECTRON MICROSCOPY

e7oznD1[D:14-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7oznP1[P:14-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7ozoD1[D:14-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7ozoP1[P:14-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7ozpD1[D:14-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7ozpP1[P:14-142] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e7pksD1[D:14-139] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

RNA polymerase II subunit D ; ELECTRON MICROSCOPY

e2ckzC1[C:1-160] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE III 18 KD POLYPEPTIDE ; X-RAY DIFFRACTION 3.200Å

e1y14A1[A:46-74,A:118-221] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II 32 kDa polypeptide ; X-RAY DIFFRACTION

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.

T: PAP/OAS1 substrate-binding domain

the fourth helix changed to strands

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