General information
PDB ID 5NO4
Title RSGA-GDPNP BOUND TO THE 30S RIBOSOMAL SUBUNIT (RSGA ASSEMBLY INTERMEDIATE WITH US3)
PDB header RIBOSOME
Date 2017-04-10
Experimental method ELECTRON MICROSCOPY
Resolution (A) 5.16
Kind rna
Organism ESCHERICHIA COLI (STRAIN K12)
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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:
pdb5no4.pdb CDEFGHIJKLMNOPQRSTZ A 0
Biounits:
5no4.pdb1.pdb CDEFGHIJKLMNOPQRSTZ 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 2e-40 1 No_clan C 120 202 A   
KH_2 Domain P0A7V3_38-111 7.3e-19 1 CL0007 C 38 111   
S4 Domain P0A7V8_96-143 1e-18 1 CL0492 D 96 143 A   
Ribosomal_S5_C Domain P0A7W1_87-157 4e-30 1 CL0329 E 87 157 A   
Ribosomal_S5 Domain P0A7W1_11-75 1.1e-29 1 CL0196 E 11 75 A   
Ribosomal_S6 Domain P02358_3-91 2.2e-28 1 No_clan F 3 91 A   
Ribosomal_S7 Domain P02359_3-73 3.6e-19 1 No_clan G 2 95 A   
Ribosomal_S7 Domain P02359_71-109 1.1e-10 1 No_clan G 70 131 A   
Ribosomal_S8 Domain P0A7W7_5-130 3.8e-48 1 No_clan H 5 130 A   
Ribosomal_S10 Domain P0A7R5_7-101 2e-33 1 No_clan J 7 101 A   
Ribosomal_S15 Domain P0ADZ4_8-87 1.6e-37 1 CL0600 O 8 88 A   
Ribosomal_S17 Domain P0AG63_10-77 2.1e-34 1 CL0021 Q 10 77 A   
Ribosomal_S19 Domain P0A7U3_3-81 1.2e-35 1 No_clan S 3 81 A   
RsgA_GTPase Domain P39286_100-276 7.3e-58 1 CL0023 Z 100 276 A   
Ribosomal_S4 Family P0A7V8_3-95 1.8e-32 1 CL0492 D 3 95 A   
Ribosomal_S9 Family P0A7X3_10-130 1.1e-46 1 CL0329 I 10 130 A   
Ribosomal_S11 Family P0A7R9_19-128 1.5e-54 1 CL0267 K 19 128 A   
Ribosomal_S13 Family P0A7S9_3-108 7.4e-34 1 CL0303 M 3 108 A   
Ribosomal_S14 Family P0AG59_47-100 1.3e-26 1 No_clan N 47 100 A   
Ribosomal_S16 Family P0A7T3_8-68 1.1e-24 1 No_clan P 8 68 A   
Ribosomal_S18 Family P0A7T7_20-68 1.4e-24 1 CL0123 R 20 68 A   
Ribosomal_S20p Family P0A7U7_3-84 1.1e-27 1 No_clan T 2 84 A   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
C=2-207 C cytosol
C=2-207 C cytosolic small ribosomal subunit
C=2-207 F mRNA binding
C=2-207 F rRNA binding
C=2-207 F structural constituent of ribosome
C=2-207 P ribosomal small subunit assembly
C=2-207 P translation
D=2-206 C cytosol
D=2-206 C cytosolic small ribosomal subunit
D=2-206 C small ribosomal subunit
D=2-206 F mRNA 5'-UTR binding
D=2-206 F rRNA binding
D=2-206 F structural constituent of ribosome
D=2-206 F translation repressor activity, mRNA regulatory element binding
D=2-206 P DNA-templated transcription, termination
D=2-206 P maintenance of translational fidelity
D=2-206 P negative regulation of translational initiation
D=2-206 P positive regulation of translational fidelity
D=2-206 P response to antibiotic
D=2-206 P ribosomal small subunit assembly
D=2-206 P transcription antitermination
E=10-164 C cytosol
E=10-164 C cytosolic small ribosomal subunit
E=10-164 F rRNA binding
E=10-164 F structural constituent of ribosome
E=10-164 P maintenance of translational fidelity
E=10-164 P response to antibiotic
E=10-164 P ribosomal small subunit assembly
E=10-164 P translation
F=1-106 C cytosol
F=1-106 C cytosolic small ribosomal subunit
F=1-106 F mRNA 5'-UTR binding
F=1-106 F small ribosomal subunit rRNA binding
F=1-106 F structural constituent of ribosome
F=1-106 P translation
G=2-131 C cytosol
G=2-131 C cytosolic small ribosomal subunit
G=2-131 C membrane
G=2-131 C ribosome
G=2-131 F mRNA binding
G=2-131 F rRNA binding
G=2-131 F structural constituent of ribosome
G=2-131 F tRNA binding
G=2-131 P negative regulation of translation
G=2-131 P ribosomal small subunit assembly
G=2-131 P translation
H=2-130 C cytosol
H=2-130 C cytosolic small ribosomal subunit
H=2-130 F rRNA binding
H=2-130 F structural constituent of ribosome
H=2-130 P regulation of mRNA stability
H=2-130 P regulation of translation
H=2-130 P ribosomal small subunit assembly
H=2-130 P translation
I=4-130 C cytosol
I=4-130 C cytosolic small ribosomal subunit
I=4-130 C small ribosomal subunit
I=4-130 F RNA binding
I=4-130 F structural constituent of ribosome
I=4-130 F tRNA binding
I=4-130 P translation
J=4-102 C cytosol
J=4-102 C cytosolic small ribosomal subunit
J=4-102 C small ribosomal subunit
J=4-102 F structural constituent of ribosome
J=4-102 F transcription antitermination factor activity, RNA binding
J=4-102 F tRNA binding
J=4-102 P transcription antitermination
J=4-102 P translation
K=13-129 C cytosol
K=13-129 C cytosolic small ribosomal subunit
K=13-129 F mRNA 5'-UTR binding
K=13-129 F small ribosomal subunit rRNA binding
K=13-129 F structural constituent of ribosome
K=13-129 P maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
K=13-129 P ribosomal small subunit assembly
K=13-129 P translation
L=2-15 C cytosol
L=2-15 C cytosolic small ribosomal subunit
L=2-15 C ribosome
L=2-15 F misfolded RNA binding
L=2-15 F rRNA binding
L=2-15 F structural constituent of ribosome
L=2-15 F tRNA binding
L=2-15 P Group I intron splicing
L=2-15 P maintenance of translational fidelity
L=2-15 P positive regulation of RNA splicing
L=2-15 P response to antibiotic
L=2-15 P RNA folding
L=2-15 P translation
M=2-115 C cytosol
M=2-115 C cytosolic small ribosomal subunit
M=2-115 C small ribosomal subunit
M=2-115 F rRNA binding
M=2-115 F structural constituent of ribosome
M=2-115 F tRNA binding
M=2-115 P translation
N=2-101 C cytosolic small ribosomal subunit
N=2-101 C small ribosomal subunit
N=2-101 F rRNA binding
N=2-101 F structural constituent of ribosome
N=2-101 P ribosomal small subunit assembly
N=2-101 P translation
O=2-89 C cytosol
O=2-89 C cytosolic small ribosomal subunit
O=2-89 F mRNA binding involved in posttranscriptional gene silencing
O=2-89 F rRNA binding
O=2-89 F small ribosomal subunit rRNA binding
O=2-89 F structural constituent of ribosome
O=2-89 P regulation of translation
O=2-89 P ribosomal small subunit assembly
O=2-89 P translation
P=1-82 C cytosolic small ribosomal subunit
P=1-82 C small ribosomal subunit
P=1-82 F endodeoxyribonuclease activity
P=1-82 F four-way junction DNA binding
P=1-82 F structural constituent of ribosome
P=1-82 P ribosomal small subunit assembly
P=1-82 P translation
Q=4-83 C cytosolic small ribosomal subunit
Q=4-83 F rRNA binding
Q=4-83 F small ribosomal subunit rRNA binding
Q=4-83 F structural constituent of ribosome
Q=4-83 P response to antibiotic
Q=4-83 P ribosomal small subunit assembly
Q=4-83 P translation
R=20-74 C cytosol
R=20-74 C cytosolic small ribosomal subunit
R=20-74 F mRNA 5'-UTR binding
R=20-74 F small ribosomal subunit rRNA binding
R=20-74 F structural constituent of ribosome
R=20-74 P translation
S=3-81 C cytosol
S=3-81 C cytosolic small ribosomal subunit
S=3-81 F rRNA binding
S=3-81 F structural constituent of ribosome
S=3-81 F tRNA binding
S=3-81 P ribosomal small subunit assembly
S=3-81 P translation
T=2-87 C cytosol
T=2-87 C cytosolic small ribosomal subunit
T=2-87 C small ribosomal subunit
T=2-87 F ornithine decarboxylase inhibitor activity
T=2-87 F small ribosomal subunit rRNA binding
T=2-87 F structural constituent of ribosome
T=2-87 P ribosomal small subunit assembly
T=2-87 P translation
Z=34-346 C cytosol
Z=34-346 F GDP binding
Z=34-346 F GTP binding
Z=34-346 F GTPase activity
Z=34-346 F guanosine tetraphosphate binding
Z=34-346 F metal ion binding
Z=34-346 F rRNA binding
Z=34-346 P ribosomal small subunit biogenesis
Sequences
Download file with secondary structure created by Stride  
5no4.pdb1.pdb:   [ download sequences in FASTA format ]
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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Z (protein): 
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A (rna): 
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