General information
PDB ID 2YKR
Title 30S RIBOSOMAL SUBUNIT WITH RSGA BOUND IN THE PRESENCE OF GMPPNP
PDB header RIBOSOME/HYDROLASE
Date 2011-05-30
Experimental method ELECTRON MICROSCOPY
Resolution (A) 9.8
Kind rna
Organism ESCHERICHIA COLI
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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:
pdb2ykr.pdb BCDEFGHIJKLMNOPQRSTUW A 0
Biounits:
2ykr.pdb1.pdb BCDEFGHIJKLMNOPQRSTUW A 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Ribosomal_S3_C Domain P0A7V3_120-202 1.6e-41 1 No_clan C 119 201 A   
KH_2 Domain P0A7V3_38-111 8.3e-19 1 CL0007 C 37 110   
S4 Domain P0A7V8_96-143 7.2e-19 1 CL0492 D 95 142 A   
Ribosomal_S5_C Domain P0A7W1_86-157 1.4e-30 1 CL0329 E 85 156 A   
Ribosomal_S5 Domain P0A7W1_11-75 1.3e-29 1 CL0196 E 10 74 A   
Ribosomal_S6 Domain P02358_3-91 1.5e-28 1 No_clan F 3 91 A   
Ribosomal_S7 Domain P02359_2-149 4.2e-64 1 No_clan G 1 148 A   
Ribosomal_S8 Domain P0A7W7_5-130 4.8e-49 1 No_clan H 4 129 A   
Ribosomal_S15 Domain P0ADZ4_8-87 2.2e-38 1 CL0600 O 7 87 A   
Ribosomal_S17 Domain P0AG63_10-77 1.3e-34 1 CL0021 Q 9 76 A   
Ribosomal_S19 Domain P0A7U3_3-81 5.7e-35 1 No_clan S 2 80 A   
RsgA_GTPase Domain P39286_100-276 2.2e-44 1 CL0023 W 99 273 A   
Ribosomal_S2 Family P0A7V0_9-224 3.3e-94 1 CL0067 B 8 223 A   
Ribosomal_S4 Family P0A7V8_3-95 1.7e-32 1 CL0492 D 2 94 A   
Ribosomal_S9 Family P0A7X3_10-130 1.2e-46 1 CL0329 I 9 129 A   
Ribosomal_S10 Family P0A7R5_7-101 1.2e-34 1 No_clan J 7 101 A   
Ribosomal_S11 Family P0A7R9_19-128 1.3e-54 1 CL0267 K 18 127 A   
Ribosom_S12_S23 Family P0A7S3_12-123 4.9e-43 1 CL0021 L 11 122 A   
Ribosomal_S13 Family P0A7S9_3-108 6.5e-34 1 CL0303 M 2 107 A   
Ribosomal_S14 Family P0AG59_47-100 8.9e-27 1 No_clan N 45 98 A   
Ribosomal_S16 Family P0A7T3_8-68 2.5e-24 1 No_clan P 8 68 A   
Ribosomal_S18 Family E3PE70_20-68 1.1e-24 1 No_clan R 19 67 A   
Ribosomal_S20p Family P0A7U7_3-84 6e-27 1 No_clan T 2 83 A   
Ribosomal_S21 Family P68679_4-54 1.1e-21 1 No_clan U 3 53 A   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
B=9-226 F zinc ion binding
D=2-206 C small ribosomal subunit
D=2-206 F mRNA 5'-UTR binding
D=2-206 F translation repressor activity, nucleic acid binding
D=2-206 P DNA-dependent transcription, termination
D=2-206 P response to antibiotic
D=2-206 P transcription antitermination
D=2-206 P negative regulation of translational initiation
F=1-100 C cytosolic small ribosomal subunit
F=1-100 F structural constituent of ribosome
F=1-100 F rRNA binding
F=1-100 P translation
H=2-130 P regulation of mRNA stability
H=2-130 P regulation of translation
I=4-130 C ribosome
J=5-102 F RNA binding
L=2-124 F misfolded RNA binding
L=2-124 P Group I intron splicing
L=2-124 P positive regulation of RNA splicing
L=2-124 P RNA folding
M=2-115 F tRNA binding
M=2-115 P ribosome biogenesis
P=1-82 F structure-specific DNA binding
P=1-82 F endodeoxyribonuclease activity
P=1-82 P ribosomal small subunit assembly
T=3-87 F SSU rRNA binding
T=3-87 F ornithine decarboxylase inhibitor activity
Sequences
Download file with secondary structure created by Stride  
2ykr.pdb1.pdb:   [ download sequences in FASTA format ]
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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W (protein): 
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A (rna): 
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