6fxc

Electron Microscopy
6.76Å resolution

The cryo-EM structure of hibernating 100S ribosome dimer from pathogenic Staphylococcus aureus

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 104-mer (preferred)
Entry contents:
49 distinct polypeptide molecules
3 distinct RNA molecules
Macromolecules (52 distinct):
30S ribosomal protein S2 Chains: Ab, Bb
Molecule details ›
Chains: Ab, Bb
Length: 226 amino acids
Theoretical weight: 25.93 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YXL2 (Residues: 1-226; Coverage: 89%)
Gene names: SAB1118, rpsB
Sequence domains: Ribosomal protein S2
30S ribosomal protein S3 Chains: Ac, Bc
Molecule details ›
Chains: Ac, Bc
Length: 202 amino acids
Theoretical weight: 22.68 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYQ2 (Residues: 2-203; Coverage: 93%)
Gene names: SAB2116c, rpsC
Sequence domains:
30S ribosomal protein S4 Chains: Ad, Bd
Molecule details ›
Chains: Ad, Bd
Length: 198 amino acids
Theoretical weight: 22.85 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YTH0 (Residues: 3-200; Coverage: 99%)
Gene names: SAB1578, rpsD
Sequence domains:
30S ribosomal protein S5 Chains: Ae, Be
Molecule details ›
Chains: Ae, Be
Length: 156 amino acids
Theoretical weight: 16.52 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYL4 (Residues: 10-165; Coverage: 94%)
Gene names: SAB2105c, rpsE
Sequence domains:
30S ribosomal protein S6 Chains: Af, Bf
Molecule details ›
Chains: Af, Bf
Length: 95 amino acids
Theoretical weight: 11.24 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YVJ2 (Residues: 1-95; Coverage: 97%)
Gene names: SAB0316, rpsF
Sequence domains: Ribosomal protein S6
30S ribosomal protein S7 Chains: Ag, Bg
Molecule details ›
Chains: Ag, Bg
Length: 152 amino acids
Theoretical weight: 17.18 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A077VHU6 (Residues: 1-152; Coverage: 97%)
Gene names: CD116_12315, ERS140147_01024, NCTC13712_00499, rpsG
Sequence domains: Ribosomal protein S7p/S5e
30S ribosomal protein S8 Chains: Ah, Bh
Molecule details ›
Chains: Ah, Bh
Length: 131 amino acids
Theoretical weight: 14.72 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYL1 (Residues: 2-132; Coverage: 99%)
Gene names: SAB2108c, rpsH
Sequence domains: Ribosomal protein S8
30S ribosomal protein S9 Chains: Ai, Bi
Molecule details ›
Chains: Ai, Bi
Length: 127 amino acids
Theoretical weight: 14.31 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A1Q4GY48 (Residues: 4-130; Coverage: 98%)
Gene names: A2U18_11630, A6762_11315, BSG37_12010, BTN44_13505, CFN13_11360, EP54_02240, EQ90_01125, QU38_03565, SA0759_03288, SA950122_03152, SAGV51_03875, rpsI
Sequence domains: Ribosomal protein S9/S16
30S ribosomal protein S10 Chains: Aj, Bj
Molecule details ›
Chains: Aj, Bj
Length: 97 amino acids
Theoretical weight: 11.01 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYP5 (Residues: 6-102; Coverage: 95%)
Gene names: SAB2123c, rpsJ
Sequence domains: Ribosomal protein S10p/S20e
30S ribosomal protein S11 Chains: Ak, Bk
Molecule details ›
Chains: Ak, Bk
Length: 114 amino acids
Theoretical weight: 12.05 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYM1 (Residues: 15-128; Coverage: 88%)
Gene names: SAB2098c, rpsK
Sequence domains: Ribosomal protein S11
30S ribosomal protein S12 Chains: Al, Bl
Molecule details ›
Chains: Al, Bl
Length: 135 amino acids
Theoretical weight: 15.08 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A133PZQ5 (Residues: 14-148; Coverage: 91%)
Gene names: HMPREF3211_01391, SAJPND4_00536, rpsL
Sequence domains: Ribosomal protein S12/S23
30S ribosomal protein S13 Chains: Am, Bm
Molecule details ›
Chains: Am, Bm
Length: 121 amino acids
Theoretical weight: 13.75 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYM0 (Residues: 1-121; Coverage: 100%)
Gene names: SAB2099c, rpsM
Sequence domains: Ribosomal protein S13/S18
30S ribosomal protein S14 type Z Chains: An, Bn
Molecule details ›
Chains: An, Bn
Length: 60 amino acids
Theoretical weight: 7.19 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYL0 (Residues: 2-61; Coverage: 98%)
Gene names: SAB2109c, rpsN1, rpsZ
Sequence domains: Ribosomal protein S14p/S29e
30S ribosomal protein S15 Chains: Ao, Bo
Molecule details ›
Chains: Ao, Bo
Length: 88 amino acids
Theoretical weight: 10.5 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YXP3 (Residues: 2-89; Coverage: 99%)
Gene names: SAB1135, rpsO
Sequence domains: Ribosomal protein S15
30S ribosomal protein S16 Chains: Ap, Bp
Molecule details ›
Chains: Ap, Bp
Length: 89 amino acids
Theoretical weight: 9.99 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YXH8 (Residues: 2-90; Coverage: 98%)
Gene names: SAB1102, rpsP
Sequence domains: Ribosomal protein S16
30S ribosomal protein S17 Chains: Aq, Bq
Molecule details ›
Chains: Aq, Bq
Length: 80 amino acids
Theoretical weight: 9.37 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYK6 (Residues: 5-84; Coverage: 92%)
Gene names: SAB2113c, rpsQ
Sequence domains: Ribosomal protein S17
30S ribosomal protein S18 Chains: Ar, Br
Molecule details ›
Chains: Ar, Br
Length: 54 amino acids
Theoretical weight: 6.4 KDa
Source organism: Staphylococcus aureus
30S ribosomal protein S19 Chains: As, Bs
Molecule details ›
Chains: As, Bs
Length: 80 amino acids
Theoretical weight: 9.21 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A133PYC3 (Residues: 20-99; Coverage: 74%)
Gene names: HMPREF3211_01571, SAJPND4_02217, rpsS
30S ribosomal protein S20 Chains: At, Bt
Molecule details ›
Chains: At, Bt
Length: 81 amino acids
Theoretical weight: 8.78 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YT41 (Residues: 2-82; Coverage: 98%)
Gene names: SAB1458, rpsT
30S ribosomal protein S21 Chains: Au, Bu
Molecule details ›
Chains: Au, Bu
Length: 52 amino acids
Theoretical weight: 6.24 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YT04 (Residues: 4-55; Coverage: 90%)
Gene names: SAB1447c, rpsU
Ribosome hibernation promotion factor Chains: Av, Bv
Molecule details ›
Chains: Av, Bv
Length: 190 amino acids
Theoretical weight: 22.24 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YSH7 (Residues: 1-190; Coverage: 100%)
Gene names: SAB0704, hpf
Sequence domains:
50S ribosomal protein L2 Chains: AC, BC
Molecule details ›
Chains: AC, BC
Length: 274 amino acids
Theoretical weight: 29.83 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYP9 (Residues: 2-275; Coverage: 99%)
Gene names: SAB2119c, rplB
Sequence domains:
50S ribosomal protein L3 Chains: AD, BD
Molecule details ›
Chains: AD, BD
Length: 215 amino acids
Theoretical weight: 23.2 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYP6 (Residues: 2-216; Coverage: 98%)
Gene names: SAB2122c, rplC
50S ribosomal protein L4 Chains: AE, BE
Molecule details ›
Chains: AE, BE
Length: 206 amino acids
Theoretical weight: 22.36 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYP7 (Residues: 2-207; Coverage: 100%)
Gene names: SAB2121c, rplD
Sequence domains: Ribosomal protein L4/L1 family
50S ribosomal protein L5 Chains: AF, BF
Molecule details ›
Chains: AF, BF
Length: 175 amino acids
Theoretical weight: 19.73 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYK9 (Residues: 2-176; Coverage: 98%)
Gene names: SAB2110c, rplE
Sequence domains: Ribosomal protein L5
50S ribosomal protein L6 Chains: AG, BG
Molecule details ›
Chains: AG, BG
Length: 175 amino acids
Theoretical weight: 19.5 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYL2 (Residues: 2-176; Coverage: 98%)
Gene names: SAB2107c, rplF
Sequence domains: Ribosomal protein L6
50S ribosomal protein L13 Chains: AH, BH
Molecule details ›
Chains: AH, BH
Length: 145 amino acids
Theoretical weight: 16.36 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYM8 (Residues: 1-145; Coverage: 100%)
Gene names: SAB2091c, rplM
Sequence domains: Ribosomal protein L13
50S ribosomal protein L14 Chains: AI, BI
Molecule details ›
Chains: AI, BI
Length: 122 amino acids
Theoretical weight: 13.16 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYK7 (Residues: 1-122; Coverage: 100%)
Gene names: SAB2112c, rplN
Sequence domains: Ribosomal protein L14p/L23e
50S ribosomal protein L15 Chains: AJ, BJ
Molecule details ›
Chains: AJ, BJ
Length: 146 amino acids
Theoretical weight: 15.63 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYL6 (Residues: 1-146; Coverage: 100%)
Gene names: SAB2103c, rplO
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
50S ribosomal protein L16 Chains: AK, BK
Molecule details ›
Chains: AK, BK
Length: 137 amino acids
Theoretical weight: 15.6 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYQ3 (Residues: 1-137; Coverage: 95%)
Gene names: SAB2115c, rplP
Sequence domains: Ribosomal protein L16p/L10e
50S ribosomal protein L17 Chains: AL, BL
Molecule details ›
Chains: AL, BL
Length: 120 amino acids
Theoretical weight: 13.58 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYM3 (Residues: 3-122; Coverage: 98%)
Gene names: SAB2096c, rplQ
Sequence domains: Ribosomal protein L17
50S ribosomal protein L19 Chains: AN, BN
Molecule details ›
Chains: AN, BN
Length: 114 amino acids
Theoretical weight: 13.1 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YXM4 (Residues: 2-115; Coverage: 98%)
Gene names: SAB1105, rplS
Sequence domains: Ribosomal protein L19
50S ribosomal protein L20 Chains: AO, BO
Molecule details ›
Chains: AO, BO
Length: 116 amino acids
Theoretical weight: 13.46 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YTB1 (Residues: 2-117; Coverage: 98%)
Gene names: SAB1538c, rplT
Sequence domains: Ribosomal protein L20
50S ribosomal protein L21 Chains: AP, BP
Molecule details ›
Chains: AP, BP
Length: 102 amino acids
Theoretical weight: 11.35 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YT83 (Residues: 1-102; Coverage: 100%)
Gene names: SAB1516c, rplU
Sequence domains: Ribosomal prokaryotic L21 protein
50S ribosomal protein L22 Chains: AQ, BQ
Molecule details ›
Chains: AQ, BQ
Length: 112 amino acids
Theoretical weight: 12.33 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYQ1 (Residues: 1-112; Coverage: 96%)
Gene names: SAB2117c, rplV
Sequence domains: Ribosomal protein L22p/L17e
50S ribosomal protein L23 Chains: AR, BR
Molecule details ›
Chains: AR, BR
Length: 89 amino acids
Theoretical weight: 10.38 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYP8 (Residues: 2-90; Coverage: 98%)
Gene names: SAB2120c, rplW
Sequence domains: Ribosomal protein L23
50S ribosomal protein L24 Chains: AS, BS
Molecule details ›
Chains: AS, BS
Length: 103 amino acids
Theoretical weight: 11.32 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYK8 (Residues: 2-104; Coverage: 98%)
Gene names: SAB2111c, rplX
Sequence domains:
50S ribosomal protein L25 Chains: AT, BT
Molecule details ›
Chains: AT, BT
Length: 94 amino acids
Theoretical weight: 10.46 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A133Q8Z9 (Residues: 4-97; Coverage: 43%)
Gene names: HMPREF3211_00359, ctc, rplY
Sequence domains: Ribosomal L25p family
50S ribosomal protein L27 Chains: AU, BU
Molecule details ›
Chains: AU, BU
Length: 82 amino acids
Theoretical weight: 8.91 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A7U7PYN3 (Residues: 17-98; Coverage: 83%)
Gene names: BN1326_80186, rpmA
50S ribosomal protein L28 Chains: AV, BV
Molecule details ›
Chains: AV, BV
Length: 58 amino acids
Theoretical weight: 6.55 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YXJ2 (Residues: 3-60; Coverage: 94%)
Gene names: SAB1088c, rpmB
Sequence domains: Ribosomal L28 family
50S ribosomal protein L29 Chains: AW, BW
Molecule details ›
Chains: AW, BW
Length: 67 amino acids
Theoretical weight: 7.85 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYN0 (Residues: 2-68; Coverage: 97%)
Gene names: SAB2114c, rpmC
Sequence domains: Ribosomal L29 protein
50S ribosomal protein L30 Chains: AX, BX
Molecule details ›
Chains: AX, BX
Length: 58 amino acids
Theoretical weight: 6.43 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YYL5 (Residues: 2-59; Coverage: 98%)
Gene names: SAB2104c, rpmD
Sequence domains: Ribosomal protein L30p/L7e
50S ribosomal protein L31 type B Chains: AY, BY
Molecule details ›
Chains: AY, BY
Length: 59 amino acids
Theoretical weight: 6.91 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YUN3 (Residues: 1-59; Coverage: 70%)
Gene names: SAB2004c, rpmE2
50S ribosomal protein L32 Chains: AZ, BZ
Molecule details ›
Chains: AZ, BZ
Length: 48 amino acids
Theoretical weight: 5.57 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A1Q8DAT0 (Residues: 2-49; Coverage: 84%)
Gene names: BSZ10_12860, rpmF
50S ribosomal protein L33 Chains: A1, B1
Molecule details ›
Chains: A1, B1
Length: 47 amino acids
Theoretical weight: 5.68 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A077V2P0 (Residues: 2-48; Coverage: 96%)
Gene names: CD116_07290, ERS140147_01724, NCTC13712_01328, rpmG, rpmG2, rpmG2_1
50S ribosomal protein L34 Chains: A2, B2
Molecule details ›
Chains: A2, B2
Length: 43 amino acids
Theoretical weight: 5.25 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YZB6 (Residues: 2-44; Coverage: 96%)
Gene names: SAB2590c, rpmH
50S ribosomal protein L35 Chains: A3, B3
Molecule details ›
Chains: A3, B3
Length: 64 amino acids
Theoretical weight: 7.46 KDa
Source organism: Staphylococcus aureus RF122
UniProt:
  • Canonical: Q2YTB0 (Residues: 2-65; Coverage: 97%)
Gene names: SAB1539c, rpmI
Sequence domains: Ribosomal protein L35
50S ribosomal protein L36 Chains: A4, B4
Molecule details ›
Chains: A4, B4
Length: 37 amino acids
Theoretical weight: 4.32 KDa
Source organism: Staphylococcus aureus
UniProt:
  • Canonical: A0A077UGV8 (Residues: 1-37; Coverage: 100%)
Gene names: CD116_01915, ERS140147_00615, NCTC13712_02175, rpmJ
Sequence domains: Ribosomal protein L36
16S ribosomal RNA Chains: Aa, Ba
Molecule details ›
Chains: Aa, Ba
Length: 1539 nucleotides
Theoretical weight: 498.06 KDa
Sequence domains: Bacterial small subunit ribosomal RNA
23S ribosomal RNA Chains: AA, BA
Molecule details ›
Chains: AA, BA
Length: 2923 nucleotides
Theoretical weight: 946.7 KDa
Sequence domains: Bacterial large subunit ribosomal RNA
5S ribosomal RNA Chains: AB, BB
Molecule details ›
Chains: AB, BB
Length: 115 nucleotides
Theoretical weight: 36.97 KDa
Sequence domains: 5S ribosomal RNA

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 6.76Å
Relevant EMDB volumes: EMD-3637