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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

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

X: C-terminal domain in beta subunit of DNA dependent RNA-polymerase
H: C-terminal domain in beta subunit of DNA dependent RNA-polymerase
T: C-terminal domain in beta subunit of DNA dependent RNA-polymerase
F: RNA_pol_Rpb2_6,RNA_pol_Rpb2_7

PF00562 PF04560

Representatives:

e1smyC7[C:1000-1119] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE BETA CHAIN ; ligands: MG ; X-RAY DIFFRACTION 2.7Å

e4c2mB7[B:1041-1203] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA135 ; ligands: ZN ; X-RAY DIFFRACTION 2.80Å

e4by7B7[B:1098-1224] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 ; ligands: ZN ; X-RAY DIFFRACTION 3.15Å

e2e2iB13[B:1098-1224] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE ; ligands: ZN ; X-RAY DIFFRACTION 3.41Å

e4bbrB2[B:1098-1224] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 ; ligands: ZN ; X-RAY DIFFRACTION 3.40Å

e4bbsB3[B:1098-1224] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 ; ligands: ZN ; X-RAY DIFFRACTION 3.6Å

e4v1mB2[B:1098-1224] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 ; ligands: ZN ; ELECTRON MICROSCOPY

e4v1nB3[B:1098-1224] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 ; ligands: ZN ; ELECTRON MICROSCOPY

e4v1oB5[B:1098-1224] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 ; ligands: ZN ; ELECTRON MICROSCOPY

e7okxB3[B:1131-1251] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ligands: ZN ; ELECTRON MICROSCOPY

e7nkxB4[B:1098-1223] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; ligands: ZN ; ELECTRON MICROSCOPY

e7ok0B3[B:995-1121] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit B ; ligands: ZN ; ELECTRON MICROSCOPY

e7oq4B3[B:995-1121] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit B ; ligands: ZN ; ELECTRON MICROSCOPY

e7fjjB3[B:1015-1132] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase III subunit RPC2 ; ligands: ZN ; ELECTRON MICROSCOPY

e7oo3B3[B:1054-1174] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ligands: ZN ; ELECTRON MICROSCOPY

e7opcB3[B:1054-1174] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ligands: ZN ; ELECTRON MICROSCOPY

e7opdB3[B:1054-1174] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ligands: ZN ; ELECTRON MICROSCOPY

e7pksB3[B:1054-1174] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ligands: ZN ; ELECTRON MICROSCOPY

e4kmuC8[C:1240-1342] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA ; X-RAY DIFFRACTION 3.85Å

e4s20C6[C:1238-1342] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; X-RAY DIFFRACTION 4.7Å

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