6PKI
Zebrafish N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase (NAGPA) catalytic domain (C56S C230S) in complex with N-acetyl-alpha-D-glucosamine (alpha-GlcNAc) and mannose 6-phosphate (M6P)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B, C, D (A, B, C, D) | N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase | polymer | 309 | 34048.8 | 4 | UniProt (F1QSF9) | Danio rerio (Zebrafish) | |
| 2 | E, F, K, L, Q... (A, B, C, D) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 8 | Chemie (NAG) | |||
| 3 | G, M, S, Y (A, B, C, D) | 2-acetamido-2-deoxy-alpha-D-glucopyranose | non-polymer | 221.2 | 4 | Chemie (NDG) | |||
| 4 | H, N, T, U, Z (A, B, C, D) | 6-O-phosphono-alpha-D-mannopyranose | non-polymer | 260.1 | 5 | Chemie (M6P) PubChem (208) PubChem (5958) PubChem (24802166) PubChem (65127) PubChem (46936284) PubChem (51351674) PubChem (439198) PubChem (439284) PubChem (439404) PubChem (439427) PubChem (59660208) PubChem (440100) PubChem (66804219) PubChem (70828590) PubChem (447096) PubChem (449526) PubChem (89530481) PubChem (89533633) PubChem (90087729) PubChem (71048769) PubChem (92043642) PubChem (92144442) PubChem (124302956) PubChem (92331698) PubChem (92331699) PubChem (92450038) PubChem (100983220) PubChem (11701643) PubChem (9817215) PubChem (9859975) PubChem (124303605) PubChem (11499884) PubChem (11536233) PubChem (11651816) PubChem (11651817) PubChem (12314997) PubChem (12315003) PubChem (12598269) PubChem (133556303) PubChem (146542296) PubChem (146681138) PubChem (154560390) PubChem (156616945) PubChem (159734910) PubChem (162938850) PubChem (164575487) PubChem (168360205) PubChem (168365572) PubChem (168366721) PubChem (168367148) PubChem (168367891) PubChem (168368101) PubChem (168369931) PubChem (168374583) PubChem (169436999) PubChem (171380675) PubChem (172641742) PubChem (173866441) | |||
| 5 | I (A) | PENTAETHYLENE GLYCOL | non-polymer | 238.3 | 1 | Chemie (1PE) PubChem (62551) | |||
| 6 | J, O, P, V (A, B, C) | CHLORIDE ION | non-polymer | 35.5 | 4 | Chemie (CL) PubChem (312) | |||
| 7 | AA, BA, CA, DA (A, B, C, D) | water | water | 18.0 | 625 | Chemie (HOH) |
Sequence modifications
A, B, C, D: 39 - 336 (UniProt: F1QSF9)
| PDB | External Database | Details |
|---|---|---|
| Asp 28 | - | expression tag |
| Arg 29 | - | expression tag |
| His 30 | - | expression tag |
| His 31 | - | expression tag |
| His 32 | - | expression tag |
| His 33 | - | expression tag |
| His 34 | - | expression tag |
| His 35 | - | expression tag |
| Gly 36 | - | expression tag |
| Ser 37 | - | expression tag |
| Gly 38 | - | expression tag |
| Ser 56 | Cys 75 | engineered mutation |
| Ser 230 | Cys 249 | engineered mutation |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 4 |
| Total formula weight | 136195.2 | |
| Non-Polymers* | Number of molecules | 22 |
| Total formula weight | 4335.3 | |
| All* | Total formula weight | 140530.5 |
