8CA7 | pdb_00008ca7

Omadacycline and spectinomycin bound to the 30S ribosomal subunit head

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth I]	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8082661	3000100	SCOP2B (2022-06-29)
F [auth J]	SCOP2B Superfamily	Ribosomal protein S10	8102681	3001336	SCOP2B (2022-06-29)
G [auth M]	SCOP2B Superfamily	S13-like H2TH domain	8098358	3000053	SCOP2B (2022-06-29)
H [auth N]	SCOP2B Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8052568	3000068	SCOP2B (2022-06-29)
I [auth S]	SCOP2B Superfamily	Ribosomal protein S19	8103915	3000686	SCOP2B (2022-06-29)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth G]	1.10.455.10	Mainly Alpha	Orthogonal Bundle	Ribosomal Protein S7	Ribosomal protein S7/S5	CATH (utative)
G [auth M]	1.10.8.50	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth C]	PF07650	KH domain (KH_2)	KH domain		Domain
B [auth C]	PF00189	Ribosomal protein S3, C-terminal domain (Ribosomal_S3_C)	Ribosomal protein S3, C-terminal domain	This family contains a central domain Pfam:PF00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer.	Domain
E [auth I]	PF00380	Ribosomal protein S9/S16 (Ribosomal_S9)	Ribosomal protein S9/S16	-	Family
F [auth J]	PF00338	Ribosomal protein S10p/S20e (Ribosomal_S10)	Ribosomal protein S10p/S20e	This family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.	Domain
G [auth M]	PF00416	Ribosomal protein S13/S18 (Ribosomal_S13)	Ribosomal protein S13/S18	-	Family
H [auth N]	PF00253	Ribosomal protein S14p/S29e (Ribosomal_S14)	Ribosomal protein S14p/S29e	-	Family
I [auth S]	PF00203	Ribosomal protein S19 (Ribosomal_S19)	Ribosomal protein S19		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	16S rRNA	-	-	-
B [auth C]	Small ribosomal subunit protein uS3	RNA binding binding nucleic acid binding mRNA binding rRNA binding structural molecule activity structural constituent of ribosome	biosynthetic process cytoplasmic translation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly biosynthetic process cytoplasmic translation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis ribosome assembly	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome
C [auth E]	Small ribosomal subunit protein uS5	RNA binding binding rRNA binding nucleic acid binding structural molecule activity structural constituent of ribosome	biosynthetic process cytoplasmic translation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process response to stimulus response to chemical response to antibiotic ribonucleoprotein complex biogenesis biosynthetic process cytoplasmic translation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process response to stimulus response to chemical response to antibiotic ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis ribosome assembly maintenance of translational fidelity	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome
D [auth G]	30S ribosomal protein S7	RNA binding binding nucleic acid binding mRNA binding rRNA binding tRNA binding structural molecule activity structural constituent of ribosome	regulation of cellular process negative regulation of biological 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 regulation of cellular process negative regulation of biological 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 ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular component organization or biogenesis ribosome assembly	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome
E [auth I]	Small ribosomal subunit protein uS9	RNA binding binding nucleic acid binding tRNA binding structural molecule activity structural constituent of ribosome	biosynthetic process cytoplasmic translation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome
F [auth J]	Small ribosomal subunit protein uS10	transcription antitermination factor activity, RNA binding transcription regulator activity RNA binding binding tRNA binding nucleic acid binding structural molecule activity structural constituent of ribosome	negative regulation of termination of DNA-templated transcription regulation of cellular process negative regulation of biological process protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of protein-containing complex disassembly regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of macromolecule metabolic process negative regulation of nucleobase-containing compound metabolic process negative regulation of termination of DNA-templated transcription regulation of cellular process negative regulation of biological process protein-containing complex disassembly positive regulation of macromolecule biosynthetic process regulation of protein-containing complex disassembly regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process positive regulation of macromolecule metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process cellular component disassembly negative regulation of DNA-templated transcription regulation of biological process negative regulation of cellular component organization negative regulation of metabolic process primary metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process regulation of termination of DNA-templated transcription regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process regulation of cellular component organization transcription antitermination positive regulation of biological process RNA metabolic process DNA-templated transcription termination RNA biosynthetic process cellular component organization nucleic acid biosynthetic process positive regulation of biosynthetic process negative regulation of protein-containing complex disassembly negative regulation of cellular process cellular component organization or biogenesis positive regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process protein-containing complex organization biological regulation regulation of macromolecule metabolic process gene expression nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process positive regulation of gene expression negative regulation of biosynthetic process cellular process cytoplasmic translation protein metabolic process translation cellular component biogenesis ribosome biogenesis ribonucleoprotein complex biogenesis regulation of DNA-templated transcription elongation DNA-templated transcription elongation	protein-containing complex intracellular anatomical structure small ribosomal subunit intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome membrane-bounded organelle transcription elongation factor complex nucleus protein-containing complex intracellular anatomical structure small ribosomal subunit intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome membrane-bounded organelle transcription elongation factor complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen cytoplasm cytosol cytosolic small ribosomal subunit cytosolic ribosome
G [auth M]	Small ribosomal subunit protein uS13	RNA binding binding rRNA binding nucleic acid binding tRNA binding structural molecule activity structural constituent of ribosome	biosynthetic process cytoplasmic translation metabolic process cellular process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process	protein-containing complex intracellular anatomical structure small ribosomal subunit intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex intracellular anatomical structure small ribosomal subunit intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome cytoplasm cytosol cytosolic small ribosomal subunit cytosolic ribosome
H [auth N]	Small ribosomal subunit protein uS14	RNA binding binding tRNA binding nucleic acid binding structural molecule activity structural constituent of ribosome rRNA binding	ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly protein-containing complex assembly ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular process cellular component organization or biogenesis ribosome assembly biosynthetic process cytoplasmic translation metabolic process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process	protein-containing complex intracellular anatomical structure small ribosomal subunit intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome cytosolic small ribosomal subunit cytosolic ribosome cytoplasm protein-containing complex intracellular anatomical structure small ribosomal subunit intracellular membraneless organelle ribosomal subunit intracellular organelle cellular anatomical structure ribonucleoprotein complex organelle membraneless organelle ribosome cytosolic small ribosomal subunit cytosolic ribosome cytoplasm cytosol
I [auth S]	Small ribosomal subunit protein uS19	RNA binding binding tRNA binding nucleic acid binding structural molecule activity structural constituent of ribosome rRNA binding	ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly protein-containing complex assembly ribonucleoprotein complex biogenesis organelle assembly protein-containing complex organization membraneless organelle assembly ribosomal small subunit assembly protein-RNA complex assembly ribosomal small subunit biogenesis cellular component organization cellular component biogenesis ribosome biogenesis organelle organization protein-RNA complex organization cellular component assembly protein-containing complex assembly cellular process cellular component organization or biogenesis ribosome assembly biosynthetic process cytoplasmic translation metabolic process primary metabolic process protein metabolic process macromolecule metabolic process translation gene expression macromolecule biosynthetic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cytosolic small ribosomal subunit protein-containing complex small ribosomal subunit intracellular membraneless organelle intracellular organelle ribosomal subunit cytosolic ribosome organelle ribonucleoprotein complex membraneless organelle ribosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth C]	IPR001351	Small ribosomal subunit protein uS3, C-terminal	Domain
B [auth C]	IPR009019	K homology domain superfamily, prokaryotic type	Homologous Superfamily
B [auth C]	IPR004087	K Homology domain	Domain
B [auth C]	IPR004044	K Homology domain, type 2	Domain
B [auth C]	IPR015946	K homology domain-like, alpha/beta	Homologous Superfamily
B [auth C]	IPR036419	Ribosomal protein S3, C-terminal domain superfamily	Homologous Superfamily
B [auth C]	IPR005704	Small ribosomal subunit protein uS3, bacterial-type	Family
B [auth C]	IPR018280	Small ribosomal subunit protein uS3, conserved site	Conserved Site
C [auth E]	IPR000851	Small ribosomal subunit protein uS5	Family
C [auth E]	IPR005324	Small ribosomal subunit protein uS5, C-terminal	Domain
C [auth E]	IPR013810	Small ribosomal subunit protein uS5, N-terminal	Domain
C [auth E]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
C [auth E]	IPR018192	Small ribosomal subunit protein uS5, N-terminal, conserved site	Conserved Site
C [auth E]	IPR005712	Small ribosomal subunit protein uS5, bacterial-type	Family
C [auth E]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
D [auth G]	IPR020606	Small ribosomal subunit protein uS7, conserved site	Conserved Site
D [auth G]	IPR036823	Small ribosomal subunit protein uS7 domain superfamily	Homologous Superfamily
D [auth G]	IPR000235	Small ribosomal subunit protein uS7	Family
D [auth G]	IPR005717	Small ribosomal subunit protein uS7, bacterial/organellar-type	Family
D [auth G]	IPR023798	Small ribosomal subunit protein uS7 domain	Domain
E [auth I]	IPR020574	Small ribosomal subunit protein uS9, conserved site	Conserved Site
E [auth I]	IPR023035	Small ribosomal subunit protein uS9, bacterial/plastid	Family
E [auth I]	IPR020568	Ribosomal protein uS5 domain 2-type superfamily	Homologous Superfamily
E [auth I]	IPR000754	Small ribosomal subunit protein uS9	Family
E [auth I]	IPR014721	Small ribosomal subunit protein uS5 domain 2-type fold, subgroup	Homologous Superfamily
F [auth J]	IPR027486	Small ribosomal subunit protein uS10 domain	Domain
F [auth J]	IPR036838	Small ribosomal subunit protein uS10 domain superfamily	Homologous Superfamily
F [auth J]	IPR018268	Small ribosomal subunit protein uS10, conserved site	Conserved Site
F [auth J]	IPR001848	Small ribosomal subunit protein uS10	Family
G [auth M]	IPR018269	Small ribosomal subunit protein uS13, conserved site	Conserved Site
G [auth M]	IPR027437	Small ribosomal subunit protein uS13, C-terminal	Homologous Superfamily
G [auth M]	IPR001892	Small ribosomal subunit protein uS13	Family
G [auth M]	IPR010979	Small ribosomal subunit protein uS13-like, H2TH	Homologous Superfamily
G [auth M]	IPR019980	Small ribosomal subunit protein uS13, bacterial-type	Family
H [auth N]	IPR001209	Small ribosomal subunit protein uS14	Family
H [auth N]	IPR018271	Small ribosomal subunit protein uS14, conserved site	Conserved Site
H [auth N]	IPR023036	Small ribosomal subunit protein uS14, bacteria/plastid	Family
I [auth S]	IPR002222	Small ribosomal subunit protein uS19	Family
I [auth S]	IPR005732	Small ribosomal subunit protein uS19, bacterial-type	Family
I [auth S]	IPR023575	Small ribosomal subunit protein uS19, superfamily	Homologous Superfamily
I [auth S]	IPR020934	Small ribosomal subunit protein uS19, conserved site	Conserved Site