SMTL ID : 8xom.1

Cryo-EM structure of human ABCC4 in complex with ANP-bound in NBD1 and METHOTREXATE

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

monomer

Ligands

1 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 12 residues within 4Å: Chain A: W.419, V.447, G.448, A.449, G.450, K.451, S.452, Q.480, D.559, D.560, V.590 Ligands: MG.18 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:K.451, A:K.451, A:S.452, A:S.452, A:Q.480, A:D.559, A:D.560, A:D.560 pi-Stacking: A:W.419, A:W.419, A:W.419

1 x MTX: METHOTREXATE(Non-covalent)

MTX.2: 10 residues within 4Å: Chain A: N.320, L.321, F.324, L.367, F.368, D.842, G.991, Q.994, W.995, R.998 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.367, A:W.995, A:W.995 Hydrogen bonds: A:N.320 Salt bridges: A:R.998 pi-Stacking: A:F.324, A:F.324

14 x DU0: 2-[2-[(1~{S},2~{S},4~{S},5'~{R},6~{R},7~{S},8~{R},9~{S},12~{S},13~{R},16~{S})-5',7,9,13-tetramethylspiro[5-oxapentacyclo[10.8.0.0^{2,9}.0^{4,8}.0^{13,18}]icos-18-ene-6,2'-oxane]-16-yl]oxyethyl]propane-1,3-diol(Non-covalent)(Non-functional Binders)

DU0.3: 3 residues within 4Å: Chain A: I.108, F.112, Y.137 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.112, A:Y.137 DU0.4: 4 residues within 4Å: Chain A: I.223, T.226, A.227, W.230 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.226 DU0.5: 2 residues within 4Å: Chain A: P.862, W.863 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.863, A:W.863 DU0.6: 3 residues within 4Å: Chain A: L.771 Ligands: DU0.7, DU0.15 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.771 DU0.7: 4 residues within 4Å: Chain A: W.734, I.767 Ligands: DU0.6, DU0.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.734, A:I.767 DU0.8: 5 residues within 4Å: Chain A: L.730, W.733 Ligands: DU0.7, DU0.9, DU0.11 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.730, A:W.733 DU0.9: 11 residues within 4Å: Chain A: V.726, V.729, L.730, W.733, S.855, V.856, A.859, T.973, Q.978 Ligands: DU0.8, DU0.10 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.726, A:V.729, A:V.729, A:L.730, A:V.856 Hydrogen bonds: A:S.855, A:V.860 DU0.10: 4 residues within 4Å: Chain A: V.851, S.855 Ligands: DU0.9, DU0.11 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.851 DU0.11: 2 residues within 4Å: Ligands: DU0.8, DU0.10 No protein-ligand interaction detected (PLIP) DU0.12: 9 residues within 4Å: Chain A: A.239, A.242, V.243, V.334, T.338, L.341, L.342, G.343 Ligands: DU0.13 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.242, A:V.243, A:L.342 Hydrogen bonds: A:L.342 DU0.13: 4 residues within 4Å: Chain A: I.235, L.238, L.342 Ligands: DU0.12 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.235, A:I.235, A:L.342 DU0.14: 5 residues within 4Å: Chain A: L.215, P.219, I.373, V.376, I.380 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.215, A:P.219, A:V.376 DU0.15: 5 residues within 4Å: Chain A: W.763, G.766, G.770, V.773 Ligands: DU0.6 No protein-ligand interaction detected (PLIP) DU0.16: 1 residues within 4Å: Chain A: R.951 No protein-ligand interaction detected (PLIP)

1 x PLM: PALMITIC ACID(Non-covalent)

PLM.17: 7 residues within 4Å: Chain A: L.847, I.876, R.879, R.880, F.993, C.996, E.1004 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.847, A:I.876, A:F.993 Salt bridges: A:R.887

1 x MG: MAGNESIUM ION(Non-covalent)

MG.18: 4 residues within 4Å: Chain A: K.451, S.452, D.559 Ligands: ANP.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, Y. et al., The ATP-bound inward-open conformation of ABCC4 reveals asymmetric ATP binding for substrate transport. Febs Lett. (2024)

Release Date

2024-07-17

Peptides

ATP-binding cassette sub-family C member 4: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
Show / Hide

ATP-binding cassette sub-family C member 4

Related Entries With Identical Sequence