25IH
Cryo-EM structure of human Nav1.6 in complex with Cn2
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Sodium channel protein type 8 subunit alpha | polymer | 1980 | 225520.6 | 1 | UniProt (Q9UQD0) Pfam (PF00520) Pfam (PF11933) Pfam (PF06512) Pfam (PF24609) | Homo sapiens (human) | Sodium channel protein type VIII subunit alpha,Voltage-gated sodium channel subunit alpha Nav1.6 |
| 2 | B (C) | Sodium channel regulatory subunit beta-1 | polymer | 218 | 24732.1 | 1 | UniProt (Q07699) Pfam (PF07686) | Homo sapiens (human) | |
| 3 | C (D) | Beta-mammal toxin Cn2 | polymer | 67 | 7605.7 | 1 | UniProt (P01495) | Centruroides noxius (Mexican scorpion) | Toxin 2,Toxin II.9.2.2 |
| 4 | D (B) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 1559.4 | 1 | In PDB | |||
| 5 | E (F) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 1 | In PDB GlyTouCan (G42666HT) | |||
| 6 | F (G) | alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-2)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 1559.4 | 1 | In PDB | |||
| 7 | G, H, I, V, W... (A, C) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 6 | Chemie (NAG) PubChem (24139) | |||
| 8 | J (A) | (3beta,14beta,17beta,25R)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en | non-polymer | 544.8 | 1 | Chemie (9Z9) PubChem (134817783) | |||
| 9 | K, N, O, U, Y (A, D) | 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE | non-polymer | 787.1 | 5 | Chemie (PCW) | |||
| 10 | L, R, T (A) | CHOLESTEROL HEMISUCCINATE | non-polymer | 486.7 | 3 | Chemie (Y01) PubChem (65082) | |||
| 11 | M (A) | CHOLESTEROL | non-polymer | 386.7 | 1 | Chemie (CLR) PubChem (5997) | |||
| 12 | P (A) | O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine | non-polymer | 792.1 | 1 | Chemie (P5S) | |||
| 13 | Q (A) | 1-O-OCTADECYL-SN-GLYCERO-3-PHOSPHOCHOLINE | non-polymer | 510.7 | 1 | Chemie (LPE) | |||
| 14 | S (A) | (5E,17R,20S)-23-amino-20-hydroxy-14,20-dioxo-15,19,21-trioxa-20lambda~5~-phosphatricos-5-en-17-yl hexadecanoate | non-polymer | 661.9 | 1 | Chemie (P3X) | |||
| 15 | Z (D) | [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate | non-polymer | 1047.1 | 1 | Chemie (PT5) | |||
| 16 | AA, BA (A, C) | water | water | 18.0 | 12 | Chemie (HOH) |
Sequence modifications
D: 1 - 66 (UniProt: P01495)
| PDB | External Database | Details |
|---|---|---|
| Nh2 67 | - | amidation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 3 |
| Total formula weight | 257858.5 | |
| Branched | Number of molecules | 3 |
| Total formula weight | 3543.2 | |
| Non-Polymers* | Number of molecules | 20 |
| Total formula weight | 10666.3 | |
| All* | Total formula weight | 272067.9 |
