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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: N-terminal domain in beta subunit of DNA dependent RNA-polymerase
H: N-terminal domain in beta subunit of DNA dependent RNA-polymerase
T: N-terminal domain in beta subunit of DNA dependent RNA-polymerase
F: RNA_pol_Rpb2_1,RNA_pol_Rpb2_3

PF04563 PF04565

Representatives:

e1twfB4[B:18-218,B:405-541] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE ; X-RAY DIFFRACTION 2.3Å

e2nvqB2[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II 140 kDa polypeptide ; X-RAY DIFFRACTION 2.90Å

e2nvtB3[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE ; X-RAY DIFFRACTION 3.36Å

e3rzdB7[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.300Å

e3rzoB4[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.000Å

e3s14B1[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 2.850Å

e3s15B1[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.300Å

e3s16B7[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB2 ; X-RAY DIFFRACTION 3.24Å

e3s17B2[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.200Å

e3s1mB6[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.130Å

e3s1nB2[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.100Å

e3s1qB5[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.300Å

e3s1rB5[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; ligands: GTP ; X-RAY DIFFRACTION 3.200Å

e3s2dB7[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.200Å

e3s2hB4[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II subunit RPB2 ; X-RAY DIFFRACTION 3.300Å

e2yu9B7[B:20-138,B:164-218,B:405-541] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase II 140 kDa polypeptide ; X-RAY DIFFRACTION 3.400Å

e7okxB1[B:92-276,B:468-605] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7okyB1[B:92-276,B:468-605] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7ol0B1[B:92-276,B:468-605] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7oo3B1[B:15-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7oobB1[B:15-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7oopB1[B:15-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7opcB1[B:15-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7opdB1[B:15-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7oznB1[B:15-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7oznN1[N:15-199,N:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7ozoB1[B:15-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7ozoN1[N:15-199,N:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7ozpB1[B:15-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7ozpN1[N:15-199,N:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e7pksB1[B:14-199,B:391-528] Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-directed RNA polymerase subunit beta ; ELECTRON MICROSCOPY

e1smyC4[C:1-142,C:332-457] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e4c2mB1[B:8-209,B:401-547] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

DNA-DIRECTED RNA POLYMERASE I SUBUNIT RPA135 ; ligands: SO4 ; X-RAY DIFFRACTION 2.80Å

e4by7B1[B:20-134,B:164-218,B:405-541] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e2e2iB10[B:20-218,B:405-541] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e4kmuC1[C:8-151,C:452-577] nonrep Image Pymol Jmol Links: PDB, SCOP, CATH, PubMed, DOI

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

e4s20C3[C:3-151,C:452-577] 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