SMTL ID : 8sq0.1

Cleaved Ycf1p Dimer in the IFwide-beta conformation

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-mer

Ligands

2 x PTY: PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PTY.1: 19 residues within 4Å: Chain A: F.147, I.151, L.154, I.155, T.158, Y.159, I.342, V.343, F.346, L.347, F.350, I.1186, L.1189, K.1200 Chain B: L.81, Q.167, I.171, F.175 Ligands: LPP.3 13 PLIP interactions: 12 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.147, A:F.147, A:I.155, A:V.343, A:F.346, A:L.347, A:F.350, A:I.1186, A:L.1189, B:L.81 Hydrogen bonds: A:T.158 Salt bridges: A:K.1200, A:K.1200 PTY.4: 19 residues within 4Å: Chain A: L.81, Q.167, I.171, F.175 Chain B: F.147, I.151, L.154, I.155, T.158, Y.159, I.342, V.343, F.346, L.347, F.350, I.1186, L.1189, K.1200 Ligands: LPP.6 14 PLIP interactions: 12 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:F.147, B:F.147, B:I.155, B:V.343, B:F.346, B:L.347, B:F.350, B:I.1186, B:L.1189, A:L.81, A:F.175 Hydrogen bonds: B:T.158 Salt bridges: B:K.1200, B:K.1200

2 x GP7: (1R)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(pentadecanoyloxy)methyl]ethyl (12E)-hexadeca-9,12-dienoate(Non-covalent)

GP7.2: 26 residues within 4Å: Chain A: K.933, V.934, W.936, Y.939, A.943, V.951, L.1013, F.1068, F.1071, F.1072, A.1075, V.1078, I.1082, I.1096, L.1099, S.1100, Y.1103, Q.1107, Q.1108, L.1111, R.1112, I.1183, I.1187, L.1223, I.1226, E.1234 25 PLIP interactions: 25 interactions with chain A Hydrophobic interactions: A:W.936, A:W.936, A:A.943, A:V.951, A:V.951, A:L.1013, A:F.1068, A:F.1071, A:F.1071, A:F.1072, A:F.1072, A:A.1075, A:V.1078, A:I.1082, A:I.1096, A:L.1099, A:Y.1103, A:I.1183, A:I.1187, A:L.1223, A:I.1226 Hydrogen bonds: A:K.933, A:V.934, A:Q.1108, A:R.1112 GP7.5: 26 residues within 4Å: Chain B: K.933, V.934, W.936, Y.939, A.943, V.951, L.1013, F.1068, F.1071, F.1072, A.1075, V.1078, I.1082, I.1096, L.1099, S.1100, Y.1103, Q.1107, Q.1108, L.1111, R.1112, I.1183, I.1187, L.1223, I.1226, E.1234 25 PLIP interactions: 25 interactions with chain B Hydrophobic interactions: B:W.936, B:W.936, B:A.943, B:V.951, B:V.951, B:L.1013, B:F.1068, B:F.1071, B:F.1071, B:F.1072, B:F.1072, B:A.1075, B:V.1078, B:I.1082, B:I.1096, B:L.1099, B:Y.1103, B:I.1183, B:I.1187, B:L.1223, B:I.1226 Hydrogen bonds: B:K.933, B:V.934, B:Q.1108, B:R.1112

2 x LPP: 2-(HEXADECANOYLOXY)-1-[(PHOSPHONOOXY)METHYL]ETHYL HEXADECANOATE(Non-covalent)

LPP.3: 16 residues within 4Å: Chain A: T.143, A.188, L.189, K.191, S.214, F.218, S.219, S.224, S.227, Y.1106, R.1179 Chain B: W.70, S.74, L.78, S.182 Ligands: PTY.1 13 PLIP interactions: 8 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:T.143, A:A.188, A:F.218, A:F.218, B:W.70, B:W.70, B:W.70, B:W.70, B:L.78 Hydrogen bonds: A:S.214, A:S.219 Salt bridges: A:K.191, A:K.231 LPP.6: 16 residues within 4Å: Chain A: W.70, S.74, L.78, S.182 Chain B: T.143, A.188, L.189, K.191, S.214, F.218, S.219, S.224, S.227, Y.1106, R.1179 Ligands: PTY.4 13 PLIP interactions: 8 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:T.143, B:A.188, B:F.218, B:F.218, A:W.70, A:W.70, A:W.70, A:W.70, A:L.78 Hydrogen bonds: B:S.214, B:S.219 Salt bridges: B:K.191, B:K.231

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bickers, S.C. et al., Structure of a dimeric ABC transporter. To Be Published

Release Date

2024-05-08

Peptides

Metal resistance protein YCF1: AB
Unknown peptide: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Membrane

We predict this structure to be a membrane protein.
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Metal resistance protein YCF1

Unknown peptide

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