General information
PDB ID 5ME1
Title STRUCTURE OF THE 30S PRE-INITIATION COMPLEX 2 (30S IC-2) STALLED BY GE81112
PDB header RIBOSOME
Date 2016-11-14
Experimental method ELECTRON MICROSCOPY
Resolution (A) 13.5
Kind rna
Organism ESCHERICHIA COLI K-12, GEOBACILLUS STEAROTHERMOPHILUS
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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:
pdb5me1.pdb BCDEFGHIJKLMNOPQRSTUVWYZ AX 0
Biounits:
5me1.pdb1.pdb BCDEFGHIJKLMNOPQRSTUVWYZ AX 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_2-149 1.2e-63 1 No_clan G 2 149 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   
eIF-1a Domain Q5SHR1_8-71 3.4e-27 1 CL0021 V 7 70 A   
IF-2 Domain P0A705_663-779 2.9e-40 1 No_clan W 663 779 A   
GTP_EFTU Domain P0A705_390-553 1.9e-35 1 CL0023 W 390 553   
GTP_EFTU_D2 Domain P0A705_430-498 2.1e-07 1 CL0575 W 810 878 X   
IF3_N Domain P03000_7-76 1.3e-35 1 No_clan Y 7 76 A   
IF3_C Domain P0A707_91-177 9.4e-39 1 No_clan Z 91 177 AX   
Ribosomal_S2 Family P0A7V0_9-224 2.4e-93 1 CL0067 B 9 224 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 AX   
Ribosomal_S11 Family P0A7R9_19-128 1.5e-54 1 CL0267 K 19 128 A   
Ribosom_S12_S23 Family P0A7S3_12-123 5.5e-40 1 CL0021 L 12 123 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 A0A0U4BH30_28-88 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   
Ribosomal_S21 Family P68679_4-54 2.9e-22 1 No_clan U 3 57 A   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
B=1-241 C cytosolic small ribosomal subunit
B=1-241 F structural constituent of ribosome
B=1-241 F zinc ion binding
B=1-241 P ribosomal small subunit assembly
B=1-241 P translation
C=1-233 C cytosol
C=1-233 C cytosolic small ribosomal subunit
C=1-233 F mRNA binding
C=1-233 F rRNA binding
C=1-233 F structural constituent of ribosome
C=1-233 P ribosomal small subunit assembly
C=1-233 P translation
D=1-206 C cytosol
D=1-206 C cytosolic small ribosomal subunit
D=1-206 C small ribosomal subunit
D=1-206 F mRNA 5'-UTR binding
D=1-206 F rRNA binding
D=1-206 F structural constituent of ribosome
D=1-206 F translation repressor activity, mRNA regulatory element binding
D=1-206 P DNA-templated transcription, termination
D=1-206 P maintenance of translational fidelity
D=1-206 P negative regulation of translational initiation
D=1-206 P positive regulation of translational fidelity
D=1-206 P response to antibiotic
D=1-206 P ribosomal small subunit assembly
D=1-206 P transcription antitermination
E=1-167 C cytosol
E=1-167 C cytosolic small ribosomal subunit
E=1-167 F rRNA binding
E=1-167 F structural constituent of ribosome
E=1-167 P maintenance of translational fidelity
E=1-167 P response to antibiotic
E=1-167 P ribosomal small subunit assembly
E=1-167 P translation
F=1-131 C cytosol
F=1-131 C cytosolic small ribosomal subunit
F=1-131 F mRNA 5'-UTR binding
F=1-131 F small ribosomal subunit rRNA binding
F=1-131 F structural constituent of ribosome
F=1-131 P translation
G=1-156 C cytosol
G=1-156 C cytosolic small ribosomal subunit
G=1-156 C membrane
G=1-156 C ribosome
G=1-156 F mRNA binding
G=1-156 F rRNA binding
G=1-156 F structural constituent of ribosome
G=1-156 F tRNA binding
G=1-156 P negative regulation of translation
G=1-156 P ribosomal small subunit assembly
G=1-156 P translation
H=1-130 C cytosol
H=1-130 C cytosolic small ribosomal subunit
H=1-130 F rRNA binding
H=1-130 F structural constituent of ribosome
H=1-130 P regulation of mRNA stability
H=1-130 P regulation of translation
H=1-130 P ribosomal small subunit assembly
H=1-130 P translation
I=1-130 C cytosol
I=1-130 C cytosolic small ribosomal subunit
I=1-130 C small ribosomal subunit
I=1-130 F RNA binding
I=1-130 F structural constituent of ribosome
I=1-130 F tRNA binding
I=1-130 P translation
J=1-103 C cytosol
J=1-103 C cytosolic small ribosomal subunit
J=1-103 C small ribosomal subunit
J=1-103 F structural constituent of ribosome
J=1-103 F transcription antitermination factor activity, RNA binding
J=1-103 F tRNA binding
J=1-103 P transcription antitermination
J=1-103 P translation
K=1-129 C cytosol
K=1-129 C cytosolic small ribosomal subunit
K=1-129 F mRNA 5'-UTR binding
K=1-129 F small ribosomal subunit rRNA binding
K=1-129 F structural constituent of ribosome
K=1-129 P maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
K=1-129 P ribosomal small subunit assembly
K=1-129 P translation
L=2-124 C cytosol
L=2-124 C cytosolic small ribosomal subunit
L=2-124 C ribosome
L=2-124 F misfolded RNA binding
L=2-124 F rRNA binding
L=2-124 F structural constituent of ribosome
L=2-124 F tRNA binding
L=2-124 P Group I intron splicing
L=2-124 P maintenance of translational fidelity
L=2-124 P positive regulation of RNA splicing
L=2-124 P response to antibiotic
L=2-124 P RNA folding
L=2-124 P translation
M=1-118 C cytosol
M=1-118 C cytosolic small ribosomal subunit
M=1-118 C small ribosomal subunit
M=1-118 F rRNA binding
M=1-118 F structural constituent of ribosome
M=1-118 F tRNA binding
M=1-118 P translation
N=1-101 C cytosolic small ribosomal subunit
N=1-101 C small ribosomal subunit
N=1-101 F rRNA binding
N=1-101 F structural constituent of ribosome
N=1-101 P ribosomal small subunit assembly
N=1-101 P translation
O=1-89 C cytosol
O=1-89 C cytosolic small ribosomal subunit
O=1-89 F mRNA binding involved in posttranscriptional gene silencing
O=1-89 F rRNA binding
O=1-89 F small ribosomal subunit rRNA binding
O=1-89 F structural constituent of ribosome
O=1-89 P regulation of translation
O=1-89 P ribosomal small subunit assembly
O=1-89 P translation
Q=1-84 C cytosolic small ribosomal subunit
Q=1-84 F rRNA binding
Q=1-84 F small ribosomal subunit rRNA binding
Q=1-84 F structural constituent of ribosome
Q=1-84 P response to antibiotic
Q=1-84 P ribosomal small subunit assembly
Q=1-84 P translation
R=1-75 C cytosol
R=1-75 C cytosolic small ribosomal subunit
R=1-75 F mRNA 5'-UTR binding
R=1-75 F small ribosomal subunit rRNA binding
R=1-75 F structural constituent of ribosome
R=1-75 P translation
S=1-92 C cytosol
S=1-92 C cytosolic small ribosomal subunit
S=1-92 F rRNA binding
S=1-92 F structural constituent of ribosome
S=1-92 F tRNA binding
S=1-92 P ribosomal small subunit assembly
S=1-92 P translation
T=1-87 C cytosol
T=1-87 C cytosolic small ribosomal subunit
T=1-87 C small ribosomal subunit
T=1-87 F ornithine decarboxylase inhibitor activity
T=1-87 F small ribosomal subunit rRNA binding
T=1-87 F structural constituent of ribosome
T=1-87 P ribosomal small subunit assembly
T=1-87 P translation
U=1-71 C cytosol
U=1-71 C cytosolic small ribosomal subunit
U=1-71 F rRNA binding
U=1-71 F structural constituent of ribosome
U=1-71 P ribosomal small subunit assembly
U=1-71 P translation
V=1-72 C cytoplasm
V=1-72 F ribosome binding
V=1-72 F rRNA binding
V=1-72 F translation initiation factor activity
W=1-890 C cytosol
W=1-890 C membrane
W=1-890 F GTP binding
W=1-890 F GTPase activity
W=1-890 F guanosine tetraphosphate binding
W=1-890 F ribosomal small subunit binding
W=1-890 F translation initiation factor activity
W=1-890 P translational initiation
Y=2-172 C cytoplasm
Y=2-172 F translation initiation factor activity
Z=37-180 C cytosol
Z=37-180 C membrane
Z=37-180 F ribosome binding
Z=37-180 F translation initiation factor activity
Z=37-180 P response to cold
Z=37-180 P ribosome disassembly
Sequences
Download file with secondary structure created by Stride  
5me1.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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V (protein): 
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W (protein): 
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Y (protein): 
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Z (protein): 
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A (rna): 
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X (rna): 
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