GL1X · GenesisL1 explorer

MolNFT v1 · #189136 · protein

Deactive state complex I from rotenone-NADH dataset

7V3M: “Deactive state complex I from rotenone-NADH dataset”. Electron microscopy, 13 ligands (PEE, CDL, SF4). MolNFT v1 #189136 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB
7V3M
Type
protein
Length
8,140 residues
Chains
45
Method
electron microscopy
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
UniProt
F1RVN1, A0A287BDC0, I3LK43, A0A480VKQ8, F1RGE3, D0G781, A0A5G2RN85, A0A4X1VLA2, A0A480QJC4, A0A4X1TFI3, G8IFA6, F1SHD7, F1SQP4, A0A287BG40, A0A286ZNN4, A0A480JYS1, K7GR43, F1S031, A0A4X1VQ42, I3LGM4, F1S6Q1, A0A4X1V766, A0A287AS93, F1SGC6, Q2EN80, F1RWL7, A0A4X1VYV0, A1XQS6, A0A480JRW3, F1SV23, O79875, O79880, P56632, Q71K68, O79882, F1SD73, A0A4X1T6M0, A0A4X1T0A8, Q7IIB7, O79874, F1SLR1, F1SCH1, F1SIS9
Ligands
PEE, CDL, SF4, PLX, 8Q1, FES, FMN, NAI, NDP, UQ, ADP, MG, ZN

Structure

electron microscopy · 44 distinct chains.

ChainMoleculeTypeResiduesSecondary structureUniProt
A—protein431—F1RVN1
B—protein176—A0A287BDC0
C—protein156—I3LK43
E—protein115—A0A480VKQ8
F—protein86—F1RGE3
G, X—protein88—D0G781
H—protein112—A0A5G2RN85
I—protein97—A0A4X1VLA2
J—protein297—A0A480QJC4
K—protein42—A0A4X1TFI3
L—protein125—G8IFA6
M—protein690—F1SHD7
N—protein144—F1SQP4
O—protein217—A0A287BG40
P—protein208—A0A286ZNN4
Q—protein419—A0A480JYS1
S—protein70—K7GR43
T—protein96—F1S031
U—protein83—A0A4X1VQ42
V—protein140—I3LGM4
W—protein142—F1S6Q1
Y—protein70—A0A4X1V766
Z—protein84—A0A287AS93
a—protein140—F1SGC6
b—protein103—Q2EN80
c—protein156—F1RWL7
d—protein175—A0A4X1VYV0
e—protein107——
f—protein42—A1XQS6
g—protein121—A0A480JRW3
h—protein105—F1SV23
i—protein347—O79875
j—protein99—O79880
k—protein98—P56632
l—protein603—Q71K68
m—protein129—O79882
n—protein56—F1SD73
o—protein128—A0A4X1T6M0
p—protein178—A0A4X1T0A8
r—protein459—Q7IIB7
s—protein303—O79874
u—protein171—F1SLR1
v—protein124—F1SCH1
w—protein320—F1SIS9

Ligands and binding sites

  • PEE · 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine · ligand · 8 copies · chains B, Q, U, W, s, C, J, j, i, l, r, S, m, c, b, V
  • CDL · Cardiolipin · ligand · 7 copies · chains I, N, S, s, a, b, d, e, l, r, i, w, c, g, n, u
  • SF4 · Iron/sulfur cluster · ligand · 6 copies · chains A, B, C, Q, M
  • PLX · (9R,11S)-9-({[(1S)-1-hydroxyhexadecyl]oxy}methyl)-2,2-dimethyl-5,7,10-trioxa-2lambda~5~-aza-6lambda~5~-phosphaoctacosane-6,6,11-triol · ligand · 6 copies · chains B, C, N, s, a, e, n, r, g, h, i, j, m, l
  • 8Q1 · S-[2-({N-[(2R)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy) butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate · ligand · 2 copies · chains E, G, X, p
  • FES · Fe2/s2 (inorganic) cluster · ligand · 2 copies · chains M, O
  • FMN · Flavin mononucleotide · ligand · chains A
  • NAI · 1,4-dihydronicotinamide adenine dinucleotide · ligand · chains A
  • NDP · Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate · ligand · chains C, J
  • UQ · Coenzyme Q10, (2Z,6E,10Z,14E,18E,22E,26Z)-isomer · ligand · chains C, s
  • ADP · Adenosine-5'-diphosphate · ligand · chains w
  • MG · Magnesium ion · metal · chains M
  • ZN · Zinc ion · metal · chains T

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

  • 7V3M · Deactive state complex I from rote -NADH dataset · the same entry in another collection · chain L against L, TM-score 1.00

Analyse

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.