6H1D Gene Regulation date Jul 11, 2018
title Crystal Structure Of C21orf127-Trmt112 In Complex With Sah
authors S.Wang, B.Hermann, E.Metzger, L.Peng, O.Einsle, R.Schuele
compound source
Molecule: Hemk Methyltransferase Family Member 2
Chain: A
Synonym: M.Hsahemk2p,N(6)-Adenine-Specific Dna Methyltransf
Ec: 2.1.1.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: N6amt1, C21orf127, Hemk2, Pred28
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Multifunctional Methyltransferase Subunit Trm112- Protein;
Chain: B
Synonym: Trna Methyltransferase 112 Homolog
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Trmt112, Ad-001, Hspc152, Hspc170
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 42 21 2
R_factor 0.187 R_Free 0.237
length a length b length c angle alpha angle beta angle gamma
71.841 71.841 131.113 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.94 Å
ligand SAH enzyme Transferase E.C.2.1.1 BRENDA


Primary referenceKMT9 monomethylates histone H4 lysine 12 and controls proliferation of prostate cancer cells., Metzger E, Wang S, Urban S, Willmann D, Schmidt A, Offermann A, Allen A, Sum M, Obier N, Cottard F, Ulferts S, Preca BT, Hermann B, Maurer J, Greschik H, Hornung V, Einsle O, Perner S, Imhof A, Jung M, Schule R, Nat Struct Mol Biol. 2019 May;26(5):361-371. doi: 10.1038/s41594-019-0219-9. Epub, 2019 May 6. PMID:31061526
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (112 Kb) [Save to disk]
  • Biological Unit Coordinates (6h1d.pdb1.gz) 105 Kb
  • LPC: Ligand-Protein Contacts for 6H1D
  • CSU: Contacts of Structural Units for 6H1D
  • Structure Factors (1021 Kb)
  • Retrieve 6H1D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6H1D from S2C, [Save to disk]
  • View 6H1D 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 6H1D
  • 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 6h1d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6h1d_B] [6h1d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6H1D
  • Community annotation for 6H1D at PDBWiki (http://pdbwiki.org)

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