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) PubChem (17753754) PubChem (22525209) PubChem (23958736) PubChem (16667730) PubChem (16760217) PubChem (21881641) PubChem (44317671) PubChem (44317862) PubChem (24847865) PubChem (25073503) PubChem (46783745) PubChem (56928074) PubChem (57885152) PubChem (58593562) PubChem (59907802) PubChem (58852891) PubChem (59842216) PubChem (70789201) PubChem (71752343) PubChem (5496803) PubChem (3002190) PubChem (73658) PubChem (71306735) PubChem (71296916) PubChem (443578) PubChem (73265197) PubChem (73440768) PubChem (9918852) PubChem (90660825) PubChem (91810863) PubChem (92043103) PubChem (5462516) PubChem (122130735) PubChem (124224913) PubChem (124746424) PubChem (124816457) PubChem (126480043) PubChem (129600749) PubChem (129600751) PubChem (129606930) PubChem (117072363) PubChem (11693521) PubChem (118701745) PubChem (122463193) PubChem (122505239) PubChem (124523680) PubChem (124746425) PubChem (138402871) PubChem (129600750) PubChem (129600752) PubChem (134695314) PubChem (138107029) PubChem (166639598) PubChem (140815520) PubChem (173721432) PubChem (165712195) PubChem (168322563) | |||
| 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 |
