8E41 | pdb_00008e41

E. coli 50S ribosome bound to tiamulin and VS1

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
I [auth Q]	SCOP2B Superfamily	Zn-binding ribosomal proteins	8096380	3001320	SCOP2B (2022-06-29)
H [auth P]	SCOP2B Superfamily	Ribosomal protein L22	8096336	3001078	SCOP2B (2022-06-29)
G [auth O]	SCOP2B Superfamily	Ribosomal protein L13	8096350	3001134	SCOP2B (2022-06-29)
F [auth N]	SCOP2B Superfamily	Translational proteins	8032955	3000811	SCOP2B (2022-06-29)
E [auth M]	SCOP2B Superfamily	Ribosomal protein L4	8096356	3001146	SCOP2B (2022-06-29)
D [auth L]	SCOP2B Superfamily	Ribosomal proteins L15p and L18e	8070553	3001045	SCOP2B (2022-06-29)
C [auth K]	SCOP2B Superfamily	Translation proteins SH3-like KOW motif containing domain	8035393	3000334	SCOP2B (2022-06-29)
C [auth K]	SCOP2B Superfamily	Nucleic acid-binding proteins	8035394	3000135	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
I [auth Q]	PF01783	Ribosomal L32p protein family (Ribosomal_L32p)	Ribosomal L32p protein family	-	Family
H [auth P]	PF00237	Ribosomal protein L22p/L17e (Ribosomal_L22)	Ribosomal protein L22p/L17e	This family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes.	Domain
G [auth O]	PF00572	Ribosomal protein L13 (Ribosomal_L13)	Ribosomal protein L13	-	Family
F [auth N]	PF00297	Ribosomal protein L3 (Ribosomal_L3)	Ribosomal protein L3	-	Family
E [auth M]	PF00573	Ribosomal protein L4/L1 family (Ribosomal_L4)	Ribosomal protein L4/L1 family	-	Family
D [auth L]	PF00828	Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A)	Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A	This family includes higher eukaryotic ribosomal 60S L27A, archaeal 50S L18e, prokaryotic 50S L15, fungal mitochondrial L10, plant L27A, mitochondrial L15 and chloroplast L18-3 proteins.	Domain
C [auth K]	PF03947	Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C)	Ribosomal Proteins L2, C-terminal domain		Domain
C [auth K]	PF00181	Ribosomal Proteins L2, RNA binding N-terminal domain (Ribosomal_L2_N)	Ribosomal Proteins L2, RNA binding N-terminal domain		Domain
J [auth R]	PF00468	Ribosomal protein L34 (Ribosomal_L34)	Ribosomal protein L34	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth Q]	50S ribosomal protein L32	structural molecule activity structural constituent of ribosome	response to stimulus response to radiation response to abiotic stimulus primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process response to stimulus response to radiation response to abiotic stimulus primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process response to oxidative stress response to stress response to chemical response to oxygen-containing compound response to reactive oxygen species ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component biogenesis cellular component organization ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly ribosomal large subunit assembly protein-containing complex assembly cellular component organization or biogenesis ribosome assembly	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome large ribosomal subunit
H [auth P]	50S ribosomal protein L22	RNA binding binding rRNA binding nucleic acid binding large ribosomal subunit rRNA binding structural molecule activity structural constituent of ribosome	ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly assembly of large subunit precursor of preribosome protein-containing complex assembly ribosomal large subunit assembly ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly assembly of large subunit precursor of preribosome protein-containing complex assembly ribosomal large subunit assembly cellular process cellular component organization or biogenesis ribosome assembly primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process protein metabolic process macromolecule metabolic process response to stimulus response to chemical response to antibiotic cytosolic ribosome assembly	protein-containing complex intracellular anatomical structure intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome large ribosomal subunit cytoplasm cytosol cytosolic large ribosomal subunit protein-containing complex intracellular anatomical structure intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome large ribosomal subunit cytoplasm cytosol cytosolic large ribosomal subunit cytosolic ribosome
G [auth O]	50S ribosomal protein L13	RNA binding binding nucleic acid binding mRNA binding rRNA binding large ribosomal subunit rRNA binding mRNA 5'-UTR binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding structural molecule activity RNA binding binding nucleic acid binding mRNA binding rRNA binding large ribosomal subunit rRNA binding mRNA 5'-UTR binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding structural molecule activity structural constituent of ribosome	regulation of cellular process negative regulation of biological process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process negative regulation of metabolic process regulation of cellular process negative regulation of biological process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process regulation of protein metabolic process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process cytoplasmic translation	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome large ribosomal subunit
F [auth N]	50S ribosomal protein L3	structural molecule activity structural constituent of ribosome RNA binding binding rRNA binding nucleic acid binding	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component biogenesis cellular component organization ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly ribosomal large subunit assembly protein-containing complex assembly cellular component organization or biogenesis ribosome assembly	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome large ribosomal subunit
E [auth M]	50S ribosomal protein L4	enzyme regulator activity molecular function inhibitor activity molecular function regulator activity nuclease inhibitor activity enzyme inhibitor activity endoribonuclease inhibitor activity ribonuclease inhibitor activity DNA binding binding nucleic acid binding transcription regulator activity RNA-binding transcription regulator activity RNA binding rRNA binding enzyme regulator activity molecular function inhibitor activity molecular function regulator activity nuclease inhibitor activity enzyme inhibitor activity endoribonuclease inhibitor activity ribonuclease inhibitor activity DNA binding binding nucleic acid binding transcription regulator activity RNA-binding transcription regulator activity RNA binding rRNA binding mRNA 5'-UTR binding mRNA binding translation regulator activity translation repressor activity structural molecule activity structural constituent of ribosome	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process protein biosynthetic process post-transcriptional regulation of gene expression negative regulation of translation protein metabolic process negative regulation of protein metabolic process regulation of protein metabolic process translation negative regulation of gene expression negative regulation of cytoplasmic translation regulation of translation cytoplasmic translation regulation of cytoplasmic translation response to stimulus response to chemical response to antibiotic DNA-templated transcription termination protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of protein-containing complex disassembly positive regulation of metabolic process positive regulation of macromolecule metabolic process cellular component disassembly positive regulation of RNA metabolic process regulation of termination of DNA-templated transcription positive regulation of cellular component organization regulation of cellular component organization positive regulation of DNA-templated transcription positive regulation of biological process transcriptional attenuation positive regulation of termination of DNA-templated transcription cellular component organization positive regulation of biosynthetic process cellular component organization or biogenesis positive regulation of protein-containing complex disassembly positive regulation of cellular process protein-containing complex organization positive regulation of RNA biosynthetic process ribonucleoprotein complex biogenesis organelle assembly membraneless organelle assembly cellular component biogenesis ribosome biogenesis organelle organization cellular component assembly ribosome assembly	protein-containing complex intracellular anatomical structure intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome large ribosomal subunit cytoplasm cytosol cytosolic large ribosomal subunit protein-containing complex intracellular anatomical structure intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome large ribosomal subunit cytoplasm cytosol cytosolic large ribosomal subunit cytosolic ribosome
D [auth L]	50S ribosomal protein L15	structural molecule activity structural constituent of ribosome RNA binding binding rRNA binding nucleic acid binding	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
C [auth K]	50S ribosomal protein L2	RNA binding binding rRNA binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding structural molecule activity structural constituent of ribosome transferase activity catalytic activity	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process regulation of DNA-templated DNA replication initiation regulation of cellular process negative regulation of biological process primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process regulation of DNA-templated DNA replication initiation regulation of cellular process negative regulation of biological process negative regulation of DNA-templated DNA replication initiation regulation of primary metabolic process nucleobase-containing compound metabolic process negative regulation of DNA-templated DNA replication negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process DNA-templated DNA replication regulation of biological process negative regulation of DNA replication DNA replication initiation negative regulation of metabolic process biological regulation DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process DNA replication regulation of DNA-templated DNA replication negative regulation of DNA metabolic process regulation of metabolic process regulation of DNA replication regulation of DNA metabolic process ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal large subunit biogenesis protein-RNA complex assembly cellular component biogenesis cellular component organization ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly ribosomal large subunit assembly protein-containing complex assembly cellular component organization or biogenesis ribosome assembly	protein-containing complex intracellular anatomical structure protein-DNA complex intracellular membraneless organelle chromosome replication inhibiting complex intracellular organelle cellular anatomical structure organelle DnaA-L2 complex membraneless organelle replication fork replisome cytoplasm protein-containing complex intracellular anatomical structure protein-DNA complex intracellular membraneless organelle chromosome replication inhibiting complex intracellular organelle cellular anatomical structure organelle DnaA-L2 complex membraneless organelle replication fork replisome cytoplasm cytosol ribosomal subunit cytosolic large ribosomal subunit cytosolic ribosome ribonucleoprotein complex ribosome large ribosomal subunit
B [auth J]	5S ribosomal RNA	-	-	-
K [auth B]	VIRGINIAMYCIN S1	-	-	-
J [auth R]	50S ribosomal protein L34	structural molecule activity structural constituent of ribosome	primary metabolic process translation gene expression protein biosynthetic process macromolecule biosynthetic process biosynthetic process cytoplasmic translation metabolic process cellular process protein metabolic process macromolecule metabolic process	protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol protein-containing complex intracellular anatomical structure intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic large ribosomal subunit cellular anatomical structure cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome cytoplasm cytosol large ribosomal subunit
A [auth I]	50S ribosomal RNA	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I [auth Q]	IPR002677	Large ribosomal subunit protein bL32	Family
I [auth Q]	IPR011332	Zinc-binding ribosomal protein	Homologous Superfamily
I [auth Q]	IPR044957	Large ribosomal subunit protein bL32, bacteria	Family
H [auth P]	IPR036394	Ribosomal protein uL22 superfamily	Homologous Superfamily
H [auth P]	IPR001063	Large ribosomal subunit protein uL22	Family
H [auth P]	IPR047867	Large ribosomal subunit protein uL22, bacteria/organella	Family
H [auth P]	IPR018260	Large ribosomal subunit protein uL22, conserved site	Conserved Site
H [auth P]	IPR005727	Large ribosomal subunit protein uL22, bacterial/chloroplast-type	Family
G [auth O]	IPR023563	Large ribosomal subunit protein uL13, conserved site	Conserved Site
G [auth O]	IPR005822	Large ribosomal subunit protein uL13	Family
G [auth O]	IPR005823	Large ribosomal subunit protein uL13, bacteria	Family
G [auth O]	IPR036899	Large ribosomal subunit protein uL13 superfamily	Homologous Superfamily
F [auth N]	IPR019926	Large ribosomal subunit protein uL3, conserved site	Conserved Site
F [auth N]	IPR019927	Large ribosomal subunit protein uL3, bacteria/organella	Family
F [auth N]	IPR009000	Translation protein, beta-barrel domain superfamily	Homologous Superfamily
F [auth N]	IPR000597	Large ribosomal subunit protein uL3	Family
E [auth M]	IPR013005	Large ribosomal subunit protein uL4-like	Family
E [auth M]	IPR002136	Large ribosomal subunit protein uL4	Family
E [auth M]	IPR023574	Large ribosomal subunit protein uL4 domain superfamily	Homologous Superfamily
D [auth L]	IPR021131	Large ribosomal subunit protein uL15/eL18	Domain
D [auth L]	IPR030878	Large ribosomal subunit protein uL15	Family
D [auth L]	IPR001196	Large ribosomal subunit protein uL15, conserved site	Conserved Site
D [auth L]	IPR036227	Large ribosomal subunit protein uL15/eL18 superfamily	Homologous Superfamily
D [auth L]	IPR005749	Large ribosomal subunit protein uL15, bacteria	Family
C [auth K]	IPR005880	Large ribosomal subunit protein uL2, bacteria/organella	Family
C [auth K]	IPR022669	Large ribosomal subunit protein uL2, C-terminal	Domain
C [auth K]	IPR014722	Large ribosomal subunit protein uL2, domain 2	Homologous Superfamily
C [auth K]	IPR008991	Translation protein SH3-like domain superfamily	Homologous Superfamily
C [auth K]	IPR022671	Large ribosomal subunit protein uL2, conserved site	Conserved Site
C [auth K]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
C [auth K]	IPR022666	Large ribosomal subunit protein uL2, RNA-binding domain	Domain
C [auth K]	IPR014726	Large ribosomal subunit protein uL2, domain 3	Homologous Superfamily
C [auth K]	IPR002171	Large ribosomal subunit protein uL2	Family
J [auth R]	IPR020939	Large ribosomal subunit protein bL34, conserved site	Conserved Site
J [auth R]	IPR000271	Large ribosomal subunit protein bL34	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
K [auth B]	004
K [auth B]	DBB	RESID: AA0112 PSI-MOD : (2S,3S,2'R)-3-methyllanthionine MOD:00121
K [auth B]	MEA	Parent Component: PHE RESID: AA0112 , AA0065 PSI-MOD : (2S,3S,2'R)-3-methyllanthionine MOD:00121 , N-methyl-L-phenylalanine MOD:00074
K [auth B]	MHV	RESID: AA0112 , AA0065
K [auth B]	MHW	RESID: AA0112 , AA0065
A [auth I]	1MG	Parent Component: G RESID: AA0112 , AA0065
A [auth I]	2MA	Parent Component: A RESID: AA0112 , AA0065
A [auth I]	2MG	Parent Component: G RESID: AA0112 , AA0065
A [auth I]	3TD	Parent Component: U RESID: AA0112 , AA0065
A [auth I]	5MC	Parent Component: C RESID: AA0112 , AA0065
A [auth I]	5MU	Parent Component: U RESID: AA0112 , AA0065
A [auth I]	6MZ	Parent Component: A RESID: AA0112 , AA0065
A [auth I]	G7M	Parent Component: G RESID: AA0112 , AA0065
A [auth I]	OMC	Parent Component: C RESID: AA0112 , AA0065
A [auth I]	OMG	Parent Component: G RESID: AA0112 , AA0065
A [auth I]	OMU	Parent Component: U RESID: AA0112 , AA0065
A [auth I]	PSU	Parent Component: U RESID: AA0112 , AA0065