8VL1 image
Deposition Date 2024-01-11
Release Date 2025-07-23
Last Version Date 2025-07-23
Entry Detail
PDB ID:
8VL1
Keywords:
TRANSCRIPTION
Title:
Escherichia coli transcription-translation loosely coupled complex (TTC-LC) containing mRNA with a 36 nt long spacer, ops signal, RfaH, NusA, and fMet-tRNAs in E-site and P-site
Biological Source:
Source Organism:
Escherichia coli (Taxon ID: 562)
synthetic construct (Taxon ID: 32630)
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
5.30 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
8VL1 validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ribosomal protein L21
Gene (Uniprot):rplU
Chain IDs:A (auth: 0)
Chain Length:103
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:C3SSG2 Pfam ID:PF00829
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L22
Gene (Uniprot):rplV
Chain IDs:B (auth: 1)
Chain Length:110
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P61175 Pfam ID:PF00237
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L23
Chain IDs:C (auth: 2)
Chain Length:100
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L24
Chain IDs:D (auth: 3)
Chain Length:104
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L25
Chain IDs:E (auth: 4)
Chain Length:94
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polydeoxyribonucleotide
Molecule:NT DNA ops
Chain IDs:F (auth: 5)
Chain Length:38
Number of Molecules:1
Biological Source:synthetic construct
Polymer Type:polydeoxyribonucleotide
Molecule:T DNA ops
Chain IDs:G (auth: 6)
Chain Length:38
Number of Molecules:1
Biological Source:synthetic construct
Polymer Type:polyribonucleotide
Molecule:mRNA with 36 nt long spacer
Chain IDs:H (auth: 7)
Chain Length:53
Number of Molecules:1
Biological Source:synthetic construct
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L10
Gene (Uniprot):rplJ
Chain IDs:I (auth: 9)
Chain Length:165
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A7J3 Pfam ID:PF00466
Polymer Type:polyribonucleotide
Molecule:E-site and P-site tRNA (fMet)
Chain IDs:J (auth: A), R (auth: B)
Chain Length:76
Number of Molecules:2
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit beta
Gene (Uniprot):rpoB
Chain IDs:K (auth: AA)
Chain Length:1342
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A8V2 Pfam ID:PF04563, PF04561, PF04565, PF10385, PF00562, PF04560 EC:2.7.7.6
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Transcription antitermination protein RfaH
Gene (Uniprot):rfaH
Chain IDs:L (auth: AB)
Chain Length:162
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:C3SK02 Pfam ID:PF02357
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit alpha
Gene (Uniprot):rpoA
Chain IDs:M (auth: AC), N (auth: AD)
Chain Length:329
Number of Molecules:2
Biological Source:Escherichia coli
UniProt ID:P0A7Z4 Pfam ID:PF01193, PF01000, PF03118 EC:2.7.7.6
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit beta'
Gene (Uniprot):rpoC
Chain IDs:O (auth: AE)
Chain Length:1407
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A8T7 Pfam ID:PF04997, PF00623, PF04983, PF05000, PF04998 EC:2.7.7.6
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit omega
Gene (Uniprot):rpoZ
Chain IDs:P (auth: AF)
Chain Length:91
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A800 Pfam ID:PF01192 EC:2.7.7.6
Polymer Type:polypeptide(L)
Molecule:Transcription termination/antitermination protein NusA
Chain IDs:Q (auth: AG)
Chain Length:495
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S18
Gene (Uniprot):rpsR
Chain IDs:S (auth: C)
Chain Length:75
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:A0A0E2KXL3 Pfam ID:PF01084
Polymer Type:polyribonucleotide
Molecule:16S rRNA
Chain IDs:T (auth: D)
Chain Length:1542
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S20
Gene (Uniprot):rpsT
Chain IDs:U (auth: E)
Chain Length:63
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:C3TRH7 Pfam ID:PF01649
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S21
Gene (Uniprot):rpsU
Chain IDs:V (auth: F)
Chain Length:59
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:A0A0E2L2J1 Pfam ID:PF01165
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S2
Gene (Uniprot):rpsB
Chain IDs:W (auth: G)
Chain Length:241
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:C3TPN2 Pfam ID:PF00318
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S1
Chain IDs:X (auth: H)
Chain Length:557
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S3
Gene (Uniprot):rpsC
Chain IDs:Y (auth: I)
Chain Length:233
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:B7MCS9 Pfam ID:PF07650, PF00189
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S4
Gene (Uniprot):rpsD
Chain IDs:Z (auth: J)
Chain Length:209
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A7V8 Pfam ID:PF00163, PF01479
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S5
Gene (Uniprot):rpsE
Chain IDs:AA (auth: K)
Chain Length:55
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A7W1 Pfam ID:PF00333, PF03719
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S6
Gene (Uniprot):rpsF
Chain IDs:BA (auth: L)
Chain Length:201
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P02358 Pfam ID:PF01250
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S7
Gene (Uniprot):rpsG
Chain IDs:CA (auth: M)
Chain Length:46
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P02359 Pfam ID:PF00177
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S8
Chain IDs:DA (auth: N)
Chain Length:179
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S9
Chain IDs:EA (auth: O)
Chain Length:130
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S10
Chain IDs:FA (auth: P)
Chain Length:103
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S11
Gene (Uniprot):rpsK
Chain IDs:GA (auth: Q)
Chain Length:129
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:B7MCR3 Pfam ID:PF00411
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S12
Gene (Uniprot):rpsL
Chain IDs:HA (auth: R)
Chain Length:124
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A7S3 Pfam ID:PF00164
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S14
Chain IDs:IA (auth: S)
Chain Length:101
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small ribosomal subunit protein uS15
Gene (Uniprot):rpsO
Chain IDs:JA (auth: T)
Chain Length:123
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:C3SSQ7 Pfam ID:PF00312
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S16
Gene (Uniprot):rpsP
Chain IDs:KA (auth: U)
Chain Length:144
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:C3SYP2 Pfam ID:PF00886
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S17
Chain IDs:LA (auth: V)
Chain Length:84
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S19
Chain IDs:MA (auth: W)
Chain Length:127
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:30S ribosomal protein S13
Gene (Uniprot):rpsM
Chain IDs:NA (auth: X)
Chain Length:117
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:A0A7U9IV78 Pfam ID:PF00416
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L11
Gene (Uniprot):rplK
Chain IDs:OA (auth: Y)
Chain Length:142
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A7J7 Pfam ID:PF03946, PF00298
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L7/L12
Chain IDs:PA (auth: Z)
Chain Length:121
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polyribonucleotide
Molecule:23S rRNA
Chain IDs:QA (auth: a)
Chain Length:76
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L27
Gene (Uniprot):rpmA
Chain IDs:RA (auth: b)
Chain Length:85
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A7L8 Pfam ID:PF01016
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L28
Gene (Uniprot):rpmB
Chain IDs:SA (auth: c)
Chain Length:75
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:A0A1X3JA73 Pfam ID:PF00830
Polymer Type:polyribonucleotide
Molecule:5S rRNA
Chain IDs:TA (auth: d)
Chain Length:1542
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L29
Chain IDs:UA (auth: e)
Chain Length:63
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L30
Chain IDs:VA (auth: f)
Chain Length:59
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L31
Gene (Uniprot):rpmE
Chain IDs:WA (auth: g)
Chain Length:241
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A7M9 Pfam ID:PF01197
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L2
Gene (Uniprot):rplB
Chain IDs:XA (auth: h)
Chain Length:557
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P60422 Pfam ID:PF00181, PF03947
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L32
Chain IDs:YA (auth: i)
Chain Length:233
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L3
Gene (Uniprot):rplC
Chain IDs:ZA (auth: j)
Chain Length:209
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P60438 Pfam ID:PF00297
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L33
Chain IDs:AB (auth: k)
Chain Length:55
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L4
Gene (Uniprot):rplD
Chain IDs:BB (auth: l)
Chain Length:201
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:A1AGK6 Pfam ID:PF00573
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L34
Gene (Uniprot):rpmH
Chain IDs:CB (auth: m)
Chain Length:46
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:B7MGC4 Pfam ID:PF00468
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L5
Chain IDs:DB (auth: n)
Chain Length:179
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L35
Gene (Uniprot):rpmI
Chain IDs:EB (auth: o)
Chain Length:130
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0A7Q1 Pfam ID:PF01632
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L6
Gene (Uniprot):rplF
Chain IDs:FB (auth: p)
Chain Length:103
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:C3SR17 Pfam ID:PF00347
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L36
Gene (Uniprot):rpmJ
Chain IDs:GB (auth: q)
Chain Length:129
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:A0A0E2L017 Pfam ID:PF00444
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L9
Chain IDs:HB (auth: r)
Chain Length:124
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L13
Chain IDs:IB (auth: s)
Chain Length:101
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L14
Gene (Uniprot):rplN
Chain IDs:JB (auth: t)
Chain Length:123
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:S1NW45 Pfam ID:PF00238
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L15
Gene (Uniprot):rplO
Chain IDs:KB (auth: u)
Chain Length:144
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:A0A037Y8L6 Pfam ID:PF00828
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L16
Gene (Uniprot):rplP
Chain IDs:LB (auth: v)
Chain Length:84
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:P0ADY7 Pfam ID:PF00252
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L17
Chain IDs:MB (auth: w)
Chain Length:127
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L18
Chain IDs:NB (auth: x)
Chain Length:117
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L19
Chain IDs:OB (auth: y)
Chain Length:142
Number of Molecules:1
Biological Source:Escherichia coli
Protein Blast
Polymer Type:polypeptide(L)
Molecule:50S ribosomal protein L20
Gene (Uniprot):rplT
Chain IDs:PB (auth: z)
Chain Length:121
Number of Molecules:1
Biological Source:Escherichia coli
UniProt ID:B7MAS6 Pfam ID:PF00453
Ligand Molecules
MG
ZN
Primary Citation
Escherichia coli transcription-translation loosely coupled complex (TTC-LC) containing mRNA with a 36 nt long spacer, ops signal, RfaH, NusA, and fMet-tRNAs in E-site and P-site
To Be Published ? ? ? (?)
Primary Citation of related structures
8VL1