General information
PDB ID 2ZJQ
Title INTERACTION OF L7 WITH L11 INDUCED BY MICROCCOCIN BINDING TO THE DEINOCOCCUS RADIODURANS 50S SUBUNIT
PDB header RIBOSOME
Date 2008-03-08
Experimental method X-RAY DIFFRACTION
Resolution (A) 3.3
Kind rna
Organism DEINOCOCCUS RADIODURANS
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PDB PDBe MMDB Jena OCA
CATH PDBsum HSSP PDBePISA UniProt
ProteopediA BIPA
PRIDB
Composition of PDB entry and biounits
File: Protein chains: DNA chains: RNA chains: No. of models: Action:
PDB entry:
pdb2zjq.pdb ABCDEFGHIJKLMNOPQRSTUVWZ12345 XY 0
Biounits:
2zjq.pdb1.pdb ABCDEFGHIJKLMNOPQRSTUVWZ12345 XY 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Ribosomal_L36 Domain Q9RSK0_2-36 5.9e-20 1 No_clan 4 1 37 X   
Ribosomal_L12 Domain Q9RST0_57-122 3.8e-26 1 No_clan 5 57 122   
Ribosomal_L2_C Domain Q9RXJ9_126-251 1.2e-52 1 CL0107 A 126 251 X   
Ribosomal_L2 Domain Q9RXJ9_42-119 9.1e-33 1 CL0021 A 42 119 X   
Ribosomal_L5_C Domain Q9RXJ0_84-177 9.2e-41 1 No_clan D 84 177 XY   
Ribosomal_L5 Domain Q9RXJ0_24-80 2.2e-25 1 CL0652 D 24 80 XY   
Ribosomal_L6 Domain Q9RSL3_11-82 4.5e-19 1 No_clan E 11 82 X   
Ribosomal_L6 Domain Q9RSL3_90-165 1.2e-17 1 No_clan E 90 165 X   
Ribosomal_L11_N Domain Q9RSS7_1-65 7.2e-28 1 No_clan F 8 65 X   
Ribosomal_L11 Domain Q9RSS7_70-138 2e-26 1 No_clan F 70 138 X   
Ribosomal_L14 Domain Q9RXJ2_2-133 2.2e-52 1 No_clan H 1 134 X   
Ribosomal_L22 Domain Q9RXJ7_26-129 5.4e-35 1 No_clan P 26 129 X   
Ribosomal_TL5_C Domain Q9RX88_91-175 1.9e-24 1 No_clan S 91 175   
Ribosomal_L25p Domain Q9RX88_3-83 0.000000000044 1 No_clan S 3 83 XY   
Ribosomal_L30 Domain Q9RSL0_1-51 3.4e-19 1 No_clan W 1 51 XY   
Ribosomal_L33 Family Q9RSS4_8-54 2.7e-19 1 CL0167 1 8 54   
Ribosomal_L34 Family Q9RSH2_1-44 1.5e-25 1 No_clan 2 1 44   
Ribosomal_L35p Family Q9RSW6_2-62 2.7e-17 1 No_clan 3 2 62   
Ribosomal_L3 Family Q9RXK2_86-181 4.4e-16 1 CL0575 B 87 181 X   
Ribosomal_L4 Family Q9RXK1_19-198 9e-55 1 No_clan C 19 198 X   
Ribosomal_L13 Family Q9RXY1_40-164 8.2e-51 1 No_clan G 40 164 X   
Ribosomal_L27A Family Q9RSK9_26-142 2.7e-28 1 CL0588 I 26 142 X   
Ribosomal_L16 Family Q9RXJ5_7-130 8e-50 1 No_clan J 6 133 XY   
Ribosomal_L17 Family Q9RSJ5_20-116 2.3e-33 1 No_clan K 20 115 X   
Ribosomal_L18p Family Q9RSL2_4-114 3.2e-35 1 CL0267 L 8 111 XY   
Ribosomal_L19 Family Q9RWB4_11-109 2.5e-40 1 CL0107 M 11 109 X   
Ribosomal_L20 Family Q9RSW7_3-109 9.6e-46 1 No_clan N 3 109 X   
Ribosomal_L21p Family Q9RY64_1-98 1.4e-29 1 No_clan O 5 98 X   
Ribosomal_L23 Family Q9RXK0_5-90 1e-29 1 No_clan Q 5 90 X   
ribosomal_L24 Family Q9RXJ1_51-114 2.6e-21 1 No_clan R 51 113 X   
KOW Family Q9RXJ1_18-49 0.000000083 1 CL0107 R 18 49 X   
Ribosomal_L27 Family Q9RY65_2-81 8e-36 1 No_clan T 2 81 XY   
Ribosomal_L28 Family Q9RRG8_8-73 0.0000000064 1 No_clan U 8 73 X   
Ribosomal_L29 Family Q9RXJ4_4-59 2.3e-17 1 CL0346 V 4 59 X   
Ribosomal_L32p Family P49228_5-59 4.2e-29 1 CL0167 Z 5 59 X   
SCOP domains
Classification: Protein: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Class: Small proteins
  Fold: Rubredoxin-like
    Superfamily: Zn-binding ribosomal proteins
      Family: Ribosomal protein L33p
Ribosomal protein L33p 1 2 54 -
Class: Peptides
  Fold: Ribosomal protein L34p
    Superfamily: Ribosomal protein L34p
      Family: Ribosomal protein L34p
Ribosomal protein L34p 2 1 46 -
Class: Alpha and beta proteins (a+b)
  Fold: L35p-like
    Superfamily: L35p-like
      Family: Ribosomal protein L35p
Ribosomal protein L35p 3 2 64 -
Class: Small proteins
  Fold: Ribosomal protein L36
    Superfamily: Ribosomal protein L36
      Family: Ribosomal protein L36
Ribosomal protein L36 4 1 37 X -
Class: Alpha and beta proteins (a+b)
  Fold: ClpS-like
    Superfamily: ClpS-like
      Family: Ribosomal protein L7/12, C-terminal domain
Ribosomal protein L7/12, C-terminal domain 5 52 122 -
Class: All beta proteins
  Fold: SH3-like barrel
    Superfamily: Translation proteins SH3-like domain
      Family: C-terminal domain of ribosomal protein L2
C-terminal domain of ribosomal protein L2 A 128 272 X -
Class: All beta proteins
  Fold: OB-fold
    Superfamily: Nucleic acid-binding proteins
      Family: Cold shock DNA-binding domain-like
N-terminal domain of ribosomal protein L2 A 33 127 X -
Class: All beta proteins
  Fold: Reductase/isomerase/elongation factor common domain
    Superfamily: Translation proteins
      Family: Ribosomal protein L3
Ribosomal protein L3 B 1 205 X -
Class: Alpha and beta proteins (a/b)
  Fold: Ribosomal protein L4
    Superfamily: Ribosomal protein L4
      Family: Ribosomal protein L4
Ribosomal protein L4 C 2 198 X -
Class: Alpha and beta proteins (a+b)
  Fold: RL5-like
    Superfamily: RL5-like
      Family: Ribosomal protein L5
Ribosomal protein L5 D 3 179 XY -
Class: Alpha and beta proteins (a+b)
  Fold: Ribosomal protein L6
    Superfamily: Ribosomal protein L6
      Family: Ribosomal protein L6
Ribosomal protein L6 E 83 172 X -
Class: Alpha and beta proteins (a+b)
  Fold: Ribosomal protein L6
    Superfamily: Ribosomal protein L6
      Family: Ribosomal protein L6
Ribosomal protein L6 E 5 82 X -
Class: All alpha proteins
  Fold: DNA/RNA-binding 3-helical bundle
    Superfamily: Ribosomal protein L11, C-terminal domain
      Family: Ribosomal protein L11, C-terminal domain
Ribosomal protein L11, C-terminal domain F 72 144 X -
Class: Alpha and beta proteins (a+b)
  Fold: Ribosomal L11/L12e N-terminal domain
    Superfamily: Ribosomal L11/L12e N-terminal domain
      Family: Ribosomal L11/L12e N-terminal domain
Ribosomal protein L11, N-terminal domain F 1 71 X -
Class: Alpha and beta proteins (a/b)
  Fold: Ribosomal protein L13
    Superfamily: Ribosomal protein L13
      Family: Ribosomal protein L13
Ribosomal protein L13 G 30 171 X -
Class: All beta proteins
  Fold: Ribosomal protein L14
    Superfamily: Ribosomal protein L14
      Family: Ribosomal protein L14
Ribosomal protein L14 H 1 134 X -
Class: Alpha and beta proteins (a/b)
  Fold: Ribosomal proteins L15p and L18e
    Superfamily: Ribosomal proteins L15p and L18e
      Family: Ribosomal proteins L15p and L18e
Ribosomal protein L15 (L15p) I 4 144 X -
Class: Alpha and beta proteins (a+b)
  Fold: alpha/beta-Hammerhead
    Superfamily: Ribosomal protein L16p/L10e
      Family: Ribosomal protein L16p
Ribosomal protein L16p J 6 141 XY -
Class: Alpha and beta proteins (a+b)
  Fold: Prokaryotic ribosomal protein L17
    Superfamily: Prokaryotic ribosomal protein L17
      Family: Prokaryotic ribosomal protein L17
Prokaryotic ribosomal protein L17 K 3 115 X -
Class: Alpha and beta proteins (a/b)
  Fold: Ribonuclease H-like motif
    Superfamily: Translational machinery components
      Family: Ribosomal protein L18 and S11
Ribosomal protein L18 (L18p) L 8 111 XY -
Class: All beta proteins
  Fold: SH3-like barrel
    Superfamily: Translation proteins SH3-like domain
      Family: Ribosomal protein L19
Ribosomal protein L19 M 2 109 X -
Class: All alpha proteins
  Fold: PABP domain-like
    Superfamily: Ribosomal protein L20
      Family: Ribosomal protein L20
Ribosomal protein L20 N 2 118 X -
Class: All beta proteins
  Fold: L21p-like
    Superfamily: L21p-like
      Family: Ribosomal protein L21p
Ribosomal protein L21p O 5 98 X -
Class: Alpha and beta proteins (a+b)
  Fold: Ribosomal protein L22
    Superfamily: Ribosomal protein L22
      Family: Ribosomal protein L22
Ribosomal protein L22 P 8 134 X -
Class: Alpha and beta proteins (a+b)
  Fold: Ribosomal proteins S24e, L23 and L15e
    Superfamily: Ribosomal proteins S24e, L23 and L15e
      Family: L23p
Ribosomal protein L23 Q 2 94 X -
Class: All beta proteins
  Fold: SH3-like barrel
    Superfamily: Translation proteins SH3-like domain
      Family: Ribosomal proteins L24p and L21e
Ribosomal proteins L24 (L24p) R 4 113 X -
Class: All beta proteins
  Fold: Ribosomal protein L25-like
    Superfamily: Ribosomal protein L25-like
      Family: Ribosomal protein L25-like
Ribosomal protein TL5 (general stress protein CTC) S 1 175 XY -
Class: All beta proteins
  Fold: Barrel-sandwich hybrid
    Superfamily: Ribosomal L27 protein-like
      Family: Ribosomal L27 protein
Ribosomal protein L27 T 2 85 XY -
Class: Alpha and beta proteins (a+b)
  Fold: L28p-like
    Superfamily: L28p-like
      Family: Ribosomal protein L28
Ribosomal protein L28 (L28p) U 8 79 X -
Class: All alpha proteins
  Fold: Long alpha-hairpin
    Superfamily: Ribosomal protein L29 (L29p)
      Family: Ribosomal protein L29 (L29p)
Ribosomal protein L29 (L29p) V 1 66 X -
Class: Alpha and beta proteins (a+b)
  Fold: Ribosomal protein L30p/L7e
    Superfamily: Ribosomal protein L30p/L7e
      Family: Ribosomal protein L30p/L7e
Prokaryotic ribosomal protein L30 W 1 55 XY -
Class: Small proteins
  Fold: Rubredoxin-like
    Superfamily: Zn-binding ribosomal proteins
      Family: Ribosomal protein L32p
Ribosomal protein L32p Z 2 59 X -
GO terms
Protein chains: GO type: GO description:
2=1-47 C ribosome
2=1-47 F rRNA binding
2=1-47 F structural constituent of ribosome
2=1-47 P translation
4=1-37 F metal ion binding
A=2-275 F transferase activity
D=1-180 F tRNA binding
P=1-134 C large ribosomal subunit
Q=1-95 F nucleotide binding
S=1-237 F 5S rRNA binding
Sequences
Download file with secondary structure created by Stride  
2zjq.pdb1.pdb:   [ download sequences in FASTA format ]
1 (protein): 
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2 (protein): 
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3 (protein): 
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4 (protein): 
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5 (protein): 
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A (protein): 
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B (protein): 
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C (protein): 
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D (protein): 
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E (protein): 
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F (protein): 
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G (protein): 
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H (protein): 
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I (protein): 
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J (protein): 
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K (protein): 
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L (protein): 
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M (protein): 
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N (protein): 
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O (protein): 
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P (protein): 
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Q (protein): 
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R (protein): 
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S (protein): 
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T (protein): 
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U (protein): 
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V (protein): 
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W (protein): 
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Z (protein): 
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X (rna): 
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Y (rna): 
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