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Ligand · FME

FME · N-formylmethionine

FME, N-formylmethionine (C6 H11 N O3 S, 177.2 g/mol), in the MolNFT structures on GenesisL1: bound in 71 records (67 PDB entries). Every binding site with its residues within 4.5 Å, the residues it binds most and the ligands found with it.

Component
FME
Formula
C6 H11 N O3 S
Class
ligand
Structures
71
PDB entries
67

Binding sites

FME in 71 structures; the first of them:

  • 4Z3S · Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic… · FME 1x115 · binds G2061, A2062, C2063, A2439, A2451, U2506, U2585, C2586 and 1 more
  • 5DOY · Crystal structure of the Thermus thermophilus 70S ribosome in complex with antibiotic… · FME 1x3011 · binds G2061, A2062, C2063, A2439, A2451, U2506, U2585, C2586 and 1 more
  • 5LMV · Structure of bacterial 30S-IF1-IF2-IF3-mRNA-tRNA translation pre-initiation… · FME Z101 · binds A76, ARG485, GLY498, PHE532, GLU544, GLY546
  • 5LZB · Structure of SelB-Sec-tRNASec bound to the 70S ribosome in the initial binding state (IB) · FME v101 · binds A76, C2063, U2506, U2585, U2586
  • 5LZC · Structure of SelB-Sec-tRNASec bound to the 70S ribosome in the codon reading state (CR) · FME v101 · binds A76, U2506, U2585
  • 5LZD · Structure of SelB-Sec-tRNASec bound to the 70S ribosome in the GTPase activated state (GA) · FME v101 · binds A76, G2061, C2063, A2451, U2506, U2585, U2586
  • 5MDV · Structure of ArfA and RF2 bound to the 70S ribosome (accommodated state) · FME 5103 · binds G2061, C2063, A2439, A2451, U2585, U2586, 8AN76, MEQ252
  • 5MDW · Structure of ArfA(A18T) and RF2 bound to the 70S ribosome (pre-accommodated state) · FME 5101 · binds G2061, C2063, A2439, A2451, U2506, U2585, U2586, 8AN76
  • 5MDY · Structure of ArfA and TtRF2 bound to the 70S ribosome (pre-accommodated state) · FME 5103 · binds G2061, C2063, A2439, U2506, U2585, U2586, 8AN76
  • 5MDZ · Structure of the 70S ribosome (empty A site) · FME 5101 · binds G2061, C2063, A2439, A2451, U2506, U2585, U2586, 8AN76
  • 5ME0 · Structure of the 30S Pre-Initiation Complex 1 (30S IC-1) Stalled by GE81112 · FME X101 · binds ARG801, PHE804, GLY814, CYS815, ARG846, ARG847, PHE848, GLU860 and 3 more
  • 5ME1 · Structure of the 30S Pre-Initiation Complex 2 (30S IC-2) Stalled by GE81112 · FME X101 · binds ARG801, PHE804, GLY814, CYS815, MET816, ARG846, ARG847, PHE848 and 4 more
  • 5O64 · From macrocrystals to microcrystals: a strategy for membrane protein serial… · FME H301 · binds PRO210, LEU211, VAL212, TYR2, HIS3
  • 5UYL · 70S ribosome bound with cognate ternary complex base-paired to A site codon (Structure II) · FME W101 · binds G2061, C2063, A2451, U2585, U2586, A76
  • 5UYP · 70S ribosome bound with near-cognate ternary complex base-paired to A site codon, open… · FME W101 · binds G2061, C2063, A2451, U2585, U2586, A76
  • 5UYQ · 70S ribosome bound with near-cognate ternary complex base-paired to A site codon, closed… · FME W101 · binds G2061, C2063, A2451, U2585, A76
  • 5WE4 · 70S ribosome-EF-Tu wt complex with GppNHp · FME v101 · binds G2061, C2063, A2439, A2451, U2506, U2585, A76
  • 5WE6 · 70S ribosome-EF-Tu H84A complex with GTP and cognate tRNA · FME A3001 · binds G2061, C2063, A2451, U2506, U2585, U2586, A76
  • 5WF0 · 70S ribosome-EF-Tu H84A complex with GTP and near-cognate tRNA (Complex C2) · FME A3001 · binds G2061, A2062, U2506, U2585, U2586, A76
  • 5WFS · 70S ribosome-EF-Tu H84A complex with GTP and near-cognate tRNA (Complex C4) · FME A3001 · binds G2061, C2063, U2506, U2585, U2586, A76
  • 6GAW · Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM.… · FME AV101 · binds LEU629, ALA630, PHE632, GLY645, CYS646, HIS678, HIS679, ASP691 and 3 more
  • 6GAZ · Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM.… · FME AV101 · binds LEU629, ALA630, PHE632, GLY645, CYS646, HIS678, HIS679, ASP691 and 3 more
  • 6OFX · Non-rotated ribosome (Structure I) · FME 5101 · binds C2063, A2439, U2585, A76
  • 6QUL · Structure of a bacterial 50S ribosomal subunit in complex with the novel quinoxolidi… · FME 1101 · binds A76, G2061, C2063, A2451, U2585
  • 6V39 · Cryo-EM structure of the Acinetobacter baumannii Ribosome: 70S with P-site tRNA · FME AN13001 · binds G2057, C2059, A2435, A2447, U2581, A77
  • 6WD0 · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 5101 · binds G2061, C2063, A2451, U2585, U2586, A76
  • 6WD2 · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 5101 · binds G2061, A2062, C2063, A2451, U2506, U2585, A76
  • 6WD3 · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 5101 · binds G2061, A2062, C2063, U2506, U2585, A76
  • 6WD4 · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 5101 · binds G2061, A2062, C2063, A2451, U2585, A76
  • 6WD5 · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 5101 · binds G2061, A2062, C2063, A2451, U2585, A76
  • 6WD6 · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 5101 · binds A2062, C2063, U2585, A76
  • 6WD7 · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 5101 · binds A2062, C2063, U2506, U2585, U2586, A76
  • 6WDB · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 5101 · binds G2061, A2062, C2063, A2451, U2585, A76
  • 6WDF · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Cognate… · FME 7102 · binds G2061, C2063, A2451, C2452, G2505, U2506, U2585, A76
  • 6WDH · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate… · FME 5101 · binds G2061, A2062, C2063, U2585, A76
  • 6WDK · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate… · FME 5101 · binds A2062, C2063, A2451, U2506, U2585, A76
  • 6WDM · Cryo-EM of elongating ribosome with EF-Tu*GTP elucidates tRNA proofreading (Non-cognate… · FME 7102 · binds G2061, C2063, A2451, U2506, U2585, A76, A76
  • 6WJ6 · Cryo-EM structure of apo-Photosystem II from Synechocystis sp. PCC 6803 · FME I101 · binds ILE96, TRP97, ALA99, SER101, LEU2, THR3, LEU4, LYS5

Residues it binds most

A 73, U 61, C 58, G 53, GLY 15, ARG 9, CYS 10, PHE 12, 8AN 10, GLU 10 (residue and the binding sites it lines).

Found with

  • MG · Magnesium ion
  • ZN · Zinc ion
  • PHE · Phenylalanine
  • K · Potassium ion
  • GDP · Guanosine-5'-diphosphate
  • GTP · Guanosine-5'-triphosphate
  • GCP · Phosphomethylphosphonic acid guanylate ester
  • GNP · Phosphoaminophosphonic acid-guanylate ester
  • SPM · Spermine
  • FES · Fe2/s2 (inorganic) cluster
  • SF4 · Iron/sulfur cluster
  • SPD · Spermidine

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