Ribosomal ambiguity (ram) mutations promote the open (off) to closed (on) transition and thereby increase miscoding.

Hoffer, E.D.; Maehigashi, T.; Fredrick, K.; Dunham, C.M.

doi:10.2210/pdb6bz7/pdb

Macromolecule Content

Total Structure Weight: 4487895.50
Atom Count: 295575
Residue Count: 21610
Unique protein chains: 49
Unique nucleic acid chains: 6

6BZ7

Thermus thermophilus 70S containing 16S G299A point mutation and near-cognate ASL Leucine in A site.

DOI: 10.2210/pdb6BZ7/pdb

Classification: RIBOSOME
Organism(s): Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579), Thermus thermophilus HB8, Escherichia coli
Mutation(s): 1

Deposited: 2017-12-22 Released: 2018-11-14
Deposition Author(s): Hoffer, E.D., Maehigashi, T., Fagan, C.E., Dunham, C.M.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.68 Å
R-Value Free: 0.274
R-Value Work: 0.228

wwPDB Validation3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Ribosomal ambiguity (ram) mutations promote the open (off) to closed (on) transition and thereby increase miscoding.

Hoffer, E.D., Maehigashi, T., Fredrick, K., Dunham, C.M.

(2018) Nucleic Acids Res. --: --

PubMed: 30476222 Search on PubMed
Primary Citation of Related Structures:
6BZ8, 6BZ6, 6BUW

Macromolecules

Find similar proteins by: Sequence | Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S2	QB, XB	256	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsB (rps2)
Find proteins for P80371 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80371
Protein Feature View Full Protein Feature View for P80371

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S3	QC, XC	239	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsC (rps3)
Find proteins for P80372 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80372
Protein Feature View Full Protein Feature View for P80372

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S4	QD, XD	209	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsD (rps4)
Find proteins for P80373 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80373
Protein Feature View Full Protein Feature View for P80373

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S5	QE, XE	162	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsE
Find proteins for Q5SHQ5 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHQ5
Protein Feature View Full Protein Feature View for Q5SHQ5

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S6	QF, XF	101	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsF
Find proteins for Q5SLP8 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SLP8
Protein Feature View Full Protein Feature View for Q5SLP8

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S7	QG, XG	156	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsG (rps7)
Find proteins for P17291 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P17291
Protein Feature View Full Protein Feature View for P17291

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S8	QH, XH	138	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsH
Find proteins for P0DOY9 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P0DOY9
Protein Feature View Full Protein Feature View for P0DOY9

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S9	QI, XI	128	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsI (rps9)
Find proteins for P80374 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80374
Protein Feature View Full Protein Feature View for P80374

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S10	QJ, XJ	105	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsJ
Find proteins for Q5SHN7 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHN7
Protein Feature View Full Protein Feature View for Q5SHN7

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S11	QK, XK	129	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsK (rps11)
Find proteins for P80376 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80376
Protein Feature View Full Protein Feature View for P80376

Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S12	QL, XL	132	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsL
Find proteins for Q5SHN3 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHN3
Protein Feature View Full Protein Feature View for Q5SHN3

Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S13	QM, XM	126	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsM (rps13)
Find proteins for P80377 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80377
Protein Feature View Full Protein Feature View for P80377

Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S14 type Z	QN, XN	61	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsZ (rpsN)
Find proteins for P0DOY6 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P0DOY6
Protein Feature View Full Protein Feature View for P0DOY6

Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S15	QO, XO	89	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsO
Find proteins for Q5SJ76 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SJ76
Protein Feature View Full Protein Feature View for Q5SJ76

Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S16	QP, XP	88	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsP
Find proteins for Q5SJH3 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SJH3
Protein Feature View Full Protein Feature View for Q5SJH3

Entity ID: 17
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S17	QQ, XQ	105	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsQ
Find proteins for P0DOY7 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P0DOY7
Protein Feature View Full Protein Feature View for P0DOY7

Entity ID: 18
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S18	QR, XR	88	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsR
Find proteins for Q5SLQ0 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SLQ0
Protein Feature View Full Protein Feature View for Q5SLQ0

Entity ID: 19
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S19	QS, XS	93	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsS
Find proteins for Q5SHP2 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHP2
Protein Feature View Full Protein Feature View for Q5SHP2

Entity ID: 20
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein S20	QT, XT	106	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsT (rps20)
Find proteins for P80380 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80380
Protein Feature View Full Protein Feature View for P80380

Entity ID: 21
Molecule	Chains	Sequence Length	Organism	Details
30S ribosomal protein Thx	QU, XU	27	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpsU
Find proteins for Q5SIH3 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SIH3
Protein Feature View Full Protein Feature View for Q5SIH3

Entity ID: 27
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L2	RD, YD	276	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplB
Find proteins for P60405 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P60405
Protein Feature View Full Protein Feature View for P60405

Entity ID: 28
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L3	RE, YE	206	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplC
Find proteins for Q5SHN8 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHN8
Protein Feature View Full Protein Feature View for Q5SHN8

Entity ID: 29
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L4	RF, YF	210	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplD
Find proteins for Q5SHN9 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHN9
Protein Feature View Full Protein Feature View for Q5SHN9

Entity ID: 30
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L5	RG, YG	182	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplE
Find proteins for Q5SHQ0 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHQ0
Protein Feature View Full Protein Feature View for Q5SHQ0

Entity ID: 31
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L6	RH, YH	180	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplF
Find proteins for P0DOY8 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P0DOY8
Protein Feature View Full Protein Feature View for P0DOY8

Entity ID: 32
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L9	RI, YI	148	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplI
Find proteins for Q5SLQ1 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SLQ1
Protein Feature View Full Protein Feature View for Q5SLQ1

Entity ID: 33
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L13	RN, YN	140	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplM
Find proteins for P60488 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P60488
Protein Feature View Full Protein Feature View for P60488

Entity ID: 34
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L14	RO, YO	122	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplN
Find proteins for Q5SHP8 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHP8
Protein Feature View Full Protein Feature View for Q5SHP8

Entity ID: 35
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L15	RP, YP	150	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplO
Find proteins for Q5SHQ7 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHQ7
Protein Feature View Full Protein Feature View for Q5SHQ7

Entity ID: 36
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L16	RQ, YQ	141	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplP
Find proteins for P60489 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P60489
Protein Feature View Full Protein Feature View for P60489

Entity ID: 37
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L17	RR, YR	118	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplQ (rpl17)
Find proteins for Q9Z9H5 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q9Z9H5
Protein Feature View Full Protein Feature View for Q9Z9H5

Entity ID: 38
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L18	RS, YS	112	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplR
Find proteins for Q5SHQ4 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHQ4
Protein Feature View Full Protein Feature View for Q5SHQ4

Entity ID: 39
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L19	RT, YT	146	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplS
Find proteins for P60490 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P60490
Protein Feature View Full Protein Feature View for P60490

Entity ID: 40
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L20	RU, YU	118	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplT
Find proteins for P60491 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P60491
Protein Feature View Full Protein Feature View for P60491

Entity ID: 41
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L21	RV, YV	101	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplU
Find proteins for P60492 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P60492
Protein Feature View Full Protein Feature View for P60492

Entity ID: 42
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L22	RW, YW	113	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplV
Find proteins for Q5SHP3 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHP3
Protein Feature View Full Protein Feature View for Q5SHP3

Entity ID: 43
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L23	RX, YX	96	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplW
Find proteins for Q5SHP0 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHP0
Protein Feature View Full Protein Feature View for Q5SHP0

Entity ID: 44
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L24	RY, YY	110	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplX
Find proteins for Q5SHP9 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHP9
Protein Feature View Full Protein Feature View for Q5SHP9

Entity ID: 45
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L25	RZ, YZ	206	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rplY (rpl25, rptL5)
Find proteins for Q5SHZ1 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHZ1
Protein Feature View Full Protein Feature View for Q5SHZ1

Entity ID: 46
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L27	R0, Y0	85	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmA
Find proteins for P60493 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P60493
Protein Feature View Full Protein Feature View for P60493

Entity ID: 47
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L28	R1, Y1	98	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmB
Find proteins for P60494 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P60494
Protein Feature View Full Protein Feature View for P60494

Entity ID: 48
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L29	R2, Y2	72	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmC
Find proteins for Q5SHP6 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHP6
Protein Feature View Full Protein Feature View for Q5SHP6

Entity ID: 49
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L30	R3, Y3	60	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmD
Find proteins for Q5SHQ6 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHQ6
Protein Feature View Full Protein Feature View for Q5SHQ6

Entity ID: 50
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L31	R4, Y4	71	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmE
Find proteins for Q5SJE1 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SJE1
Protein Feature View Full Protein Feature View for Q5SJE1

Entity ID: 51
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L32	R5, Y5	60	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmF (rpl32)
Find proteins for P80339 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80339
Protein Feature View Full Protein Feature View for P80339

Entity ID: 52
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L33	R6, Y6	54	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmG (rpl33)
Find proteins for P35871 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P35871
Protein Feature View Full Protein Feature View for P35871

Entity ID: 53
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L34	R7, Y7	49	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmH (rpl34)
Find proteins for P80340 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: P80340
Protein Feature View Full Protein Feature View for P80340

Entity ID: 54
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L35	R8, Y8	65	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmI
Find proteins for Q5SKU1 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SKU1
Protein Feature View Full Protein Feature View for Q5SKU1

Entity ID: 55
Molecule	Chains	Sequence Length	Organism	Details
50S ribosomal protein L36	R9, Y9	37	Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)	Mutation(s): 0 Gene Names: rpmJ
Find proteins for Q5SHR2 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)) Go to UniProtKB: Q5SHR2
Protein Feature View Full Protein Feature View for Q5SHR2

Entity ID: 1
Molecule	Chains	Length	Organism
16S rRNA	QA,XA	1508	Thermus thermophilus HB8

Entity ID: 22
Molecule	Chains	Length	Organism
tRNA fMet	QV,QW,XV,XW	77	Escherichia coli

Entity ID: 23
Molecule	Chains	Length	Organism
messenger RNA	QX,XX	25	Escherichia coli

Entity ID: 24
Molecule	Chains	Length	Organism
ASL Leu	QY,XY	17	Escherichia coli

Entity ID: 25
Molecule	Chains	Length	Organism
23S rRNA	RA,YA	2915	Thermus thermophilus HB8

Entity ID: 26
Molecule	Chains	Length	Organism
5S rRNA	RB,YB	122	Thermus thermophilus HB8

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions	3D Interactions
SF4 Query on SF4 Download SDF File Download CCD File	QD, XD	IRON/SULFUR CLUSTER Fe₄ S₄ LJBDFODJNLIPKO-VKOJMFJBAC		Ligand Interaction
ZN Query on ZN Download SDF File Download CCD File	QN, R4, R5, R6, R9, RY, XN, Y4, Y5, Y6, Y9, YY	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Ligand Interaction
MG Query on MG Download SDF File Download CCD File	QA, QC, QE, QF, QH, QQ, QV, QY, R0, R1, R4, R8, R9, RA, RB, RE, RF, RN, RO, RP, RQ, RR, RT, RU, RY, XA, XE, XL, XM, XQ, XS, XV, Y0, Y7, Y8, Y9, YA, YB, YD, YE, YO, YP, YQ, YX, YY	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.68 Å
R-Value Free: 0.274
R-Value Work: 0.228
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 210.696	α = 90.00
b = 446.140	β = 90.00
c = 616.004	γ = 90.00

Software Package:

Software Name	Purpose
PHENIX	phasing
PHENIX	refinement
XSCALE	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots

Entry History & Funding Information

Deposition Data

Deposited Date: 2017-12-22
Released Date: 2018-11-14
Deposition Author(s): Hoffer, E.D., Maehigashi, T., Fagan, C.E., Dunham, C.M.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences	United States	R01GM093279
National Institutes of Health/National Institute of General Medical Sciences	United States	R01GM072528

Revision History

Version 1.0: 2018-11-14
Type: Initial release
Version 1.1: 2018-12-12
Type: Data collection, Database references
Version 1.2: 2019-02-20
Type: Author supporting evidence, Data collection

Prepare Data

Validate Data

Deposit Data

Deposition Help & Resources

149174 Biological Macromolecular Structures Enabling Breakthroughs in Research and Education

6BZ7

Thermus thermophilus 70S containing 16S G299A point mutation and near-cognate ASL Leucine in A site.

Ribosomal ambiguity (ram) mutations promote the open (off) to closed (on) transition and thereby increase miscoding.

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Experimental Data

Structure Validation

Deposition Data

Revision History