GL1X · GenesisL1 explorer

MolNFT v1 · #125470 · protein

Model of human anaphase-promoting COMPLEX/CYCLOSOME (APC/C-CDH1) with a cross linked ubiquitin variant-substrate-UBE2C (UBCH10) complex representing key features of multiubiquitination

5L9U · Anaphase-promoting complex subunit 1: “Model of human anaphase-promoting COMPLEX/CYCLOSOME (APC/C-CDH1) with a cross linked ubiquitin…”. Electron microscopy, 4 pockets (best druggability 0.39). MolNFT v1 #125470 on GenesisL1: 3D…

PDB
5L9U
Type
protein
Length
8,055 residues
Chains
22
Method
electron microscopy
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Anaphase-promoting complex subunit 1; Anaphase-promoting complex subunit 11; Cell…
EC
2.7.11.1, 2.3.2.23, 2.3.2.24
UniProt
Q9H1A4, Q9NYG5, Q9UJX2, P60006, Q96DE5, P30260, Q8NHZ8, Q9UJX5, Q13042, Q9UM13, Q9BS18, Q9UJX6, Q9UJX4, Q9UM11, P34244, Q63429, O00762, Q9UJX3
Pockets
4 · best druggability 0.39

Structure

electron microscopy · 21 distinct chains · 0% helix, 0% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
AAnaphase-promoting complex subunit 1protein13420% helix, 0% strandQ9H1A4
BAnaphase-promoting complex subunit 11protein710% helix, 0% strandQ9NYG5
CCell division cycle protein 23 homologprotein4740% helix, 0% strandQ9UJX2
DAnaphase-promoting complex subunit 15protein550% helix, 0% strandP60006
EAnaphase-promoting complex subunit 16protein560% helix, 0% strandQ96DE5
FCell division cycle protein 27 homologprotein4820% helix, 0% strandP30260
G, WAnaphase-promoting complex subunit CDC26protein250% helix, 0% strandQ8NHZ8
HCell division cycle protein 27 homologprotein4830% helix, 0% strandP30260
IAnaphase-promoting complex subunit 4protein7190% helix, 0% strandQ9UJX5
JCell division cycle protein 16 homologprotein4990% helix, 0% strandQ13042
KCell division cycle protein 16 homologprotein4930% helix, 0% strandQ13042
LAnaphase-promoting complex subunit 10protein1760% helix, 0% strandQ9UM13
MAnaphase-promoting complex subunit 13protein490% helix, 0% strandQ9BS18
NAnaphase-promoting complex subunit 2protein6100% helix, 0% strandQ9UJX6
OAnaphase-promoting complex subunit 5protein6760% helix, 0% strandQ9UJX4
PCell division cycle protein 23 homologprotein4250% helix, 0% strandQ9UJX2
RFizzy-related protein homologprotein3850% helix, 0% strandQ9UM11
SHSL1(SUBSTRATE)_PEPTIDE-UBIQUITIN_VARIANT fusion (EC 2.7.11.1)protein860% helix, 0% strandP34244, Q63429
UUbiquitin-conjugating enzyme E2 C (EC 2.3.2.23, 2.3.2.24)protein1450% helix, 0% strandO00762
XAnaphase-promoting complex subunit 7protein3800% helix, 0% strandQ9UJX3
YAnaphase-promoting complex subunit 7protein3990% helix, 0% strandQ9UJX3

Pockets

4 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
11250.390.7230empty
21120.380.7328empty
3720.330.7325empty
4640.300.7323empty

Interfaces

38 interfaces between chains.

  • B–N · 409 Ų buried · 0 hydrogen bonds · protein-protein
  • A–O · 358 Ų buried · 0 hydrogen bonds · protein-protein
  • I–O · 213 Ų buried · 0 hydrogen bonds · protein-protein
  • X–Y · 167 Ų buried · 0 hydrogen bonds · protein-protein
  • A–L · 164 Ų buried · 0 hydrogen bonds · protein-protein

Compared structures

  • 5L9U · Model of human Anaphase-promoting complex/Cyclosome (APC/C-CDH1) with a cross linked… · the same entry in another collection · chain K against K, TM-score 1.00

Analyse

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