6HA8
Cryo-EM structure of the ABCF protein VmlR bound to the Bacillus subtilis ribosome
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | 23S rRNA | polymer | 2928 | 949646.3 | 1 | GenBank (467326) | Bacillus subtilis (strain 168) | |
| 2 | B (B) | 5S rRNA | polymer | 112 | 36157.5 | 1 | GenBank (1150402534) | Bacillus subtilis (strain 168) | |
| 3 | C (C) | 50S ribosomal protein L2 | polymer | 277 | 30335.1 | 1 | UniProt (P42919) Pfam (PF00181) Pfam (PF03947) | Bacillus subtilis (strain 168) | BL2 |
| 4 | D (D) | 50S ribosomal protein L3 | polymer | 209 | 22723.3 | 1 | UniProt (P42920) Pfam (PF00297) | Bacillus subtilis (strain 168) | BL3 |
| 5 | E (E) | 50S ribosomal protein L4 | polymer | 207 | 22425.0 | 1 | UniProt (P42921) Pfam (PF00573) | Bacillus subtilis (strain 168) | |
| 6 | F (F) | 50S ribosomal protein L5 | polymer | 179 | 20177.6 | 1 | UniProt (P12877) Pfam (PF00281) Pfam (PF00673) | Bacillus subtilis (strain 168) | BL6 |
| 7 | G (G) | 50S ribosomal protein L6 | polymer | 179 | 19543.4 | 1 | UniProt (P46898) Pfam (PF00347) | Bacillus subtilis (strain 168) | BL10 |
| 8 | H (J) | 50S ribosomal protein L13 | polymer | 145 | 16407.1 | 1 | UniProt (P70974) Pfam (PF00572) | Bacillus subtilis (strain 168) | |
| 9 | I (K) | 50S ribosomal protein L14 | polymer | 122 | 13175.3 | 1 | UniProt (P12875) Pfam (PF00238) | Bacillus subtilis (strain 168) | |
| 10 | J (L) | 50S ribosomal protein L15 | polymer | 146 | 15410.7 | 1 | UniProt (P19946) Pfam (PF00828) | Bacillus subtilis (strain 168) | |
| 11 | K (M) | 50S ribosomal protein L16 | polymer | 144 | 16223.0 | 1 | UniProt (P14577) Pfam (PF00252) | Bacillus subtilis (strain 168) | |
| 12 | L (N) | 50S ribosomal protein L17 | polymer | 120 | 13774.8 | 1 | UniProt (P20277) Pfam (PF01196) | Bacillus subtilis (strain 168) | BL15,BL21 |
| 13 | M (O) | 50S ribosomal protein L18 | polymer | 120 | 12993.8 | 1 | UniProt (P46899) Pfam (PF00861) | Bacillus subtilis (strain 168) | BL16 |
| 14 | N (P) | 50S ribosomal protein L19 | polymer | 115 | 13416.9 | 1 | UniProt (O31742) Pfam (PF01245) | Bacillus subtilis (strain 168) | |
| 15 | O (Q) | 50S ribosomal protein L20 | polymer | 119 | 13669.2 | 1 | UniProt (P55873) Pfam (PF00453) | Bacillus subtilis (strain 168) | |
| 16 | P (R) | 50S ribosomal protein L21 | polymer | 102 | 11296.1 | 1 | UniProt (P26908) Pfam (PF00829) | Bacillus subtilis (strain 168) | BL20 |
| 17 | Q (S) | 50S ribosomal protein L22 | polymer | 113 | 12481.6 | 1 | UniProt (P42060) Pfam (PF00237) | Bacillus subtilis (strain 168) | |
| 18 | R (T) | 50S ribosomal protein L23 | polymer | 95 | 10978.8 | 1 | UniProt (P42924) Pfam (PF00276) | Bacillus subtilis (strain 168) | |
| 19 | S (U) | 50S ribosomal protein L24 | polymer | 103 | 11166.1 | 1 | UniProt (P0CI78) Pfam (PF00467) Pfam (PF17136) | Bacillus subtilis (strain 168) | 12 kDa DNA-binding protein,BL23,HPB12 |
| 20 | T (V) | Nucleotide-binding protein ExpZ | polymer | 548 | 60272.3 | 1 | UniProt (P39115) Pfam (PF00005) Pfam (PF12848) | Bacillus subtilis (strain 168) | |
| 21 | U (W) | 50S ribosomal protein L27 | polymer | 94 | 10391.9 | 1 | UniProt (P05657) Pfam (PF01016) | Bacillus subtilis (strain 168) | BL24,BL30 |
| 22 | V (X) | 50S ribosomal protein L28 | polymer | 62 | 6826.1 | 1 | UniProt (P37807) Pfam (PF00830) | Bacillus subtilis (strain 168) | |
| 23 | W (Y) | 50S ribosomal protein L29 | polymer | 66 | 7728.0 | 1 | UniProt (P12873) Pfam (PF00831) | Bacillus subtilis (strain 168) | |
| 24 | X (Z) | 50S ribosomal protein L30 | polymer | 59 | 6650.8 | 1 | UniProt (P19947) Pfam (PF00327) | Bacillus subtilis (strain 168) | BL27 |
| 25 | Y (0) | 50S ribosomal protein L32 | polymer | 59 | 6745.1 | 1 | UniProt (O34687) Pfam (PF01783) | Bacillus subtilis (strain 168) | |
| 26 | Z (1) | 50S ribosomal protein L33 1 | polymer | 49 | 5915.9 | 1 | UniProt (P56849) Pfam (PF00471) | Bacillus subtilis (strain 168) | |
| 27 | AA (2) | 50S ribosomal protein L34 | polymer | 44 | 5271.3 | 1 | UniProt (P05647) Pfam (PF00468) | Bacillus subtilis (strain 168) | |
| 28 | BA (3) | 50S ribosomal protein L35 | polymer | 66 | 7581.1 | 1 | UniProt (P55874) Pfam (PF01632) | Bacillus subtilis (strain 168) | |
| 29 | CA (4) | 50S ribosomal protein L36 | polymer | 37 | 4318.4 | 1 | UniProt (P20278) Pfam (PF00444) | Bacillus subtilis (strain 168) | BL38,Ribosomal protein B,Ribosomal protein II |
| 30 | DA (6) | 50S ribosomal protein L31 | polymer | 66 | 7458.6 | 1 | UniProt (Q03223) Pfam (PF01197) | Bacillus subtilis (strain 168) | |
| 31 | EA (7) | mRNA | polymer | 3 | 872.6 | 1 | Bacillus subtilis subsp. subtilis str. 168 | ||
| 32 | FA (8) | 50S ribosomal protein L1 | polymer | 232 | 25026.9 | 1 | UniProt (Q06797) Pfam (PF00687) | Bacillus subtilis (strain 168) | BL1 |
| 33 | GA (a) | 16S rRNA | polymer | 1554 | 503369.1 | 1 | GenBank (225184640) | Bacillus subtilis (strain 168) | |
| 34 | HA (b) | 30S ribosomal protein S2 | polymer | 246 | 28009.3 | 1 | UniProt (P21464) Pfam (PF00318) | Bacillus subtilis (strain 168) | BS1,Vegetative protein 209,VEG209 |
| 35 | IA (c) | 30S ribosomal protein S3 | polymer | 218 | 24364.9 | 1 | UniProt (P21465) Pfam (PF07650) Pfam (PF00189) | Bacillus subtilis (strain 168) | BS3,BS2 |
| 36 | JA (d) | 30S ribosomal protein S4 | polymer | 200 | 22874.3 | 1 | UniProt (P21466) Pfam (PF00163) Pfam (PF01479) | Bacillus subtilis (strain 168) | BS4 |
| 37 | KA (e) | 30S ribosomal protein S5 | polymer | 166 | 17650.6 | 1 | UniProt (P21467) Pfam (PF00333) Pfam (PF03719) | Bacillus subtilis (strain 168) | BS5 |
| 38 | LA (f) | 30S ribosomal protein S6 | polymer | 95 | 11140.5 | 1 | UniProt (P21468) Pfam (PF01250) | Bacillus subtilis (strain 168) | BS9 |
| 39 | MA (g) | 30S ribosomal protein S7 | polymer | 156 | 17915.9 | 1 | UniProt (P21469) Pfam (PF00177) | Bacillus subtilis (strain 168) | BS7 |
| 40 | NA (h) | 30S ribosomal protein S8 | polymer | 132 | 14901.4 | 1 | UniProt (P12879) Pfam (PF00410) | Bacillus subtilis (strain 168) | BS8 |
| 41 | OA (i) | 30S ribosomal protein S9 | polymer | 130 | 14335.5 | 1 | UniProt (P21470) Pfam (PF00380) | Bacillus subtilis (strain 168) | BS10 |
| 42 | PA (j) | 30S ribosomal protein S10 | polymer | 102 | 11687.7 | 1 | UniProt (P21471) Pfam (PF00338) | Bacillus subtilis (strain 168) | BS13 |
| 43 | QA (k) | 30S ribosomal protein S11 | polymer | 131 | 13952.0 | 1 | UniProt (P04969) Pfam (PF00411) | Bacillus subtilis (strain 168) | BS11 |
| 44 | RA (l) | 30S ribosomal protein S12 | polymer | 138 | 15248.7 | 1 | UniProt (P21472) Pfam (PF00164) | Bacillus subtilis (strain 168) | BS12 |
| 45 | SA (m) | 30S ribosomal protein S13 | polymer | 121 | 13818.1 | 1 | UniProt (P20282) Pfam (PF00416) | Bacillus subtilis (strain 168) | BS14 |
| 46 | TA (n) | 30S ribosomal protein S14 | polymer | 61 | 7263.8 | 1 | UniProt (P12878) Pfam (PF00253) | Bacillus subtilis (strain 168) | 30S ribosomal protein S14 type Z,30S ribosomal protein S14-1,BS-A |
| 47 | UA (o) | 30S ribosomal protein S15 | polymer | 89 | 10597.2 | 1 | UniProt (P21473) Pfam (PF00312) | Bacillus subtilis (strain 168) | BS18 |
| 48 | VA (p) | 30S ribosomal protein S16 | polymer | 90 | 10153.8 | 1 | UniProt (P21474) Pfam (PF00886) | Bacillus subtilis (strain 168) | BS17 |
| 49 | WA (q) | 30S ribosomal protein S17 | polymer | 87 | 10221.0 | 1 | UniProt (P12874) Pfam (PF00366) | Bacillus subtilis (strain 168) | BS16 |
| 50 | XA (r) | 30S ribosomal protein S18 | polymer | 79 | 8990.6 | 1 | UniProt (P21475) Pfam (PF01084) | Bacillus subtilis (strain 168) | BS21 |
| 51 | YA (s) | 30S ribosomal protein S19 | polymer | 92 | 10607.3 | 1 | UniProt (P21476) Pfam (PF00203) | Bacillus subtilis (strain 168) | BS19 |
| 52 | ZA (t) | 30S ribosomal protein S20 | polymer | 88 | 9622.2 | 1 | UniProt (P21477) Pfam (PF01649) | Bacillus subtilis (strain 168) | BS20 |
| 53 | AB (x) | P-tRNA(Leu) | polymer | 75 | 24199.3 | 1 | Escherichia coli | ||
| 54 | BB (A) | TELITHROMYCIN | non-polymer | 812.0 | 1 | Chemie (TEL) | |||
| 55 | CB, DB (V) | ADENOSINE-5'-TRIPHOSPHATE | non-polymer | 507.2 | 2 | Chemie (ATP) |
Sequence modifications
V: 2 - 485 (UniProt: P39115)
| PDB | External Database | Details |
|---|---|---|
| Met -5 | - | initiating methionine |
| His -4 | - | expression tag |
| His -3 | - | expression tag |
| His -2 | - | expression tag |
| His -1 | - | expression tag |
| His 0 | - | expression tag |
| His 1 | - | expression tag |
| Gln 129 | Glu 129 | engineered mutation |
| Gln 432 | Glu 432 | engineered mutation |
| Ala 486 | - | expression tag |
| Ala 487 | - | expression tag |
| Ala 488 | - | expression tag |
| Ala 489 | - | expression tag |
| Ala 490 | - | expression tag |
| Ala 491 | - | expression tag |
| Ala 492 | - | expression tag |
| Ala 493 | - | expression tag |
| Ala 494 | - | expression tag |
| Ala 495 | - | expression tag |
| Ala 496 | - | expression tag |
| Ala 497 | - | expression tag |
| Ala 498 | - | expression tag |
| Ala 499 | - | expression tag |
| Ala 500 | - | expression tag |
| Ala 501 | - | expression tag |
| Ala 502 | - | expression tag |
| Ala 503 | - | expression tag |
| Ala 504 | - | expression tag |
| Ala 505 | - | expression tag |
| Ala 506 | - | expression tag |
| Ala 507 | - | expression tag |
| Ala 508 | - | expression tag |
| Ala 509 | - | expression tag |
| Ala 510 | - | expression tag |
| Ala 511 | - | expression tag |
| Ala 512 | - | expression tag |
| Ala 513 | - | expression tag |
| Ala 514 | - | expression tag |
| Ala 515 | - | expression tag |
| Ala 516 | - | expression tag |
| Ala 517 | - | expression tag |
| Ala 518 | - | expression tag |
| Ala 519 | - | expression tag |
| Ala 520 | - | expression tag |
| Ala 521 | - | expression tag |
| Ala 522 | - | expression tag |
| Ala 523 | - | expression tag |
| Ala 524 | - | expression tag |
| Ala 525 | - | expression tag |
| Ala 526 | - | expression tag |
| Ala 527 | - | expression tag |
| Ala 528 | - | expression tag |
| Ala 529 | - | expression tag |
| Ala 530 | - | expression tag |
| Ala 531 | - | expression tag |
| Ala 532 | - | expression tag |
| Ala 533 | - | expression tag |
| Ala 534 | - | expression tag |
| Ala 535 | - | expression tag |
| Ala 536 | - | expression tag |
| Ala 537 | - | expression tag |
| Ala 538 | - | expression tag |
| Ala 539 | - | expression tag |
| Ala 540 | - | expression tag |
| Ala 541 | - | expression tag |
| Ala 542 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 53 |
| Total formula weight | 2217984.0 | |
| Non-Polymers* | Number of molecules | 3 |
| Total formula weight | 1826.4 | |
| All* | Total formula weight | 2219810.4 |
