PDBe 2qa4

X-ray diffraction
3Å resolution

A more complete structure of the the L7/L12 stalk of the Haloarcula marismortui 50S large ribosomal subunit

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 31-mer (preferred)
Entry contents:
29 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (31 distinct):
50S ribosomal protein L2 Chain: A
Molecule details ›
Chain: A
Length: 240 amino acids
Theoretical weight: 25.35 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P20276 (Residues: 1-240; Coverage: 100%)
Gene names: rpl2, rrnAC1608
Sequence domains:
Structure domains:
50S ribosomal protein L3 Chain: B
Molecule details ›
Chain: B
Length: 338 amino acids
Theoretical weight: 37.4 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P20279 (Residues: 1-338; Coverage: 100%)
Gene names: rpl3, rrnAC1611
Sequence domains: Ribosomal protein L3
Structure domains:
50S ribosomal protein L4 Chain: C
Molecule details ›
Chain: C
Length: 246 amino acids
Theoretical weight: 26.44 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12735 (Residues: 1-246; Coverage: 100%)
Gene names: rpl4, rrnAC1610
Sequence domains: Ribosomal protein L4/L1 family
Structure domains: Ribosomal Protein L4; Chain: A;
50S ribosomal protein L5 Chain: D
Molecule details ›
Chain: D
Length: 177 amino acids
Theoretical weight: 19.55 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14124 (Residues: 1-177; Coverage: 100%)
Gene names: rpl5, rrnAC1598
Sequence domains:
Structure domains: 50s Ribosomal Protein L5; Chain: A,
50S ribosomal protein L6 Chain: E
Molecule details ›
Chain: E
Length: 178 amino acids
Theoretical weight: 19.96 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14135 (Residues: 1-178; Coverage: 100%)
Gene names: rpl6, rrnAC1596
Sequence domains: Ribosomal protein L6
Structure domains: Outer Surface Protein A; domain 3
50S ribosomal protein L31e Chain: X
Molecule details ›
Chain: X
Length: 92 amino acids
Theoretical weight: 10.38 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P18138 (Residues: 1-92; Coverage: 100%)
Gene names: rpl31e, rrnAC3113
Sequence domains: Ribosomal protein L31e
Structure domains: Ribosomal Protein L31e; Chain: W;
50S ribosomal protein L10e Chain: H
Molecule details ›
Chain: H
Length: 171 amino acids
Theoretical weight: 19.07 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P60617 (Residues: 4-166, 167-171; Coverage: 95%)
Gene names: rpl10e, rrnAC2357
Sequence domains: Ribosomal protein L16p/L10e
Structure domains: Aldehyde Oxidoreductase; domain 3
50S ribosomal protein L11 Chain: I
Molecule details ›
Chain: I
Length: 162 amino acids
Theoretical weight: 17.1 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14122 (Residues: 1-162; Coverage: 100%)
Gene names: rpl11, rrnAC1414
Sequence domains:
Structure domains: Arc Repressor Mutant, subunit A
50S ribosomal protein L13 Chain: J
Molecule details ›
Chain: J
Length: 145 amino acids
Theoretical weight: 16.25 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P29198 (Residues: 1-145; Coverage: 100%)
Gene names: rpl13, rrnAC0065
Sequence domains: Ribosomal protein L13
Structure domains: Ribosomal Protein L13p; Chain: A;
50S ribosomal protein L14 Chain: K
Molecule details ›
Chain: K
Length: 132 amino acids
Theoretical weight: 14.19 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P22450 (Residues: 1-132; Coverage: 100%)
Gene names: rpl14, rrnAC1602
Sequence domains: Ribosomal protein L14p/L23e
Structure domains: Ribosomal Protein L14;
50S ribosomal protein L15 Chain: L
Molecule details ›
Chain: L
Length: 165 amino acids
Theoretical weight: 18.01 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12737 (Residues: 1-165; Coverage: 100%)
Gene names: rpl15, rrnAC1590
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
Structure domains:
50S ribosomal protein L15e Chain: M
Molecule details ›
Chain: M
Length: 196 amino acids
Theoretical weight: 22.42 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P60618 (Residues: 1-196; Coverage: 100%)
Gene names: rpl15e, rrnAC2065
Sequence domains: Ribosomal L15
Structure domains: Ribosomal protein l15e
50S ribosomal protein L18 Chain: N
Molecule details ›
Chain: N
Length: 187 amino acids
Theoretical weight: 20.64 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14123 (Residues: 1-187; Coverage: 100%)
Gene names: rpl18, rrnAC1593
Sequence domains: Ribosomal large subunit proteins 60S L5, and 50S L18
Structure domains: Nucleotidyltransferase; domain 5
50S ribosomal protein L18e Chain: O
Molecule details ›
Chain: O
Length: 116 amino acids
Theoretical weight: 12.44 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12733 (Residues: 1-116; Coverage: 100%)
Gene names: rpl18e, rrnAC0064
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
Structure domains: Ribosomal Protein L15; Chain: K; domain 2
50S ribosomal protein L19e Chain: P
Molecule details ›
Chain: P
Length: 149 amino acids
Theoretical weight: 16.8 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14119 (Residues: 1-149; Coverage: 100%)
Gene names: rpl19e, rrnAC1594
Sequence domains: Ribosomal protein L19e
Structure domains:
50S ribosomal protein L21e Chain: Q
Molecule details ›
Chain: Q
Length: 96 amino acids
Theoretical weight: 10.57 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12734 (Residues: 1-96; Coverage: 100%)
Gene names: rpl21e, rrnAC0260
Sequence domains: Ribosomal protein L21e
Structure domains: Myosin S1 fragment SH3-like barrel
50S ribosomal protein L22 Chain: R
Molecule details ›
Chain: R
Length: 155 amino acids
Theoretical weight: 16.97 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P10970 (Residues: 1-155; Coverage: 100%)
Gene names: rpl22, rrnAC1606
Sequence domains: Ribosomal protein L22p/L17e
Structure domains: Ribosomal Protein L22; Chain A
50S ribosomal protein L23 Chain: S
Molecule details ›
Chain: S
Length: 85 amino acids
Theoretical weight: 9.61 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12732 (Residues: 1-85; Coverage: 100%)
Gene names: rpl23, rrnAC1609
Sequence domains: Ribosomal protein L23
Structure domains: Alpha-Beta Plaits
50S ribosomal protein L24 Chain: T
Molecule details ›
Chain: T
Length: 120 amino acids
Theoretical weight: 13.67 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P10972 (Residues: 1-120; Coverage: 100%)
Gene names: rpl24, rrnAC1601
Sequence domains:
Structure domains: SH3 type barrels.
50S ribosomal protein L24e Chain: U
Molecule details ›
Chain: U
Length: 67 amino acids
Theoretical weight: 7.36 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14116 (Residues: 1-67; Coverage: 100%)
Gene names: rpl24e, rrnAC0104
Sequence domains: Ribosomal protein L24e
Structure domains: Ribosomal Protein L24e; Chain: T;
50S ribosomal protein L29 Chain: V
Molecule details ›
Chain: V
Length: 71 amino acids
Theoretical weight: 7.89 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P10971 (Residues: 1-71; Coverage: 100%)
Gene names: rpl29, rrnAC1604
Sequence domains: Ribosomal L29 protein
Structure domains: Helix Hairpins
50S ribosomal protein L30 Chain: W
Molecule details ›
Chain: W
Length: 154 amino acids
Theoretical weight: 17.06 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14121 (Residues: 1-154; Coverage: 100%)
Gene names: rpl30, rrnAC1591
Sequence domains: Ribosomal protein L30p/L7e
Structure domains:
50S ribosomal protein L32e Chain: Y
Molecule details ›
Chain: Y
Length: 241 amino acids
Theoretical weight: 26.46 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12736 (Residues: 1-241; Coverage: 100%)
Gene names: rpl32e, rrnAC1595
Sequence domains:
50S ribosomal protein L37e Chain: 1
Molecule details ›
Chain: 1
Length: 57 amino acids
Theoretical weight: 6.33 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P32410 (Residues: 1-57; Coverage: 100%)
Gene names: rpl37e, rrnAC0797.1
Sequence domains: Ribosomal protein L37e
Structure domains: N-terminal domain of TfIIb
50S ribosomal protein L39e Chain: 2
Molecule details ›
Chain: 2
Length: 50 amino acids
Theoretical weight: 6.13 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P22452 (Residues: 1-50; Coverage: 100%)
Gene names: rpl39e, rrnAC3112
Sequence domains: Ribosomal L39 protein
Structure domains: Ribosomal protein L39e
50S ribosomal protein L44e Chain: 3
Molecule details ›
Chain: 3
Length: 92 amino acids
Theoretical weight: 10.82 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P32411 (Residues: 1-92; Coverage: 100%)
Gene names: rpl44e, rrnAC3514
Sequence domains: Ribosomal protein L44
Structure domains: Nuclear Transport Factor 2; Chain: A,
50S ribosomal protein L7Ae Chain: F
Molecule details ›
Chain: F
Length: 120 amino acids
Theoretical weight: 12.79 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12743 (Residues: 1-120; Coverage: 100%)
Gene names: rpl7ae, rrnAC0103
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Structure domains: 60s Ribosomal Protein L30; Chain: A;
50S ribosomal protein L37Ae Chain: Z
Molecule details ›
Chain: Z
Length: 92 amino acids
Theoretical weight: 10.26 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P60619 (Residues: 1-92; Coverage: 100%)
Gene names: rpl37ae, rrnAC1669
Sequence domains: Ribosomal L37ae protein family
Structure domains: N-terminal domain of TfIIb
50S ribosomal protein L10 Chain: G
Molecule details ›
Chain: G
Length: 348 amino acids
Theoretical weight: 37.21 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P15825 (Residues: 1-348; Coverage: 100%)
Gene names: rpl10, rpl10e, rplP0, rrnAC1417
Sequence domains: Ribosomal protein L10
5S ribosomal RNA Chain: 9
Molecule details ›
Chain: 9
Length: 122 nucleotides
Theoretical weight: 39.32 KDa
23S ribosomal RNA Chain: 0
Molecule details ›
Chain: 0
Length: 2922 nucleotides
Theoretical weight: 946.08 KDa

Ligands and Environments

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 24-ID-C
Spacegroup: C2221
Unit cell:
a: 214.49Å b: 302.432Å c: 578.056Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.241 0.241 0.288