SMTL ID : 4u8u.1

The Crystallographic structure of the giant hemoglobin from Glossoscolex paulistus at 3.2 A resolution.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-9-9-9-9-3-3-3-mer

Ligands

36 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)(Covalent)

HEM.1: 20 residues within 4Å: Chain A: A.47, L.50, F.51, R.53, V.54, H.67, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137 Chain D: H.89, Q.93 Ligands: CYN.2 18 PLIP interactions: 16 interactions with chain A, 2 interactions with chain D, Hydrophobic interactions: A:A.47, A:L.50, A:F.51, A:L.95, A:R.102, A:V.105, A:F.109, A:F.110, A:F.110, A:F.110, A:F.117, A:F.137 Hydrogen bonds: A:Q.98, D:Q.93 Salt bridges: A:R.53, A:R.102, D:H.89 Metal complexes: A:H.99 HEM.3: 19 residues within 4Å: Chain B: L.46, F.47, R.49, H.63, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Chain C: H.95, Q.99 Ligands: CYN.4 20 PLIP interactions: 18 interactions with chain B, 2 interactions with chain C, Hydrophobic interactions: B:L.46, B:F.47, B:F.71, B:I.100, B:Y.104, B:Y.104, B:F.105, B:F.105, B:F.108, B:F.108, B:F.108, B:F.108, B:I.140 Hydrogen bonds: B:R.66, C:Q.99 Salt bridges: B:R.49, B:H.63, B:R.98, C:H.95 Metal complexes: B:H.95 HEM.5: 24 residues within 4Å: Chain B: H.90, Q.94 Chain C: L.41, V.48, L.51, F.52, K.54, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.118, L.142 Ligands: CYN.6 23 PLIP interactions: 21 interactions with chain C, 2 interactions with chain B, Hydrophobic interactions: C:L.41, C:V.48, C:L.51, C:L.51, C:F.52, C:F.52, C:V.55, C:I.72, C:L.76, C:L.96, C:V.106, C:F.111, C:F.111, C:F.111, C:I.114, C:L.118, C:L.142 Hydrogen bonds: C:Q.99, B:Q.94 Salt bridges: C:R.103, B:H.90 pi-Stacking: C:H.100 Metal complexes: C:H.100 HEM.7: 23 residues within 4Å: Chain A: H.94, Q.98 Chain D: F.35, V.42, L.45, F.46, G.48, V.49, H.62, R.65, L.70, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 Ligands: CYN.8 19 PLIP interactions: 17 interactions with chain D, 2 interactions with chain A, Hydrophobic interactions: D:F.35, D:V.42, D:L.45, D:L.45, D:F.46, D:L.90, D:L.90, D:I.99, D:I.99, D:Y.104, D:F.107, D:F.107, D:F.132, D:I.135 Salt bridges: D:H.62, D:R.97, A:H.94 Metal complexes: D:H.94 Hydrogen bonds: A:Q.98 HEM.9: 20 residues within 4Å: Chain E: A.47, L.50, F.51, R.53, V.54, H.67, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137 Chain H: H.89, Q.93 Ligands: CYN.10 20 PLIP interactions: 18 interactions with chain E, 2 interactions with chain H, Hydrophobic interactions: E:A.47, E:L.50, E:F.51, E:L.95, E:R.102, E:V.105, E:F.109, E:F.110, E:F.110, E:F.110, E:F.110, E:F.117, E:F.137 Hydrogen bonds: E:R.70, H:Q.93 Salt bridges: E:R.53, E:H.67, E:R.102, H:H.89 Metal complexes: E:H.99 HEM.11: 18 residues within 4Å: Chain F: L.46, F.47, R.49, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Chain G: H.95, Q.99 Ligands: CYN.12 17 PLIP interactions: 2 interactions with chain G, 15 interactions with chain F, Hydrogen bonds: G:Q.99, F:R.66 Salt bridges: G:H.95, F:R.49, F:H.63, F:R.98 Hydrophobic interactions: F:L.46, F:F.47, F:F.71, F:I.100, F:Y.104, F:Y.104, F:F.105, F:F.108, F:F.108, F:I.140 Metal complexes: F:H.95 HEM.13: 23 residues within 4Å: Chain F: H.90, Q.94 Chain G: L.41, V.48, L.51, F.52, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.118, L.142 Ligands: CYN.14 24 PLIP interactions: 2 interactions with chain F, 22 interactions with chain G, Hydrogen bonds: F:Q.94, G:R.71 Salt bridges: F:H.90, G:H.68, G:R.103 Hydrophobic interactions: G:L.41, G:V.48, G:L.51, G:F.52, G:F.52, G:V.55, G:I.72, G:L.76, G:L.96, G:V.106, G:H.110, G:F.111, G:F.111, G:F.111, G:I.114, G:I.114, G:L.118, G:L.142 Metal complexes: G:H.100 HEM.15: 22 residues within 4Å: Chain E: H.94, Q.98 Chain H: V.42, L.45, F.46, G.48, V.49, H.62, R.65, L.70, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 Ligands: CYN.16 18 PLIP interactions: 16 interactions with chain H, 2 interactions with chain E, Hydrophobic interactions: H:V.42, H:L.45, H:L.45, H:F.46, H:L.90, H:I.99, H:I.99, H:Y.104, H:F.107, H:F.107, H:F.132, H:I.135, H:I.139 Salt bridges: H:H.62, H:R.97, E:H.94 Metal complexes: H:H.94 Hydrogen bonds: E:Q.98 HEM.17: 20 residues within 4Å: Chain I: A.47, L.50, F.51, R.53, V.54, H.67, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137 Chain L: H.89, Q.93 Ligands: CYN.18 22 PLIP interactions: 20 interactions with chain I, 2 interactions with chain L, Hydrophobic interactions: I:A.47, I:L.50, I:L.50, I:F.51, I:L.95, I:R.102, I:V.105, I:F.109, I:F.110, I:F.110, I:F.110, I:F.110, I:F.117, I:F.137 Hydrogen bonds: I:R.70, I:Q.98, L:Q.93 Salt bridges: I:R.53, I:H.67, I:R.102, L:H.89 Metal complexes: I:H.99 HEM.19: 18 residues within 4Å: Chain J: L.46, F.47, R.49, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Chain K: H.95, Q.99 Ligands: CYN.20 18 PLIP interactions: 16 interactions with chain J, 2 interactions with chain K, Hydrophobic interactions: J:L.46, J:F.47, J:F.71, J:I.100, J:Y.104, J:Y.104, J:F.105, J:F.105, J:F.108, J:F.108, J:F.108, J:I.140 Hydrogen bonds: J:R.66, K:Q.99 Salt bridges: J:R.49, J:R.98, K:H.95 Metal complexes: J:H.95 HEM.21: 22 residues within 4Å: Chain J: H.90, Q.94 Chain K: V.48, L.51, F.52, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.118, L.142 Ligands: CYN.22 23 PLIP interactions: 21 interactions with chain K, 2 interactions with chain J, Hydrophobic interactions: K:V.48, K:L.51, K:F.52, K:F.52, K:V.55, K:I.72, K:L.76, K:L.96, K:R.103, K:V.106, K:H.110, K:F.111, K:F.111, K:F.111, K:I.114, K:I.114, K:L.118, K:L.142 Hydrogen bonds: K:Q.99, J:Q.94 Salt bridges: K:R.103, J:H.90 Metal complexes: K:H.100 HEM.23: 21 residues within 4Å: Chain I: H.94, Q.98 Chain L: V.42, L.45, F.46, V.49, H.62, R.65, L.70, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 Ligands: CYN.24 21 PLIP interactions: 19 interactions with chain L, 2 interactions with chain I, Hydrophobic interactions: L:V.42, L:L.45, L:L.45, L:F.46, L:L.70, L:L.90, L:I.99, L:I.99, L:F.103, L:Y.104, L:F.107, L:F.107, L:F.132, L:I.135, L:I.139 Hydrogen bonds: L:R.97, I:Q.98 Salt bridges: L:H.62, L:R.97, I:H.94 Metal complexes: L:H.94 HEM.31: 20 residues within 4Å: Chain P: A.47, L.50, F.51, R.53, V.54, H.67, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137 Chain S: H.89, Q.93 Ligands: CYN.32 20 PLIP interactions: 18 interactions with chain P, 2 interactions with chain S, Hydrophobic interactions: P:A.47, P:L.50, P:F.51, P:L.95, P:L.95, P:R.102, P:V.105, P:F.109, P:F.110, P:F.110, P:F.110, P:F.110, P:I.113, P:F.117, P:F.137 Salt bridges: P:R.53, P:R.102, S:H.89 Metal complexes: P:H.99 Hydrogen bonds: S:Q.93 HEM.33: 19 residues within 4Å: Chain Q: L.46, F.47, R.49, H.63, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Chain R: H.95, Q.99 Ligands: CYN.34 19 PLIP interactions: 17 interactions with chain Q, 2 interactions with chain R, Hydrophobic interactions: Q:L.46, Q:L.46, Q:F.47, Q:F.71, Q:I.100, Q:Y.104, Q:Y.104, Q:F.105, Q:F.105, Q:F.108, Q:F.108, Q:I.140 Hydrogen bonds: Q:R.66, R:Q.99 Salt bridges: Q:R.49, Q:H.63, Q:R.98, R:H.95 Metal complexes: Q:H.95 HEM.35: 21 residues within 4Å: Chain Q: H.90, Q.94 Chain R: V.48, L.51, F.52, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.142 Ligands: CYN.36 21 PLIP interactions: 19 interactions with chain R, 2 interactions with chain Q, Hydrophobic interactions: R:V.48, R:L.51, R:L.51, R:F.52, R:F.52, R:V.55, R:I.72, R:L.76, R:L.96, R:V.106, R:F.111, R:F.111, R:F.111, R:I.114, R:I.114, R:L.142 Hydrogen bonds: R:Q.99, Q:Q.94 Salt bridges: R:R.103, Q:H.90 Metal complexes: R:H.100 HEM.37: 22 residues within 4Å: Chain P: H.94, Q.98 Chain S: F.35, V.42, L.45, F.46, G.48, V.49, H.62, R.65, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 Ligands: CYN.38 20 PLIP interactions: 18 interactions with chain S, 2 interactions with chain P, Hydrophobic interactions: S:F.35, S:V.42, S:L.45, S:L.45, S:F.46, S:L.90, S:I.99, S:I.99, S:Y.104, S:F.107, S:F.107, S:F.132, S:I.135, S:I.139 Hydrogen bonds: S:Q.93, P:Q.98 Salt bridges: S:R.97, P:H.94 pi-Cation interactions: S:H.62 Metal complexes: S:H.94 HEM.39: 21 residues within 4Å: Chain T: L.40, A.47, L.50, F.51, R.53, V.54, H.67, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137 Chain W: H.89, Q.93 Ligands: CYN.40 24 PLIP interactions: 22 interactions with chain T, 2 interactions with chain W, Hydrophobic interactions: T:L.40, T:A.47, T:L.50, T:F.51, T:F.51, T:F.51, T:L.95, T:L.95, T:R.102, T:V.105, T:F.109, T:F.110, T:F.110, T:F.110, T:F.110, T:F.117, T:F.137 Hydrogen bonds: T:R.70, W:Q.93 Salt bridges: T:R.53, T:H.67, T:R.102, W:H.89 Metal complexes: T:H.99 HEM.41: 18 residues within 4Å: Chain U: L.46, F.47, R.49, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Chain V: H.95, Q.99 Ligands: CYN.42 21 PLIP interactions: 19 interactions with chain U, 2 interactions with chain V, Hydrophobic interactions: U:L.46, U:L.46, U:F.47, U:F.71, U:L.91, U:I.100, U:Y.104, U:Y.104, U:F.105, U:F.105, U:F.108, U:F.108, U:I.140 Hydrogen bonds: U:R.66, V:Q.99 Salt bridges: U:R.49, U:H.63, U:R.66, U:R.98, V:H.95 Metal complexes: U:H.95 HEM.43: 23 residues within 4Å: Chain U: H.90, Q.94 Chain V: V.48, L.51, F.52, K.54, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.118, L.142 Ligands: CYN.44 22 PLIP interactions: 20 interactions with chain V, 2 interactions with chain U, Hydrophobic interactions: V:V.48, V:L.51, V:F.52, V:F.52, V:V.55, V:I.72, V:L.76, V:L.96, V:R.103, V:V.106, V:F.111, V:F.111, V:F.111, V:I.114, V:I.114, V:L.118, V:L.142 Hydrogen bonds: V:Q.99, U:Q.94 Salt bridges: V:R.103, U:H.90 Metal complexes: V:H.100 HEM.45: 21 residues within 4Å: Chain T: H.94, Q.98 Chain W: V.42, L.45, F.46, G.48, V.49, H.62, R.65, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 Ligands: CYN.46 18 PLIP interactions: 16 interactions with chain W, 2 interactions with chain T, Hydrophobic interactions: W:V.42, W:L.45, W:L.45, W:F.46, W:I.99, W:I.99, W:Y.104, W:F.107, W:F.107, W:F.132, W:I.135, W:I.139 Hydrogen bonds: W:R.97, T:Q.98 Salt bridges: W:H.62, W:R.97, T:H.94 Metal complexes: W:H.94 HEM.47: 19 residues within 4Å: Chain 0: H.89, Q.93 Chain X: A.47, L.50, F.51, R.53, V.54, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137 Ligands: CYN.48 22 PLIP interactions: 20 interactions with chain X, 2 interactions with chain 0, Hydrophobic interactions: X:A.47, X:L.50, X:L.50, X:F.51, X:F.51, X:L.95, X:R.102, X:V.105, X:F.109, X:F.110, X:F.110, X:F.110, X:F.110, X:F.117, X:F.137 Hydrogen bonds: X:R.70, 0:Q.93 Salt bridges: X:R.53, X:H.67, X:R.102, 0:H.89 Metal complexes: X:H.99 HEM.49: 18 residues within 4Å: Chain Y: L.46, F.47, R.49, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Chain Z: H.95, Q.99 Ligands: CYN.50 18 PLIP interactions: 2 interactions with chain Z, 16 interactions with chain Y, Hydrogen bonds: Z:Q.99, Y:R.66 Salt bridges: Z:H.95, Y:R.49, Y:R.98 Hydrophobic interactions: Y:L.46, Y:L.46, Y:F.47, Y:F.71, Y:I.100, Y:Y.104, Y:Y.104, Y:F.105, Y:F.105, Y:F.108, Y:F.108, Y:I.140 Metal complexes: Y:H.95 HEM.51: 22 residues within 4Å: Chain Y: H.90, Q.94 Chain Z: L.41, V.48, L.51, F.52, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.142 Ligands: CYN.52 24 PLIP interactions: 22 interactions with chain Z, 2 interactions with chain Y, Hydrophobic interactions: Z:L.41, Z:V.48, Z:L.51, Z:F.52, Z:F.52, Z:V.55, Z:I.72, Z:L.76, Z:L.96, Z:R.103, Z:V.106, Z:H.110, Z:F.111, Z:F.111, Z:F.111, Z:I.114, Z:I.114, Z:L.142 Hydrogen bonds: Z:R.71, Y:Q.94 Salt bridges: Z:H.68, Z:R.103, Y:H.90 Metal complexes: Z:H.100 HEM.53: 22 residues within 4Å: Chain 0: V.42, L.45, F.46, G.48, V.49, H.62, R.65, L.70, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 Chain X: H.94, Q.98 Ligands: CYN.54 19 PLIP interactions: 1 interactions with chain X, 18 interactions with chain 0, Salt bridges: X:H.94, 0:H.62, 0:R.97 Hydrophobic interactions: 0:V.42, 0:L.45, 0:L.45, 0:F.46, 0:L.90, 0:L.90, 0:I.99, 0:I.99, 0:Y.104, 0:F.107, 0:F.107, 0:F.132, 0:I.135, 0:I.139 Hydrogen bonds: 0:R.97 Metal complexes: 0:H.94 HEM.62: 21 residues within 4Å: Chain 4: L.40, A.47, L.50, F.51, R.53, V.54, H.67, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137 Chain 7: H.89, Q.93 Ligands: CYN.63 25 PLIP interactions: 23 interactions with chain 4, 2 interactions with chain 7, Hydrophobic interactions: 4:L.40, 4:A.47, 4:L.50, 4:L.50, 4:F.51, 4:F.51, 4:R.53, 4:L.95, 4:L.95, 4:R.102, 4:V.105, 4:V.105, 4:F.109, 4:F.110, 4:F.110, 4:F.110, 4:F.110, 4:I.113, 4:F.117, 4:F.137 Salt bridges: 4:R.53, 4:R.102, 7:H.89 Metal complexes: 4:H.99 Hydrogen bonds: 7:Q.93 HEM.64: 19 residues within 4Å: Chain 5: L.46, F.47, R.49, H.63, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Chain 6: H.95, Q.99 Ligands: CYN.65 20 PLIP interactions: 2 interactions with chain 6, 18 interactions with chain 5, Hydrogen bonds: 6:Q.99, 5:R.66 Salt bridges: 6:H.95, 5:R.49, 5:H.63, 5:R.98 Hydrophobic interactions: 5:L.46, 5:L.46, 5:F.47, 5:F.71, 5:I.100, 5:Y.104, 5:Y.104, 5:F.105, 5:F.105, 5:F.108, 5:F.108, 5:F.108, 5:I.140 Metal complexes: 5:H.95 HEM.66: 24 residues within 4Å: Chain 5: H.90, Q.94 Chain 6: L.41, V.48, L.51, F.52, K.54, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.118, L.142 Ligands: CYN.67 22 PLIP interactions: 20 interactions with chain 6, 2 interactions with chain 5, Hydrophobic interactions: 6:L.41, 6:V.48, 6:L.51, 6:F.52, 6:F.52, 6:V.55, 6:I.72, 6:L.76, 6:L.96, 6:V.106, 6:F.111, 6:F.111, 6:F.111, 6:I.114, 6:I.114, 6:L.118, 6:L.142 Hydrogen bonds: 6:Q.99, 5:Q.94 Salt bridges: 6:R.103, 5:H.90 Metal complexes: 6:H.100 HEM.68: 22 residues within 4Å: Chain 4: H.94, Q.98 Chain 7: F.35, V.42, L.45, F.46, G.48, V.49, H.62, R.65, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 Ligands: CYN.69 20 PLIP interactions: 18 interactions with chain 7, 2 interactions with chain 4, Hydrophobic interactions: 7:F.35, 7:V.42, 7:L.45, 7:L.45, 7:F.46, 7:L.90, 7:I.99, 7:I.99, 7:Y.104, 7:F.107, 7:F.107, 7:F.132, 7:I.135, 7:I.139 Hydrogen bonds: 7:G.48, 4:Q.98 Salt bridges: 7:H.62, 7:R.97, 4:H.94 Metal complexes: 7:H.94 HEM.70: 21 residues within 4Å: Chain 8: A.47, L.50, F.51, R.53, V.54, H.67, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137, I.144 Ligands: CYN.71 Chain b: H.89, Q.93 23 PLIP interactions: 21 interactions with chain 8, 2 interactions with chain b, Hydrophobic interactions: 8:A.47, 8:L.50, 8:F.51, 8:L.95, 8:L.95, 8:R.102, 8:V.105, 8:F.109, 8:F.110, 8:F.110, 8:F.110, 8:F.110, 8:F.117, 8:F.137, 8:I.144 Hydrogen bonds: 8:R.70, 8:Q.98, b:Q.93 Salt bridges: 8:R.53, 8:H.67, 8:R.102, b:H.89 Metal complexes: 8:H.99 HEM.72: 18 residues within 4Å: Chain 9: L.46, F.47, R.49, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Ligands: CYN.73 Chain a: H.95, Q.99 17 PLIP interactions: 15 interactions with chain 9, 2 interactions with chain a, Hydrophobic interactions: 9:L.46, 9:L.46, 9:F.47, 9:F.71, 9:I.100, 9:Y.104, 9:Y.104, 9:F.105, 9:F.105, 9:F.108, 9:F.108, 9:I.140 Salt bridges: 9:R.49, 9:R.98, a:H.95 Metal complexes: 9:H.95 Hydrogen bonds: a:Q.99 HEM.74: 22 residues within 4Å: Chain 9: H.90, Q.94 Ligands: CYN.75 Chain a: V.48, L.51, F.52, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.118, L.142 22 PLIP interactions: 20 interactions with chain a, 2 interactions with chain 9, Hydrophobic interactions: a:V.48, a:L.51, a:L.51, a:F.52, a:F.52, a:I.72, a:A.75, a:L.76, a:L.96, a:V.106, a:F.111, a:F.111, a:F.111, a:I.114, a:I.114, a:L.118, a:L.142 Hydrogen bonds: a:Q.99, 9:Q.94 Salt bridges: a:R.103, 9:H.90 Metal complexes: a:H.100 HEM.76: 21 residues within 4Å: Chain 8: H.94, Q.98 Ligands: CYN.77 Chain b: V.42, L.45, F.46, G.48, V.49, H.62, R.65, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 18 PLIP interactions: 16 interactions with chain b, 2 interactions with chain 8, Hydrophobic interactions: b:V.42, b:L.45, b:L.45, b:F.46, b:L.90, b:I.99, b:I.99, b:Y.104, b:F.107, b:F.107, b:F.132, b:I.135, b:I.139 Hydrogen bonds: b:R.97, 8:Q.98 Salt bridges: b:R.97, 8:H.94 Metal complexes: b:H.94 HEM.78: 19 residues within 4Å: Ligands: CYN.79 Chain c: L.50, F.51, R.53, V.54, H.67, R.70, L.95, Q.98, H.99, R.102, V.105, F.109, F.110, I.113, F.117, F.137 Chain f: H.89, Q.93 23 PLIP interactions: 21 interactions with chain c, 2 interactions with chain f, Hydrophobic interactions: c:L.50, c:L.50, c:F.51, c:L.95, c:L.95, c:R.102, c:V.105, c:V.105, c:F.109, c:F.110, c:F.110, c:F.110, c:F.110, c:F.117, c:F.137 Hydrogen bonds: c:R.70, c:Q.98, f:Q.93 Salt bridges: c:R.53, c:H.67, c:R.102, f:H.89 Metal complexes: c:H.99 HEM.80: 19 residues within 4Å: Ligands: CYN.81 Chain d: L.46, F.47, R.49, H.63, R.66, V.67, F.71, L.91, Q.94, H.95, R.98, I.100, Y.104, F.105, F.108, I.140 Chain e: H.95, Q.99 18 PLIP interactions: 16 interactions with chain d, 2 interactions with chain e, Hydrophobic interactions: d:L.46, d:F.47, d:F.71, d:I.100, d:Y.104, d:Y.104, d:F.105, d:F.105, d:F.108, d:F.108, d:I.140 Hydrogen bonds: d:R.66, e:Q.99 Salt bridges: d:R.49, d:H.63, d:R.98, e:H.95 Metal complexes: d:H.95 HEM.82: 22 residues within 4Å: Ligands: CYN.83 Chain d: H.90, Q.94 Chain e: V.48, L.51, F.52, V.55, H.68, R.71, I.72, A.75, L.76, L.96, Q.99, H.100, R.103, V.106, H.110, F.111, I.114, L.118, L.142 26 PLIP interactions: 24 interactions with chain e, 2 interactions with chain d, Hydrophobic interactions: e:V.48, e:L.51, e:F.52, e:F.52, e:V.55, e:I.72, e:L.76, e:L.96, e:R.103, e:R.103, e:V.106, e:H.110, e:F.111, e:F.111, e:F.111, e:I.114, e:L.118, e:L.142 Hydrogen bonds: e:R.71, e:Q.99, d:Q.94 Salt bridges: e:H.68, e:R.103, d:H.90 pi-Cation interactions: e:H.100 Metal complexes: e:H.100 HEM.84: 22 residues within 4Å: Ligands: CYN.85 Chain c: H.94, Q.98 Chain f: V.42, L.45, F.46, G.48, V.49, H.62, R.65, L.70, L.90, Q.93, H.94, R.97, I.99, F.103, Y.104, F.107, F.132, I.135, I.139 21 PLIP interactions: 2 interactions with chain c, 19 interactions with chain f, Hydrogen bonds: c:Q.98, f:R.97 Salt bridges: c:H.94, f:H.62, f:R.65, f:R.97 Hydrophobic interactions: f:V.42, f:L.45, f:L.45, f:F.46, f:L.70, f:L.90, f:I.99, f:I.99, f:Y.104, f:F.107, f:F.107, f:F.132, f:I.135, f:I.139 Metal complexes: f:H.94

36 x CYN: CYANIDE ION(Non-covalent)

CYN.2: 6 residues within 4Å: Chain A: F.37, F.51, H.67, V.71, H.99 Ligands: HEM.1 Ligand excluded by PLIP CYN.4: 4 residues within 4Å: Chain B: F.47, H.63, H.95 Ligands: HEM.3 Ligand excluded by PLIP CYN.6: 4 residues within 4Å: Chain C: L.38, H.68, I.72 Ligands: HEM.5 Ligand excluded by PLIP CYN.8: 6 residues within 4Å: Chain D: W.32, F.46, H.62, V.66, H.94 Ligands: HEM.7 Ligand excluded by PLIP CYN.10: 5 residues within 4Å: Chain E: F.51, H.67, V.71, H.99 Ligands: HEM.9 Ligand excluded by PLIP CYN.12: 4 residues within 4Å: Chain F: F.47, H.63, H.95 Ligands: HEM.11 Ligand excluded by PLIP CYN.14: 3 residues within 4Å: Chain G: F.52, H.68 Ligands: HEM.13 Ligand excluded by PLIP CYN.16: 6 residues within 4Å: Chain H: W.32, F.46, H.62, V.66, H.94 Ligands: HEM.15 Ligand excluded by PLIP CYN.18: 4 residues within 4Å: Chain I: F.51, H.67, H.99 Ligands: HEM.17 Ligand excluded by PLIP CYN.20: 4 residues within 4Å: Chain J: F.47, H.63, H.95 Ligands: HEM.19 Ligand excluded by PLIP CYN.22: 3 residues within 4Å: Chain K: H.68, I.72 Ligands: HEM.21 Ligand excluded by PLIP CYN.24: 5 residues within 4Å: Chain L: W.32, F.46, H.62, V.66 Ligands: HEM.23 Ligand excluded by PLIP CYN.32: 5 residues within 4Å: Chain P: F.37, F.51, H.67, H.99 Ligands: HEM.31 Ligand excluded by PLIP CYN.34: 3 residues within 4Å: Chain Q: F.47, H.95 Ligands: HEM.33 Ligand excluded by PLIP CYN.36: 4 residues within 4Å: Chain R: L.38, F.52, H.68 Ligands: HEM.35 Ligand excluded by PLIP CYN.38: 6 residues within 4Å: Chain S: W.32, F.46, H.62, V.66, H.94 Ligands: HEM.37 Ligand excluded by PLIP CYN.40: 6 residues within 4Å: Chain T: F.37, F.51, H.67, V.71, H.99 Ligands: HEM.39 Ligand excluded by PLIP CYN.42: 4 residues within 4Å: Chain U: F.47, H.63, H.95 Ligands: HEM.41 Ligand excluded by PLIP CYN.44: 2 residues within 4Å: Chain V: H.68 Ligands: HEM.43 Ligand excluded by PLIP CYN.46: 4 residues within 4Å: Chain W: W.32, F.46, H.62 Ligands: HEM.45 Ligand excluded by PLIP CYN.48: 5 residues within 4Å: Chain X: F.37, F.51, H.67, H.99 Ligands: HEM.47 Ligand excluded by PLIP CYN.50: 4 residues within 4Å: Chain Y: F.47, H.63, H.95 Ligands: HEM.49 Ligand excluded by PLIP CYN.52: 4 residues within 4Å: Chain Z: L.38, H.68, I.72 Ligands: HEM.51 Ligand excluded by PLIP CYN.54: 3 residues within 4Å: Chain 0: F.46, H.62 Ligands: HEM.53 Ligand excluded by PLIP CYN.63: 4 residues within 4Å: Chain 4: F.51, H.67, H.99 Ligands: HEM.62 Ligand excluded by PLIP CYN.65: 4 residues within 4Å: Chain 5: F.47, H.63, H.95 Ligands: HEM.64 Ligand excluded by PLIP CYN.67: 4 residues within 4Å: Chain 6: L.38, F.52, H.68 Ligands: HEM.66 Ligand excluded by PLIP CYN.69: 6 residues within 4Å: Chain 7: W.32, F.46, H.62, V.66, H.94 Ligands: HEM.68 Ligand excluded by PLIP CYN.71: 6 residues within 4Å: Chain 8: F.37, F.51, H.67, V.71, H.99 Ligands: HEM.70 Ligand excluded by PLIP CYN.73: 4 residues within 4Å: Chain 9: F.47, H.63, H.95 Ligands: HEM.72 Ligand excluded by PLIP CYN.75: 3 residues within 4Å: Ligands: HEM.74 Chain a: F.52, H.68 Ligand excluded by PLIP CYN.77: 5 residues within 4Å: Ligands: HEM.76 Chain b: W.32, F.46, H.62, V.66 Ligand excluded by PLIP CYN.79: 4 residues within 4Å: Ligands: HEM.78 Chain c: F.51, H.67, H.99 Ligand excluded by PLIP CYN.81: 4 residues within 4Å: Ligands: HEM.80 Chain d: F.47, H.63, H.95 Ligand excluded by PLIP CYN.83: 2 residues within 4Å: Ligands: HEM.82 Chain e: H.68 Ligand excluded by PLIP CYN.85: 4 residues within 4Å: Ligands: HEM.84 Chain f: W.32, F.46, H.62 Ligand excluded by PLIP

9 x CA: CALCIUM ION(Non-covalent)

CA.25: 6 residues within 4Å: Chain M: F.80, D.83, H.85, D.87, D.93, E.94 6 PLIP interactions: 6 interactions with chain M Metal complexes: M:F.80, M:D.83, M:H.85, M:D.87, M:D.93, M:E.94 CA.26: 6 residues within 4Å: Chain N: F.88, D.91, H.93, D.95, D.101, E.102 6 PLIP interactions: 6 interactions with chain N Metal complexes: N:F.88, N:D.91, N:H.93, N:D.95, N:D.101, N:E.102 CA.27: 6 residues within 4Å: Chain O: L.78, D.81, I.83, D.85, D.91, E.92 6 PLIP interactions: 6 interactions with chain O Metal complexes: O:L.78, O:D.81, O:I.83, O:D.85, O:D.91, O:E.92 CA.55: 6 residues within 4Å: Chain 1: F.80, D.83, H.85, D.87, D.93, E.94 6 PLIP interactions: 6 interactions with chain 1 Metal complexes: 1:F.80, 1:D.83, 1:H.85, 1:D.87, 1:D.93, 1:E.94 CA.56: 6 residues within 4Å: Chain 2: F.88, D.91, H.93, D.95, D.101, E.102 6 PLIP interactions: 6 interactions with chain 2 Metal complexes: 2:F.88, 2:D.91, 2:H.93, 2:D.95, 2:D.101, 2:E.102 CA.58: 6 residues within 4Å: Chain 3: L.78, D.81, I.83, D.85, D.91, E.92 6 PLIP interactions: 6 interactions with chain 3 Metal complexes: 3:L.78, 3:D.81, 3:I.83, 3:D.85, 3:D.91, 3:E.92 CA.86: 6 residues within 4Å: Chain g: F.80, D.83, H.85, D.87, D.93, E.94 6 PLIP interactions: 6 interactions with chain g Metal complexes: g:F.80, g:D.83, g:H.85, g:D.87, g:D.93, g:E.94 CA.87: 6 residues within 4Å: Chain h: F.88, D.91, H.93, D.95, D.101, E.102 6 PLIP interactions: 6 interactions with chain h Metal complexes: h:F.88, h:D.91, h:H.93, h:D.95, h:D.101, h:E.102 CA.88: 6 residues within 4Å: Chain i: L.78, D.81, I.83, D.85, D.91, E.92 6 PLIP interactions: 6 interactions with chain i Metal complexes: i:L.78, i:D.81, i:I.83, i:D.85, i:D.91, i:E.92

6 x ZN: ZINC ION(Non-covalent)

ZN.28: 4 residues within 4Å: Chain O: H.64, Q.65, D.90, H.94 4 PLIP interactions: 3 interactions with chain O, 1 Ligand-Water interactions Metal complexes: O:H.64, O:D.90, O:H.94, H2O.1 ZN.29: 3 residues within 4Å: Chain O: H.142, H.144, P.161 2 PLIP interactions: 2 interactions with chain O Metal complexes: O:H.142, O:H.144 ZN.57: 4 residues within 4Å: Chain 2: H.236 Chain i: H.142, H.144, P.161 4 PLIP interactions: 1 interactions with chain 2, 2 interactions with chain i, 1 Ligand-Water interactions Metal complexes: 2:H.236, i:H.142, i:H.144, H2O.1 ZN.59: 4 residues within 4Å: Chain 3: H.64, Q.65, D.90, H.94 4 PLIP interactions: 3 interactions with chain 3, 1 Ligand-Water interactions Metal complexes: 3:H.64, 3:D.90, 3:H.94, H2O.1 ZN.60: 3 residues within 4Å: Chain 3: H.142, H.144, P.161 3 PLIP interactions: 2 interactions with chain 3, 1 Ligand-Water interactions Metal complexes: 3:H.142, 3:H.144, H2O.1 ZN.89: 4 residues within 4Å: Chain i: H.64, Q.65, D.90, H.94 4 PLIP interactions: 3 interactions with chain i, 1 Ligand-Water interactions Metal complexes: i:H.64, i:D.90, i:H.94, H2O.1

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.30: 4 residues within 4Å: Chain O: V.106, E.120, N.121, K.218 3 PLIP interactions: 3 interactions with chain O Hydrophobic interactions: O:V.106 Hydrogen bonds: O:E.120, O:N.121 NAG.61: 4 residues within 4Å: Chain 3: V.106, E.120, N.121, K.218 3 PLIP interactions: 3 interactions with chain 3 Hydrogen bonds: 3:E.120, 3:E.120, 3:N.121 NAG.90: 2 residues within 4Å: Chain i: E.120, N.121 3 PLIP interactions: 3 interactions with chain i Hydrogen bonds: i:E.120, i:E.120, i:N.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ruggiero Bachega, J.F. et al., The structure of the giant haemoglobin from Glossoscolex paulistus. Acta Crystallogr.,Sect.D (2015)

Release Date

2015-06-10

Peptides

Globin a chain: AEIPTX48c
Globin b Chain: BFJQUY59d
Globin c Chain: CGKRVZ6ae
Globin d Chain: DHLSW07bf
Linker L1: M1g
Linker L2: N2h
Linker L3: O3i

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

E
E

I
I

P
P

T
T

X
X

4
e

8
i

c
m

B
B

F
F

J
J

Q
Q

U
U

Y
Y

5
f

9
j

d
n

C
C

G
G

K
K

R
R

V
V

Z
Z

6
g

a
k

e
o

D
D

H
H

L
L

S
S

W
W

0
a

7
h

b
l

f
p

M
M

1
b

g
q

N
N

2
c

h
r

O
O

3
d

i
s

Globin a chain

Globin b Chain

Globin c Chain

Globin d Chain

Linker L1

Linker L2

Linker L3