6RM3

Evolutionary compaction and adaptation visualized by the structure of the dormant microsporidian ribosome

External Resource: Annotation

Domain Annotation: ECOD Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
J [auth SBB]	PF01667	e6rm3SBB1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01667	ECOD (1.6)
L [auth SC0]	PF03719	e6rm3SC01	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: PF03719	ECOD (1.6)
L [auth SC0]	PF00333	e6rm3SC02	A: a+b two layers	X: dsRBD-like	H: dsRNA-binding domain-like (From Topology)	T: dsRNA-binding domain-like	F: PF00333	ECOD (1.6)
L [auth SC0]	PF00333	e6rm3SC03	A: extended segments	X: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology)	H: N-terminal region in 40S ribosomal protein rpS2 (S5p) (From Topology)	T: N-terminal region in 40S ribosomal protein rpS2 (S5p)	F: PF00333	ECOD (1.6)
M [auth LCC]	PF01248	e6rm3LCC1	A: a+b three layers	X: Bacillus chorismate mutase-like	H: L30e-like (From Topology)	T: L30e-like	F: PF01248	ECOD (1.6)
N [auth SCC]	PF01200	e6rm3SCC1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF01200	ECOD (1.6)
O [auth LD0]	PF14204,PF17144	e6rm3LD01	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF14204,PF17144	ECOD (1.6)
P [auth SD0]	PF00189	e6rm3SD01	A: a+b two layers	X: T-fold	H: Ribosomal protein S3-C (From Topology)	T: Ribosomal protein S3-C	F: PF00189	ECOD (1.6)
P [auth SD0]	F_UNCLASSIFIED	e6rm3SD02	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Prokaryotic type KH domain (KH-domain type II)	F: F_UNCLASSIFIED	ECOD (1.6)
Q [auth LDD]	PF01198	e6rm3LDD1	A: a+b two layers	X: Ribosomal protein L31e-like	H: Ribosomal protein L31e/gp120 outer domain (From Topology)	T: Ribosomal protein L31e/gp120 outer domain	F: PF01198	ECOD (1.6)
R [auth SDD]	PF00253	e6rm3SDD1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: PF00253	ECOD (1.6)
S [auth LE0]	PF01159	e6rm3LE01	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF01159	ECOD (1.6)
T [auth SE0]	PF00900	e6rm3SE03	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00900	ECOD (1.6)
T [auth SE0]	PF00467,PF16121	e6rm3SE01	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF00467,PF16121	ECOD (1.6)
T [auth SE0]	PF01479,PF08071	e6rm3SE02	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Alpha-L RNA-binding motif	F: PF01479,PF08071	ECOD (1.6)
U [auth LEE]	PF01655	e6rm3LEE1	A: a/b three-layered sandwiches	X: Ribosomal protein L13/L15p/L18e/L32e	H: Ribosomal protein L32e (From Topology)	T: Ribosomal protein L32e	F: PF01655	ECOD (1.6)
V [auth SEE]	PF04758	e6rm3SEE1	A: extended segments	X: 40S ribosomal protein S30 (S30e) (From Topology)	H: 40S ribosomal protein S30 (S30e) (From Topology)	T: 40S ribosomal protein S30 (S30e)	F: PF04758	ECOD (1.6)
W [auth LF0]	PF00327	e6rm3LF01	A: a+b two layers	X: Ribosomal protein L30p/L7e (From Topology)	H: Ribosomal protein L30p/L7e (From Topology)	T: Ribosomal protein L30p/L7e	F: PF00327	ECOD (1.6)
X [auth SF0]	PF00177	e6rm3SF01	A: alpha arrays	X: Ribosomal protein S7 (From Topology)	H: Ribosomal protein S7 (From Topology)	T: Ribosomal protein S7	F: PF00177	ECOD (1.6)
Y [auth LFF]	PF01247	e6rm3LFF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF01247	ECOD (1.6)
Z [auth SFF]	PF01599	e6rm3SFF1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01599	ECOD (1.6)
AA [auth LG0]	PF01248	e6rm3LG01	A: a+b three layers	X: Bacillus chorismate mutase-like	H: L30e-like (From Topology)	T: L30e-like	F: PF01248	ECOD (1.6)
BA [auth SG0]	PF01092	e6rm3SG01	A: beta barrels	X: Ribosomal protein L25-like	H: Ribosomal protein L25-like (From Topology)	T: Ribosomal protein L25-like	F: PF01092	ECOD (1.6)
CA [auth LGG]	PF01199	e6rm3LGG1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: RPL34 (From Topology)	T: RPL34	F: PF01199	ECOD (1.6)
C [auth LA0]	PF00181	e6rm3LA01	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00181	ECOD (1.6)
C [auth LA0]	PF03947	e6rm3LA02	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF03947	ECOD (1.6)
DA [auth SGG]	PF00400	e6rm3SGG1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: PF00400	ECOD (1.6)
EA [auth LH0]	F_UNCLASSIFIED	e6rm3LH02	A: a+b two layers	X: Ribosomal protein L6 (From Topology)	H: Ribosomal protein L6 (From Topology)	T: Ribosomal protein L6	F: F_UNCLASSIFIED	ECOD (1.6)
FA [auth SH0]	F_UNCLASSIFIED	e6rm3SH01	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: 40S ribosomal protein S7-A (From Topology)	T: 40S ribosomal protein S7-A	F: F_UNCLASSIFIED	ECOD (1.6)
GA [auth LHH]	PF00831	e6rm3LHH1	A: alpha bundles	X: Long alpha-hairpin	H: Ribosomal protein L29 (L29p) (From Topology)	T: Ribosomal protein L29 (L29p)	F: PF00831	ECOD (1.6)
HA [auth LI0]	PF00252	e6rm3LI01	A: a+b complex topology	X: alpha/beta-Hammerhead/Barrel-sandwich hybrid	H: alpha/beta-Hammerhead/Barrel-sandwich hybrid	T: Ribosomal protein L10e	F: PF00252	ECOD (1.6)
IA [auth SI0]	PF01201	e6rm3SI01	A: beta barrels	X: Ribosomal protein L14-like	H: Ribosomal protein L14-related (From Topology)	T: Ribosomal protein L14-related	F: PF01201	ECOD (1.6)
JA [auth LII]	PF01158	e6rm3LII1	A: alpha arrays	X: 60S ribosomal protein rpL36 (L36e) (From Topology)	H: 60S ribosomal protein rpL36 (L36e) (From Topology)	T: 60S ribosomal protein rpL36 (L36e)	F: PF01158	ECOD (1.6)
KA [auth LJ0]	PF00281,PF00673	e6rm3LJ01	A: a+b two layers	X: Ribosomal protein L5 (From Topology)	H: Ribosomal protein L5 (From Topology)	T: Ribosomal protein L5	F: PF00281,PF00673	ECOD (1.6)
LA [auth SJ0]	PF01479	e6rm3SJ01	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Alpha-L RNA-binding motif	F: PF01479	ECOD (1.6)
MA [auth LJJ]	PF01907	e6rm3LJJ1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01907	ECOD (1.6)
D [auth SA0]	PF00318	e6rm3SA01	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Ribosomal protein S2/SIS domain (From Topology)	T: Ribosomal protein S2/SIS domain	F: PF00318	ECOD (1.6)
NA [auth LL0]	PF01294	e6rm3LL01	A: extended segments	X: RPL13 (From Topology)	H: RPL13 (From Topology)	T: RPL13	F: PF01294	ECOD (1.6)
OA [auth SL0]	PF00366,PF16205	e6rm3SL01	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00366,PF16205	ECOD (1.6)
PA [auth LLL]	PF00832	e6rm3LLL1	A: extended segments	X: Ribosomal protein L39e (From Topology)	H: Ribosomal protein L39e (From Topology)	T: Ribosomal protein L39e	F: PF00832	ECOD (1.6)
QA [auth LM0]	F_UNCLASSIFIED	e6rm3LM01	A: beta barrels	X: SH3	H: SH3	T: SH3	F: F_UNCLASSIFIED	ECOD (1.6)
RA [auth LMM]	PF01020	e6rm3LMM1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01020	ECOD (1.6)
SA [auth SM0]	PF01248	e6rm3SM01	A: a+b three layers	X: Bacillus chorismate mutase-like	H: L30e-like (From Topology)	T: L30e-like	F: PF01248	ECOD (1.6)
TA [auth LN0]	PF00827	e6rm3LN01	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal proteins S24e, L23 and L15e (From Topology)	T: Ribosomal proteins S24e, L23 and L15e	F: PF00827	ECOD (1.6)
UA [auth SN0]	PF08069	e6rm3SN01	A: alpha arrays	X: HTH	H: 40S ribosomal protein S13 N-terminal domain (From Topology)	T: 40S ribosomal protein S13 N-terminal domain	F: PF08069	ECOD (1.6)
UA [auth SN0]	PF00312	e6rm3SN02	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: PF00312	ECOD (1.6)
WA [auth SNN]	PF05907	e6rm3SNN1	A: beta duplicates or obligate multimers	X: MAL13P1.257-like (From Topology)	H: MAL13P1.257-like (From Topology)	T: MAL13P1.257-like	F: PF05907	ECOD (1.6)
E [auth LAA]	PF00828	e6rm3LAA1	A: a/b three-layered sandwiches	X: Ribosomal protein L13/L15p/L18e/L32e	H: Ribosomal proteins L15p and L18e (From Topology)	T: Ribosomal proteins L15p and L18e	F: PF00828	ECOD (1.6)
XA [auth LO0]	PF00572	e6rm3LO01	A: a/b three-layered sandwiches	X: Ribosomal protein L13/L15p/L18e/L32e	H: Ribosomal protein L13 and L16-A (From Topology)	T: Ribosomal protein L13 and L16-A	F: PF00572	ECOD (1.6)
YA [auth SO0]	PF00411	e6rm3SO01	A: mixed a+b and a/b	X: Ribonuclease H-like	H: Ribonuclease H-like (From Topology)	T: Ribonuclease H-like	F: PF00411	ECOD (1.6)
ZA [auth LOO]	PF00935	e6rm3LOO1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF00935	ECOD (1.6)
AB [auth LP0]	PF00237	e6rm3LP01	A: a+b two layers	X: Enolase-N/ribosomal protein	H: Ribosomal protein L22 (From Topology)	T: Ribosomal protein L22	F: PF00237	ECOD (1.6)
BB [auth SP0]	PF00203	e6rm3SP01	A: a+b two layers	X: Ribosomal protein S19 (From Topology)	H: Ribosomal protein S19 (From Topology)	T: Ribosomal protein S19	F: PF00203	ECOD (1.6)
CB [auth LPP]	PF01780	e6rm3LPP1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01780	ECOD (1.6)
DB [auth LQ0]	PF17135	e6rm3LQ01	A: a/b three-layered sandwiches	X: Ribosomal protein L13/L15p/L18e/L32e	H: Ribosomal proteins L15p and L18e (From Topology)	T: Ribosomal proteins L15p and L18e	F: PF17135	ECOD (1.6)
EB [auth SQ0]	PF00380	e6rm3SQ01	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: PF00380	ECOD (1.6)
FB [auth LR0]	PF01280	e6rm3LR01	A: alpha arrays	X: Ribosomal protein L19 (L19e) N-terminal domain (From Topology)	H: Ribosomal protein L19 (L19e) N-terminal domain (From Topology)	T: Ribosomal protein L19 (L19e) N-terminal domain	F: PF01280	ECOD (1.6)
FB [auth LR0]	PF01280	e6rm3LR02	A: alpha bundles	X: Ribosomal protein L19 (L19e) C-terminal domain (From Topology)	H: Ribosomal protein L19 (L19e) C-terminal domain (From Topology)	T: Ribosomal protein L19 (L19e) C-terminal domain	F: PF01280	ECOD (1.6)
GB [auth SR0]	PF00833	e6rm3SR01	A: alpha arrays	X: HTH	H: HTH	T: FF domain	F: PF00833	ECOD (1.6)
F [auth SAA]	PF01283	e6rm3SAA1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: PF01283	ECOD (1.6)
HB [auth LS0]	F_UNCLASSIFIED	e6rm3LS01	A: a+b two layers	X: GP2-like	H: RplX-like (From Topology)	T: RplX-like	F: F_UNCLASSIFIED	ECOD (1.6)
IB [auth SS0]	PF00416	e6rm3SS01	A: alpha arrays	X: HhH/H2TH	H: H2TH (From Topology)	T: H2TH	F: PF00416	ECOD (1.6)
JB [auth LT0]	PF01157	e6rm3LT01	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF01157	ECOD (1.6)
KB [auth ST0]	PF01090	e6rm3ST01	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF01090	ECOD (1.6)
LB [auth LU0]	PF01776	e6rm3LU01	A: a+b two layers	X: Ribosomal protein L22e (From Topology)	H: Ribosomal protein L22e (From Topology)	T: Ribosomal protein L22e	F: PF01776	ECOD (1.6)
MB [auth SU0]	PF00338	e6rm3SU01	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein S10 (From Topology)	T: Ribosomal protein S10	F: PF00338	ECOD (1.6)
NB [auth LV0]	PF00238	e6rm3LV01	A: beta barrels	X: Ribosomal protein L14-like	H: Ribosomal protein L14-related (From Topology)	T: Ribosomal protein L14-related	F: PF00238	ECOD (1.6)
OB [auth SV0]	PF01249	e6rm3SV01	A: a+b two layers	X: 40S ribosomal protein rpS21 (S21e) (From Topology)	H: 40S ribosomal protein rpS21 (S21e) (From Topology)	T: 40S ribosomal protein rpS21 (S21e)	F: PF01249	ECOD (1.6)
PB [auth LW0]	PF01246	e6rm3LW01	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: PF01246	ECOD (1.6)
QB [auth SW0]	PF00410	e6rm3SW01	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: PF00410	ECOD (1.6)
QB [auth SW0]	F_UNCLASSIFIED	e6rm3SW02	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: F_UNCLASSIFIED	ECOD (1.6)
G [auth LB0]	PF00297	e6rm3LB01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF00297	ECOD (1.6)
RB [auth LX0]	PF00276	e6rm3LX01	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal proteins S24e, L23 and L15e (From Topology)	T: Ribosomal proteins S24e, L23 and L15e	F: PF00276	ECOD (1.6)
SB [auth SX0]	PF00164	e6rm3SX01	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00164	ECOD (1.6)
UB [auth LY0]	PF16906	e6rm3LY01	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF16906	ECOD (1.6)
VB [auth SY0]	PF01282	e6rm3SY01	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal proteins S24e, L23 and L15e (From Topology)	T: Ribosomal proteins S24e, L23 and L15e	F: PF01282	ECOD (1.6)
WB [auth LZ0]	PF01777	e6rm3LZ01	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF01777	ECOD (1.6)
YB [auth SK0]	PF03501	e6rm3SK01	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF03501	ECOD (1.6)
H [auth SB0]	PF01015	e6rm3SB02	A: beta barrels	X: Ribosomal protein L25-like	H: 40S ribosomal protein S3A N-terminal domain (From Topology)	T: 40S ribosomal protein S3A N-terminal domain	F: PF01015	ECOD (1.6)
H [auth SB0]	PF01015	e6rm3SB01	A: a+b two layers	X: T-fold	H: 40S ribosomal protein S3A C-terminal domain (From Topology)	T: 40S ribosomal protein S3A C-terminal domain	F: PF01015	ECOD (1.6)
I [auth LBB]	PF01779	e6rm3LBB1	A: extended segments	X: RPL29 (From Topology)	H: RPL29 (From Topology)	T: RPL29	F: PF01779	ECOD (1.6)

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.

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6RM3

Evolutionary compaction and adaptation visualized by the structure of the dormant microsporidian ribosome

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage