- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.23 Å
- Oligo State
- hetero-2-2-mer
- Ligands
- 4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)
HEM.1: 21 residues within 4Å:- Chain A: M.32, Y.42, F.43, H.45, F.46, H.58, K.61, V.62, A.65, L.66, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, V.132, L.136
- Ligands: CMO.2
17 PLIP interactions:16 interactions with chain A, 1 Ligand-Ligand interactions- Hydrophobic interactions: A:Y.42, A:F.43, A:V.62, A:V.62, A:L.83, A:L.91, A:V.93, A:F.98, A:F.98, A:F.98, A:F.98, A:V.132, A:L.136
- Salt bridges: A:H.45
- pi-Stacking: A:H.58
- Metal complexes: A:H.87, CMO.2
HEM.6: 18 residues within 4Å:- Chain B: T.38, F.41, F.42, F.45, H.63, K.66, A.70, F.71, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141
- Ligands: CMO.7
20 PLIP interactions:19 interactions with chain B, 1 Ligand-Ligand interactions- Hydrophobic interactions: B:T.38, B:F.41, B:F.41, B:F.42, B:F.42, B:F.42, B:L.88, B:L.91, B:L.96, B:V.98, B:N.102, B:F.103, B:F.103, B:L.106, B:L.141
- Salt bridges: B:H.63, B:K.66
- pi-Stacking: B:H.63
- Metal complexes: B:H.92, CMO.7
HEM.9: 21 residues within 4Å:- Chain C: M.32, Y.42, F.43, H.45, F.46, H.58, K.61, V.62, A.65, L.66, L.83, L.86, H.87, L.91, V.93, N.97, F.98, L.101, V.132, L.136
- Ligands: CMO.10
20 PLIP interactions:19 interactions with chain C, 1 Ligand-Ligand interactions- Hydrophobic interactions: C:Y.42, C:F.43, C:K.61, C:V.62, C:V.62, C:L.66, C:L.83, C:L.91, C:V.93, C:F.98, C:F.98, C:F.98, C:F.98, C:V.132, C:L.136
- Water bridges: C:K.61
- Salt bridges: C:H.45
- pi-Stacking: C:H.58
- Metal complexes: C:H.87, CMO.10
HEM.14: 18 residues within 4Å:- Chain D: T.38, F.41, F.42, F.45, H.63, K.66, A.70, F.71, L.88, L.91, H.92, L.96, V.98, N.102, F.103, L.106, L.141
- Ligands: CMO.15
20 PLIP interactions:19 interactions with chain D, 1 Ligand-Ligand interactions- Hydrophobic interactions: D:T.38, D:F.41, D:F.41, D:F.42, D:F.42, D:F.42, D:F.71, D:F.71, D:L.88, D:L.91, D:L.96, D:V.98, D:V.98, D:N.102, D:F.103, D:L.106
- Salt bridges: D:H.63, D:K.66
- Metal complexes: D:H.92, CMO.15
- 4 x CMO: CARBON MONOXIDE(Non-functional Binders)
CMO.2: 6 residues within 4Å:- Chain A: L.29, F.43, H.58, V.62, L.101
- Ligands: HEM.1
No protein-ligand interaction detected (PLIP)CMO.7: 5 residues within 4Å:- Chain B: L.28, F.42, H.63, V.67
- Ligands: HEM.6
No protein-ligand interaction detected (PLIP)CMO.10: 6 residues within 4Å:- Chain C: L.29, F.43, H.58, V.62, L.101
- Ligands: HEM.9
No protein-ligand interaction detected (PLIP)CMO.15: 6 residues within 4Å:- Chain D: L.28, F.42, H.63, V.67, L.106
- Ligands: HEM.14
No protein-ligand interaction detected (PLIP)- 5 x O4B: 1,4,7,10,13,16-HEXAOXACYCLOOCTADECANE(Non-covalent)
O4B.3: 3 residues within 4Å:- Chain A: F.33, P.37, K.40
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.40
O4B.8: 3 residues within 4Å:- Chain B: P.58, K.59, A.62
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.59
O4B.11: 4 residues within 4Å:- Chain C: F.33, P.37, K.40, L.48
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:K.40
O4B.12: 5 residues within 4Å:- Chain C: K.7, K.11, A.71, V.73, D.74
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:K.11
O4B.16: 3 residues within 4Å:- Chain D: P.58, K.59, A.62
1 PLIP interactions:1 interactions with chain D- Hydrogen bonds: D:K.59
- 2 x VOJ: 3-{(1S)-1-[5-fluoro-2-(1H-pyrazol-1-yl)phenyl]ethoxy}-5-(3-methyl-1H-pyrazol-4-yl)pyridin-2-amine(Non-covalent)
VOJ.4: 12 residues within 4Å:- Chain A: V.1, L.2, V.73, D.74, M.76
- Chain C: D.74, P.77, N.78, S.131, T.134, V.135
- Ligands: VOJ.13
10 PLIP interactions:5 interactions with chain C, 5 interactions with chain A- Hydrophobic interactions: C:P.77, C:V.135, A:V.1
- Hydrogen bonds: C:D.74, A:V.1, A:V.1, A:L.2
- Water bridges: C:M.76
- Halogen bonds: C:N.78
- pi-Cation interactions: A:K.7
VOJ.13: 12 residues within 4Å:- Chain A: D.74, P.77, N.78, S.131, T.134, V.135
- Chain C: V.1, L.2, V.73, D.74, M.76
- Ligands: VOJ.4
11 PLIP interactions:6 interactions with chain C, 5 interactions with chain A- Hydrophobic interactions: C:V.1, C:L.2, A:P.77, A:V.135
- Hydrogen bonds: C:V.1, C:V.1, C:L.2, A:D.74
- pi-Cation interactions: C:K.7
- Water bridges: A:M.76
- Halogen bonds: A:N.78
- 1 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 6 residues within 4Å:- Chain A: P.95, S.133, T.134, T.137, S.138
- Chain D: W.37
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:T.137, A:T.137
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Gopalsamy, A. et al., PF-07059013: A Noncovalent Modulator of Hemoglobin for Treatment of Sickle Cell Disease. J.Med.Chem. (2021)
- Release Date
- 2021-01-13
- Peptides
- Hemoglobin subunit alpha: AC
Hemoglobin subunit beta: BD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
CB
BD
D
SMTL ID : 7jxz.1
Structure of HbA with compound (S)-4
Hemoglobin subunit alpha
Toggle Identical (AC)Hemoglobin subunit beta
Toggle Identical (BD)Related Entries With Identical Sequence
1a00.1 | 1a01.1 | 1a0u.1 | 1a0z.1 | 1a3n.1 | 1a3o.1 | 1a9w.1 | 1aj9.1 | 1b86.1 | 1bab.1 | 1bbb.1 | 1bij.1 | 1buw.1 | 1bz0.1 | 1bz1.1 | 1bzz.1 | 1cbl.1 | 1cbm.1 | 1cls.1 | 1cmy.1 | 1coh.1 | 1dke.1 | 1dxt.1 | 1dxu.1 | 1dxv.1 | 1fdh.1 | 1fn3.1 | 1g9v.1 | 1gbu.1 | 1gbv.1 more...less...1gzx.1 | 1hab.1 | 1hac.1 | 1hba.1 | 1hbb.1 | 1hbs.1 | 1hbs.2 | 1hco.1 | 1hdb.1 | 1hga.1 | 1hgb.1 | 1hgc.1 | 1hho.1 | 1ird.1 | 1j3y.1 | 1j3y.2 | 1j3z.1 | 1j3z.2 | 1j40.1 | 1j40.2 | 1j41.1 | 1j41.2 | 1jy7.1 | 1jy7.2 | 1jy7.3 | 1k0y.1 | 1k1k.1 | 1kd2.1 | 1lfl.1 | 1lfl.2 | 1lfq.1 | 1lft.1 | 1lfv.1 | 1lfy.1 | 1lfz.1 | 1ljw.1 | 1m9p.1 | 1mko.1 | 1nej.1 | 1nih.1 | 1nqp.1 | 1qsh.1 | 1qsi.1 | 1qxd.1 | 1qxd.2 | 1qxe.1 | 1qxe.2 | 1qxe.3 | 1r1x.1 | 1r1y.1 | 1rps.1 | 1rq3.1 | 1rq4.1 | 1rqa.1 | 1rvw.1 | 1sdk.1 | 1sdk.2 | 1sdl.1 | 1sdl.2 | 1shr.1 | 1si4.1 | 1thb.1 | 1uiw.1 | 1uiw.2 | 1vwt.1 | 1xxt.1 | 1xy0.1 | 1xye.1 | 1xz2.1 | 1xz4.1 | 1xz5.1 | 1xz7.1 | 1xzu.1 | 1xzv.1 | 1y09.1 | 1y0a.1 | 1y0c.1 | 1y0d.1 | 1y0t.1 | 1y0w.1 | 1y22.1 | 1y2z.1 | 1y31.1 | 1y35.1 | 1y45.1 | 1y46.1 | 1y4b.1 | 1y4f.1 | 1y4g.1 | 1y4p.1 | 1y4q.1 | 1y4r.1 | 1y4v.1 | 1y5f.1 | 1y5j.1 | 1y5k.1 | 1y7c.1 | 1y7d.1 | 1y7g.1 | 1y7z.1 | 1y83.1 | 1y85.1 | 1y8w.1 | 1ydz.1 | 1ye0.1 | 1ye1.1 | 1ye2.1 | 1yen.1 | 1yeo.1 | 1yeq.1 | 1yeu.1 | 1yev.1 | 1yff.1 | 1yff.2 | 1yg5.1 | 1ygd.1 | 1ygf.1 | 1yh9.1 | 1yhe.1 | 1yhr.1 | 1yie.1 | 1yih.1 | 1yvq.1 | 1yvt.1 | 1yzi.1 | 2d5z.1 | 2d60.1 | 2dn1.1 | 2dn2.1 | 2dn3.1 | 2dxm.1 | 2h35.1 | 2hbc.1 | 2hbd.1 | 2hbe.1 | 2hbf.1 | 2hbs.1 | 2hbs.2 | 2hco.1 | 2hhb.1 | 2hhd.1 | 2hhe.1 | 2m6z.1 | 2w6v.1 | 2yrs.1 | 2yrs.2 | 3b75.1 | 3b75.2 | 3b75.3 | 3d17.1 | 3d7o.1 | 3dut.1 | 3hhb.1 | 3hxn.1 | 3ic0.1 | 3ic2.1 | 3kmf.1 | 3nl7.1 | 3nmm.1 | 3odq.1 | 3onz.1 | 3oo4.1 | 3oo5.1 | 3ovu.1 | 3p5q.1 | 3qjb.1 | 3qjc.1 | 3qjd.1 | 3qje.1 | 3r5i.1 | 3s48.1 | 3s48.2 | 3s65.1 | 3s66.1 | 3szk.1 | 3szk.2 | 3wcp.1 | 3whm.1 | 4fc3.1 | 4hhb.1 | 4ij2.1 | 4l7y.1 | 4m4a.1 | 4m4b.1 | 4mqc.1 | 4mqg.1 | 4mqh.1 | 4mqj.1 | 4mqj.2 | 4mqk.1 | 4mqk.2 | 4n7n.1 | 4n7n.2 | 4n7n.3 | 4n7o.1 | 4n7o.2 | 4n7o.3 | 4n7p.1 | 4n7p.2 | 4n7p.3 | 4n8t.1 | 4ni0.1 | 4ni1.1 | 4rol.1 | 4rom.1 | 4wjg.1 | 4wjg.2 | 4wjg.3 | 4x0l.1 | 4xs0.1 | 5e29.1 | 5e6e.1 | 5e83.1 | 5ee4.1 | 5ee4.2 | 5hu6.1 | 5hy8.1 | 5hy8.2 | 5hy8.3 | 5jdo.1 | 5kdq.1 | 5ksi.1 | 5ksj.1 | 5ni1.1 | 5u3i.1 | 5ucu.1 | 5ufj.1 | 5urc.1 | 5vmm.1 | 5wog.1 | 5woh.1 | 5x2r.1 | 5x2r.2 | 5x2r.3 | 5x2s.1 | 5x2s.2 | 5x2s.3 | 5x2t.1 | 5x2t.2 | 5x2t.3 | 5x2u.1 | 5x2u.2 | 5x2u.3 | 6bnr.1 | 6bwp.1 | 6bwu.1 | 6di4.1 | 6fqf.1 | 6hbw.1 | 6hk2.1 | 6ka9.1 | 6ka9.2 | 6kae.1 | 6kae.2 | 6kah.1 | 6kah.2 | 6kai.1 | 6kai.2 | 6kao.1 | 6kap.1 | 6kaq.1 | 6kar.1 | 6kas.1 | 6kat.1 | 6kau.1 | 6kav.1 | 6l5v.1 | 6l5w.1 | 6l5x.1 | 6l5y.1 | 6lcw.1 | 6lcw.2 | 6lcx.1 | 6lcx.2 | 6nq5.1 | 6tb2.1 | 6xd9.1 | 6xdt.1 | 6xe7.1 | 7dy3.1 | 7dy3.2 | 7dy4.1 | 7dy4.2 | 7jjq.1 | 7jy0.1 | 7jy1.1 | 7jy3.1 | 7pcf.1 | 7pch.1 | 7pcq.1 | 7uvb.1 | 8dov.1 | 8dov.2 | 8fdk.1 | 8fdl.1 | 8fdm.1 | 8fdn.1