ISDA

Entry Detail

PDB ID:

8Q4F

EMDB ID:

EMD-18145

Keywords:

RIBOSOME

Title:

Structure of arbekacin bound Escherichia coli 70S ribosome

Biological Source:

Source Organism:

Escherichia coli

PDB Version:

Deposition Date:

2023-08-06

Release Date:

2024-08-14

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

3.10 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL33
Chain IDs:A (auth: 0)
Chain Length:55
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7N9 Pfam ID:PF00471

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL34
Chain IDs:B (auth: 1)
Chain Length:46
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7P5 Pfam ID:PF00468

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL35
Chain IDs:C (auth: 2)
Chain Length:65
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7Q1 Pfam ID:PF01632

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL36A
Chain IDs:D (auth: 3)
Chain Length:38
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7Q6 Pfam ID:PF00444

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL31A
Chain IDs:E (auth: 4)
Chain Length:70
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7M9 Pfam ID:PF01197

Polymer Type:polyribonucleotide
Description:16S rRNA
Chain IDs:F (auth: A)
Chain Length:1542
Number of Molecules:1
Biological Source:Escherichia coli

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS2
Chain IDs:G (auth: B)
Chain Length:241
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7V0 Pfam ID:PF00318

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS3
Chain IDs:H (auth: C)
Chain Length:233
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7V3 Pfam ID:PF07650, PF00189

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS4
Chain IDs:I (auth: D)
Chain Length:206
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7V8 Pfam ID:PF00163, PF01479

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS5
Chain IDs:J (auth: E)
Chain Length:167
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7W1 Pfam ID:PF00333, PF03719

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein bS6, fully modified isoform
Chain IDs:K (auth: F)
Chain Length:135
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P02358 Pfam ID:PF01250

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS7
Chain IDs:L (auth: G)
Chain Length:179
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P02359 Pfam ID:PF00177

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS8
Chain IDs:M (auth: H)
Chain Length:130
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7W7 Pfam ID:PF00410

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS9
Chain IDs:N (auth: I)
Chain Length:130
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7X3 Pfam ID:PF00380

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS10
Chain IDs:O (auth: J)
Chain Length:123
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7R5 Pfam ID:PF00338

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS11
Chain IDs:P (auth: K)
Chain Length:129
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7R9 Pfam ID:PF00411

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS12
Chain IDs:Q (auth: L)
Chain Length:136
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7S3 Pfam ID:PF00164

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS13
Chain IDs:R (auth: M)
Chain Length:127
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7S9 Pfam ID:PF00416

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS14
Chain IDs:S (auth: N)
Chain Length:101
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0AG59 Pfam ID:PF00253

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS15
Chain IDs:T (auth: O)
Chain Length:115
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0ADZ4 Pfam ID:PF00312

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein bS16
Chain IDs:U (auth: P)
Chain Length:82
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7T3 Pfam ID:PF00886

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS17
Chain IDs:V (auth: Q)
Chain Length:84
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0AG63 Pfam ID:PF00366

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein bS18
Chain IDs:W (auth: R)
Chain Length:75
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7T7 Pfam ID:PF01084

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein uS19
Chain IDs:X (auth: S)
Chain Length:100
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7U3 Pfam ID:PF00203

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein bS20
Chain IDs:Y (auth: T)
Chain Length:104
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7U7 Pfam ID:PF01649

Protein Blast

Polymer Type:polypeptide(L)
Description:Small ribosomal subunit protein bS21
Chain IDs:Z (auth: U)
Chain Length:71
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P68679 Pfam ID:PF01165

Polymer Type:polyribonucleotide
Description:mRNA
Chain IDs:AA (auth: X)
Chain Length:63
Number of Molecules:1
Biological Source:Escherichia coli

Polymer Type:polyribonucleotide
Description:tRNA-fMet
Chain IDs:BA (auth: Z)
Chain Length:76
Number of Molecules:1
Biological Source:Escherichia coli

Polymer Type:polyribonucleotide
Description:23S rRNA
Chain IDs:CA (auth: a)
Chain Length:1542
Number of Molecules:1
Biological Source:Escherichia coli

Polymer Type:polyribonucleotide
Description:5S rRNA
Chain IDs:DA (auth: b)
Chain Length:241
Number of Molecules:1
Biological Source:Escherichia coli

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL2
Chain IDs:EA (auth: c)
Chain Length:233
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P60422 Pfam ID:PF00181, PF03947

Protein Blast

Polymer Type:polypeptide(L)
Description:50S ribosomal protein L3
Chain IDs:FA (auth: d)
Chain Length:206
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P60438 Pfam ID:PF00297

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL4
Chain IDs:GA (auth: e)
Chain Length:167
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P60723 Pfam ID:PF00573

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL5
Chain IDs:HA (auth: f)
Chain Length:135
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P62399 Pfam ID:PF00281, PF00673

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL6
Chain IDs:IA (auth: g)
Chain Length:179
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0AG55 Pfam ID:PF00347

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL13
Chain IDs:JA (auth: i)
Chain Length:130
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0AA10 Pfam ID:PF00572

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL14
Chain IDs:KA (auth: j)
Chain Length:123
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0ADY3 Pfam ID:PF00238

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL15
Chain IDs:LA (auth: k)
Chain Length:129
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P02413 Pfam ID:PF00828

Protein Blast

Polymer Type:polypeptide(L)
Description:50S ribosomal protein L16
Chain IDs:MA (auth: l)
Chain Length:136
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0ADY7 Pfam ID:PF00252

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL17
Chain IDs:NA (auth: m)
Chain Length:127
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0AG44 Pfam ID:PF01196

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL18
Chain IDs:OA (auth: n)
Chain Length:101
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0C018 Pfam ID:PF00861

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL19
Chain IDs:PA (auth: o)
Chain Length:115
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7K6 Pfam ID:PF01245

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL20
Chain IDs:QA (auth: p)
Chain Length:82
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7L3 Pfam ID:PF00453

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL21
Chain IDs:RA (auth: q)
Chain Length:84
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0AG48 Pfam ID:PF00829

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL23
Chain IDs:SA (auth: s)
Chain Length:100
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0ADZ0 Pfam ID:PF00276

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL24
Chain IDs:TA (auth: t)
Chain Length:104
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P60624 Pfam ID:PF00467, PF17136

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL25
Chain IDs:UA (auth: u)
Chain Length:71
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P68919 Pfam ID:PF01386

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL27
Chain IDs:VA (auth: v)
Chain Length:85
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7L8 Pfam ID:PF01016

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL28
Chain IDs:WA (auth: w)
Chain Length:78
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7M2 Pfam ID:PF00830

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL29
Chain IDs:XA (auth: x)
Chain Length:63
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7M6 Pfam ID:PF00831

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein uL30
Chain IDs:YA (auth: y)
Chain Length:59
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0AG51 Pfam ID:PF00327

Protein Blast

Polymer Type:polypeptide(L)
Description:Large ribosomal subunit protein bL32
Chain IDs:ZA (auth: z)
Chain Length:76
Number of Molecules:1
Biological Source:Escherichia coli

UniProt ID:P0A7N4 Pfam ID:PF01783

Ligand Molecules

84G

Primary Citation

Structure of arbekacin bound Escherichia coli 70S ribosome

Majumdar, S, Parajuli, N.P, Ge, X, Emmerich, A, Sanyal, S.Show

To be published ? ? ? (?)

Primary Citation of related structures