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Ligand · U10

U10 · Ubiquinone-10

U10, Ubiquinone-10 (C59 H90 O4, 863.4 g/mol), in the MolNFT structures on GenesisL1: bound in 49 records (45 PDB entries). Every binding site with its residues within 4.5 Å, the residues it binds most and the ligands found with it.

Component
U10
Formula
C59 H90 O4
Class
ligand
Structures
49
PDB entries
45

Binding sites

U10 in 49 structures; the first of them:

  • 4V9G · RC-LH1-PufX dimer complex from Rhodobacter sphaeroides · U10 AL304 · binds ALA172, ILE175, SER178, PHE179, THR182, LEU185, ALA186, LEU189 and 14 more
  • 5LRI · Photosynthetic reaction center mutant with GLUL212 replaced with TRP (chain L, EL212W) · U10 L303 · binds ILE175, SER178, THR182, LEU189, HIS190, LEU193, TRP212, ASP213 and 10 more
  • 6Z1J · Photosynthetic Reaction Center From Rhodobacter Sphaeroides strain RV LSP… · U10 M405 · binds VAL26, PHE29, GLY35, THR38, TRP100, ARG103, LEU214, MET218 and 15 more
  • 7DDQ · Structure of RC-LH1-PufX from Rhodobacter veldkampii · U10 a102 · binds ILE7, TRP8, PHE11, VAL16, GLN20, PHE23, LEU26, VAL29 and 25 more
  • 7PIL · Cryo-EM structure of the Rhodobacter sphaeroides RC-LH1-PufXY monomer complex at 2.5 A · U10 L302 · binds MET174, SER178, PHE179, THR182, LEU185, LEU189, HIS190, LEU193 and 16 more
  • 7QSO · Bovine complex I in lipid nanodisc, State 3 (Slack) · U10 M701 · binds TYR119, GLU123, LEU126, VAL127, LEU130, ILE131, ILE133, THR134 and 29 more
  • 7YML · Structure of photosynthetic LH1-RC super-complex of Rhodobacter capsulatus · U10 L303 · binds PRO172, MET175, LEU176, SER179, LEU180, THR183, TRP186, MET190 and 19 more
  • 8C5X · Double mutant A(L37)C/S(L99)C structure of Photosynthetic Reaction Center From… · U10 L304 · binds THR178, PHE179, THR182, LEU189, HIS190, LEU193, VAL194, GLU212 and 10 more
  • 8C7C · Double mutant V(M84)C/A(L278)C structure of Photosynthetic Reaction Center From… · U10 M406 · binds PHE29, TYR30, VAL31, GLY35, THR38, TRP100, ARG103, LEU214 and 18 more
  • 8C88 · Double mutant G(M19)C/T(L214)C structure of Photosynthetic Reaction Center From… · U10 M406 · binds PHE29, GLY35, THR38, PHE39, TRP100, ARG103, MET218, HIS219 and 13 more
  • 8IBD · Respiratory complex CI:CIII2, type II, Wild type mouse under cold temperature · U10 Ac404 · binds PHE121, MET124, ALA125, PHE128, GLY142, ILE146, PRO270, PHE274 and 3 more
  • 8J9H · Cryo-EM structure of Euglena gracilis respiratory complex I, deactive state · U10 N4505 · binds ASN27, PRO10, PRO11, SER12, LYS13, HIS15, PRO16, TYR22 and 16 more
  • 8J9I · Cryo-EM structure of Euglena gracilis complex I, turnover state · U10 N4505 · binds ASN27, PRO10, PRO11, SER12, LYS13, HIS15, PRO16, TYR22 and 15 more
  • 8J9J · Cryo-EM structure of Euglena gracilis complex I, NADH state · U10 N4505 · binds ASN27, ARG91, PRO10, PRO11, SER12, LYS13, HIS15, PRO16 and 17 more
  • 8JEK · Cryo-EM Structure of K-ferricyanide Oxidized Membrane-bound Fructose Dehydrogenase from… · U10 C504 · binds CYS55, TYR69, SER73, MET75, ILE78, PRO116, PRO157, PHE158 and 21 more
  • 8Q0M · Outward-facing, closed proteoliposome complex I at 3.1 A. Initially purified in DDM. · U10 B202 · binds TRP46, THR49, PHE50, GLY51, LEU52, ALA53, ALA56, MET59 and 31 more
  • 8UGF · In-situ complex III, state III · U10 3C503 · binds ALA17, PHE18, LEU21, ALA23, TRP31, GLY34, SER35, GLY38 and 11 more
  • 8XCM · Cryo-EM Structure of Membrane-bound Fructose Dehydrogenase from Gluconobacter japonicus… · U10 C504 · binds CYS55, ILE71, SER73, PRO74, MET75, TYR115, PRO116, ALA117 and 13 more
  • 5LRI · Photosynthetic reaction center mutant with GLUL212 replaced with TRP (chain L, EL212W) · U10 L303 · binds ILE175, SER178, THR182, LEU189, HIS190, LEU193, TRP212, ASP213 and 10 more
  • 5LSE · Photosynthetic reaction center mutant with glu L212 replaced with ala (chain L, EL212W)… · U10 L304 · binds MET174, SER178, PHE179, THR182, LEU189, HIS190, LEU193, VAL194 and 9 more
  • 5V33 · R. sphaeroides photosythetic reaction center mutant - residue L223, ser to TRP - room… · U10 M401 · binds SER93, PHE24, PHE29, GLY35, PHE39, TRP100, ARG103, LEU215 and 13 more
  • 6Z02 · Photosynthetic reaction center from rhodobacter sphaeroides strain rv in surfo… · U10 L303 · binds PRO171, THR178, PHE179, THR182, LEU189, HIS190, LEU193, VAL194 and 11 more

Residues it binds most

PHE 98, LEU 86, ILE 89, TRP 80, ALA 61, MET 69, THR 77, VAL 61, GLY 78, SER 52 (residue and the binding sites it lines).

Found with

  • BCL · Bacteriochlorophyll A
  • BPH · Bacteriopheophytin A
  • FE · Fe (III) ion
  • CDL · Cardiolipin
  • LDA · Lauryl dimethylamine-N-oxide
  • SPO · Spheroidene
  • FES · Fe2/s2 (inorganic) cluster
  • SPN · Speroidenone
  • 3PE · 1,2-diacyl-sn-glycero-3-phosphoethanolamine
  • PC1 · 1,2-diacyl-sn-glycero-3-phosphocholine
  • PO4 · Phosphate ion
  • FMN · Flavin mononucleotide

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