Structure of PDB 2qmm Chain B Binding Site BS01

Receptor Information

>2qmm Chain B (length=195) Species: 224325 (Archaeoglobus fulgidus DSM 4304)

AVRGFLIVGNKAFTQPFSLNDLPGAGRMDVLCRCTSQALFISHGIRRDVE
VYLLLLGPPSPPKSILIKGDEVRRMSPDERNVAGHIKKALAVECGKSWKK
VHSGVYVSRKGLEELIEELSEKYSIIYLKEDGVDISNAQLPPNPLFVIGD
HEGLTEEQEKVVERYAALKLSLSPLSLLAEQCVVIAHHHLDRLQF

Ligand information

• Ligand ID: SAM
• InChI: InChI=1S/C15H22N6O5S/c1-27(3-2-7(16)15(24)25)4-8-10(22)11(23)14(26-8)21-6-20-9-12(17)18-5-19-13(9)21/h5-8,10-11,14,22-23H,2-4,16H2,1H3,(H2-,17,18,19,24,25)/t7-,8+,10+,11+,14+,27-/m0/s1
• InChIKey: MEFKEPWMEQBLKI-FCKMPRQPSA-N
• SMILES:
  CACTVS 3.341: C[S@@+](CC[C@H](N)C([O-])=O)C[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23
  OpenEye OEToolkits 1.5.0: C[S+](CCC(C(=O)[O-])N)CC1C(C(C(O1)n2cnc3c2ncnc3N)O)O
  CACTVS 3.341: C[S+](CC[CH](N)C([O-])=O)C[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23
  OpenEye OEToolkits 1.5.0: C[S@@+](CC[C@@H](C(=O)[O-])N)C[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O
  ACDLabs 10.04: [O-]C(=O)C(N)CC[S+](C)CC3OC(n2cnc1c(ncnc12)N)C(O)C3O
• Formula: C15 H22 N6 O5 S
• Name: S-ADENOSYLMETHIONINE
• ChEMBL: CHEMBL1235831
• PDB chain: 2qmm Chain B Residue 301

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2qmm Crystal structure of APC86534.1 (C-terminal domain of NCBI AAB90184.1; Pfam BIG 123.1).
• Resolution: 1.85 Å
• Binding residue (original residue number in PDB): L221 K222 E223 I241 G242 S264 L265 S266 S269 L270 C275
• Binding residue (residue number reindexed from 1): L128 K129 E130 I148 G149 S171 L172 S173 S176 L177 C182
• Annotation score: 5

Enzymatic activity

• Enzyme Commision number: 2.1.1.257: tRNA (pseudouridine(54)-N(1))-methyltransferase.

Gene Ontology

Molecular Function

• GO:0008175 tRNA methyltransferase activity

External links

• PDB: RCSB:2qmm, PDBe:2qmm, PDBj:2qmm
• PDBsum: 2qmm
• UniProt: O29206|TRMY_ARCFU tRNA (pseudouridine(54)-N(1))-methyltransferase (Gene Name=trmY)