MolNFT v2 · #202734 · protein + RNA

Structure of the RQT-bound 80S ribosome from S. cerevisiae (C1)

7ZPQ: “Structure of the RQT-bound 80S ribosome from S. cerevisiae (C1)”. Electron microscopy at 3.47, 2 ligands (MG, ZN). MolNFT v2 #202734 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7ZPQ
Type: protein + RNA
Length: 18,603 residues
Chains: 82
Method: electron microscopy
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 3.47
Source: Saccharomyces cerevisiae
UniProt: B3LI22, A0A6A5PRY4, A0A6A5PWF7, A0A6A5Q3Q1, P0CX35, A0A1L4AA68, P0CX37, P26786, A0A6A5Q1H1, O13516, Q08745, P0CX47, A0A6A5Q8I3, P05756, P39516, A0A6A5Q6F2, P0CX51, P14127, P0CX55, P07280, A0A6A5PVE9, P0C0V8, A0A6A5PSE9, P0CX29, P0CX31, A0A6A5PZ18, A0A6A5Q0E8, P35997, A0A6A5Q700, A0A6A5PV92, P0CX33, A0A6A5PU37, P38011, P0CX45, A0A6A5Q627, A0A6A5Q3W0, A0A6A5Q0W8, P05739, P05737, P17076, P05738, A0A6A5PUZ5, A0A6A5PYM2, Q12690, P36105, P05748, P26784, P05740, P0CX49, P0CX82, P0CX23, Q02753, P05749, P0CX41, A0A6A5PY83, P04456, P05743, P0C2H6, P02406, A0A6A5PWR1, P14120, P0C2H8, A0A6A5Q1M9, P05744, P87262, P0CX84, P05745, P49166, A0A6A5PUL8, P04650, P0CH08, A0A8H8UMB4, P0CX27, P0CX25, A0A8H8UL01, P53137, A0A8H4C0K6
Ligands: MG, ZN

Structure

electron microscopy · resolution 3.47 · 82 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
2	—	rna	1771	—	—
3	—	rna	158	—	—
4	—	rna	121	—	—
5	—	rna	3184	—	—
6	—	rna	76	—	—
AA	—	protein	206	—	B3LI22
AB	—	protein	226	—	A0A6A5PRY4
AC	—	protein	216	—	A0A6A5PWF7
AD	—	protein	222	—	A0A6A5Q3Q1
AE	—	protein	258	—	P0CX35
AF	—	protein	206	—	A0A1L4AA68
AG	—	protein	228	—	P0CX37
AH	—	protein	184	—	P26786
AI	—	protein	187	—	A0A6A5Q1H1
AJ	—	protein	184	—	O13516
AK	—	protein	92	—	Q08745
AL	—	protein	144	—	P0CX47
AM	—	protein	121	—	A0A6A5Q8I3
AN	—	protein	150	—	P05756
AO	—	protein	127	—	P39516
AP	—	protein	117	—	A0A6A5Q6F2
AQ	—	protein	141	—	P0CX51
AR	—	protein	121	—	P14127
AS	—	protein	145	—	P0CX55
AT	—	protein	143	—	P07280
AU	—	protein	100	—	A0A6A5PVE9
AV	—	protein	87	—	P0C0V8
AW	—	protein	129	—	A0A6A5PSE9
AX	—	protein	144	—	P0CX29
AY	—	protein	134	—	P0CX31
AZ	—	protein	82	—	A0A6A5PZ18
Aa	—	protein	97	—	A0A6A5Q0E8
Ab	—	protein	81	—	P35997
Ac	—	protein	63	—	A0A6A5Q700
Ad	—	protein	53	—	A0A6A5PV92
Ae	—	protein	60	—	P0CX33
Af	—	protein	73	—	A0A6A5PU37
Ag	—	protein	312	—	P38011
BA	—	protein	251	—	P0CX45
BB	—	protein	386	—	A0A6A5Q627
BC	—	protein	361	—	A0A6A5Q3W0
BD	—	protein	294	—	A0A6A5Q0W8
BE	—	protein	167	—	P05739
BF	—	protein	222	—	P05737
BG	—	protein	233	—	P17076
BH	—	protein	191	—	P05738
BI	—	protein	218	—	A0A6A5PUZ5
BJ	—	protein	169	—	A0A6A5PYM2
BK	—	protein	193	—	Q12690
BL	—	protein	136	—	P36105
BM	—	protein	203	—	P05748
BN	—	protein	197	—	P26784
BO	—	protein	183	—	P05740
BP	—	protein	185	—	P0CX49
BQ	—	protein	188	—	P0CX82
BR	—	protein	171	—	P0CX23
BS	—	protein	159	—	Q02753
BT	—	protein	100	—	P05749
BU	—	protein	136	—	P0CX41
BV	—	protein	126	—	A0A6A5PY83
BW	—	protein	121	—	P04456
BX	—	protein	125	—	P05743
BY	—	protein	135	—	P0C2H6
BZ	—	protein	148	—	P02406
Ba	—	protein	58	—	A0A6A5PWR1
Bb	—	protein	96	—	P14120
Bc	—	protein	109	—	P0C2H8
Bd	—	protein	127	—	A0A6A5Q1M9
Be	—	protein	106	—	P05744
Bf	—	protein	112	—	P87262
Bg	—	protein	119	—	P0CX84
Bh	—	protein	99	—	P05745
Bi	—	protein	85	—	P49166
Bj	—	protein	77	—	A0A6A5PUL8
Bk	—	protein	50	—	P04650
Bl	—	protein	52	—	P0CH08
Bm	—	protein	25	—	A0A8H8UMB4
Bn	—	protein	103	—	P0CX27
Bo	—	protein	91	—	P0CX25
CA	—	protein	1742	—	A0A8H8UL01
CB	—	protein	297	—	P53137
CC	—	protein	114	—	A0A8H4C0K6

Ligands and binding sites

MG · Magnesium ion · metal · 86 copies · chains 2, AQ, AC, AX, AU, AN, AE, AF
ZN · Zinc ion · metal · 9 copies · chains Ad, Af, Bf, Bi, Bl, Bn, Bo, CC

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Compared structures

P0CX45 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L2-a (P0CX45) · a predicted model of the same protein · chain BA against A, TM-score 0.99
P14120 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L30 (P14120) · a predicted model of the same protein · chain Bb against A, TM-score 0.98
P05743 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L26-a (P05743) · a predicted model of the same protein · chain BX against A, TM-score 0.98
P38011 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein subunit… · a predicted model of the same protein · chain Ag against A, TM-score 0.98
P0CX49 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L18-a (P0CX49) · a predicted model of the same protein · chain BP against A, TM-score 0.97
P02406 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L28 (P02406) · a predicted model of the same protein · chain BZ against A, TM-score 0.97
P05744 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L33-a (P05744) · a predicted model of the same protein · chain Be against A, TM-score 0.97
Q02753 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L21-a (Q02753) · a predicted model of the same protein · chain BS against A, TM-score 0.96
P49166 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L37-a (P49166) · a predicted model of the same protein · chain Bi against A, TM-score 0.96
P0C2H8 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L31-a (P0C2H8) · a predicted model of the same protein · chain Bc against A, TM-score 0.96
P0CX47 · AlphaFold monomer V2.0 prediction for 40S ribosomal protein S11-a (P0CX47) · a predicted model of the same protein · chain AL against A, TM-score 0.94
P36105 · AlphaFold monomer V2.0 prediction for 60S ribosomal protein L14-a (P36105) · a predicted model of the same protein · chain BL against A, TM-score 0.94

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