SMTL ID : 8xl5.1

Structure of human propionyl-CoA carboxylase in complex with propionyl-CoA (PCC-PCO)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-6-6-mer

Ligands

6 x BTN: BIOTIN(Covalent)

BTN.1: 10 residues within 4Å: Chain A: M.693, K.694 Chain B: C.365, P.395, G.396, F.397, P.399 Chain D: T.226, V.230, V.234 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:V.230, D:V.234 Hydrogen bonds: B:F.397, B:F.397 BTN.3: 10 residues within 4Å: Chain B: T.226, V.230, V.234 Chain C: M.693, K.694 Chain D: C.365, P.395, G.396, F.397, P.399 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Hydrogen bonds: D:F.397, D:F.397 Hydrophobic interactions: B:V.230, B:V.234 BTN.5: 10 residues within 4Å: Chain E: M.693, K.694 Chain F: C.365, P.395, G.396, F.397, P.399 Chain H: T.226, V.230, V.234 4 PLIP interactions: 2 interactions with chain H, 2 interactions with chain F Hydrophobic interactions: H:V.230, H:V.234 Hydrogen bonds: F:F.397, F:F.397 BTN.7: 10 residues within 4Å: Chain F: T.226, V.230, V.234 Chain G: M.693, K.694 Chain H: C.365, P.395, G.396, F.397, P.399 4 PLIP interactions: 2 interactions with chain H, 2 interactions with chain F Hydrogen bonds: H:F.397, H:F.397 Hydrophobic interactions: F:V.230, F:V.234 BTN.9: 10 residues within 4Å: Chain I: M.693, K.694 Chain J: C.365, P.395, G.396, F.397, P.399 Chain L: T.226, V.230, V.234 4 PLIP interactions: 2 interactions with chain J, 2 interactions with chain L Hydrogen bonds: J:F.397, J:F.397 Hydrophobic interactions: L:V.230, L:V.234 BTN.11: 10 residues within 4Å: Chain J: T.226, V.230, V.234 Chain K: M.693, K.694 Chain L: C.365, P.395, G.396, F.397, P.399 4 PLIP interactions: 2 interactions with chain L, 2 interactions with chain J Hydrogen bonds: L:F.397, L:F.397 Hydrophobic interactions: J:V.230, J:V.234

6 x 1VU: propionyl Coenzyme A(Non-covalent)

1VU.2: 14 residues within 4Å: Chain B: R.54, R.61, F.126, F.129, G.130, S.132, G.162, G.163, A.164, Q.167, P.199, A.201, G.202, G.203 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:P.199 Hydrogen bonds: B:R.61, B:S.132, B:G.162, B:G.203 Salt bridges: B:R.54 1VU.4: 14 residues within 4Å: Chain B: G.436, G.437, V.462 Chain D: R.54, F.126, F.129, G.130, G.162, G.163, A.164, Q.167, A.201, G.202, G.203 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:A.164, D:G.203, B:G.437 Salt bridges: D:R.54 1VU.6: 15 residues within 4Å: Chain F: R.54, F.126, F.129, G.130, G.162, A.164, I.166, Q.167, A.201, G.202, G.203 Chain H: G.436, G.437, V.462, M.463 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:A.164, F:G.203 Salt bridges: F:R.54 1VU.8: 15 residues within 4Å: Chain F: G.436, G.437, V.462 Chain H: R.54, F.126, F.129, G.130, G.162, A.164, I.166, Q.167, A.201, G.202, G.203, Q.241 4 PLIP interactions: 3 interactions with chain H, 1 interactions with chain F Hydrogen bonds: H:A.164, H:G.203, F:G.437 Salt bridges: H:R.54 1VU.10: 14 residues within 4Å: Chain J: R.54, R.61, F.126, F.129, G.130, G.162, A.164, Q.167, A.201, G.202, G.203 Chain L: G.436, G.437, V.462 5 PLIP interactions: 4 interactions with chain J, 1 interactions with chain L Hydrogen bonds: J:R.61, J:A.164, J:G.203, L:G.437 Salt bridges: J:R.54 1VU.12: 15 residues within 4Å: Chain J: G.436, G.437, V.462 Chain L: R.54, R.61, F.126, F.129, G.130, G.162, A.164, Q.167, A.201, G.202, G.203, Q.241 6 PLIP interactions: 2 interactions with chain J, 4 interactions with chain L Hydrophobic interactions: J:V.462 Hydrogen bonds: J:G.437, L:R.61, L:A.164, L:G.203 Salt bridges: L:R.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, F. et al., Structural insights into human propionyl-CoA carboxylase (PCC) and 3-methylcrotonyl-CoA carboxylase (MCC). Elife (2024)

Release Date

2024-10-30

Peptides

Propionyl-CoA carboxylase alpha chain, mitochondrial: ACEGIK
Propionyl-CoA carboxylase beta chain, mitochondrial: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
E

G
G

I
I

K
K

B
B

D
D

F
F

H
H

J
J

L
L

Propionyl-CoA carboxylase alpha chain, mitochondrial

Propionyl-CoA carboxylase beta chain, mitochondrial

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