1FKA

STRUCTURE OF FUNCTIONALLY ACTIVATED SMALL RIBOSOMAL SUBUNIT AT 3.3 A RESOLUTION

Present annotations:

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Product Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d1fkab_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
C	d1fkac_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
E	d1fkae_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
H	d1fkah_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
I	d1fkai_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
J	d1fkaj_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
K	d1fkak_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
L	d1fkal_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
M	d1fkam_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
P	d1fkap_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
Q	d1fkaq_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
R	d1fkar_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
T	d1fkat_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
N	d1fkan_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
O	d1fkao_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
S	d1fkas_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
D	d1fkad_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
F	d1fkaf_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)
G	d1fkag_	Low resolution protein structures	Ribosome and ribosomal fragments	Ribosome and ribosomal fragments	Small subunit	Prokaryotic (30S subunit)	(Thermus thermophilus ) [TaxId: 274 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E	SCOP2B Superfamily	dsRNA-binding domain-like	8044017	3000985	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Ribosomal protein S5 domain 2-like	8044015	3000100	SCOP2B (2022-06-29)
S	SCOP2B Superfamily	Ribosomal protein S19	8044027	3000686	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Ribosomal protein S7	8033523	3000799	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
E	Ribosomal_S5_C	e1fkaE2	A: a+b two layers	X: Ribosomal protein S5 domain 2-like (From Topology)	H: Ribosomal protein S5 domain 2-like (From Topology)	T: Ribosomal protein S5 domain 2-like	F: Ribosomal_S5_C	ECOD (1.6)
E	Ribosomal_S5	e1fkaE1	A: a+b two layers	X: dsRBD-like	H: dsRNA-binding domain-like (From Topology)	T: dsRNA-binding domain-like	F: Ribosomal_S5	ECOD (1.6)
H	Ribosomal_S8_N	e1fkaH1	A: a+b two layers	X: R3H domain-like	H: Ribosomal protein S8, N-terminal domain (From Topology)	T: Ribosomal protein S8, N-terminal domain	F: Ribosomal_S8_N	ECOD (1.6)
H	Ribosomal_S8_C	e1fkaH2	A: a+b two layers	X: Ribosomal protein S8, C-terminal domain (From Topology)	H: Ribosomal protein S8, C-terminal domain (From Topology)	T: Ribosomal protein S8, C-terminal domain	F: Ribosomal_S8_C	ECOD (1.6)
R	Ribosomal_S18	e1fkaR1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: Ribosomal_S18	ECOD (1.6)
O	Ribosomal_S15_1	e1fkaO1	A: alpha arrays	X: S15/NS1 RNA-binding domain (From Topology)	H: S15/NS1 RNA-binding domain (From Topology)	T: S15/NS1 RNA-binding domain	F: Ribosomal_S15_1	ECOD (1.6)
S	Ribosomal_S19	e1fkaS1	A: a+b two layers	X: Ribosomal protein S19 (From Topology)	H: Ribosomal protein S19 (From Topology)	T: Ribosomal protein S19	F: Ribosomal_S19	ECOD (1.6)
D	S4	e1fkaD1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Alpha-L RNA-binding motif	F: S4	ECOD (1.6)
F	Ribosomal_S6	e1fkaF1	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein S6 (From Topology)	T: Ribosomal protein S6	F: Ribosomal_S6	ECOD (1.6)
G	Ribosomal_S7_1	e1fkaG1	A: alpha arrays	X: Ribosomal protein S7 (From Topology)	H: Ribosomal protein S7 (From Topology)	T: Ribosomal protein S7	F: Ribosomal_S7_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	3.30.160.20	Alpha Beta	2-Layer Sandwich	Double Stranded RNA Binding Domain		CATH (4.2.0)
E	3.30.230.10	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S5	domain 2	CATH (4.2.0)
H	3.30.1370.30	Alpha Beta	2-Layer Sandwich	Ribosomal Protein S8	Chain: A, domain 1	CATH (4.2.0)
H	3.30.1490.10	Alpha Beta	2-Layer Sandwich	Dna Ligase	domain 1	CATH (4.2.0)
R	4.10.640.10	Few Secondary Structures	Irregular	30s Ribosomal Protein S18	Ribosomal protein S18	CATH (4.2.0)
O	1.10.287.10	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	S15/NS1, RNA-binding	CATH (4.2.0)
S	3.30.860.10	Alpha Beta	2-Layer Sandwich	30s Ribosomal Protein S19	Chain A	CATH (4.2.0)
D	1.10.1050.10	Mainly Alpha	Orthogonal Bundle	Ribosomal Protein S4 Delta 41	Chain A, domain 1	CATH (4.2.0)
D	3.10.290.10	Alpha Beta	Roll	Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region	Chain A	CATH (4.2.0)
F	3.30.70.60	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Ribosomal protein S6/Translation elongation factor EF1B	CATH (4.2.0)
G	1.10.455.10	Mainly Alpha	Orthogonal Bundle	Ribosomal Protein S7	Ribosomal protein S7/S5	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E	PF03719	Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C)	Ribosomal protein S5, C-terminal domain	-	Domain
E	PF00333	Ribosomal protein S5, N-terminal domain (Ribosomal_S5)	Ribosomal protein S5, N-terminal domain	-	Domain
H	PF00410	Ribosomal protein S8 (Ribosomal_S8)	Ribosomal protein S8	-	Domain
R	PF01084	Ribosomal protein S18 (Ribosomal_S18)	Ribosomal protein S18	-	Family
O	PF00312	Ribosomal protein S15 (Ribosomal_S15)	Ribosomal protein S15	-	Domain
S	PF00203	Ribosomal protein S19 (Ribosomal_S19)	Ribosomal protein S19	-	Domain
D	PF00163	Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)	Ribosomal protein S4/S9 N-terminal domain	-	Family
D	PF01479	S4 domain (S4)	S4 domain	The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast pro ...	The S4 domain is a small domain consisting of 60-65 amino acid residues that was detected in the bacterial ribosomal protein S4, eukaryotic ribosomal S9, two families of pseudouridine synthases, a novel family of predicted RNA methylases, a yeast protein containing a pseudouridine synthetase and a deaminase domain, bacterial tyrosyl-tRNA synthetases, and a number of uncharacterized, small proteins that may be involved in translation regulation [1]. The S4 domain probably mediates binding to RNA.	Domain
F	PF01250	Ribosomal protein S6 (Ribosomal_S6)	Ribosomal protein S6	-	Domain
G	PF00177	Ribosomal protein S7p/S5e (Ribosomal_S7)	Ribosomal protein S7p/S5e	This family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes.	Domain

Gene Product Annotation Gene Product Annotation

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	16S RIBOSOMAL RNA	none	none	none
B	30S RIBOSOMAL PROTEIN S2	none	none	none
C	30S RIBOSOMAL PROTEIN S3	none	none	none
E	30S RIBOSOMAL PROTEIN S5	structural molecule activity structural constituent of ribosome RNA binding binding organic cyclic compound binding rRNA binding nucleic acid binding heterocyclic compound binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process amide metabolic process peptide metabolic process	protein-containing complex intracellular anatomical structure small ribosomal subunit cellular anatomical entity ribosomal subunit intracellular organelle organelle ribonucleoprotein complex intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle
H	30S RIBOSOMAL PROTEIN S8	structural molecule activity structural constituent of ribosome RNA binding binding organic cyclic compound binding rRNA binding nucleic acid binding heterocyclic compound binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process amide metabolic process peptide metabolic process	protein-containing complex ribonucleoprotein complex intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle ribosome cellular anatomical entity non-membrane-bounded organelle
I	30S RIBOSOMAL PROTEIN S9	none	none	none
J	30S RIBOSOMAL PROTEIN S10	none	none	none
K	30S RIBOSOMAL PROTEIN S11	none	none	none
L	30S RIBOSOMAL PROTEIN S12	none	none	none
M	30S RIBOSOMAL PROTEIN S13	none	none	none
P	30S RIBOSOMAL PROTEIN S16	none	none	none
Q	30S RIBOSOMAL PROTEIN S17	none	none	none
R	30S RIBOSOMAL PROTEIN S18	structural molecule activity structural constituent of ribosome RNA binding binding organic cyclic compound binding rRNA binding nucleic acid binding heterocyclic compound binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process amide metabolic process peptide metabolic process	protein-containing complex ribonucleoprotein complex intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle ribosome cellular anatomical entity non-membrane-bounded organelle
T	30S RIBOSOMAL PROTEIN S20	none	none	none
N	30S RIBOSOMAL PROTEIN S14	none	none	none
O	30S RIBOSOMAL PROTEIN S15	structural molecule activity structural constituent of ribosome RNA binding binding organic cyclic compound binding rRNA binding nucleic acid binding heterocyclic compound binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process amide metabolic process peptide metabolic process	protein-containing complex ribonucleoprotein complex intracellular anatomical structure cytoplasm cellular anatomical entity intracellular organelle organelle intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle
S	30S RIBOSOMAL PROTEIN S19	structural molecule activity structural constituent of ribosome RNA binding binding organic cyclic compound binding rRNA binding nucleic acid binding heterocyclic compound binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process amide metabolic process peptide metabolic process	protein-containing complex intracellular anatomical structure small ribosomal subunit cellular anatomical entity ribosomal subunit intracellular organelle organelle ribonucleoprotein complex intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle cytoplasm
D	30S RIBOSOMAL PROTEIN S4	structural molecule activity structural constituent of ribosome cation binding ion binding binding metal ion binding RNA binding organic cyclic compound binding rRNA binding nucleic acid binding heterocyclic compound binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process amide metabolic process peptide metabolic process	protein-containing complex intracellular anatomical structure small ribosomal subunit cellular anatomical entity ribosomal subunit intracellular organelle organelle ribonucleoprotein complex intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle
F	30S RIBOSOMAL PROTEIN S6	structural molecule activity structural constituent of ribosome RNA binding binding organic cyclic compound binding rRNA binding nucleic acid binding heterocyclic compound binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process amide metabolic process peptide metabolic process	protein-containing complex ribonucleoprotein complex intracellular organelle intracellular anatomical structure organelle intracellular non-membrane-bounded organelle ribosome cellular anatomical entity non-membrane-bounded organelle
G	30S RIBOSOMAL PROTEIN S7	RNA binding binding organic cyclic compound binding tRNA binding nucleic acid binding heterocyclic compound binding structural molecule activity structural constituent of ribosome rRNA binding	organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process organonitrogen compound metabolic process cellular biosynthetic process cellular metabolic process organonitrogen compound biosynthetic process primary metabolic process amide biosynthetic process cellular nitrogen compound metabolic process translation gene expression macromolecule biosynthetic process cellular nitrogen compound biosynthetic process organic substance metabolic process peptide biosynthetic process biosynthetic process organic substance biosynthetic process nitrogen compound metabolic process metabolic process cellular process protein metabolic process macromolecule metabolic process amide metabolic process peptide metabolic process	protein-containing complex intracellular anatomical structure small ribosomal subunit cellular anatomical entity ribosomal subunit intracellular organelle organelle ribonucleoprotein complex intracellular non-membrane-bounded organelle ribosome non-membrane-bounded organelle