General information
PDB ID 5MMI
Title STRUCTURE OF THE LARGE SUBUNIT OF THE CHLOROPLAST RIBOSOME
PDB header RIBOSOME
Date 2016-12-10
Experimental method ELECTRON MICROSCOPY
Resolution (A) 3.25
Kind rna
Organism SPINACIA OLERACEA
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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:
pdb5mmi.pdb 01234567CDEFGHIJKLMNOPQRSTUVXYZ ABWz 0
Biounits:
5mmi.pdb1.pdb 01234567CDEFGHIJKLMNOPQRSTUVXYZ ABWz 1
Pfam domains
Name: Type: Domain: E-value: Significance: Clan: Prot. chain: Start res.: End res.: Nuc. chains: Int. mode: Action:
Ribosomal_L36 Domain P12230_1-37 1.5e-18 1 No_clan 5 1 37 A   
Ribosomal_L2_C Domain P06509_121-247 1.1e-53 1 CL0107 C 121 247 A   
Ribosomal_L2 Domain P06509_38-114 3.5e-31 1 CL0021 C 38 114 A   
Ribosomal_L5_C Domain P82192_137-230 8.9e-35 1 No_clan F 137 230 AB   
Ribosomal_L5 Domain P82192_77-133 9e-25 1 CL0652 F 77 133 AB   
Ribosomal_L6 Domain P82193_130-205 1.6e-20 1 No_clan G 130 205 A   
Ribosomal_L6 Domain P82193_50-122 2.5e-14 1 No_clan G 50 122 A   
Ribosomal_L9_N Domain P82180_50-87 6.7e-16 1 No_clan H 50 89 A   
Ribosomal_L11_N Domain P31164_79-137 5.4e-29 1 No_clan J 80 137 A   
Ribosomal_L11 Domain P31164_142-210 1.4e-21 1 No_clan J 142 210 A   
Ribosomal_L14 Domain P09596_1-121 1.2e-49 1 No_clan L 1 121 A   
Ribosomal_L22 Domain P09594_34-137 1.6e-28 1 No_clan T 34 137 A   
Ribosomal_L31 Family P82249_37-80 1.2e-09 1 No_clan 0 37 80 B   
Ribosomal_L33 Family P28805_9-65 2e-22 1 CL0167 2 9 65 A   
Ribosomal_L34 Family P82244_99-140 7.4e-12 1 No_clan 3 98 140 A   
Ribosomal_L35p Family P23326_90-150 9.5e-22 1 No_clan 4 90 150 Az   
DUF5323 Family P82411_48-93 8.5e-28 1 No_clan 7 48 93 A   
Ribosomal_L3 Family P82191_173-275 6.9e-16 1 CL0575 D 173 275 A   
Ribosomal_L4 Family O49937_71-258 7.7e-53 1 No_clan E 70 258 A   
Ribosomal_L10 Family P82139_54-152 1.9e-20 1 No_clan I 54 152 A   
Ribosomal_L13 Family P12629_112-230 3.2e-50 1 No_clan K 113 237 A   
Ribosomal_L27A Family P22798_106-234 1.1e-30 1 CL0588 M 106 234 A   
Ribosomal_L16 Family P17353_4-132 5.8e-47 1 No_clan N 4 132 AB   
Ribosomal_L17 Family P82194_30-126 1.9e-35 1 No_clan O 30 126 AW   
Ribosomal_L18p Family P82195_47-166 1.6e-46 1 CL0267 P 47 166 AB   
Ribosomal_L19 Family P82413_126-232 9.5e-31 1 CL0107 Q 126 233 W   
Ribosomal_L20 Family P28803_3-111 1.7e-35 1 No_clan R 3 111 A   
Ribosomal_L21p Family P24613_123-224 1.7e-31 1 No_clan S 123 224 A   
Ribosomal_L23 Family Q9LWB5_113-191 2.3e-14 1 No_clan U 113 191 A   
ribosomal_L24 Family P27683_105-169 7.7e-21 1 No_clan V 105 169 A   
KOW Family P27683_72-103 5.8e-08 1 CL0107 V 72 103   
Ribosomal_L27 Family P82190_66-137 1.1e-32 1 No_clan X 66 137 AB   
Ribosomal_L28 Family P82245_73-132 1.8e-22 1 No_clan Y 73 132 A   
Ribosomal_L29 Family P82248_66-122 2.3e-15 1 CL0346 Z 66 122 A   
SCOP domains
No SCOP domains
GO terms
Protein chains: GO type: GO description:
0=1-130 C chloroplast
0=1-130 C ribosome
0=1-130 F rRNA binding
0=1-130 F structural constituent of ribosome
0=1-130 P translation
1=1-57 C chloroplast
1=1-57 C large ribosomal subunit
1=1-57 F structural constituent of ribosome
1=1-57 P translation
2=1-66 C chloroplast
2=1-66 C ribosome
2=1-66 F structural constituent of ribosome
2=1-66 P translation
3=1-152 C chloroplast
3=1-152 C mitochondrial large ribosomal subunit
3=1-152 F rRNA binding
3=1-152 F structural constituent of ribosome
3=1-152 P translation
4=1-159 C chloroplast
4=1-159 C large ribosomal subunit
4=1-159 F structural constituent of ribosome
4=1-159 P translation
5=1-37 C chloroplast
5=1-37 C ribosome
5=1-37 F structural constituent of ribosome
5=1-37 P translation
6=1-142 C chloroplast thylakoid membrane
6=1-142 C ribosome
6=1-142 F rRNA binding
6=1-142 P plastid translation
7=1-116 C chloroplast
7=1-116 C ribosome
7=1-116 F rRNA binding
7=1-116 F structural constituent of ribosome
7=1-116 P translation
C=1-272 C chloroplast
C=1-272 C cytosolic large ribosomal subunit
C=1-272 F RNA binding
C=1-272 F rRNA binding
C=1-272 F structural constituent of ribosome
C=1-272 F transferase activity
C=1-272 P cytoplasmic translation
D=1-305 C chloroplast envelope
D=1-305 C ribosome
D=1-305 F rRNA binding
D=1-305 F structural constituent of ribosome
D=1-305 P translation
E=1-293 C chloroplast
E=1-293 C ribosome
E=1-293 F rRNA binding
E=1-293 F structural constituent of ribosome
E=1-293 P DNA-templated transcription, termination
E=1-293 P translation
F=1-258 C chloroplast
F=1-258 C cytosolic ribosome
F=1-258 F RNA binding
F=1-258 F rRNA binding
F=1-258 F structural constituent of ribosome
F=1-258 P ribosomal large subunit assembly
F=1-258 P translation
G=1-220 C chloroplast
G=1-220 C ribosome
G=1-220 F rRNA binding
G=1-220 F structural constituent of ribosome
G=1-220 P translation
H=1-196 C chloroplast
H=1-196 C mitochondrion
H=1-196 C ribosome
H=1-196 F rRNA binding
H=1-196 F structural constituent of ribosome
H=1-196 P translation
I=1-232 C chloroplast
I=1-232 C large ribosomal subunit
I=1-232 F rRNA binding
I=1-232 F structural constituent of ribosome
I=1-232 P ribosome biogenesis
I=1-232 P translation
J=1-224 C chloroplast
J=1-224 C cytosolic large ribosomal subunit
J=1-224 C large ribosomal subunit
J=1-224 C ribosome
J=1-224 F large ribosomal subunit rRNA binding
J=1-224 F rRNA binding
J=1-224 F structural constituent of ribosome
J=1-224 P ribosomal large subunit assembly
J=1-224 P translation
K=1-250 C chloroplast
K=1-250 C cytosolic large ribosomal subunit
K=1-250 C ribosome
K=1-250 F mRNA binding
K=1-250 F structural constituent of ribosome
K=1-250 P negative regulation of translation
K=1-250 P translation
L=1-121 C chloroplast
L=1-121 C mitochondrial large ribosomal subunit
L=1-121 F large ribosomal subunit rRNA binding
L=1-121 F structural constituent of ribosome
L=1-121 P translation
M=1-271 C chloroplast
M=1-271 C cytosolic large ribosomal subunit
M=1-271 F structural constituent of ribosome
M=1-271 P translation
N=1-135 C chloroplast
N=1-135 C mitochondrial large ribosomal subunit
N=1-135 F rRNA binding
N=1-135 F structural constituent of ribosome
N=1-135 P mitochondrial translation
O=1-126 C chloroplast
O=1-126 C cytosolic large ribosomal subunit
O=1-126 C large ribosomal subunit
O=1-126 F rRNA binding
O=1-126 F structural constituent of ribosome
O=1-126 P translation
P=1-166 C chloroplast
P=1-166 C ribosome
P=1-166 F 5S rRNA binding
P=1-166 F structural constituent of ribosome
P=1-166 P translation
Q=1-233 C chloroplast
Q=1-233 C ribosome
Q=1-233 F rRNA binding
Q=1-233 F structural constituent of ribosome
Q=1-233 P translation
R=1-128 C chloroplast
R=1-128 C ribosome
R=1-128 F rRNA binding
R=1-128 F structural constituent of ribosome
R=1-128 P ribosomal large subunit assembly
R=1-128 P translation
S=1-256 C chloroplast
S=1-256 C ribosome
S=1-256 F rRNA binding
S=1-256 F structural constituent of ribosome
S=1-256 P translation
T=1-199 C chloroplast
T=1-199 C large ribosomal subunit
T=1-199 F rRNA binding
T=1-199 F structural constituent of ribosome
T=1-199 P ribosome assembly
T=1-199 P translation
U=1-198 C chloroplast
U=1-198 C cytosolic large ribosomal subunit
U=1-198 F rRNA binding
U=1-198 F structural constituent of ribosome
U=1-198 P ribosomal large subunit assembly
U=1-198 P translation
V=1-192 C chloroplast
V=1-192 C mitochondrion
V=1-192 C ribosome
V=1-192 F rRNA binding
V=1-192 F structural constituent of ribosome
V=1-192 P translation
X=1-194 C chloroplast
X=1-194 C ribosome
X=1-194 F structural constituent of ribosome
X=1-194 P translation
Y=1-148 C chloroplast
Y=1-148 C mitochondrial large ribosomal subunit
Y=1-148 F structural constituent of ribosome
Y=1-148 P translation
Z=1-168 C chloroplast
Z=1-168 C ribosome
Z=1-168 F structural constituent of ribosome
Z=1-168 P translation
Sequences
Download file with secondary structure created by Stride  
5mmi.pdb1.pdb:   [ download sequences in FASTA format ]
0 (protein): 
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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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6 (protein): 
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7 (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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X (protein): 
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Y (protein): 
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Z (protein): 
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A (rna): 
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B (rna): 
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W (rna): 
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