9IGT | pdb_00009igt

Assembly intermediate of human mitochondrial ribosome small subunit bound to METTL15, RBFA, and mtIF2 (State M2.1)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
H [auth I]SCOP2B SuperfamilyTranslational machinery components 8098948 3000571 SCOP2B (2022-06-29)
I [auth J]SCOP2B SuperfamilyNucleic acid-binding proteins 8095431 3000135 SCOP2B (2022-06-29)
Z [auth 0]SCOP2B SuperfamilyTranslation proteins SH3-like KOW motif containing domain 8091481 3000334 SCOP2B (2022-06-29)
GA [auth t]SCOP2B SuperfamilyClpS-like 8098740 3000936 SCOP2B (2022-06-29)
X [auth Y]SCOP2B SuperfamilyMitochondrial 28S ribosomal protein S31-like 8090914 3002471 SCOP2B (2022-06-29)
Q [auth R]SCOP2B SuperfamilyMitochondrial 28S ribosomal protein S22-like 8051932 3002074 SCOP2B (2022-06-29)
J [auth K]SCOP2B SuperfamilyGlucocorticoid receptor-like (DNA-binding domain) 8052599 3000068 SCOP2B (2022-06-29)
A [auth B]SCOP2B SuperfamilySIS domain/Ribosomal protein S2-like 8063850 3001397 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D [auth E]PF01250Ribosomal protein S6 (Ribosomal_S6)Ribosomal protein S6Domain
G [auth H]PF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20eThis family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes. Domain
H [auth I]PF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
Y [auth Z]PF08293Mitochondrial ribosomal subunit S27 (MRP-S33)Mitochondrial ribosomal subunit S27- Family
Z [auth 0]PF16053Mitochondrial 28S ribosomal protein S34 (MRP-S34)Mitochondrial 28S ribosomal protein S34- Family
AA [auth 1]PF10213Mitochondrial ribosomal subunit protein (MRP-S28)Mitochondrial ribosomal subunit protein- Family
F [auth G]PF00380Ribosomal protein S9/S16 (Ribosomal_S9)Ribosomal protein S9/S16- Family
E [auth F]PF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes. Domain
FA [auth 7]PF00009Elongation factor Tu GTP binding domain (GTP_EFTU)Elongation factor Tu GTP binding domainThis domain contains a P-loop motif, also found in several other families such as Pfam:PF00071, Pfam:PF00025 and Pfam:PF00063. Elongation factor Tu consists of three structural domains, this plus two C-terminal beta barrel domains. Domain
FA [auth 7]PF22042Elongation factor G domain 2 (EF-G_D2)Elongation factor G domain 2Elongation factor G (EF-G) catalyzes the translocation step of translation. It consists of five structural domains, this entry represents the second domain [1]. This domain adopts a beta barrel structure. This family also includes domains found in ot ...Elongation factor G (EF-G) catalyzes the translocation step of translation. It consists of five structural domains, this entry represents the second domain [1]. This domain adopts a beta barrel structure. This family also includes domains found in other translation factors such as translation initiation factor IF-2, peptide chain release factor, etc.
Domain
C [auth D]PF21251Small ribosomal subunit protein uS5m, N-terminal (Ribosomal_uS5m_N)Small ribosomal subunit protein uS5m, N-terminalThis entry represents an extension found at the N-terminal of the mitochondrial 28S Small ribosomal subunit protein uS5m [1,2]. This region lines a part of the mRNA entry path and connects the 28S subunit body to the head forming a latch across the m ...This entry represents an extension found at the N-terminal of the mitochondrial 28S Small ribosomal subunit protein uS5m [1,2]. This region lines a part of the mRNA entry path and connects the 28S subunit body to the head forming a latch across the mRNA channel entrance [2].
Domain
C [auth D]PF03719Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C)Ribosomal protein S5, C-terminal domainDomain
C [auth D]PF00333Ribosomal protein S5, N-terminal domain (Ribosomal_S5)Ribosomal protein S5, N-terminal domainDomain
CA [auth 4]PF13812Pentatricopeptide repeat domain (PPR_3)Pentatricopeptide repeat domain- Repeat
CA [auth 4]PF22330Small ribosomal subunit protein mS39, PPR (Rib_mS39_PPR)Small ribosomal subunit protein mS39, PPR- Repeat
W [auth X]PF10236Mitochondrial ribosomal death-associated protein 3 (DAP3)Mitochondrial ribosomal death-associated protein 3- Family
T [auth U]PF14943Mitochondrial ribosome subunit S26 (MRP-S26)Mitochondrial ribosome subunit S26- Family
S [auth T]PF05047Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain (L51_S25_CI-B8)Mitochondrial ribosomal protein L51 / S25 / CI-B8 domainThe proteins in this family are located in the mitochondrion. The family includes ribosomal protein L51, and S25. This family also includes mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) EC:1.6.5.3. It is not known whether all member ...The proteins in this family are located in the mitochondrion. The family includes ribosomal protein L51, and S25. This family also includes mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) EC:1.6.5.3. It is not known whether all members of this family form part of the NADH-ubiquinone oxidoreductase and whether they are also all ribosomal proteins. Structurally related to thioredoxin-fold.
Domain
S [auth T]PF00542Ribosomal protein L7/L12 C-terminal domain (Ribosomal_L12)Ribosomal protein L7/L12 C-terminal domainDomain
R [auth S]PF10484Mitochondrial ribosomal protein S23 (MRP-S23)Mitochondrial ribosomal protein S23- Family
Q [auth R]PF10245Mitochondrial 28S ribosomal protein S22 (MRP-S22)Mitochondrial 28S ribosomal protein S22- Family
P [auth Q]PF01165Ribosomal protein S21 (Ribosomal_S21)Ribosomal protein S21- Family
O [auth P]PF01084Ribosomal protein S18 (Ribosomal_S18)Ribosomal protein S18- Family
N [auth O]PF01084Ribosomal protein S18 (Ribosomal_S18)Ribosomal protein S18- Family
M [auth N]PF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17Domain
L [auth M]PF00886Ribosomal protein S16 (Ribosomal_S16)Ribosomal protein S16- Family
K [auth L]PF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15Domain
J [auth K]PF00253Ribosomal protein S14p/S29e (Ribosomal_S14)Ribosomal protein S14p/S29e- Family
A [auth B]PF00318Ribosomal protein S2 (Ribosomal_S2)Ribosomal protein S2- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
D [auth E]28S ribosomal protein S6, mitochondrial
G [auth H]28S ribosomal protein S10, mitochondrial-
H [auth I]28S ribosomal protein S11, mitochondrial
I [auth J]28S ribosomal protein S12, mitochondrial
U [auth V]28S ribosomal protein S27, mitochondrial
V [auth W]28S ribosomal protein S28, mitochondrial
Y [auth Z]28S ribosomal protein S33, mitochondrial
Z [auth 0]28S ribosomal protein S34, mitochondrial
AA [auth 1]28S ribosomal protein S35, mitochondrial
F [auth G]28S ribosomal protein S9, mitochondrial
E [auth F]28S ribosomal protein S7, mitochondrial
HA [auth a]Putative ribosome-binding factor A, mitochondrial
GA [auth t]Large ribosomal subunit protein bL12m, short mature form
FA [auth 7]Translation initiation factor IF-2, mitochondrial
EA [auth A]12S mitochondrial rRNA---
DA [auth b]12S rRNA N4-methylcytidine (m4C) methyltransferase
C [auth D]28S ribosomal protein S5, mitochondrial
CA [auth 4]Pentatricopeptide repeat domain-containing protein 3, mitochondrial
BA [auth 3]Aurora kinase A-interacting protein-
X [auth Y]28S ribosomal protein S31, mitochondrial
W [auth X]28S ribosomal protein S29, mitochondrial
T [auth U]28S ribosomal protein S26, mitochondrial
B [auth C]28S ribosomal protein S24, mitochondrial
S [auth T]28S ribosomal protein S25, mitochondrial
R [auth S]28S ribosomal protein S23, mitochondrial
Q [auth R]28S ribosomal protein S22, mitochondrial
P [auth Q]MRPS21 isoform 1
O [auth P]28S ribosomal protein S18c, mitochondrial
N [auth O]28S ribosomal protein S18b, mitochondrial
M [auth N]28S ribosomal protein S17, mitochondrial
L [auth M]28S ribosomal protein S16, mitochondrial
K [auth L]28S ribosomal protein S15, mitochondrial
J [auth K]28S ribosomal protein S14, mitochondrial
A [auth B]28S ribosomal protein S2, mitochondrial

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
D [auth E]IPR000529Small ribosomal subunit protein bS6Family
D [auth E]IPR035980Small ribosomal subunit protein bS6 superfamilyHomologous Superfamily
D [auth E]IPR014717Translation elongation factor EF1B/small ribosomal subunit protein bS6Homologous Superfamily
G [auth H]IPR027486Small ribosomal subunit protein uS10 domainDomain
G [auth H]IPR040055Small ribosomal subunit protein uS10mFamily
G [auth H]IPR036838Small ribosomal subunit protein uS10 domain superfamilyHomologous Superfamily
H [auth I]IPR001971Small ribosomal subunit protein uS11Family
H [auth I]IPR036967Small ribosomal subunit protein uS11 superfamilyHomologous Superfamily
H [auth I]IPR018102Small ribosomal subunit protein uS11, conserved siteConserved Site
I [auth J]IPR006032Small ribosomal subunit protein uS12Family
I [auth J]IPR005679Ribosomal protein uS12, bacteriaFamily
I [auth J]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
U [auth V]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
U [auth V]IPR002885Pentatricopeptide repeatRepeat
U [auth V]IPR019266Small ribosomal subunit protein mS27Family
U [auth V]IPR034913mS27/PTCD2Family
V [auth W]IPR019375Small ribosomal subunit protein bS1mFamily
Y [auth Z]IPR013219Small ribosomal subunit protein mS33Family
Z [auth 0]IPR032053Small ribosomal subunit protein mS34Family
AA [auth 1]IPR039848Small ribosomal subunit protein mS35, mitochondrialFamily
AA [auth 1]IPR019349Small ribosomal subunit protein mS35, mitochondrial, conserved domainDomain
F [auth G]IPR020574Small ribosomal subunit protein uS9, conserved siteConserved Site
F [auth G]IPR023035Small ribosomal subunit protein uS9, bacteria/plastidFamily
F [auth G]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
F [auth G]IPR000754Small ribosomal subunit protein uS9Family
F [auth G]IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
E [auth F]IPR036823Small ribosomal subunit protein uS7 domain superfamilyHomologous Superfamily
E [auth F]IPR000235Small ribosomal subunit protein uS7Family
E [auth F]IPR023798Small ribosomal subunit protein uS7 domainDomain
HA [auth a]IPR015946K homology domain-like, alpha/betaHomologous Superfamily
HA [auth a]IPR039212Ribosome-binding factor A, mitochondrialFamily
HA [auth a]IPR020053Ribosome-binding factor A, conserved siteConserved Site
HA [auth a]IPR023799Ribosome-binding factor A domain superfamilyHomologous Superfamily
HA [auth a]IPR000238Ribosome-binding factor AFamily
GA [auth t]IPR013823Large ribosomal subunit protein bL12, C-terminalDomain
GA [auth t]IPR008932Large ribosomal subunit protein bL12, oligomerizationDomain
GA [auth t]IPR036235Large ribosomal subunit protein bL12, oligomerization domain superfamilyHomologous Superfamily
GA [auth t]IPR014719Ribosomal protein bL12, C-terminal/adaptor protein ClpS-likeHomologous Superfamily
GA [auth t]IPR000206Large ribosomal subunit protein bL12Family
FA [auth 7]IPR005225Small GTP-binding domainDomain
FA [auth 7]IPR000178Translation initiation factor IF-2, bacterial-likeFamily
FA [auth 7]IPR000795Translational (tr)-type GTP-binding domainDomain
FA [auth 7]IPR053905Elongation factor G-like, domain IIDomain
FA [auth 7]IPR044145Translation initiation factor IF-2, domain IIDomain
FA [auth 7]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
FA [auth 7]IPR015760Translation initiation factor IF- 2Family
FA [auth 7]IPR036925Translation initiation factor IF-2, domain 3 superfamilyHomologous Superfamily
FA [auth 7]IPR023115Translation initiation factor IF- 2, domain 3Domain
FA [auth 7]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
DA [auth b]IPR029063S-adenosyl-L-methionine-dependent methyltransferase superfamilyHomologous Superfamily
DA [auth b]IPR002903Ribosomal RNA small subunit methyltransferase HFamily
DA [auth b]IPR023397S-adenosyl-L-methionine-dependent methyltransferase, MraW, recognition domain superfamilyHomologous Superfamily
C [auth D]IPR000851Small ribosomal subunit protein uS5Family
C [auth D]IPR048584Small ribosomal subunit protein uS5m, N-terminal domainDomain
C [auth D]IPR005324Small ribosomal subunit protein uS5, C-terminalDomain
C [auth D]IPR013810Small ribosomal subunit protein uS5, N-terminalDomain
C [auth D]IPR020568Ribosomal protein uS5 domain 2-type superfamilyHomologous Superfamily
C [auth D]IPR018192Small ribosomal subunit protein uS5, N-terminal, conserved siteConserved Site
C [auth D]IPR014721Small ribosomal subunit protein uS5 domain 2-type fold, subgroupHomologous Superfamily
CA [auth 4]IPR037387Pentatricopeptide repeat domain-containing protein 3Family
CA [auth 4]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
CA [auth 4]IPR002885Pentatricopeptide repeatRepeat
CA [auth 4]IPR055063Small ribosomal subunit protein mS39, PPRRepeat
BA [auth 3]IPR013177Ribosomal protein bS22, C-terminalDomain
X [auth Y]IPR026299Mitochondrial 28S ribosomal protein S31Family
W [auth X]IPR019368Small ribosomal subunit protein mS29Family
W [auth X]IPR008092Small ribosomal subunit protein mS29, metazoaFamily
W [auth X]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
T [auth U]IPR026140Small ribosomal subunit protein mS26Family
B [auth C]IPR026146Small ribosomal subunit protein uS3m, metazoanFamily
S [auth T]IPR007741Ribosomal protein/NADH dehydrogenase domainDomain
S [auth T]IPR036249Thioredoxin-like superfamilyHomologous Superfamily
S [auth T]IPR040049Ribosomal subunit protein mS25/mL61, mitochondrialFamily
R [auth S]IPR059242Small ribosomal subunit protein mS23, conserved domainDomain
R [auth S]IPR019520Small ribosomal subunit protein mS23, metazoaFamily
R [auth S]IPR023611Small ribosomal subunit protein mS23, conserved domain, metazoaDomain
Q [auth R]IPR019374Small ribosomal subunit protein mS22Family
P [auth Q]IPR038380Small ribosomal subunit protein bS21 superfamilyHomologous Superfamily
P [auth Q]IPR001911Small ribosomal subunit protein bS21Family
O [auth P]IPR001648Small ribosomal subunit protein bS18Family
O [auth P]IPR018275Small ribosomal subunit protein bS18, conserved siteConserved Site
O [auth P]IPR036870Small ribosomal subunit protein bS18 superfamilyHomologous Superfamily
N [auth O]IPR040054Small ribosomal subunit protein mS40Family
N [auth O]IPR001648Small ribosomal subunit protein bS18Family
N [auth O]IPR036870Small ribosomal subunit protein bS18 superfamilyHomologous Superfamily
M [auth N]IPR039193Small ribosomal subunit protein uS17m, metazoaFamily
M [auth N]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
M [auth N]IPR000266Small ribosomal subunit protein uS17Family
L [auth M]IPR023803Small ribosomal subunit protein bS16 domain superfamilyHomologous Superfamily
L [auth M]IPR000307Small ribosomal subunit protein bS16Family
K [auth L]IPR009068uS15/NS1, RNA-binding domain superfamilyHomologous Superfamily
K [auth L]IPR000589Small ribosomal subunit protein uS15Family
K [auth L]IPR005290Small ribosomal subunit protein uS15, bacteriaFamily
K [auth L]IPR052137Universal small ribosomal subunit uS15Family
J [auth K]IPR001209Small ribosomal subunit protein uS14Family
A [auth B]IPR005706Small ribosomal subunit protein uS2, bacteria/mitochondria/plastidFamily
A [auth B]IPR023591Small ribosomal subunit protein uS2, flavodoxin-like domain superfamilyHomologous Superfamily
A [auth B]IPR018130Small ribosomal subunit protein uS2, conserved siteConserved Site
A [auth B]IPR001865Small ribosomal subunit protein uS2Family

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
D [auth E]P82932
G [auth H]P82664
H [auth I]P82912
I [auth J]O15235
U [auth V]Q92552
V [auth W]Q9Y2Q9
Y [auth Z]Q9Y291
Z [auth 0]P82930
AA [auth 1]P82673
F [auth G]P82933
E [auth F]Q9Y2R9
HA [auth a]Q8N0V3
GA [auth t]P52815
FA [auth 7]P46199
DA [auth b]A6NJ78
C [auth D]P82675
CA [auth 4]Q96EY7
BA [auth 3]Q9NWT8
X [auth Y]Q92665
W [auth X]P51398
S [auth T]P82663
R [auth S]Q9Y3D9
Q [auth R]P82650
O [auth P]Q9Y3D5
N [auth O]Q9Y676
M [auth N]Q9Y2R5
L [auth M]Q9Y3D3
K [auth L]P82914
J [auth K]O60783
A [auth B]Q9Y399

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
H [auth I]5F0
EA [auth A]5MC Parent Component: C

EA [auth A]B8T Parent Component: C

EA [auth A]MA6 Parent Component: A

P [auth Q]ACE AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354

:  N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359