6F30
Crystal structure of ectonucleotide phosphodiesterase/pyrophosphatase-3 (NPP3) in complex with UDPGlcNAc
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, B (A, B) | Ectonucleotide pyrophosphatase/phosphodiesterase family member 3 | polymer | 749 | 85370.3 | 2 | UniProt (P97675) Pfam (PF01663) | Rattus norvegicus (Rat) | E-NPP 3,B10,Phosphodiesterase I beta,PD-Ibeta,Phosphodiesterase I/nucleotide pyrophosphatase 3,RB13-6 antigen |
| 2 | C, D, E, F, G (C, D, E, F, G) | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 424.4 | 5 | In PDB GlyTouCan (G42666HT) | |||
| 3 | H (H) | beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose | branched | 586.5 | 1 | In PDB GlyTouCan (G15407YE) | |||
| 4 | I, N (A, B) | URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE | non-polymer | 607.4 | 2 | Chemie (UD1) | |||
| 5 | J, K, O, P (A, B) | ZINC ION | non-polymer | 65.4 | 4 | Chemie (ZN) | |||
| 6 | L, Q (A, B) | CALCIUM ION | non-polymer | 40.1 | 2 | Chemie (CA) | |||
| 7 | M, R, S, T, U (A, B) | 2-acetamido-2-deoxy-beta-D-glucopyranose | non-polymer | 221.2 | 5 | Chemie (NAG) | |||
| 8 | V, W (A, B) | water | water | 18.0 | 610 | Chemie (HOH) |
Sequence modifications
A, B: 140 - 875 (UniProt: P97675)
| PDB | External Database | Details |
|---|---|---|
| Ala 136 | - | expression tag |
| Glu 137 | - | expression tag |
| Thr 138 | - | expression tag |
| Gly 139 | - | expression tag |
| Val 201 | Met 201 | variant |
| Ala 206 | Thr 206 | engineered mutation |
| Glu 585 | Gln 585 | conflict |
| Asn 596 | Ser 596 | variant |
| Arg 597 | Gly 597 | variant |
| Gly 876 | - | expression tag |
| Thr 877 | - | expression tag |
| Lys 878 | - | expression tag |
| His 879 | - | expression tag |
| His 880 | - | expression tag |
| His 881 | - | expression tag |
| His 882 | - | expression tag |
| His 883 | - | expression tag |
| His 884 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 2 |
| Total formula weight | 170740.7 | |
| Branched | Number of molecules | 6 |
| Total formula weight | 2708.5 | |
| Non-Polymers* | Number of molecules | 13 |
| Total formula weight | 2662.5 | |
| All* | Total formula weight | 176111.8 |
