9ZNF image
Deposition Date 2025-12-12
Release Date 2026-01-28
Last Version Date 2026-01-28
Entry Detail
PDB ID:
9ZNF
Keywords:
RIBOSOME
Title:
Cryo-EM structure of the Methanosarcina acetivorans 70S ribosome in complex with SriA and SriB
Biological Source:
Source Organism(s):
Methanosarcina acetivorans (Taxon ID: 2214)
Expression System(s):
Escherichia coli
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
2.03 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9ZNF validation report
Macromolecular Entities
Polymer Type:polyribonucleotide
Molecule:23S rRNA
Chain IDs:A (auth: 1)
Chain Length:2904
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:B (auth: 2)
Chain Length:133
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
Polymer Type:polyribonucleotide
Molecule:16S rRNA
Chain IDs:C (auth: 3)
Chain Length:1478
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:CBS domain-containing protein
Gene (Uniprot):HA338_08675
Chain IDs:E (auth: 4)
Chain Length:270
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:A0A832SJD6
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:CBS domain-containing protein
Gene (Uniprot):HA338_08680
Chain IDs:D (auth: 5)
Chain Length:339
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:A0A832S9K2
Polymer Type:polyribonucleotide
Molecule:E-site tRNA
Chain IDs:F (auth: 8)
Chain Length:75
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL2
Gene (Uniprot):rpl2
Chain IDs:G (auth: AA)
Chain Length:238
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRU4 Pfam ID:PF00181, PF03947
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL3
Gene (Uniprot):rpl3
Chain IDs:H (auth: AB)
Chain Length:337
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRU7 Pfam ID:PF00297
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL4
Gene (Uniprot):rpl4
Chain IDs:I (auth: AC)
Chain Length:92
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRU6 Pfam ID:PF00573
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL5
Gene (Uniprot):rpl5
Chain IDs:J (auth: AD)
Chain Length:165
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT4 Pfam ID:PF00281, PF00673
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL6
Gene (Uniprot):rpl6
Chain IDs:K (auth: AE)
Chain Length:176
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT1 Pfam ID:PF00347
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL8
Gene (Uniprot):rpl7ae
Chain IDs:L (auth: AF)
Chain Length:120
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TQL9 Pfam ID:PF01248
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL13
Gene (Uniprot):rpl13
Chain IDs:M (auth: AG)
Chain Length:143
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TT43 Pfam ID:PF00572
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL14
Gene (Uniprot):rpl14
Chain IDs:N (auth: AH)
Chain Length:132
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT7 Pfam ID:PF00238
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL15
Gene (Uniprot):rpl15
Chain IDs:O (auth: AI)
Chain Length:140
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRS5 Pfam ID:PF00828
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL15
Gene (Uniprot):rpl15e
Chain IDs:P (auth: AJ)
Chain Length:196
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TPX0 Pfam ID:PF00827
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL16
Gene (Uniprot):rpl10e
Chain IDs:Q (auth: AK)
Chain Length:173
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TU90 Pfam ID:PF00252
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL18
Gene (Uniprot):rpl18
Chain IDs:R (auth: AL)
Chain Length:174
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRS8 Pfam ID:PF17144
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL18
Gene (Uniprot):rpl18e
Chain IDs:S (auth: AM)
Chain Length:126
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TT44 Pfam ID:PF17135
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL19
Gene (Uniprot):rpl19e
Chain IDs:T (auth: AN)
Chain Length:151
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:A0A832W9G6
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL20
Gene (Uniprot):rpl18a
Chain IDs:U (auth: AO)
Chain Length:61
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TIN5 Pfam ID:PF01775
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL21
Gene (Uniprot):rpl21e
Chain IDs:V (auth: AP)
Chain Length:97
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TQU3 Pfam ID:PF01157
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL22
Gene (Uniprot):rpl22
Chain IDs:W (auth: AQ)
Chain Length:151
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRU2 Pfam ID:PF00237
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL23
Gene (Uniprot):rpl23
Chain IDs:X (auth: AR)
Chain Length:82
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRU5 Pfam ID:PF00276
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL24
Gene (Uniprot):rpl24
Chain IDs:Y (auth: AS)
Chain Length:119
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT6 Pfam ID:PF16906, PF00467
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL24
Gene (Uniprot):rpl24e
Chain IDs:Z (auth: AT)
Chain Length:62
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TQL7 Pfam ID:PF01246
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL29
Gene (Uniprot):rpl29
Chain IDs:AA (auth: AU)
Chain Length:67
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRU0 Pfam ID:PF00831
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein uL30
Gene (Uniprot):rpl30
Chain IDs:BA (auth: AV)
Chain Length:153
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRS6 Pfam ID:PF00327
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL30
Gene (Uniprot):rpl30e
Chain IDs:CA (auth: AW)
Chain Length:99
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRB9 Pfam ID:PF01248
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL31
Gene (Uniprot):rpl31e
Chain IDs:DA (auth: AX)
Chain Length:89
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TIN3 Pfam ID:PF01198
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL32
Gene (Uniprot):rpl32e
Chain IDs:EA (auth: AY)
Chain Length:129
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT0 Pfam ID:PF01655
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL37
Gene (Uniprot):rpl37e
Chain IDs:FA (auth: AZ)
Chain Length:56
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TL48 Pfam ID:PF01907
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL39
Gene (Uniprot):rpl39e
Chain IDs:GA (auth: Aa)
Chain Length:238
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TIN2 Pfam ID:PF00832
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL40
Gene (Uniprot):rpl40e
Chain IDs:HA (auth: Ab)
Chain Length:337
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TJ19 Pfam ID:PF01020
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL42
Gene (Uniprot):rpl44e
Chain IDs:IA (auth: Ac)
Chain Length:92
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:A0A832W9V9
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Large ribosomal subunit protein eL43
Gene (Uniprot):rpl37ae
Chain IDs:JA (auth: Ad)
Chain Length:165
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:A0A832SMV9
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS1
Gene (Uniprot):rps3ae
Chain IDs:KA (auth: BA)
Chain Length:203
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TKI9 Pfam ID:PF01015
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS2
Gene (Uniprot):rps2
Chain IDs:LA (auth: BB)
Chain Length:225
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TT39 Pfam ID:PF00318
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS3
Gene (Uniprot):rps3
Chain IDs:MA (auth: BC)
Chain Length:318
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRU1 Pfam ID:PF07650, PF00189
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS4
Gene (Uniprot):rps4
Chain IDs:NA (auth: BD)
Chain Length:218
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRR1 Pfam ID:PF01479
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS4
Gene (Uniprot):rps4e
Chain IDs:OA (auth: BE)
Chain Length:235
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT5 Pfam ID:PF08071, PF00900
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS5
Gene (Uniprot):rps5
Chain IDs:PA (auth: BF)
Chain Length:209
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRS7 Pfam ID:PF00333, PF03719
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS6
Gene (Uniprot):rps6e
Chain IDs:QA (auth: BG)
Chain Length:136
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TQL4 Pfam ID:PF01092
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS7
Gene (Uniprot):rps7
Chain IDs:RA (auth: BH)
Chain Length:189
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRC2 Pfam ID:PF00177
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS8
Gene (Uniprot):rps8
Chain IDs:SA (auth: BI)
Chain Length:130
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT2 Pfam ID:PF00410
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS9
Gene (Uniprot):rps9
Chain IDs:TA (auth: BJ)
Chain Length:134
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TT42 Pfam ID:PF00380
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS8
Gene (Uniprot):rps8e
Chain IDs:UA (auth: BK)
Chain Length:125
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TS82 Pfam ID:PF01201
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS10
Gene (Uniprot):rps10
Chain IDs:VA (auth: BL)
Chain Length:102
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:P61929 Pfam ID:PF00338
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS11
Gene (Uniprot):rps11
Chain IDs:WA (auth: BM)
Chain Length:126
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRR0 Pfam ID:PF00411
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS12
Gene (Uniprot):rps12
Chain IDs:XA (auth: BN)
Chain Length:142
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRC1 Pfam ID:PF00164
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS13
Gene (Uniprot):rps13
Chain IDs:YA (auth: BO)
Chain Length:162
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRR2 Pfam ID:PF00416
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS14
Gene (Uniprot):rps14
Chain IDs:ZA (auth: BP)
Chain Length:50
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT3 Pfam ID:PF00253
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS15
Gene (Uniprot):rps15
Chain IDs:AB (auth: BQ)
Chain Length:152
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TS56 Pfam ID:PF08069, PF00312
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS17A
Gene (Uniprot):rps17-1
Chain IDs:BB (auth: BR)
Chain Length:109
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRT8 Pfam ID:PF00366
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS17
Gene (Uniprot):rps17e
Chain IDs:CB (auth: BS)
Chain Length:64
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8THP2 Pfam ID:PF00833
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS19
Gene (Uniprot):rps19
Chain IDs:DB (auth: BT)
Chain Length:136
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TRU3 Pfam ID:PF00203
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS19
Gene (Uniprot):rps19e
Chain IDs:EB (auth: BU)
Chain Length:149
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:A0A832W9Q0
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Putative zinc finger domain-containing protein
Gene (Uniprot):HA338_09005
Chain IDs:FB (auth: BV)
Chain Length:56
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:A0A832S8D7
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS24
Gene (Uniprot):rps24e
Chain IDs:GB (auth: BW)
Chain Length:101
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TJT2 Pfam ID:PF01282
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS27
Gene (Uniprot):rps27e
Chain IDs:HB (auth: BX)
Chain Length:62
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:P61931 Pfam ID:PF01667
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein eS28
Gene (Uniprot):rps28e
Chain IDs:IB (auth: BY)
Chain Length:76
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:Q8TQL8 Pfam ID:PF01200
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DUF5350 family protein
Gene (Uniprot):HA338_12110
Chain IDs:JB (auth: BZ)
Chain Length:57
Number of Molecules:1
Biological Source:Methanosarcina acetivorans
UniProt ID:A0A832SMB7
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
5MC A C modified residue
5MU C U modified residue
6MZ C A modified residue
MA6 C A modified residue
OMG A G modified residue
OMU A U modified residue
Ligand Molecules
MG
ZN
Primary Citation
A family of archaeal hibernation factors that bind in tandem and protect ribosomes in dormant cells
Biorxiv ? ? ? (2026)
DOI: 10.64898/2026.01.19.700200
Primary Citation of related structures
9ZNF
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