› 1ffk

X-ray diffraction
2.4Å resolution

CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM HALOARCULA MARISMORTUI AT 2.4 ANGSTROM RESOLUTION

Released:
DOI: 10.2210/pdb1ffk/pdb
PDB entry 1ffk coloured by chain, front view.
PDB entry 1ffk coloured by chain, side view.
PDB entry 1ffk coloured by chain, top view.
Source organism: Haloarcula marismortui
Primary publication:
The complete atomic structure of the large ribosomal subunit at 2.4 A resolution.
Ban N, Nissen P, Hansen J, Moore PB, Steitz TA
Science 289 905-20 (2000)
PMID: 10937989

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
hetero 29-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145603 (preferred)
Entry contents:
27 distinct polypeptide molecules
2 distinct RNA molecules
Macromolecules (29 distinct):
Large ribosomal subunit protein uL2 Chain: A
Molecule details ›
Chain: A
Length: 239 amino acids
Theoretical weight: 25.24 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P20276 (Residues: 2-240; Coverage: 100%)
Gene names: rpl2, rrnAC1608
Sequence domains:
Large ribosomal subunit protein uL3 Chain: B
Molecule details ›
Chain: B
Length: 337 amino acids
Theoretical weight: 37.22 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P20279 (Residues: 2-312, 313-338; Coverage: 99%)
Gene names: rpl3, rrnAC1611
Sequence domains: Ribosomal protein L3
Large ribosomal subunit protein uL4 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
Large ribosomal subunit protein uL5 Chain: D
Molecule details ›
Chain: D
Length: 176 amino acids
Theoretical weight: 19.42 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14124 (Residues: 2-177; Coverage: 99%)
Gene names: rpl5, rrnAC1598
Sequence domains:
Large ribosomal subunit protein eL8 Chain: E
Molecule details ›
Chain: E
Length: 119 amino acids
Theoretical weight: 12.6 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12743 (Residues: 2-108, 112-120; Coverage: 97%)
Gene names: rpl7ae, rrnAC0103
Sequence domains: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family
Large ribosomal subunit protein uL16 Chain: F
Molecule details ›
Chain: F
Length: 157 amino acids
Theoretical weight: 17.23 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P60617 (Residues: 4-166; Coverage: 84%)
Gene names: rpl10e, rrnAC2357
Sequence domains: Ribosomal protein L16p/L10e
Large ribosomal subunit protein uL13 Chain: G
Molecule details ›
Chain: G
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
Large ribosomal subunit protein uL14 Chain: H
Molecule details ›
Chain: H
Length: 132 amino acids
Theoretical weight: 14.22 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P22450 (Residues: 1-132; Coverage: 100%)
Gene names: rpl14, rrnAC1602
Sequence domains: Ribosomal protein L14p/L23e
Large ribosomal subunit protein eL15 Chain: I
Molecule details ›
Chain: I
Length: 194 amino acids
Theoretical weight: 23.37 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P60618 (Residues: 3-191; Coverage: 95%)
Gene names: rpl15e, rrnAC2065
Sequence domains: Ribosomal L15
Large ribosomal subunit protein uL15 Chain: J
Molecule details ›
Chain: J
Length: 164 amino acids
Theoretical weight: 17.87 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12737 (Residues: 2-165; Coverage: 99%)
Gene names: rpl15, rrnAC1590
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
Large ribosomal subunit protein uL18 Chain: K
Molecule details ›
Chain: K
Length: 186 amino acids
Theoretical weight: 20.51 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14123 (Residues: 2-186; Coverage: 99%)
Gene names: rpl18, rrnAC1593
Sequence domains: Ribosomal large subunit proteins 60S L5, and 50S L18
Large ribosomal subunit protein eL18 Chain: L
Molecule details ›
Chain: L
Length: 115 amino acids
Theoretical weight: 12.31 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12733 (Residues: 2-116; Coverage: 99%)
Gene names: rpl18e, rrnAC0064
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
Large ribosomal subunit protein eL19 Chain: M
Molecule details ›
Chain: M
Length: 148 amino acids
Theoretical weight: 16.63 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14119 (Residues: 2-149; Coverage: 99%)
Gene names: rpl19e, rrnAC1594
Sequence domains: Ribosomal protein L19e
Large ribosomal subunit protein eL21 Chain: N
Molecule details ›
Chain: N
Length: 95 amino acids
Theoretical weight: 10.44 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12734 (Residues: 2-96; Coverage: 99%)
Gene names: rpl21e, rrnAC0260
Sequence domains: Ribosomal protein L21e
Large ribosomal subunit protein uL22 Chain: O
Molecule details ›
Chain: O
Length: 154 amino acids
Theoretical weight: 16.84 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P10970 (Residues: 2-155; Coverage: 99%)
Gene names: rpl22, rrnAC1606
Sequence domains: Ribosomal protein L22p/L17e
Large ribosomal subunit protein uL23 Chain: P
Molecule details ›
Chain: P
Length: 84 amino acids
Theoretical weight: 9.48 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12732 (Residues: 2-85; Coverage: 99%)
Gene names: rpl23, rrnAC1609
Sequence domains: Ribosomal protein L23
Large ribosomal subunit protein uL24 Chain: Q
Molecule details ›
Chain: Q
Length: 119 amino acids
Theoretical weight: 13.54 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P10972 (Residues: 2-120; Coverage: 99%)
Gene names: rpl24, rrnAC1601
Sequence domains:
Large ribosomal subunit protein eL24 Chain: R
Molecule details ›
Chain: R
Length: 66 amino acids
Theoretical weight: 7.23 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14116 (Residues: 2-67; Coverage: 99%)
Gene names: rpl24e, rrnAC0104
Sequence domains: Ribosomal protein L24e
Large ribosomal subunit protein uL29 Chain: S
Molecule details ›
Chain: S
Length: 70 amino acids
Theoretical weight: 7.76 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P10971 (Residues: 2-71; Coverage: 99%)
Gene names: rpl29, rrnAC1604
Sequence domains: Ribosomal L29 protein
Large ribosomal subunit protein uL30 Chain: T
Molecule details ›
Chain: T
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
Large ribosomal subunit protein eL31 Chain: U
Molecule details ›
Chain: U
Length: 91 amino acids
Theoretical weight: 10.25 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P18138 (Residues: 2-92; Coverage: 99%)
Gene names: rpl31e, rrnAC3113
Sequence domains: Ribosomal protein L31e
Large ribosomal subunit protein eL32 Chain: V
Molecule details ›
Chain: V
Length: 143 amino acids
Theoretical weight: 16.22 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P12736 (Residues: 99-241; Coverage: 59%)
Gene names: rpl32e, rrnAC1595
Sequence domains: Ribosomal protein L32
Large ribosomal subunit protein eL43 Chain: W
Molecule details ›
Chain: W
Length: 73 amino acids
Theoretical weight: 8.09 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P60619 (Residues: 11-82; Coverage: 78%)
Gene names: rpl37ae, rrnAC1669
Sequence domains: Ribosomal L37ae protein family
Large ribosomal subunit protein eL37 Chain: X
Molecule details ›
Chain: X
Length: 56 amino acids
Theoretical weight: 6.2 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P32410 (Residues: 2-57; Coverage: 98%)
Gene names: rpl37e, rrnAC0797.1
Sequence domains: Ribosomal protein L37e
Large ribosomal subunit protein eL39 Chain: Y
Molecule details ›
Chain: Y
Length: 49 amino acids
Theoretical weight: 5.99 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P22452 (Residues: 2-50; Coverage: 98%)
Gene names: rpl39e, rrnAC3112
Sequence domains: Ribosomal L39 protein
Large ribosomal subunit protein eL42 Chain: Z
Molecule details ›
Chain: Z
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
Large ribosomal subunit protein uL6 Chain: 1
Molecule details ›
Chain: 1
Length: 177 amino acids
Theoretical weight: 19.83 KDa
Source organism: Haloarcula marismortui
UniProt:
  • Canonical: P14135 (Residues: 2-178; Coverage: 99%)
Gene names: rpl6, rrnAC1596
Sequence domains: Ribosomal protein L6
23S ribosomal RNA Chain: 0
Molecule details ›
Chain: 0
Length: 2922 nucleotides
Theoretical weight: 946.03 KDa
Sequence domains: Archaeal large subunit ribosomal RNA
5S ribosomal RNA Chain: 9
Molecule details ›
Chain: 9
Length: 122 nucleotides
Theoretical weight: 39.32 KDa
Sequence domains: 5S ribosomal RNA

Ligands and Environments

3 bound ligands:
Ligand K 1 x K
Ligand MG 2 x MG
Ligand CD 4 x CD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X25
Spacegroup: C2221
Unit cell:
a: 211.66Å b: 299.67Å c: 573.77Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.252 0.252 0.261

Quick links

Citations

460 review citations

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