PDBe 4v6m

Electron Microscopy
7.1Å resolution

Structure of the ribosome-SecYE complex in the membrane environment

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero 60-mer (preferred)
Entry contents:
54 distinct polypeptide molecules
5 distinct RNA molecules
Macromolecules (59 distinct):
Cell division protein FtsQ Chain: AZ
Molecule details ›
Chain: AZ
Length: 98 amino acids
Theoretical weight: 11.09 KDa
Source organism: Escherichia coli O157:H7
UniProt:
  • Canonical: Q8X9Y5 (Residues: 22-103; Coverage: 30%)
Gene names: CAM50_0024315, ECs_0097, EWM66_01050, ftsQ
Truncated apolipoprotein A-I Chains: A0, A1
Molecule details ›
Chains: A0, A1
Length: 200 amino acids
Theoretical weight: 23.31 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P02647 (Residues: 68-267; Coverage: 80%)
Gene name: APOA1
Sequence domains: Apolipoprotein A1/A4/E domain
30S ribosomal protein S2 Chain: AB
Molecule details ›
Chain: AB
Length: 240 amino acids
Theoretical weight: 26.65 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7V0 (Residues: 2-241; Coverage: 100%)
Gene names: JW0164, b0169, rpsB
Sequence domains: Ribosomal protein S2
30S ribosomal protein S3 Chain: AC
Molecule details ›
Chain: AC
Length: 232 amino acids
Theoretical weight: 25.9 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7V3 (Residues: 2-233; Coverage: 100%)
Gene names: JW3276, b3314, rpsC
Sequence domains:
30S ribosomal protein S4 Chain: AD
Molecule details ›
Chain: AD
Length: 205 amino acids
Theoretical weight: 23.38 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7V8 (Residues: 2-206; Coverage: 100%)
Gene names: JW3258, b3296, ramA, rpsD
Sequence domains:
30S ribosomal protein S5 Chain: AE
Molecule details ›
Chain: AE
Length: 166 amino acids
Theoretical weight: 17.5 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7W1 (Residues: 2-167; Coverage: 99%)
Gene names: JW3265, b3303, rpsE, spc
Sequence domains:
30S ribosomal protein S6 Chain: AF
Molecule details ›
Chain: AF
Length: 135 amino acids
Theoretical weight: 15.73 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P02358 (Residues: 1-135; Coverage: 100%)
Gene names: JW4158, b4200, rpsF
Sequence domains: Ribosomal protein S6
30S ribosomal protein S7 Chain: AG
Molecule details ›
Chain: AG
Length: 178 amino acids
Theoretical weight: 19.92 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P02359 (Residues: 2-179; Coverage: 99%)
Gene names: JW3303, b3341, rpsG
30S ribosomal protein S8 Chain: AH
Molecule details ›
Chain: AH
Length: 129 amino acids
Theoretical weight: 14.02 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7W7 (Residues: 2-130; Coverage: 99%)
Gene names: JW3268, b3306, rpsH
Sequence domains: Ribosomal protein S8
30S ribosomal protein S9 Chain: AI
Molecule details ›
Chain: AI
Length: 129 amino acids
Theoretical weight: 14.76 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7X3 (Residues: 2-130; Coverage: 99%)
Gene names: JW3199, b3230, rpsI
Sequence domains: Ribosomal protein S9/S16
30S ribosomal protein S10 Chain: AJ
Molecule details ›
Chain: AJ
Length: 103 amino acids
Theoretical weight: 11.76 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7R5 (Residues: 1-103; Coverage: 100%)
Gene names: JW3283, b3321, nusE, rpsJ
Sequence domains: Ribosomal protein S10p/S20e
30S ribosomal protein S11 Chain: AK
Molecule details ›
Chain: AK
Length: 128 amino acids
Theoretical weight: 13.74 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7R9 (Residues: 2-129; Coverage: 99%)
Gene names: JW3259, b3297, rpsK
Sequence domains: Ribosomal protein S11
30S ribosomal protein S12 Chain: AL
Molecule details ›
Chain: AL
Length: 123 amino acids
Theoretical weight: 13.64 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7S3 (Residues: 2-124; Coverage: 99%)
Gene names: JW3304, b3342, rpsL, strA
Sequence domains: Ribosomal protein S12/S23
30S ribosomal protein S15 Chain: AM
Molecule details ›
Chain: AM
Length: 117 amino acids
Theoretical weight: 13 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0ADZ4 (Residues: 63-72, 73-87; Coverage: 28%)
Gene names: JW3134, b3165, rpsO, secC
30S ribosomal protein S14 Chain: AN
Molecule details ›
Chain: AN
Length: 100 amino acids
Theoretical weight: 11.48 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0AG59 (Residues: 2-101; Coverage: 99%)
Gene names: JW3269, b3307, rpsN
Sequence domains: Ribosomal protein S14p/S29e
30S ribosomal protein S15 Chain: AO
Molecule details ›
Chain: AO
Length: 88 amino acids
Theoretical weight: 10.19 KDa
Source organism: Escherichia coli K-12
30S ribosomal protein S16 Chain: AP
Molecule details ›
Chain: AP
Length: 82 amino acids
Theoretical weight: 9.21 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7T3 (Residues: 1-82; Coverage: 100%)
Gene names: JW2590, b2609, rpsP
Sequence domains: Ribosomal protein S16
30S ribosomal protein S17 Chain: AQ
Molecule details ›
Chain: AQ
Length: 83 amino acids
Theoretical weight: 9.59 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0AG63 (Residues: 2-84; Coverage: 99%)
Gene names: JW3273, b3311, neaA, rpsQ
Sequence domains: Ribosomal protein S17
30S ribosomal protein S18 Chain: AR
Molecule details ›
Chain: AR
Length: 74 amino acids
Theoretical weight: 8.87 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7T7 (Residues: 2-75; Coverage: 99%)
Gene names: JW4160, b4202, rpsR
Sequence domains: Ribosomal protein S18
30S ribosomal protein S19 Chain: AS
Molecule details ›
Chain: AS
Length: 91 amino acids
Theoretical weight: 10.32 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7U3 (Residues: 2-92; Coverage: 99%)
Gene names: JW3278, b3316, rpsS
Sequence domains: Ribosomal protein S19
30S ribosomal protein S20 Chain: AT
Molecule details ›
Chain: AT
Length: 86 amino acids
Theoretical weight: 9.58 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7U7 (Residues: 2-87; Coverage: 99%)
Gene names: JW0022, b0023, rpsT
Sequence domains: Ribosomal protein S20
30S ribosomal protein S21 Chain: AU
Molecule details ›
Chain: AU
Length: 70 amino acids
Theoretical weight: 8.39 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P68679 (Residues: 2-71; Coverage: 99%)
Gene names: JW3037, b3065, rpsU
Sequence domains: Ribosomal protein S21
Protein translocase subunit SecY Chain: BA
Molecule details ›
Chain: BA
Length: 435 amino acids
Theoretical weight: 47.67 KDa
Source organism: Escherichia coli 536
UniProt:
  • Canonical: A0A454A8B1 (Residues: 8-442; Coverage: 98%)
Gene names: ECP_3388, secY
Protein translocase subunit SecE Chain: BB
Molecule details ›
Chain: BB
Length: 116 amino acids
Theoretical weight: 12.62 KDa
Source organism: Escherichia coli 536
UniProt:
  • Canonical: A0A454AA55 (Residues: 12-127; Coverage: 91%)
Gene names: ECP_4194, secE
50S ribosomal protein L1 Chain: B5
Molecule details ›
Chain: B5
Length: 234 amino acids
Theoretical weight: 24.77 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7L0 (Residues: 1-234; Coverage: 100%)
Gene names: JW3947, b3984, rplA
Sequence domains: Ribosomal protein L1p/L10e family
50S ribosomal protein L2 Chain: B6
Molecule details ›
Chain: B6
Length: 272 amino acids
Theoretical weight: 29.79 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P60422 (Residues: 2-273; Coverage: 100%)
Gene names: JW3279, b3317, rplB
Sequence domains:
50S ribosomal protein L3 Chain: BD
Molecule details ›
Chain: BD
Length: 209 amino acids
Theoretical weight: 22.28 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P60438 (Residues: 1-209; Coverage: 100%)
Gene names: JW3282, b3320, rplC
Sequence domains: Ribosomal protein L3
50S ribosomal protein L4 Chain: BE
Molecule details ›
Chain: BE
Length: 201 amino acids
Theoretical weight: 22.12 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P60723 (Residues: 1-201; Coverage: 100%)
Gene names: JW3281, b3319, eryA, rplD
Sequence domains: Ribosomal protein L4/L1 family
50S ribosomal protein L5 Chain: BF
Molecule details ›
Chain: BF
Length: 178 amino acids
Theoretical weight: 20.2 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P62399 (Residues: 2-179; Coverage: 99%)
Gene names: JW3270, b3308, rplE
Sequence domains:
50S ribosomal protein L6 Chain: BG
Molecule details ›
Chain: BG
Length: 176 amino acids
Theoretical weight: 18.8 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0AG55 (Residues: 2-177; Coverage: 99%)
Gene names: JW3267, b3305, rplF
Sequence domains: Ribosomal protein L6
50S ribosomal protein L9 Chain: BH
Molecule details ›
Chain: BH
Length: 149 amino acids
Theoretical weight: 15.79 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7R1 (Residues: 1-149; Coverage: 100%)
Gene names: JW4161, b4203, rplI
Sequence domains:
50S ribosomal protein L11 Chain: BI
Molecule details ›
Chain: BI
Length: 141 amino acids
Theoretical weight: 14.76 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7J7 (Residues: 2-142; Coverage: 99%)
Gene names: JW3946, b3983, relC, rplK
Sequence domains:
50S ribosomal protein L13 Chain: BJ
Molecule details ›
Chain: BJ
Length: 142 amino acids
Theoretical weight: 16.05 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0AA10 (Residues: 1-142; Coverage: 100%)
Gene names: JW3200, b3231, rplM
Sequence domains: Ribosomal protein L13
50S ribosomal protein L14 Chain: BK
Molecule details ›
Chain: BK
Length: 123 amino acids
Theoretical weight: 13.57 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0ADY3 (Residues: 1-123; Coverage: 100%)
Gene names: JW3272, b3310, rplN
Sequence domains: Ribosomal protein L14p/L23e
50S ribosomal protein L15 Chain: BL
Molecule details ›
Chain: BL
Length: 144 amino acids
Theoretical weight: 15.01 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P02413 (Residues: 1-144; Coverage: 100%)
Gene names: JW3263, b3301, rplO
Sequence domains: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
50S ribosomal protein L16 Chain: BM
Molecule details ›
Chain: BM
Length: 136 amino acids
Theoretical weight: 15.31 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0ADY7 (Residues: 1-136; Coverage: 100%)
Gene names: JW3275, b3313, rplP
Sequence domains: Ribosomal protein L16p/L10e
50S ribosomal protein L17 Chain: BN
Molecule details ›
Chain: BN
Length: 127 amino acids
Theoretical weight: 14.39 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0AG44 (Residues: 1-127; Coverage: 100%)
Gene names: JW3256, b3294, rplQ
Sequence domains: Ribosomal protein L17
50S ribosomal protein L18 Chain: BO
Molecule details ›
Chain: BO
Length: 117 amino acids
Theoretical weight: 12.79 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0C018 (Residues: 1-117; Coverage: 100%)
Gene names: JW3266, b3304, rplR
Sequence domains: Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast
50S ribosomal protein L19 Chain: BP
Molecule details ›
Chain: BP
Length: 114 amino acids
Theoretical weight: 13.03 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7K6 (Residues: 2-115; Coverage: 99%)
Gene names: JW2587, b2606, rplS
Sequence domains: Ribosomal protein L19
50S ribosomal protein L20 Chain: BQ
Molecule details ›
Chain: BQ
Length: 117 amino acids
Theoretical weight: 13.4 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7L3 (Residues: 2-118; Coverage: 99%)
Gene names: JW1706, b1716, pdzA, rplT
Sequence domains: Ribosomal protein L20
50S ribosomal protein L21 Chain: BR
Molecule details ›
Chain: BR
Length: 103 amino acids
Theoretical weight: 11.59 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0AG48 (Residues: 1-103; Coverage: 100%)
Gene names: JW3153, b3186, rplU
Sequence domains: Ribosomal prokaryotic L21 protein
50S ribosomal protein L22 Chain: BS
Molecule details ›
Chain: BS
Length: 110 amino acids
Theoretical weight: 12.25 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P61175 (Residues: 1-110; Coverage: 100%)
Gene names: JW3277, b3315, eryB, rplV
Sequence domains: Ribosomal protein L22p/L17e
50S ribosomal protein L23 Chain: BT
Molecule details ›
Chain: BT
Length: 100 amino acids
Theoretical weight: 11.22 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0ADZ0 (Residues: 1-100; Coverage: 100%)
Gene names: JW3280, b3318, rplW
Sequence domains: Ribosomal protein L23
50S ribosomal protein L24 Chain: BU
Molecule details ›
Chain: BU
Length: 103 amino acids
Theoretical weight: 11.21 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P60624 (Residues: 2-104; Coverage: 99%)
Gene names: JW3271, b3309, rplX
Sequence domains:
50S ribosomal protein L25 Chain: BV
Molecule details ›
Chain: BV
Length: 94 amino acids
Theoretical weight: 10.71 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P68919 (Residues: 1-94; Coverage: 100%)
Gene names: JW2173, b2185, rplY
Sequence domains: Ribosomal L25p family
50S ribosomal protein L27 Chain: BW
Molecule details ›
Chain: BW
Length: 84 amino acids
Theoretical weight: 9.02 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7L8 (Residues: 2-85; Coverage: 99%)
Gene names: JW3152, b3185, rpmA
Sequence domains: Ribosomal L27 protein
50S ribosomal protein L28 Chain: BX
Molecule details ›
Chain: BX
Length: 77 amino acids
Theoretical weight: 8.9 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7M2 (Residues: 2-78; Coverage: 99%)
Gene names: JW3612, b3637, rpmB
Sequence domains: Ribosomal L28 family
50S ribosomal protein L29 Chain: BY
Molecule details ›
Chain: BY
Length: 63 amino acids
Theoretical weight: 7.29 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7M6 (Residues: 1-63; Coverage: 100%)
Gene names: JW3274, b3312, rpmC
Sequence domains: Ribosomal L29 protein
50S ribosomal protein L30 Chain: BZ
Molecule details ›
Chain: BZ
Length: 58 amino acids
Theoretical weight: 6.42 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0AG51 (Residues: 2-59; Coverage: 98%)
Gene names: JW3264, b3302, rpmD
Sequence domains: Ribosomal protein L30p/L7e
50S ribosomal protein L32 Chain: B0
Molecule details ›
Chain: B0
Length: 56 amino acids
Theoretical weight: 6.33 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7N4 (Residues: 2-57; Coverage: 98%)
Gene names: JW1075, b1089, rpmF
Sequence domains: Ribosomal L32p protein family
50S ribosomal protein L33 Chain: B1
Molecule details ›
Chain: B1
Length: 54 amino acids
Theoretical weight: 6.26 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7N9 (Residues: 2-55; Coverage: 98%)
Gene names: JW3611, b3636, rpmG
Sequence domains: Ribosomal protein L33
50S ribosomal protein L34 Chain: B2
Molecule details ›
Chain: B2
Length: 46 amino acids
Theoretical weight: 5.4 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7P5 (Residues: 1-46; Coverage: 100%)
Gene names: JW3680, b3703, rimA, rpmH, ssaF
Sequence domains: Ribosomal protein L34
50S ribosomal protein L35 Chain: B3
Molecule details ›
Chain: B3
Length: 64 amino acids
Theoretical weight: 7.18 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7Q1 (Residues: 2-65; Coverage: 99%)
Gene names: JW1707, b1717, rpmI
Sequence domains: Ribosomal protein L35
50S ribosomal protein L36 Chain: B4
Molecule details ›
Chain: B4
Length: 38 amino acids
Theoretical weight: 4.38 KDa
Source organism: Escherichia coli K-12
UniProt:
  • Canonical: P0A7Q6 (Residues: 1-38; Coverage: 100%)
Gene names: JW3261, b3299, rpmJ
Sequence domains: Ribosomal protein L36
16S ribosomal RNA Chain: AA
Molecule details ›
Chain: AA
Length: 1542 nucleotides
Theoretical weight: 499.69 KDa
Sequence domains: Bacterial small subunit ribosomal RNA
Messenger RNA Chain: AX
Molecule details ›
Chain: AX
Length: 11 nucleotides
Theoretical weight: 3.44 KDa
FtsQ nascent chain Chain: AV
Molecule details ›
Chain: AV
Length: 77 nucleotides
Theoretical weight: 24.88 KDa
Sequence domains: tRNA
5S ribosomal RNA Chain: B7
Molecule details ›
Chain: B7
Length: 120 nucleotides
Theoretical weight: 38.79 KDa
Sequence domains: 5S ribosomal RNA
23S ribosomal RNA Chain: B8
Molecule details ›
Chain: B8
Length: 2904 nucleotides
Theoretical weight: 941.61 KDa
Sequence domains: Bacterial large subunit ribosomal RNA

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 7.1Å
Relevant EMDB volumes: EMD-1858
Expression system: Not provided