3JAJ

Structure of the engaged state of the mammalian SRP-ribosome complex

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)
A	PF00181	e3jajA1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00181	ECOD (1.6)
A	PF03947	e3jajA2	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF03947	ECOD (1.6)
B [auth D]	PF14204,PF17144	e3jajD1	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)
C [auth G]	PF01248	e3jajG1	A: a+b three layers	X: Bacillus chorismate mutase-like	H: L30e-like (From Topology)	T: L30e-like	F: PF01248	ECOD (1.6)
D [auth H]	PF00347	e3jajH1	A: a+b two layers	X: Ribosomal protein L6 (From Topology)	H: Ribosomal protein L6 (From Topology)	T: Ribosomal protein L6	F: PF00347	ECOD (1.6)
E [auth J]	PF00281,PF00673	e3jajJ1	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)
F [auth L]	PF01294	e3jajL1	A: extended segments	X: RPL13 (From Topology)	H: RPL13 (From Topology)	T: RPL13	F: PF01294	ECOD (1.6)
G [auth M]	PF00467,PF01929	e3jajM1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF00467,PF01929	ECOD (1.6)
H [auth N]	PF00827	e3jajN1	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)
I [auth O]	PF00572	e3jajO1	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)
J [auth Q]	PF17135	e3jajQ1	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)
K [auth R]	PF01280	e3jajR1	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)
K [auth R]	PF01280	e3jajR2	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)
L [auth S]	F_UNCLASSIFIED	e3jajS2	A: a+b two layers	X: GP2-like	H: RplX-like (From Topology)	T: RplX-like	F: F_UNCLASSIFIED	ECOD (1.6)
L [auth S]	PF01775	e3jajS1	A: a+b two layers	X: GP2-like	H: RplX-like (From Topology)	T: RplX-like	F: PF01775	ECOD (1.6)
M [auth T]	PF01157	e3jajT1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF01157	ECOD (1.6)
N [auth U]	PF01776	e3jajU1	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)
O [auth V]	PF00238	e3jajV1	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)
Q [auth Y]	PF16906	e3jajY1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF16906	ECOD (1.6)
R [auth Z]	PF00467,PF01777	e3jajZ1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF00467,PF01777	ECOD (1.6)
T [auth b]	PF01779	e3jajb1	A: extended segments	X: RPL29 (From Topology)	H: RPL29 (From Topology)	T: RPL29	F: PF01779	ECOD (1.6)
U [auth c]	PF01248	e3jajc1	A: a+b three layers	X: Bacillus chorismate mutase-like	H: L30e-like (From Topology)	T: L30e-like	F: PF01248	ECOD (1.6)
V [auth d]	PF01198	e3jajd1	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)
W [auth e]	PF01655	e3jaje1	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)
X [auth f]	PF01247	e3jajf1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF01247	ECOD (1.6)
Y [auth g]	PF01199	e3jajg1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: RPL34 (From Topology)	T: RPL34	F: PF01199	ECOD (1.6)
Z [auth h]	PF00831	e3jajh1	A: alpha bundles	X: Long alpha-hairpin	H: Ribosomal protein L29 (L29p) (From Topology)	T: Ribosomal protein L29 (L29p)	F: PF00831	ECOD (1.6)
AA [auth i]	PF01158	e3jaji1	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)
BA [auth k]	PF01781	e3jajk1	A: a+b two layers	X: SRP9/14-like	H: Signal recognition particle alu RNA binding heterodimer SRP9/14-related (From Topology)	T: Signal recognition particle alu RNA binding heterodimer SRP9/14-related	F: PF01781	ECOD (1.6)
CA [auth l]	PF00832	e3jajl1	A: extended segments	X: Ribosomal protein L39e (From Topology)	H: Ribosomal protein L39e (From Topology)	T: Ribosomal protein L39e	F: PF00832	ECOD (1.6)
DA [auth m]	PF01020	e3jajm1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01020	ECOD (1.6)
EA [auth o]	PF00935	e3jajo1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF00935	ECOD (1.6)
IA [auth B]	PF00297	e3jajB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: PF00297	ECOD (1.6)
JA [auth C]	PF00573	e3jajC2	A: a/b three-layered sandwiches	X: Ribosomal protein L4 (From Topology)	H: Ribosomal protein L4 (From Topology)	T: Ribosomal protein L4	F: PF00573	ECOD (1.6)
JA [auth C]	PF14374	e3jajC1	A: extended segments	X: C-terminal helical region in 60S ribosomal protein L4 (L4p) (From Topology)	H: C-terminal helical region in 60S ribosomal protein L4 (L4p) (From Topology)	T: C-terminal helical region in 60S ribosomal protein L4 (L4p)	F: PF14374	ECOD (1.6)
KA [auth E]	PF01159,PF03868	e3jajE1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF01159,PF03868	ECOD (1.6)
LA [auth F]	PF00327,PF08079	e3jajF1	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,PF08079	ECOD (1.6)
MA [auth I]	PF00252	e3jajI1	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)
NA [auth P]	PF00237	e3jajP1	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)
OA [auth W]	PF01246	e3jajW1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: PF01246	ECOD (1.6)
PA [auth j]	PF01907	e3jajj1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01907	ECOD (1.6)
QA [auth n]	PF05162	e3jajn1	A: extended segments	X: Ribosomal protein L41-A (From Topology)	H: Ribosomal protein L41-A (From Topology)	T: Ribosomal protein L41-A	F: PF05162	ECOD (1.6)
RA [auth p]	PF01780	e3jajp1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01780	ECOD (1.6)
SA [auth r]	PF01778	e3jajr1	A: a+b two layers	X: RPL28 (From Topology)	H: RPL28 (From Topology)	T: RPL28	F: PF01778	ECOD (1.6)
TA [auth K]	PF00298	e3jajK2	A: alpha arrays	X: HTH	H: HTH	T: Ribosomal protein L11, C-terminal domain	F: PF00298	ECOD (1.6)
TA [auth K]	PF03946	e3jajK1	A: a+b two layers	X: Ribosomal protein L11/L12e N-terminal domain-like	H: Ribosomal protein L11/L12e N-terminal domain (From Topology)	T: Ribosomal protein L11/L12e N-terminal domain	F: PF03946	ECOD (1.6)
UA [auth q]	PF00466	e3jajq3	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein L10-like (From Topology)	T: Ribosomal protein L10-like	F: PF00466	ECOD (1.6)
UA [auth q]	PF17777	e3jajq2	A: a+b two layers	X: Insertion domain in 60S ribosomal protein rpP0 (L10P) (From Topology)	H: Insertion domain in 60S ribosomal protein rpP0 (L10P) (From Topology)	T: Insertion domain in 60S ribosomal protein rpP0 (L10P)	F: PF17777	ECOD (1.6)
VA [auth z]	PF02978	e3jajz3	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: PF02978	ECOD (1.6)
VA [auth z]	PF02881	e3jajz2	A: alpha bundles	X: Domain of the SRP/SRP receptor G proteins-like	H: Domain of the SRP/SRP receptor G-proteins (From Topology)	T: Domain of the SRP/SRP receptor G-proteins	F: PF02881	ECOD (1.6)
VA [auth z]	PF00448	e3jajz1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00448	ECOD (1.6)
ZA [auth 9]	PF01922	e3jaj91	A: alpha arrays	X: HTH	H: HTH	T: Putative DNA-binding domain	F: PF01922	ECOD (1.6)
AB [auth 6]	PF16969	e3jaj61	A: alpha superhelices	X: Repetitive alpha hairpins	H: ARM repeat (From Topology)	T: ARM repeat	F: PF16969	ECOD (1.6)
CB [auth SA]	PF00318	e3jajSA1	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)
DB [auth SB]	PF01015	e3jajSB2	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)
DB [auth SB]	PF01015	e3jajSB1	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)
EB [auth SC]	PF03719	e3jajSC2	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)
EB [auth SC]	PF00333	e3jajSC4	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)
EB [auth SC]	PF00333	e3jajSC3	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)
FB [auth SE]	PF00900	e3jajSE2	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00900	ECOD (1.6)
FB [auth SE]	PF00467,PF16121	e3jajSE3	A: beta barrels	X: SH3	H: SH3	T: SH3	F: PF00467,PF16121	ECOD (1.6)
FB [auth SE]	PF00900,PF01479,PF08071	e3jajSE1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Alpha-L RNA-binding motif	F: PF00900,PF01479,PF08071	ECOD (1.6)
HB [auth SH]	PF01251	e3jajSH2	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: PF01251	ECOD (1.6)
IB [auth SI]	PF01201	e3jajSI1	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)
JB [auth SJ]	PF00163,PF01479	e3jajSJ1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Alpha-L RNA-binding motif	F: PF00163,PF01479	ECOD (1.6)
KB [auth SL]	PF00366,PF16205	e3jajSL1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00366,PF16205	ECOD (1.6)
LB [auth SN]	PF08069	e3jajSN1	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)
LB [auth SN]	PF00312	e3jajSN2	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)
MB [auth SO]	PF00411	e3jajSO1	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)
NB [auth SV]	PF01249	e3jajSV1	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)
OB [auth SW]	PF00410	e3jajSW1	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)
OB [auth SW]	PF00410	e3jajSW2	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: PF00410	ECOD (1.6)
PB [auth SX]	PF00164	e3jajSX1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF00164	ECOD (1.6)
QB [auth SY]	PF01282	e3jajSY1	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)
SB [auth Sb]	PF01667	e3jajSb1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01667	ECOD (1.6)
TB [auth Se]	PF04758	e3jajSe1	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)
UB [auth SD]	PF00189	e3jajSD1	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)
UB [auth SD]	PF07650	e3jajSD2	A: a+b two layers	X: Alpha-lytic protease prodomain-like	H: KH-domains	T: Prokaryotic type KH domain (KH-domain type II)	F: PF07650	ECOD (1.6)
VB [auth SF]	PF00177	e3jajSF1	A: alpha arrays	X: Ribosomal protein S7 (From Topology)	H: Ribosomal protein S7 (From Topology)	T: Ribosomal protein S7	F: PF00177	ECOD (1.6)
WB [auth SK]	PF03501	e3jajSK1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF03501	ECOD (1.6)
XB [auth SM]	PF01248	e3jajSM1	A: a+b three layers	X: Bacillus chorismate mutase-like	H: L30e-like (From Topology)	T: L30e-like	F: PF01248	ECOD (1.6)
YB [auth SP]	PF00203	e3jajSP1	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)
ZB [auth SQ]	PF00380	e3jajSQ1	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)
AC [auth SR]	PF00833	e3jajSR1	A: alpha arrays	X: HTH	H: HTH	T: FF domain	F: PF00833	ECOD (1.6)
BC [auth SS]	PF00416	e3jajSS1	A: alpha arrays	X: HhH/H2TH	H: H2TH (From Topology)	T: H2TH	F: PF00416	ECOD (1.6)
CC [auth ST]	PF01090	e3jajST1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF01090	ECOD (1.6)
DC [auth SU]	PF00338	e3jajSU1	A: a+b two layers	X: Alpha-beta plaits	H: Ribosomal protein S10 (From Topology)	T: Ribosomal protein S10	F: PF00338	ECOD (1.6)
EC [auth SZ]	PF03297	e3jajSZ1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: PF03297	ECOD (1.6)
FC [auth Sc]	PF01200	e3jajSc1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: PF01200	ECOD (1.6)
GC [auth Sd]	PF00253	e3jajSd1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: PF00253	ECOD (1.6)
HC [auth Sf]	PF01599	e3jajSf1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Rubredoxin-related	F: PF01599	ECOD (1.6)
IC [auth Sg]	PF00400	e3jajSg1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: PF00400	ECOD (1.6)
JC [auth S1]	PF05486	e3jajS11	A: a+b two layers	X: SRP9/14-like	H: Signal recognition particle alu RNA binding heterodimer SRP9/14-related (From Topology)	T: Signal recognition particle alu RNA binding heterodimer SRP9/14-related	F: PF05486	ECOD (1.6)
KC [auth S4]	PF02290	e3jajS41	A: a+b two layers	X: SRP9/14-like	H: Signal recognition particle alu RNA binding heterodimer SRP9/14-related (From Topology)	T: Signal recognition particle alu RNA binding heterodimer SRP9/14-related	F: PF02290	ECOD (1.6)
P [auth X]	PF00276,PF03939	e3jajX1	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,PF03939	ECOD (1.6)
S [auth a]	PF00828	e3jaja1	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)
GB [auth SG]	PF01092	e3jajSG1	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)
RB [auth Sa]	PF01283	e3jajSa1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: PF01283	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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3JAJ

Structure of the engaged state of the mammalian SRP-ribosome complex

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage