› 4v4g

X-ray diffraction
11.5Å resolution

Crystal structure of five 70s ribosomes from Escherichia Coli in complex with protein Y.

Released:
DOI: 10.2210/pdb4v4g/pdb
PDB entry 4v4g coloured by chain, front view.
PDB entry 4v4g coloured by chain, side view.
PDB entry 4v4g coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Structural basis for the control of translation initiation during stress.
Vila-Sanjurjo A, Schuwirth BS, Hau CW, Cate JH
Nat Struct Mol Biol 11 1054-9 (2004)
PMID: 15502846

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero 53-mer (preferred)
PDBe Complex ID:
PDB-CPX-165262 (preferred)
Entry contents:
50 distinct polypeptide molecules
3 distinct RNA molecules
Macromolecules (53 distinct):
30S ribosomal protein S2 Chains: AB, CB, EB, GB, IB
Molecule details ›
Chains: AB, CB, EB, GB, IB
Length: 234 amino acids
Theoretical weight: 26.99 KDa
Source organism: Escherichia coli
30S ribosomal protein S3 Chains: AC, CC, EC, GC, IC
Molecule details ›
Chains: AC, CC, EC, GC, IC
Length: 206 amino acids
Theoretical weight: 22.86 KDa
Source organism: Escherichia coli
30S ribosomal protein S4 Chains: AD, CD, ED, GD, ID
Molecule details ›
Chains: AD, CD, ED, GD, ID
Length: 208 amino acids
Theoretical weight: 24.24 KDa
Source organism: Escherichia coli
30S ribosomal protein S5 Chains: AE, CE, EE, GE, IE
Molecule details ›
Chains: AE, CE, EE, GE, IE
Length: 150 amino acids
Theoretical weight: 16.33 KDa
Source organism: Escherichia coli
30S ribosomal protein S6 Chains: AF, CF, EF, GF, IF
Molecule details ›
Chains: AF, CF, EF, GF, IF
Length: 101 amino acids
Theoretical weight: 11.99 KDa
Source organism: Escherichia coli
30S ribosomal protein S7 Chains: AG, CG, EG, GG, IG
Molecule details ›
Chains: AG, CG, EG, GG, IG
Length: 155 amino acids
Theoretical weight: 17.92 KDa
Source organism: Escherichia coli
30S ribosomal protein S8 Chains: AH, CH, EH, GH, IH
Molecule details ›
Chains: AH, CH, EH, GH, IH
Length: 138 amino acids
Theoretical weight: 15.87 KDa
Source organism: Escherichia coli
30S ribosomal protein S9 Chains: AI, CI, EI, GI, II
Molecule details ›
Chains: AI, CI, EI, GI, II
Length: 127 amino acids
Theoretical weight: 14.3 KDa
Source organism: Escherichia coli
30S ribosomal protein S10 Chains: AJ, CJ, EJ, GJ, IJ
Molecule details ›
Chains: AJ, CJ, EJ, GJ, IJ
Length: 98 amino acids
Theoretical weight: 11.3 KDa
Source organism: Escherichia coli
30S ribosomal protein S11 Chains: AK, CK, EK, GK, IK
Molecule details ›
Chains: AK, CK, EK, GK, IK
Length: 119 amino acids
Theoretical weight: 12.61 KDa
Source organism: Escherichia coli
30S ribosomal protein S12 Chains: AL, CL, EL, GL, IL
Molecule details ›
Chains: AL, CL, EL, GL, IL
Length: 124 amino acids
Theoretical weight: 13.8 KDa
Source organism: Escherichia coli
30S ribosomal protein S13 Chains: AM, CM, EM, GM, IM
Molecule details ›
Chains: AM, CM, EM, GM, IM
Length: 125 amino acids
Theoretical weight: 14.21 KDa
Source organism: Escherichia coli
30S ribosomal protein S14 Chains: AN, CN, EN, GN, IN
Molecule details ›
Chains: AN, CN, EN, GN, IN
Length: 60 amino acids
Theoretical weight: 7.03 KDa
Source organism: Escherichia coli
30S ribosomal protein S15 Chains: AO, CO, EO, GO, IO
Molecule details ›
Chains: AO, CO, EO, GO, IO
Length: 88 amino acids
Theoretical weight: 10.45 KDa
Source organism: Escherichia coli
30S ribosomal protein S16 Chains: AP, CP, EP, GP, IP
Molecule details ›
Chains: AP, CP, EP, GP, IP
Length: 83 amino acids
Theoretical weight: 9.92 KDa
Source organism: Escherichia coli
30S ribosomal protein S17 Chains: AQ, CQ, EQ, GQ, IQ
Molecule details ›
Chains: AQ, CQ, EQ, GQ, IQ
Length: 104 amino acids
Theoretical weight: 12.19 KDa
Source organism: Escherichia coli
30S ribosomal protein S18 Chains: AR, CR, ER, GR, IR
Molecule details ›
Chains: AR, CR, ER, GR, IR
Length: 73 amino acids
Theoretical weight: 8.48 KDa
Source organism: Escherichia coli
30S ribosomal protein S19 Chains: AS, CS, ES, GS, IS
Molecule details ›
Chains: AS, CS, ES, GS, IS
Length: 80 amino acids
Theoretical weight: 9.2 KDa
Source organism: Escherichia coli
30S ribosomal protein S20 Chains: AT, CT, ET, GT, IT
Molecule details ›
Chains: AT, CT, ET, GT, IT
Length: 99 amino acids
Theoretical weight: 10.91 KDa
Source organism: Escherichia coli
protein Y Chains: Aa, Ca, Ea, Ga, Ia
Molecule details ›
Chains: Aa, Ca, Ea, Ga, Ia
Length: 90 amino acids
Theoretical weight: 10.25 KDa
Source organism: Escherichia coli
50S ribosomal protein L2 Chains: BD, DD, FD, HD, JD
Molecule details ›
Chains: BD, DD, FD, HD, JD
Length: 270 amino acids
Theoretical weight: 29.52 KDa
Source organism: Escherichia coli
50S ribosomal protein L3 Chains: BE, DE, FE, HE, JE
Molecule details ›
Chains: BE, DE, FE, HE, JE
Length: 205 amino acids
Theoretical weight: 21.96 KDa
Source organism: Escherichia coli
50S ribosomal protein L4 Chains: BF, DF, FF, HF, JF
Molecule details ›
Chains: BF, DF, FF, HF, JF
Length: 198 amino acids
Theoretical weight: 21.5 KDa
Source organism: Escherichia coli
50S ribosomal protein L5 Chains: BG, DG, FG, HG, JG
Molecule details ›
Chains: BG, DG, FG, HG, JG
Length: 178 amino acids
Theoretical weight: 20.12 KDa
Source organism: Escherichia coli
50S ribosomal protein L6 Chains: BH, DH, FH, HH, JH
Molecule details ›
Chains: BH, DH, FH, HH, JH
Length: 177 amino acids
Theoretical weight: 18.68 KDa
Source organism: Escherichia coli
50S ribosomal protein L9 Chains: BI, DI, FI, HI, JI
Molecule details ›
Chains: BI, DI, FI, HI, JI
Length: 52 amino acids
Theoretical weight: 5.73 KDa
Source organism: Escherichia coli
50S ribosomal protein L11 Chains: BJ, DJ, FJ, HJ, JJ
Molecule details ›
Chains: BJ, DJ, FJ, HJ, JJ
Length: 143 amino acids
Theoretical weight: 14.82 KDa
Source organism: Escherichia coli
50S ribosomal protein L13 Chains: BK, DK, FK, HK, JK
Molecule details ›
Chains: BK, DK, FK, HK, JK
Length: 143 amino acids
Theoretical weight: 15.94 KDa
Source organism: Escherichia coli
50S ribosomal protein L14 Chains: BL, DL, FL, HL, JL
Molecule details ›
Chains: BL, DL, FL, HL, JL
Length: 132 amino acids
Theoretical weight: 14.01 KDa
Source organism: Escherichia coli
50S ribosomal protein L15 Chains: BM, DM, FM, HM, JM
Molecule details ›
Chains: BM, DM, FM, HM, JM
Length: 141 amino acids
Theoretical weight: 15.18 KDa
Source organism: Escherichia coli
50S ribosomal protein L16 Chains: BN, DN, FN, HN, JN
Molecule details ›
Chains: BN, DN, FN, HN, JN
Length: 124 amino acids
Theoretical weight: 14.03 KDa
Source organism: Escherichia coli
50S ribosomal protein L17 Chains: BO, DO, FO, HO, JO
Molecule details ›
Chains: BO, DO, FO, HO, JO
Length: 114 amino acids
Theoretical weight: 12.64 KDa
Source organism: Escherichia coli
50S ribosomal protein L18 Chains: BP, DP, FP, HP, JP
Molecule details ›
Chains: BP, DP, FP, HP, JP
Length: 111 amino acids
Theoretical weight: 11.86 KDa
Source organism: Escherichia coli
50S ribosomal protein L19 Chains: BQ, DQ, FQ, HQ, JQ
Molecule details ›
Chains: BQ, DQ, FQ, HQ, JQ
Length: 125 amino acids
Theoretical weight: 14.32 KDa
Source organism: Escherichia coli
50S ribosomal protein L20 Chains: BR, DR, FR, HR, JR
Molecule details ›
Chains: BR, DR, FR, HR, JR
Length: 117 amino acids
Theoretical weight: 13.86 KDa
Source organism: Escherichia coli
50S ribosomal protein L21 Chains: BS, DS, FS, HS, JS
Molecule details ›
Chains: BS, DS, FS, HS, JS
Length: 100 amino acids
Theoretical weight: 11.17 KDa
Source organism: Escherichia coli
50S ribosomal protein L22 Chains: BT, DT, FT, HT, JT
Molecule details ›
Chains: BT, DT, FT, HT, JT
Length: 130 amino acids
Theoretical weight: 14.79 KDa
Source organism: Escherichia coli
50S ribosomal protein L23 Chains: BU, DU, FU, HU, JU
Molecule details ›
Chains: BU, DU, FU, HU, JU
Length: 93 amino acids
Theoretical weight: 10.34 KDa
Source organism: Escherichia coli
50S ribosomal protein L24 Chains: BV, DV, FV, HV, JV
Molecule details ›
Chains: BV, DV, FV, HV, JV
Length: 113 amino acids
Theoretical weight: 12.14 KDa
Source organism: Escherichia coli
general stress protein Ctc Chains: BW, DW, FW, HW, JW
Molecule details ›
Chains: BW, DW, FW, HW, JW
Length: 173 amino acids
Theoretical weight: 18.93 KDa
Source organism: Escherichia coli
50S ribosomal protein L27 Chains: BX, DX, FX, HX, JX
Molecule details ›
Chains: BX, DX, FX, HX, JX
Length: 86 amino acids
Theoretical weight: 9.12 KDa
Source organism: Escherichia coli
50S ribosomal protein L29 Chains: BY, DY, FY, HY, JY
Molecule details ›
Chains: BY, DY, FY, HY, JY
Length: 65 amino acids
Theoretical weight: 7.52 KDa
Source organism: Escherichia coli
50S ribosomal protein L30 Chains: BZ, DZ, FZ, HZ, JZ
Molecule details ›
Chains: BZ, DZ, FZ, HZ, JZ
Length: 55 amino acids
Theoretical weight: 6.08 KDa
Source organism: Escherichia coli
50S ribosomal protein L31 Chains: B1, D1, F1, H1, J1
Molecule details ›
Chains: B1, D1, F1, H1, J1
Length: 73 amino acids
Theoretical weight: 8.6 KDa
Source organism: Escherichia coli
50S ribosomal protein L32 Chains: B2, D2, F2, H2, J2
Molecule details ›
Chains: B2, D2, F2, H2, J2
Length: 58 amino acids
Theoretical weight: 6.58 KDa
Source organism: Escherichia coli
50S ribosomal protein L33 Chains: B3, D3, F3, H3, J3
Molecule details ›
Chains: B3, D3, F3, H3, J3
Length: 53 amino acids
Theoretical weight: 6.14 KDa
Source organism: Escherichia coli
50S ribosomal protein L34 Chains: B4, D4, F4, H4, J4
Molecule details ›
Chains: B4, D4, F4, H4, J4
Length: 46 amino acids
Theoretical weight: 5.5 KDa
Source organism: Escherichia coli
50S ribosomal protein L35 Chains: B5, D5, F5, H5, J5
Molecule details ›
Chains: B5, D5, F5, H5, J5
Length: 63 amino acids
Theoretical weight: 7.13 KDa
Source organism: Escherichia coli
50S ribosomal protein L36 Chains: B6, D6, F6, H6, J6
Molecule details ›
Chains: B6, D6, F6, H6, J6
Length: 35 amino acids
Theoretical weight: 4.13 KDa
Source organism: Escherichia coli
50S ribosomal protein L1P Chains: B7, D7, F7, H7, J7
Molecule details ›
Chains: B7, D7, F7, H7, J7
Length: 217 amino acids
Theoretical weight: 24.69 KDa
Source organism: Escherichia coli
16S ribosomal RNA Chains: AA, CA, EA, GA, IA
Molecule details ›
Chains: AA, CA, EA, GA, IA
Length: 1526 nucleotides
Theoretical weight: 495.44 KDa
Sequence domains: Bacterial small subunit ribosomal RNA
23S ribosomal RNA Chains: BB, DB, FB, HB, JB
Molecule details ›
Chains: BB, DB, FB, HB, JB
Length: 2825 nucleotides
Theoretical weight: 915.85 KDa
Sequence domains: Bacterial large subunit ribosomal RNA
5S ribosomal RNA Chains: BA, DA, FA, HA, JA
Molecule details ›
Chains: BA, DA, FA, HA, JA
Length: 119 nucleotides
Theoretical weight: 38.37 KDa
Sequence domains: 5S ribosomal RNA

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 20 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.3.1
Spacegroup: I422
Unit cell:
a: 687.9Å b: 687.9Å c: 1,933.3Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.395 0.395 0.401

Quick links

Citations

14 review citations

Regulation of translation via mRNA structure in prokaryotes and eukaryotes.
Kozak M. (2005)
13 more

1 mention without citation

NGL viewer: web-based molecular graphics for large complexes.
Rose et al. (2018)