9E6Q | pdb_00009e6q

Cryo-EM structure of the Pyrobaculum calidifontis 50S ribosomal subunit in complex with Dri


Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
J [auth AG]PF01020Ribosomal L40e family (Ribosomal_L40e)Ribosomal L40e familyBovine L40 has been identified as a secondary RNA binding protein [1]. L40 is fused to a ubiquitin protein [2]. Domain
J [auth AG]PF00572Ribosomal protein L13 (Ribosomal_L13)Ribosomal protein L13- Family
K [auth AH]PF00935Ribosomal protein L44 (Ribosomal_L44)Ribosomal protein L44- Family
K [auth AH]PF01294Ribosomal protein L13e (Ribosomal_L13e)Ribosomal protein L13e- Family
L [auth AI]PF00238Ribosomal protein L14p/L23e (Ribosomal_L14)Ribosomal protein L14p/L23eDomain
L [auth AI]PF01780Ribosomal L37ae protein family (Ribosomal_L37ae)Ribosomal L37ae protein family- Family
M [auth AJ],
N [auth AK]
PF01965DJ-1/PfpI family (DJ-1_PfpI)DJ-1/PfpI familyThe family includes the protease PfpI Swiss:Q51732 [1]. This domain is also found in transcriptional regulators such as Swiss:Q9RJG8. Domain
O [auth AL]PF00828Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A)Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27AThis family includes higher eukaryotic ribosomal 60S L27A, archaeal 50S L18e, prokaryotic 50S L15, fungal mitochondrial L10, plant L27A, mitochondrial L15 and chloroplast L18-3 proteins. Domain
P [auth AM]PF00827Ribosomal L15 (Ribosomal_L15e)Ribosomal L15- Family
Q [auth AN]PF00252Ribosomal protein L16p/L10e (Ribosomal_L16)Ribosomal protein L16p/L10eDomain
R [auth AO]PF17144Ribosomal large subunit proteins 60S L5, and 50S L18 (Ribosomal_L5e)Ribosomal large subunit proteins 60S L5, and 50S L18- Family
S [auth AP]PF17135Ribosomal protein 60S L18 and 50S L18e (Ribosomal_L18)Ribosomal protein 60S L18 and 50S L18e- Family
U [auth AR]PF01775Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18A (Ribosomal_L18A)Ribosomal proteins 50S-L18Ae/60S-L20/60S-L18AThis family includes: archaeal 50S ribosomal protein L18Ae, often referred to as L20e or LX; fungal 60S ribosomal protein L20; and higher eukaryote 60S ribosomal protein L18A. Domain
V [auth AS]PF01157Ribosomal protein L21e (Ribosomal_L21e)Ribosomal protein L21e- Family
W [auth AT]PF00237Ribosomal protein L22p/L17e (Ribosomal_L22)Ribosomal protein L22p/L17eThis family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes. Domain
X [auth AU]PF00276Ribosomal protein L23 (Ribosomal_L23)Ribosomal protein L23- Family
Y [auth AV]PF16906Ribosomal proteins L26 eukaryotic, L24P archaeal (Ribosomal_L26)Ribosomal proteins L26 eukaryotic, L24P archaeal- Family
Y [auth AV]PF00467KOW motif (KOW)KOW motif- Family
Z [auth AW]PF01246Ribosomal protein L24e (Ribosomal_L24e)Ribosomal protein L24eDomain
AA [auth AX]PF00831Ribosomal L29 protein (Ribosomal_L29)Ribosomal L29 protein- Family
BA [auth AY]PF00327Ribosomal protein L30p/L7e (Ribosomal_L30)Ribosomal protein L30p/L7eThis family includes prokaryotic L30 and eukaryotic L7. Domain
CA [auth AZ]PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ...This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1].
Domain
C [auth 3]PF00571CBS domain (CBS)CBS domainCBS domains are small intracellular modules that pair together to form a stable globular domain [2]. This family represents a single CBS domain. Pairs of these domains have been termed a Bateman domain [6]. CBS domains have been shown to bind ligands ...CBS domains are small intracellular modules that pair together to form a stable globular domain [2]. This family represents a single CBS domain. Pairs of these domains have been termed a Bateman domain [6]. CBS domains have been shown to bind ligands with an adenosyl group such as AMP, ATP and S-AdoMet [5]. CBS domains are found attached to a wide range of other protein domains suggesting that CBS domains may play a regulatory role making proteins sensitive to adenosyl carrying ligands. The region containing the CBS domains in Cystathionine-beta synthase is involved in regulation by S-AdoMet [4]. CBS domain pairs from AMPK bind AMP or ATP [5]. The CBS domains from IMPDH and the chloride channel CLC2 bind ATP [5].
Domain
D [auth AA]PF03947Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C)Ribosomal Proteins L2, C-terminal domainDomain
D [auth AA]PF00181Ribosomal Proteins L2, RNA binding N-terminal domain (Ribosomal_L2_N)Ribosomal Proteins L2, RNA binding N-terminal domainDomain
D [auth AA]PF01198Ribosomal protein L31e (Ribosomal_L31e)Ribosomal protein L31e- Family
E [auth AB]PF01655Ribosomal protein L32 (Ribosomal_L32e)Ribosomal protein L32- Family
F [auth AC]PF00573Ribosomal protein L4/L1 family (Ribosomal_L4)Ribosomal protein L4/L1 family- Family
G [auth AD]PF00281Ribosomal protein L5 (Ribosomal_L5)Ribosomal protein L5Domain
G [auth AD]PF01907Ribosomal protein L37e (Ribosomal_L37e)Ribosomal protein L37e- Family
G [auth AD]PF00673ribosomal L5P family C-terminus (Ribosomal_L5_C)ribosomal L5P family C-terminusThis region is found associated with Pfam:PF00281. Domain
H [auth AE]PF00347Ribosomal protein L6 (Ribosomal_L6)Ribosomal protein L6Domain
H [auth AE]PF01781Ribosomal L38e protein family (Ribosomal_L38e)Ribosomal L38e protein family- Family
I [auth AF]PF00832Ribosomal L39 protein (Ribosomal_L39)Ribosomal L39 protein- Family
I [auth AF]PF01248Ribosomal protein L7Ae/L30e/S12e/Gadd45 family (Ribosomal_L7Ae)Ribosomal protein L7Ae/L30e/S12e/Gadd45 familyThis family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD11 ...This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, Ribosomal protein L30 from eukaryotes and archaebacteria. Gadd45 and MyD118 [1].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 1]23S rRNA---
J [auth AG]Large ribosomal subunit protein uL13
K [auth AH]Large ribosomal subunit protein eL13
L [auth AI]Large ribosomal subunit protein uL14
M [auth AJ],
N [auth AK]
eL14
O [auth AL]Large ribosomal subunit protein uL15
P [auth AM]50S ribosomal protein L15e
Q [auth AN]Large ribosomal subunit protein uL16
R [auth AO]Large ribosomal subunit protein uL18
S [auth AP]Large ribosomal subunit protein eL18
T [auth AQ]Large ribosomal subunit protein eL19
B [auth 2]5S rRNA---
U [auth AR]Large ribosomal subunit protein eL20
V [auth AS]Large ribosomal subunit protein eL21
W [auth AT]Large ribosomal subunit protein uL22
X [auth AU]Large ribosomal subunit protein uL23
Y [auth AV]Large ribosomal subunit protein uL24
Z [auth AW]Large ribosomal subunit protein eL24
AA [auth AX]Large ribosomal subunit protein uL29
BA [auth AY]Large ribosomal subunit protein uL30
CA [auth AZ]Large ribosomal subunit protein eL30
DA [auth Aa]Large ribosomal subunit protein eL31
C [auth 3]Putative signal-transduction protein with CBS domains- - -
EA [auth Ab]Large ribosomal subunit protein eL32
FA [auth Ac]Large ribosomal subunit protein eL34
GA [auth Ad]Large ribosomal subunit protein eL37
HA [auth Ae]LSU ribosomal protein L38E
IA [auth Af]Large ribosomal subunit protein eL39
JA [auth Ag]Large ribosomal subunit protein eL40
KA [auth Ah]eL42
LA [auth Ai]Large ribosomal subunit protein eL43
MA [auth Aj]DJ-1/PfpI domain-containing protein- -
NA [auth Ak]PaREP1 domain containing protein- - -
D [auth AA]Large ribosomal subunit protein uL2
E [auth AB]Large ribosomal subunit protein uL3
F [auth AC]Large ribosomal subunit protein uL4
G [auth AD]Large ribosomal subunit protein uL5
H [auth AE]Large ribosomal subunit protein uL6
I [auth AF]Large ribosomal subunit protein eL8

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
J [auth AG]IPR023563Large ribosomal subunit protein uL13, conserved siteConserved Site
J [auth AG]IPR005822Large ribosomal subunit protein uL13Family
J [auth AG]IPR036899Large ribosomal subunit protein uL13 superfamilyHomologous Superfamily
J [auth AG]IPR005823Large ribosomal subunit protein uL13, bacterial-typeFamily
J [auth AG]IPR005755Large ribosomal subunit protein uL13, eukaryotic/archaealFamily
K [auth AH]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
K [auth AH]IPR001380Large ribosomal subunit protein eL13Family
K [auth AH]IPR018256Large ribosomal subunit protein eL13, conserved siteConserved Site
L [auth AI]IPR019971Large ribosomal subunit protein uL14, archaealFamily
L [auth AI]IPR036853Large ribosomal subunit protein uL14 superfamilyHomologous Superfamily
L [auth AI]IPR000218Large ribosomal subunit protein uL14Family
L [auth AI]IPR019972Large ribosomal subunit protein uL14, conserved siteConserved Site
M [auth AJ],
N [auth AK]
IPR023651Large ribosomal subunit protein eL14, archaealFamily
M [auth AJ],
N [auth AK]
IPR039660Large ribosomal subunit protein eL14Family
M [auth AJ],
N [auth AK]
IPR041985Large ribosomal subunit protein eL14, KOW motifDomain
M [auth AJ],
N [auth AK]
IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
M [auth AJ],
N [auth AK]
IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
O [auth AL]IPR027386Ribosomal uL15, N-terminalHomologous Superfamily
O [auth AL]IPR021131Large ribosomal subunit protein uL15/eL18Domain
O [auth AL]IPR030878Large ribosomal subunit protein uL15Family
O [auth AL]IPR001196Large ribosomal subunit protein uL15, conserved siteConserved Site
O [auth AL]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
P [auth AM]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
P [auth AM]IPR020925Large ribosomal subunit protein eL15, conserved siteConserved Site
P [auth AM]IPR024794Large ribosomal subunit protein eL15 core domain superfamilyHomologous Superfamily
P [auth AM]IPR000439Large ribosomal subunit protein eL15Family
Q [auth AN]IPR036920Large ribosomal subunit protein uL16 superfamilyHomologous Superfamily
Q [auth AN]IPR022981Large ribosomal subunit protein uL16, archaeaFamily
Q [auth AN]IPR001197Large ribosomal subunit protein uL16, eukaryotes/archaeaFamily
Q [auth AN]IPR016180Large ribosomal subunit protein uL16 domainDomain
Q [auth AN]IPR047873Large ribosomal subunit protein uL16Family
Q [auth AN]IPR018255Large ribosomal subunit protein uL16, conserved site, eukaryotes/archaeaConserved Site
R [auth AO]IPR005485Large ribosomal subunit protein uL18, eukaryotic/archaealFamily
S [auth AP]IPR022947Large ribosomal subunit protein eL18, archaeaFamily
S [auth AP]IPR021131Large ribosomal subunit protein uL15/eL18Domain
S [auth AP]IPR001196Large ribosomal subunit protein uL15, conserved siteConserved Site
S [auth AP]IPR000039Large ribosomal subunit protein eL18Family
S [auth AP]IPR036227Large ribosomal subunit protein uL15/eL18 superfamilyHomologous Superfamily
T [auth AQ]IPR015972Large ribosomal subunit protein eL19, domain 1Homologous Superfamily
T [auth AQ]IPR039547Large ribosomal subunit protein eL19Family
T [auth AQ]IPR033936Large ribosomal subunit protein eL19, archaealDomain
T [auth AQ]IPR035970Large ribosomal subunit protein eL19 superfamilyHomologous Superfamily
T [auth AQ]IPR000196Large ribosomal subunit protein eL19 domainDomain
U [auth AR]IPR028877Large ribosomal subunit protein eL20Family
U [auth AR]IPR023573Large ribosomal subunit protein eL20 domainDomain
V [auth AS]IPR022856Large ribosomal subunit protein eL21, archaealFamily
V [auth AS]IPR018259Large ribosomal subunit protein eL21, conserved siteConserved Site
V [auth AS]IPR036948Large ribosomal subunit protein eL21 superfamilyHomologous Superfamily
V [auth AS]IPR001147Large ribosomal subunit protein eL21Family
V [auth AS]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
W [auth AT]IPR036394Ribosomal protein uL22 superfamilyHomologous Superfamily
W [auth AT]IPR001063Large ribosomal subunit protein uL22Family
W [auth AT]IPR005721Large ribosomal subunit protein uL22, eukaryotic/archaealFamily
X [auth AU]IPR012678Ribosomal protein uL23/eL15/eS24 core domain superfamilyHomologous Superfamily
X [auth AU]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
X [auth AU]IPR019985Large ribosomal subunit protein uL23Family
X [auth AU]IPR001014Large ribosomal subunit protein uL23, conserved siteConserved Site
X [auth AU]IPR013025Large ribosomal subunit protein uL23-likeFamily
Y [auth AV]IPR041988Large ribosomal subunit protein uL24, KOW domainDomain
Y [auth AV]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
Y [auth AV]IPR005824KOWDomain
Y [auth AV]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
Y [auth AV]IPR005756Large ribosomal subunit protein uL24, eukaryotic/archaealFamily
Y [auth AV]IPR005825Large ribosomal subunit protein uL24, conserved siteConserved Site
Z [auth AW]IPR011017TRASH domainDomain
Z [auth AW]IPR056366Large ribosomal subunit protein eL24Family
Z [auth AW]IPR055345Large ribosomal subunit protein eL24-related, archaeal-typeFamily
Z [auth AW]IPR000988Large ribosomal subunit protein eL24-related, N-terminalDomain
Z [auth AW]IPR023442Large ribosomal subunit protein eL24, conserved siteConserved Site
Z [auth AW]IPR038630Ribosomal protein L24e/L24 superfamilyHomologous Superfamily
AA [auth AX]IPR050063Universal ribosomal protein uL29Family
AA [auth AX]IPR001854Large ribosomal subunit protein uL29Family
AA [auth AX]IPR036049Large ribosomal subunit protein uL29 superfamilyHomologous Superfamily
BA [auth AY]IPR035808Large ribosomal subunit protein uL30, eukaryotic/archaealDomain
BA [auth AY]IPR036919Large ribosomal subunit protein uL30, ferredoxin-like fold domain superfamilyHomologous Superfamily
BA [auth AY]IPR039699Large ribosomal subunit protein uL30Family
BA [auth AY]IPR016082Large ribosomal subunit protein uL30-like, ferredoxin-like fold domainDomain
BA [auth AY]IPR005997Large ribosomal subunit protein uL30, archaealFamily
CA [auth AZ]IPR022991Large ribosomal subunit protein eL30, conserved siteConserved Site
CA [auth AZ]IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
CA [auth AZ]IPR000231Large ribosomal subunit protein eL30Family
CA [auth AZ]IPR039109Large ribosomal subunit protein eL30-likeFamily
CA [auth AZ]IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
DA [auth Aa]IPR020052Large ribosomal subunit protein eL31, conserved siteConserved Site
DA [auth Aa]IPR023621Large ribosomal subunit protein eL31 domain superfamilyHomologous Superfamily
DA [auth Aa]IPR000054Large ribosomal subunit protein eL31Family
C [auth 3]IPR051257Diverse Function CBS-Domain-Containing ProteinFamily
C [auth 3]IPR046342CBS domain superfamilyHomologous Superfamily
C [auth 3]IPR000644CBS domainDomain
EA [auth Ab]IPR036351Large ribosomal subunit protein eL32 superfamilyHomologous Superfamily
EA [auth Ab]IPR023654Large ribosomal subunit protein eL32, archaealFamily
EA [auth Ab]IPR001515Large ribosomal subunit protein eL32Family
FA [auth Ac]IPR008195Large ribosomal subunit protein eL34Family
FA [auth Ac]IPR038562Large ribosomal subunit protein eL34, C-terminal domain superfamilyHomologous Superfamily
FA [auth Ac]IPR047868Large ribosomal subunit protein eL34, archaeal-typeFamily
FA [auth Ac]IPR018065Large ribosomal subunit protein eL34, conserved siteConserved Site
GA [auth Ad]IPR001569Large ribosomal subunit protein eL37Family
GA [auth Ad]IPR018267Large ribosomal subunit protein eL37, conserved siteConserved Site
GA [auth Ad]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
GA [auth Ad]IPR011331Large ribosomal subunit protein eL37/eL43Homologous Superfamily
HA [auth Ae]IPR002675Large ribosomal subunit protein eL38Family
HA [auth Ae]IPR038464Large ribosomal subunit protein eL38 superfamilyHomologous Superfamily
IA [auth Af]IPR023626Large ribosomal subunit protein eL39 domain superfamilyHomologous Superfamily
IA [auth Af]IPR000077Large ribosomal subunit protein eL39Family
IA [auth Af]IPR020083Large ribosomal subunit protein eL39, conserved siteConserved Site
JA [auth Ag]IPR001975Large ribosomal subunit protein eL40 domainDomain
JA [auth Ag]IPR023657Large ribosomal subunit protein eL40, archaealFamily
JA [auth Ag]IPR038587Large ribosomal subunit protein eL40 superfamilyHomologous Superfamily
JA [auth Ag]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
KA [auth Ah]IPR053708Eukaryotic Ribosomal Large Subunit eL42Homologous Superfamily
KA [auth Ah]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
KA [auth Ah]IPR000552Large ribosomal subunit protein eL42Family
LA [auth Ai]IPR002674Large ribosomal subunit protein eL43Family
LA [auth Ai]IPR011332Zinc-binding ribosomal proteinHomologous Superfamily
LA [auth Ai]IPR011331Large ribosomal subunit protein eL37/eL43Homologous Superfamily
LA [auth Ai]IPR050522Eukaryotic ribosomal protein eL43Family
MA [auth Aj]IPR029062Class I glutamine amidotransferase-likeHomologous Superfamily
MA [auth Aj]IPR002818DJ-1/PfpIDomain
MA [auth Aj]IPR050325Protein/nucleic acid deglycaseFamily
D [auth AA]IPR022669Large ribosomal subunit protein uL2, C-terminalDomain
D [auth AA]IPR012340Nucleic acid-binding, OB-foldHomologous Superfamily
D [auth AA]IPR014722Large ribosomal subunit protein uL2, domain 2Homologous Superfamily
D [auth AA]IPR022666Large ribosomal subunit protein uL2, RNA-binding domainDomain
D [auth AA]IPR008991Translation protein SH3-like domain superfamilyHomologous Superfamily
D [auth AA]IPR014726Large ribosomal subunit protein uL2, domain 3Homologous Superfamily
D [auth AA]IPR023672Large ribosomal subunit protein uL2, archaeal-eukaryota typeFamily
D [auth AA]IPR002171Large ribosomal subunit protein uL2Family
E [auth AB]IPR019926Large ribosomal subunit protein uL3, conserved siteConserved Site
E [auth AB]IPR019928Large ribosomal subunit protein uL3, archaealFamily
E [auth AB]IPR009000Translation protein, beta-barrel domain superfamilyHomologous Superfamily
E [auth AB]IPR045077Large ribosomal subunit protein uL3, archaeal/eukaryotic-typeFamily
E [auth AB]IPR044892Ribosomal protein L3, domain 3, archaeal-type superfamilyHomologous Superfamily
E [auth AB]IPR000597Large ribosomal subunit protein uL3Family
F [auth AC]IPR019970Large ribosomal subunit protein uL4, archaeaFamily
F [auth AC]IPR002136Large ribosomal subunit protein uL4Family
F [auth AC]IPR013000Large ribosomal subunit protein uL4, eukaryotic/archaeal, conserved siteConserved Site
F [auth AC]IPR045240Large ribosomal subunit protein uL4, eukaryotic and archaeal typeFamily
F [auth AC]IPR023574Large ribosomal subunit protein uL4 domain superfamilyHomologous Superfamily
G [auth AD]IPR022803Large ribosomal subunit protein uL5 domain superfamilyHomologous Superfamily
G [auth AD]IPR022804Large ribosomal subunit protein uL5, archaealFamily
G [auth AD]IPR031309Large ribosomal subunit protein uL5, C-terminalDomain
G [auth AD]IPR031310Large ribosomal subunit protein uL5, N-terminalDomain
G [auth AD]IPR002132Large ribosomal subunit protein uL5Family
H [auth AE]IPR020040Large ribosomal subunit protein uL6, alpha-beta domainDomain
H [auth AE]IPR019907Large ribosomal subunit protein uL6, archaeaFamily
H [auth AE]IPR036789Large ribosomal subunit protein uL6-like, alpha-beta domain superfamilyHomologous Superfamily
H [auth AE]IPR000702Large ribosomal subunit protein uL6-likeFamily
I [auth AF]IPR050257Large ribosomal subunit protein eL8/uL1-likeFamily
I [auth AF]IPR004038Ribosomal protein eL8/eL30/eS12/Gadd45Domain
I [auth AF]IPR022481Large ribosomal subunit protein eL8, archaeaFamily
I [auth AF]IPR004037Large ribosomal subunit protein eL8-like, conserved siteConserved Site
I [auth AF]IPR029064Ribosomal protein eL30-like superfamilyHomologous Superfamily
I [auth AF]IPR018492Ribosomal protein eL8/Nhp2 familyFamily