6RUT Sugar Binding Protein date May 29, 2019
title Mycoplasma Genitalium Heterodimer Nap Complex (P140-P110 Glo
authors I.Fita, D.Aparicio
compound source
Molecule: Mgp-Operon Protein 3
Chain: A, C, E, G
Synonym: Mgp3,Orf-3 Protein
Engineered: Yes
Organism_scientific: Mycoplasma Genitalium G37
Organism_taxid: 243273
Strain: Atcc 33530 G-37 Nctc 10195
Gene: Mg192
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Adhesin P1
Chain: B, D, F, H
Synonym: Attachment Protein,Cytadhesin P1,Mgpa
Engineered: Yes

Organism_scientific: Mycoplasma Genitalium G37
Organism_taxid: 243273
Strain: Atcc 33530 G-37 Nctc 10195
Gene: Mgpa, Mg191
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
symmetry Space Group: P 1 21 1
R_factor 0.187 R_Free 0.224
length a length b length c angle alpha angle beta angle gamma
151.000 157.280 192.370 90.00 93.81 90.00
method X-Ray Diffractionresolution 2.65 Å
Primary referenceStructure and mechanism of the Nap adhesion complex from the human pathogen Mycoplasma genitalium., Aparicio D, Scheffer MP, Marcos-Silva M, Vizarraga D, Sprankel L, Ratera M, Weber MS, Seybert A, Torres-Puig S, Gonzalez-Gonzalez L, Reitz J, Querol E, Pinol J, Pich OQ, Fita I, Frangakis AS, Nat Commun. 2020 Jun 8;11(1):2877. doi: 10.1038/s41467-020-16511-2. PMID:32513917
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (2603 Kb) [Save to disk]
  • Biological Unit Coordinates (6rut.pdb1.gz) 1309 Kb
  • Biological Unit Coordinates (6rut.pdb2.gz) 1304 Kb
  • CSU: Contacts of Structural Units for 6RUT
  • Structure Factors (8427 Kb)
  • Retrieve 6RUT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6RUT from S2C, [Save to disk]
  • View 6RUT 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 6RUT
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6rut from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6rut_E] [6rut_D] [6rut_B] [6rut_A] [6rut_F] [6rut_G] [6rut_C] [6rut_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6RUT
  • Community annotation for 6RUT at PDBWiki (http://pdbwiki.org)

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