Structure analysis

Pooled 50S subunit C-CP_L2-L28 precursor states supplemented with Api137

Electron Microscopy
3.01Å resolution
Source organisms:
Assembly composition:
hetero octadecamer (preferred)
Entry contents: 17 distinct polypeptide molecules
1 distinct RNA molecule

Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero octadecamer
Accessible surface area: 317507.38 Å2
Buried surface area: 81782.14 Å2
Dissociation area: 897.11 Å2
Dissociation energy (ΔGdiss): -3.33 kcal/mol
Dissociation entropy (TΔSdiss): 9.08 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-284181

Macromolecules

Chain: 0
Length: 56 amino acids
Theoretical weight: 6.33 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7N4 (Residues: 2-57; Coverage: 98%)
Gene names: JW1075, b1089, rpmF
Pfam: Ribosomal L32p protein family
PDBe-KB: UniProt Coverage View: P0A7N4  
156510152025303540455055
 
2040AVQQNKPTRSKRGMRRSHDALTAVTSLSVDKTSGEKHLRHHITADGYYRGRKVIAK
UniProt
P0A7N4
Chains
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Chain: 2
Length: 46 amino acids
Theoretical weight: 5.4 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7P5 (Residues: 1-46; Coverage: 100%)
Gene names: JW3680, b3703, rimA, rpmH, ssaF
Pfam: Ribosomal protein L34
PDBe-KB: UniProt Coverage View: P0A7P5  
14651015202530354045
 
2040MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLTVSK
UniProt
P0A7P5
Chains
Sequence conservation

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Chain: J
Length: 142 amino acids
Theoretical weight: 16.05 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AA10 (Residues: 1-142; Coverage: 100%)
Gene names: JW3200, b3231, rplM
Pfam: Ribosomal protein L13
PDBe-KB: UniProt Coverage View: P0AA10  
1142102030405060708090100110120130140
 
50100MKTFTAKPETVKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKVYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGPLGRAMFRKLKVYAGNEHNHAAQQPQVLDI
UniProt
P0AA10
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Chain: K
Length: 122 amino acids
Theoretical weight: 13.45 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0ADY3 (Residues: 1-122; Coverage: 99%)
Gene names: JW3272, b3310, rplN
Pfam: Ribosomal protein L14p/L23e
PDBe-KB: UniProt Coverage View: P0ADY3  
1122102030405060708090100110120
 
50100MIQEQTMLNVADNSGARRVMCIKVLGGSHRRYAGVGDIIKITIKEAIPRGKVKKGDVLKAVVVRTKKGVRRPDGSVIRFDGNACVLLNNNSEQPIGTRIFGPVTRELRSEKFMKIISLAPEV
UniProt
P0ADY3
Chains
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Chain: N
Length: 120 amino acids
Theoretical weight: 13.72 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AG44 (Residues: 1-120; Coverage: 95%)
Gene names: JW3256, b3294, rplQ
Pfam: Ribosomal protein L17
PDBe-KB: UniProt Coverage View: P0AG44  
1120102030405060708090100110120
 
50100MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSVANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRSE
UniProt
P0AG44
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Chain: P
Length: 114 amino acids
Theoretical weight: 13.03 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7K6 (Residues: 2-115; Coverage: 99%)
Gene names: JW2587, b2606, rplS
Pfam: Ribosomal protein L19
PDBe-KB: UniProt Coverage View: P0A7K6  
1114102030405060708090100110
 
50100SNIIKQLEQEQMKQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHSAFTVRKISNGEGVERVFQTHSPVVDSISVKRRGAVRKAKLYYLRERTGKAARIKERLN
UniProt
P0A7K6
Chains
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Chain: Q
Length: 117 amino acids
Theoretical weight: 13.4 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7L3 (Residues: 2-118; Coverage: 99%)
Gene names: JW1706, b1716, pdzA, rplT
Pfam: Ribosomal protein L20
PDBe-KB: UniProt Coverage View: P0A7L3  
1117102030405060708090100110
 
50100ARVKRGVIARARHKKILKQAKGYYGARSRVYRVAFQAVIKAGQYAYRDRRQRKRQFRQLWIARINAAARQNGISYSKFINGLKKASVEIDRKILADIAVFDKVAFTALVEKAKAALA
UniProt
P0A7L3
Chains
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Chain: R
Length: 103 amino acids
Theoretical weight: 11.59 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AG48 (Residues: 1-103; Coverage: 100%)
Gene names: JW3153, b3186, rplU
Pfam: Ribosomal prokaryotic L21 protein
PDBe-KB: UniProt Coverage View: P0AG48  
1103102030405060708090100
 
50100MYAVFQSGGKQHRVSEGQTVRLEKLDIATGETVEFAEVLMIANGEEVKIGVPFVDGGVIKAEVVAHGRGEKVKIVKFRRRKHYRKQQGHRQWFTDVKITGISA
UniProt
P0AG48
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Chain: S
Length: 110 amino acids
Theoretical weight: 12.25 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P61175 (Residues: 1-110; Coverage: 100%)
Gene names: JW3277, b3315, eryB, rplV
Pfam: Ribosomal protein L22p/L17e
PDBe-KB: UniProt Coverage View: P61175  
1110102030405060708090100110
 
50100METIAKHRHARSSAQKVRLVADLIRGKKVSQALDILTYTNKKAAVLVKKVLESAIANAEHNDGADIDDLKVTKIFVDEGPSMKRIMPRAKGRADRILKRTSHITVVVSDR
UniProt
P61175
Chains
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Variants

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Chain: T
Length: 93 amino acids
Theoretical weight: 10.55 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0ADZ0 (Residues: 1-93; Coverage: 93%)
Gene names: JW3280, b3318, rplW
Pfam: Ribosomal protein L23
PDBe-KB: UniProt Coverage View: P0ADZ0  
193102030405060708090
 
20406080
UniProt
P0ADZ0
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Chain: U
Length: 102 amino acids
Theoretical weight: 11.08 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P60624 (Residues: 2-103; Coverage: 98%)
Gene names: JW3271, b3309, rplX
Pfam:
PDBe-KB: UniProt Coverage View: P60624  
1102102030405060708090100
 
50100
UniProt
P60624
Chains
Sequence conservation

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Chain: Y
Length: 63 amino acids
Theoretical weight: 7.29 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0A7M6 (Residues: 1-63; Coverage: 100%)
Gene names: JW3274, b3312, rpmC
Pfam: Ribosomal L29 protein
PDBe-KB: UniProt Coverage View: P0A7M6  
16351015202530354045505560
 
204060MKAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDVARVKTLLNEKAGA
UniProt
P0A7M6
Chains
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Chain: Z
Length: 58 amino acids
Theoretical weight: 6.42 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P0AG51 (Residues: 2-59; Coverage: 98%)
Gene names: JW3264, b3302, rpmD
Pfam: Ribosomal protein L30p/L7e
PDBe-KB: UniProt Coverage View: P0AG51  
158510152025303540455055
 
2040AKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE
UniProt
P0AG51
Chains
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Chain: y
Length: 17 amino acids
Theoretical weight: 2.08 KDa
Source organism: Apis mellifera
Expression system: Not provided
UniProt:
  • Canonical: P35581 (Residues: 100-116; Coverage: 14%)
Pfam: Apidaecin
PDBe-KB: UniProt Coverage View: P35581  
117246810121416
 
51015NNRPVYIPRPRPPHPRL
UniProt
P35581
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Chain: D
Length: 209 amino acids
Theoretical weight: 22.28 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P60438 (Residues: 1-209; Coverage: 100%)
Gene names: JW3282, b3320, rplC
Pfam: Ribosomal protein L3
PDBe-KB: UniProt Coverage View: P60438  
120920406080100120140160180200
 
50100150200
UniProt
P60438
Chains
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Chain: E
Length: 201 amino acids
Theoretical weight: 22.12 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P60723 (Residues: 1-201; Coverage: 100%)
Gene names: JW3281, b3319, eryA, rplD
Pfam: Ribosomal protein L4/L1 family
PDBe-KB: UniProt Coverage View: P60723  
120120406080100120140160180200
 
50100150200
UniProt
P60723
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Chain: L
Length: 143 amino acids
Theoretical weight: 14.88 KDa
Source organism: Escherichia coli
UniProt:
  • Canonical: P02413 (Residues: 2-144; Coverage: 99%)
Gene names: JW3263, b3301, rplO
Pfam: Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A
PDBe-KB: UniProt Coverage View: P02413  
114320406080100120140
 
50100
UniProt
P02413
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Name: 23S ribosomal RNA
Representative chains: A
Length: 2903 nucleotides
Theoretical weight: 941.32 KDa
129032004006008001,0001,2001,4001,6001,8002,0002,2002,4002,6002,800
 
10002000
Chains
Chain O (auth A)
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