3I55
Co-crystal structure of Mycalamide A Bound to the Large Ribosomal Subunit
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (0) | 23S ribosomal RNA | polymer | 2923 | 946463.5 | 1 | GenBank (AY596297.1) | Haloarcula marismortui ATCC 43049 | |
| 2 | B (A) | 50S ribosomal protein L2P | polymer | 240 | 25354.7 | 1 | UniProt (P20276) Pfam (PF00181) Pfam (PF03947) | Haloarcula marismortui (Halobacterium marismortui) | Hmal2, Hl4 |
| 3 | C (B) | 50S ribosomal protein L3P | polymer | 338 | 37396.4 | 1 | UniProt (P20279) Pfam (PF00297) | Haloarcula marismortui (Halobacterium marismortui) | Hmal3, Hl1 |
| 4 | D (C) | 50S ribosomal protein L4P | polymer | 246 | 26457.1 | 1 | UniProt (P12735) Pfam (PF00573) | Haloarcula marismortui (Halobacterium marismortui) | Hmal4, Hl6 |
| 5 | E (D) | 50S ribosomal protein L5P | polymer | 177 | 19551.7 | 1 | UniProt (P14124) Pfam (PF00281) Pfam (PF00673) | Haloarcula marismortui (Halobacterium marismortui) | Hmal5, Hl13 |
| 6 | F (E) | 50S ribosomal protein L6P | polymer | 178 | 19961.7 | 1 | UniProt (P14135) Pfam (PF00347) | Haloarcula marismortui (Halobacterium marismortui) | Hmal6, Hl10 |
| 7 | G (F) | 50S ribosomal protein L7Ae | polymer | 120 | 12791.9 | 1 | UniProt (P12743) Pfam (PF01248) | Haloarcula marismortui (Halobacterium marismortui) | Hs6 |
| 8 | H (G) | 50S ribosomal protein L10E | polymer | 348 | 37169.8 | 1 | UniProt (P15825) Pfam (PF00466) Pfam (PF17777) | Haloarcula marismortui (Halobacterium marismortui) | Ribosomal protein L10, Acidic ribosomal protein P0 homolog, L10E, HMal10 |
| 9 | I (H) | 50S ribosomal protein L10e | polymer | 174 | 19645.3 | 1 | UniProt (P60617) Pfam (PF00252) | Haloarcula marismortui (Halobacterium marismortui) | |
| 10 | J (I) | 50S ribosomal protein L11P | polymer | 162 | 17097.5 | 1 | UniProt (P14122) Pfam (PF03946) Pfam (PF00298) | Haloarcula marismortui (Halobacterium marismortui) | Hmal11 |
| 11 | K (J) | 50S ribosomal protein L13P | polymer | 145 | 16249.2 | 1 | UniProt (P29198) Pfam (PF00572) | Haloarcula marismortui (Halobacterium marismortui) | Hmal13 |
| 12 | L (K) | 50S ribosomal protein L14P | polymer | 132 | 14216.2 | 1 | UniProt (P22450) Pfam (PF00238) | Haloarcula marismortui (Halobacterium marismortui) | Hmal14, Hl27 |
| 13 | M (L) | 50S ribosomal protein L15P | polymer | 165 | 18005.4 | 1 | UniProt (P12737) Pfam (PF00828) | Haloarcula marismortui (Halobacterium marismortui) | Hmal15, Hl9 |
| 14 | N (M) | 50S ribosomal protein L15e | polymer | 194 | 22143.9 | 1 | UniProt (P60618) Pfam (PF00827) | Haloarcula marismortui (Halobacterium marismortui) | 50S ribosomal protein LC12 |
| 15 | O (N) | 50S ribosomal protein L18P | polymer | 187 | 20640.9 | 1 | UniProt (P14123) Pfam (PF17144) | Haloarcula marismortui (Halobacterium marismortui) | Hmal18, Hl12 |
| 16 | P (O) | 50S ribosomal protein L18e | polymer | 116 | 12438.9 | 1 | UniProt (P12733) Pfam (PF00828) | Haloarcula marismortui (Halobacterium marismortui) | Hl29, L19 |
| 17 | Q (P) | 50S ribosomal protein L19e | polymer | 149 | 16796.5 | 1 | UniProt (P14119) Pfam (PF01280) Pfam (PF25476) | Haloarcula marismortui (Halobacterium marismortui) | Hmal19, Hl24 |
| 18 | R (Q) | 50S ribosomal protein L21e | polymer | 96 | 10567.8 | 1 | UniProt (P12734) Pfam (PF01157) | Haloarcula marismortui (Halobacterium marismortui) | Hl31 |
| 19 | S (R) | 50S ribosomal protein L22P | polymer | 155 | 16966.9 | 1 | UniProt (P10970) Pfam (PF00237) | Haloarcula marismortui (Halobacterium marismortui) | Hmal22, Hl23 |
| 20 | T (S) | 50S ribosomal protein L23P | polymer | 85 | 9612.5 | 1 | UniProt (P12732) Pfam (PF00276) | Haloarcula marismortui (Halobacterium marismortui) | Hmal23, Hl25, L21 |
| 21 | U (T) | 50S ribosomal protein L24P | polymer | 120 | 13671.0 | 1 | UniProt (P10972) Pfam (PF16906) Pfam (PF00467) | Haloarcula marismortui (Halobacterium marismortui) | Hmal24, Hl16, Hl15 |
| 22 | V (U) | 50S ribosomal protein L24e | polymer | 66 | 7233.7 | 1 | UniProt (P14116) Pfam (PF01246) | Haloarcula marismortui (Halobacterium marismortui) | Hl21/Hl22 |
| 23 | W (V) | 50S ribosomal protein L29P | polymer | 71 | 7889.9 | 1 | UniProt (P10971) Pfam (PF00831) | Haloarcula marismortui (Halobacterium marismortui) | Hmal29, Hl33 |
| 24 | X (W) | 50S ribosomal protein L30P | polymer | 154 | 17062.9 | 1 | UniProt (P14121) Pfam (PF00327) | Haloarcula marismortui (Halobacterium marismortui) | Hmal30, Hl20, Hl16 |
| 25 | Y (X) | 50S ribosomal protein L31e | polymer | 92 | 10384.6 | 1 | UniProt (P18138) Pfam (PF01198) | Haloarcula marismortui (Halobacterium marismortui) | L34, Hl30 |
| 26 | Z (Y) | 50S ribosomal protein L32e | polymer | 241 | 26455.7 | 1 | UniProt (P12736) Pfam (PF14520) Pfam (PF01655) | Haloarcula marismortui (Halobacterium marismortui) | Hl5 |
| 27 | AA (Z) | 50S ribosomal protein L37Ae | polymer | 116 | 12900.3 | 1 | UniProt (P60619) Pfam (PF01780) | Haloarcula marismortui (Halobacterium marismortui) | |
| 28 | BA (1) | 50S ribosomal protein L37e | polymer | 57 | 6330.2 | 1 | UniProt (P32410) Pfam (PF01907) | Haloarcula marismortui (Halobacterium marismortui) | L35e |
| 29 | CA (2) | 50S ribosomal protein L39e | polymer | 50 | 6133.1 | 1 | UniProt (P22452) Pfam (PF00832) | Haloarcula marismortui (Halobacterium marismortui) | Hl39e, Hl46e |
| 30 | DA (3) | 50S ribosomal protein L44E | polymer | 92 | 10815.2 | 1 | UniProt (P32411) Pfam (PF00935) | Haloarcula marismortui (Halobacterium marismortui) | La, Hla |
| 31 | EA (9) | 5S ribosomal RNA | polymer | 122 | 39303.4 | 1 | GenBank (AF034620.1) | Haloarcula marismortui | |
| 32 | FA (4) | DNA/RNA (5'-R(*CP*CP*(5AA)P*(2OP)P*(PO2)P*AP*CP*C)-3') | polymer | 8 | 1962.3 | 1 | |||
| 33 | AB, AC, AD, BB, BC... (0, B, T, Y, 2...) | MAGNESIUM ION | non-polymer | 24.3 | 93 | Chemie (MG) PubChem (888) | |||
| 34 | LD, MD (0) | POTASSIUM ION | non-polymer | 39.1 | 2 | Chemie (K) PubChem (813) | |||
| 35 | AE, AF, AL, BE, BF... (0, R, B, S, C...) | SODIUM ION | non-polymer | 23.0 | 75 | Chemie (NA) PubChem (923) | |||
| 36 | AG, AK, BG, CG, CL... (0, A, R, B, Y...) | CHLORIDE ION | non-polymer | 35.5 | 22 | Chemie (CL) PubChem (312) | |||
| 37 | AH, AI, AJ, BH, BI... (0, A, R, S, B...) | STRONTIUM ION | non-polymer | 87.6 | 108 | Chemie (SR) PubChem (104798) | |||
| 38 | XJ (0) | Mycalamide A | non-polymer | 503.6 | 1 | Chemie (MYL) PubChem (23426005) PubChem (177508250) PubChem (24994564) PubChem (44583760) PubChem (46173852) PubChem (10029076) PubChem (11329571) PubChem (71459997) PubChem (101526808) PubChem (118718436) PubChem (122770) PubChem (9892314) PubChem (10345974) PubChem (134820178) PubChem (134918171) | |||
| 39 | HL, KL, LL, PL, WK (U, Z, 1, 3, O) | CADMIUM ION | non-polymer | 112.4 | 5 | Chemie (CD) PubChem (31193) | |||
| 40 | AM, AN, BM, BN, CM... (0, Z, A, 1, B...) | water | water | 18.0 | 7823 | Chemie (HOH) |
Sequence modifications
Z: 25 - 116 (UniProt: P60619)
| PDB | External Database | Details |
|---|---|---|
| Met 1 | - | expression tag |
| Ser 2 | - | expression tag |
| Pro 3 | - | expression tag |
| Arg 4 | - | expression tag |
| Ala 5 | - | expression tag |
| Arg 6 | - | expression tag |
| Arg 7 | - | expression tag |
| Glu 8 | - | expression tag |
| Pro 9 | - | expression tag |
| Asn 10 | - | expression tag |
| Leu 11 | - | expression tag |
| Glu 12 | - | expression tag |
| Gly 13 | - | expression tag |
| Leu 14 | - | expression tag |
| Met 15 | - | expression tag |
| Trp 16 | - | expression tag |
| Pro 17 | - | expression tag |
| Leu 18 | - | expression tag |
| Gly 19 | - | expression tag |
| Gly 20 | - | expression tag |
| Gln 21 | - | expression tag |
| Gln 22 | - | expression tag |
| Thr 23 | - | expression tag |
| Thr 24 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 32 |
| Total formula weight | 1479670.4 | |
| Non-Polymers* | Number of molecules | 306 |
| Total formula weight | 15371.4 | |
| All* | Total formula weight | 1495041.8 |
