6L8U Transferase date Nov 07, 2019
title Crystal Structure Of Human Bcdin3d In Complex With Sah
authors Y.Liu, A.Martinez, S.Yamashita, K.Tomita
compound source
Molecule: Rna 5'-Monophosphate Methyltransferase
Chain: A, B, C, D
Fragment: Unp Residues 14-284
Synonym: Bcdin3 Domain-Containing Protein
Ec: 2.1.1.-
Engineered: Yes
Mutation: Yes
Other_details: The N-Terminal "Mgsshhhhhhssglvprgshm" Is Th Expression Tag Derived From Pet15b Vector. The Residues 1-1 And 285-292 Were Truncated From Full-Length Hbcdin3d For St Analysis.
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Bcdin3d
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b
symmetry Space Group: P 1 21 1
R_factor 0.212 R_Free 0.270
length a length b length c angle alpha angle beta angle gamma
48.140 140.340 86.420 90.00 105.44 90.00
method X-Ray Diffractionresolution 2.93 Å
ligand SAH enzyme Transferase E.C.2.1.1 BRENDA
A, D, C, B

Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (159 Kb) [Save to disk]
  • Biological Unit Coordinates (6l8u.pdb1.gz) 40 Kb
  • Biological Unit Coordinates (6l8u.pdb2.gz) 40 Kb
  • Biological Unit Coordinates (6l8u.pdb3.gz) 41 Kb
  • Biological Unit Coordinates (6l8u.pdb4.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 6L8U
  • CSU: Contacts of Structural Units for 6L8U
  • Structure Factors (358 Kb)
  • Retrieve 6L8U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6L8U from S2C, [Save to disk]
  • View 6L8U 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 6L8U
  • 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 6l8u from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6l8u_B] [6l8u_D] [6l8u_A] [6l8u_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6L8U
  • Community annotation for 6L8U at PDBWiki (http://pdbwiki.org)

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