5M3F	Transcription	date	Oct 14, 2016
title	Yeast Rna Polymerase I Elongation Complex At 3.8a
authors	S.Neyer, M.Kunz, C.Geiss, M.Hantsche, V.V.Hodirnau, A.Seybert, C. M.P.Scheffer, P.Cramer, A.S.Frangakis
compound		source
Molecule: Dna-Directed Rna Polymerase I Subunit Rpa190 Chain: A Synonym: Dna-Directed Rna Polymerase I 190 Kda Polypeptide, Directed Rna Polymerase I Largest Subunit; Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerase I Subunit Rpa135 Chain: B Synonym: Dna-Directed Rna Polymerase I 135 Kda Polypeptide, Directed Rna Polymerase I Polypeptide 2,Rna Polymerase I Su Ec: 2.7.7.6		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerases I And III Subunit Rp Chain: C Synonym: Rna Polymerases I And III Subunit Ac1,C37,Dna-Dire Polymerases I And III 40 Kda Polypeptide,C40;		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: E Synonym: Rna Polymerases I,II,And III Subunit Abc1,Abc27,Dn Rna Polymerases I,And III 27 Kda Polypeptide;		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: F Synonym: Rna Polymerases I,II,And III Subunit Abc2,Abc23,Dn Rna Polymerases I,And III 23 Kda Polypeptide;		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: H Synonym: Rna Polymerases I,II,And III Subunit Abc3,Abc14.4, Dna-Directed Rna Polymerases I,And III 14.5 Kda Polypeptide		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerase I Subunit Rpa12 Chain: I Synonym: A12,A12.2,Dna-Directed Rna Polymerase I 13.7 Kda Polypeptide;		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: J Synonym: Rna Polymerases I,II,And III Subunit Abc5,Abc10-Be Dna-Directed Rna Polymerases I,And III 8.3 Kda Polypeptide;		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerases I And III Subunit Rp Chain: K Synonym: Rna Polymerases I And III Subunit Ac2,Ac19,Dna-Dir Polymerases I And III 16 Kda Polypeptide,Rpa19;		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerases I, II, And III Subun Chain: L Synonym: Rna Polymerases I,II,And III Subunit Abc4,Abc10-Al		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Template Dna Chain: T Engineered: Yes		Synthetic: Yes Organism_scientific: Saccharomyces Cerevisiae Organism_taxid: 4932
Molecule: Non-Template Dna Chain: U Engineered: Yes		Synthetic: Yes Organism_scientific: Saccharomyces Cerevisiae Organism_taxid: 4932
Molecule: Rna Chain: R Engineered: Yes		Synthetic: Yes Organism_scientific: Saccharomyces Cerevisiae Organism_taxid: 4932
Molecule: Dna-Directed Rna Polymerase I Subunit Rpa49 Chain: M Synonym: A49,Dna-Directed Rna Polymerase I 49 Kda Polypepti		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerase I Subunit Rpa34 Chain: N Synonym: A34,Dna-Directed Dna-Dependent Rna Polymerase 34.5 Polypeptide,A34.5;		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerase I Subunit Rpa14 Chain: D Synonym: A14,Dna-Directed Rna Polymerase I 14 Kda Polypepti		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
Molecule: Dna-Directed Rna Polymerase I Subunit Rpa43 Chain: G Synonym: A43,Dna-Directed Dna-Dependent Rna Polymerase 36 K Polypeptide		Organism_scientific: Saccharomyces Cerevisiae Organism_common: Baker'S Yeast Organism_taxid: 559292 Strain: S288c
symmetry	Space Group: P 1	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 1.000 1.000 1.000 90.00 90.00 90.00
method	Electron Microscopy	resolution	3.80 Å
ligand	MG, SO4, ZN	enzyme	Transferase E.C.2.7.7.6 BRENDA
Gene Ontology	Chain Function Process Component A B C D E RNA-directed 5'-3' RNA polym... F RNA-directed 5'-3' RNA polym... G H RNA-directed 5'-3' RNA polym... I J RNA-directed 5'-3' RNA polym... DNA-directed RNA polymerase ... K L RNA-directed 5'-3' RNA polym... M N
Primary reference	Structure of RNA polymerase I transcribing ribosomal DNA genes., Neyer S, Kunz M, Geiss C, Hantsche M, Hodirnau VV, Seybert A, Engel C, Scheffer MP, Cramer P, Frangakis AS, Nature. 2016 Nov 14. doi: 10.1038/nature20561. PMID:27842382

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (702 Kb) [Save to disk] Biological Unit Coordinates (5m3f.pdb1.gz) 690 Kb LPC: Ligand-Protein Contacts for 5M3F CSU: Contacts of Structural Units for 5M3F Retrieve 5M3F in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5M3F from S2C, [Save to disk]

View 5M3F in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 5M3F

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Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5m3f_K] [5m3f] [5m3f_H] [5m3f_D] [5m3f_N] [5m3f_M] [5m3f_R] [5m3f_J] [5m3f_L] [5m3f_G] [5m3f_A] [5m3f_I] [5m3f_E] [5m3f_F] [5m3f_T] [5m3f_B] [5m3f_U] [5m3f_C] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5M3F: [RNA_pol_Rpb6] [RPOL8c] [RPOL9] [RPOLA_N] [RPOLCX] [RPOLD] [ZnF_C2C2 ] by SMART

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