5LZB

Structure of SelB-Sec-tRNASec bound to the 70S ribosome in the initial binding state (IB)


Protein Family Annotation Pfam Database Homepage

ChainsAccessionIdentifierDescriptionCommentsSource
BPF00318Ribosomal protein S2 (Ribosomal_S2)Ribosomal protein S2- Family
CPF07650KH domain (KH_2)KH domain- Domain
CPF00189Ribosomal protein S3, C-terminal domain (Ribosomal_S3_C)Ribosomal protein S3, C-terminal domainThis family contains a central domain Pfam:PF00013, hence the amino and carboxyl terminal domains are stored separately. This is a minimal carboxyl-terminal domain. Some are much longer.Domain
DPF00163Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)Ribosomal protein S4/S9 N-terminal domain- Family
DPF01479S4 domain (S4)S4 domainThe 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
EPF03719Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C)Ribosomal protein S5, C-terminal domain- Domain
EPF00333Ribosomal protein S5, N-terminal domain (Ribosomal_S5)Ribosomal protein S5, N-terminal domain- Domain
FPF01250Ribosomal protein S6 (Ribosomal_S6)Ribosomal protein S6- Domain
GPF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes.Domain
HPF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8- Domain
IPF00380Ribosomal protein S9/S16 (Ribosomal_S9)Ribosomal protein S9/S16- Family
JPF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20e- Family
KPF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
LPF00164Ribosomal protein S12/S23 (Ribosom_S12_S23)Ribosomal protein S12/S23- Family
NPF00253Ribosomal protein S14p/S29e (Ribosomal_S14)Ribosomal protein S14p/S29e- Family
OPF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15- Domain
PPF00886Ribosomal protein S16 (Ribosomal_S16)Ribosomal protein S16- Family
QPF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17- Domain
TPF01649Ribosomal protein S20 (Ribosomal_S20p)Ribosomal protein S20- Family
YPF00009Elongation 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
YPF03144Elongation factor Tu domain 2 (GTP_EFTU_D2)Elongation factor Tu domain 2Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as e ...Elongation factor Tu consists of three structural domains, this is the second domain. This domain adopts a beta barrel structure. This the second domain is involved in binding to charged tRNA [1]. This domain is also found in other proteins such as elongation factor G and translation initiation factor IF-2. This domain is structurally related to Pfam:PF03143, and in fact has weak sequence matches to this domain.
Domain
YPF09106Elongation factor SelB, winged helix (SelB-wing_2)Elongation factor SelB, winged helixMembers of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DN ...Members of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DNA and RNA binding [1].
Domain
YPF09107Elongation factor SelB, winged helix (SelB-wing_3)Elongation factor SelB, winged helixMembers of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DN ...Members of this family adopt a winged-helix fold, with an alpha/beta structure consisting of three alpha-helices and a twisted three-stranded antiparallel beta-sheet, with an alpha-beta-alpha-alpha-beta-beta connectivity. They are involved in both DNA and RNA binding [1].
Domain
BAPF03947Ribosomal Proteins L2, C-terminal domain (Ribosomal_L2_C)Ribosomal Proteins L2, C-terminal domain- Domain
BAPF00181Ribosomal Proteins L2, RNA binding domain (Ribosomal_L2)Ribosomal Proteins L2, RNA binding domain- Domain
CAPF00297Ribosomal protein L3 (Ribosomal_L3)Ribosomal protein L3- Family
DAPF00573Ribosomal protein L4/L1 family (Ribosomal_L4)Ribosomal protein L4/L1 family- Family
EAPF00281Ribosomal protein L5 (Ribosomal_L5)Ribosomal protein L5- Domain
EAPF00673ribosomal L5P family C-terminus (Ribosomal_L5_C)ribosomal L5P family C-terminusThis region is found associated with Pfam:PF00281.Domain
FAPF00347Ribosomal protein L6 (Ribosomal_L6)Ribosomal protein L6- Domain
GAPF03946Ribosomal protein L11, N-terminal domain (Ribosomal_L11_N)Ribosomal protein L11, N-terminal domainThe N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain.Domain
GAPF00298Ribosomal protein L11, RNA binding domain (Ribosomal_L11)Ribosomal protein L11, RNA binding domain- Domain
IAPF00572Ribosomal protein L13 (Ribosomal_L13)Ribosomal protein L13- Family
JAPF00238Ribosomal protein L14p/L23e (Ribosomal_L14)Ribosomal protein L14p/L23e- Domain
LAPF00252Ribosomal protein L16p/L10e (Ribosomal_L16)Ribosomal protein L16p/L10e- Family
MAPF01196Ribosomal protein L17 (Ribosomal_L17)Ribosomal protein L17- Family
NAPF00861Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast (Ribosomal_L18p)Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast- Family
OAPF01245Ribosomal protein L19 (Ribosomal_L19)Ribosomal protein L19- Family
PAPF00453Ribosomal protein L20 (Ribosomal_L20)Ribosomal protein L20- Family
QAPF00829Ribosomal prokaryotic L21 protein (Ribosomal_L21p)Ribosomal prokaryotic L21 protein- Family
RAPF00237Ribosomal protein L22p/L17e (Ribosomal_L22)Ribosomal protein L22p/L17eThis family includes L22 from prokaryotes and chloroplasts and L17 from eukaryotes.Domain
SAPF00276Ribosomal protein L23 (Ribosomal_L23)Ribosomal protein L23- Family
TAPF17136Ribosomal proteins 50S L24/mitochondrial 39S L24 (ribosomal_L24)Ribosomal proteins 50S L24/mitochondrial 39S L24- Family
TAPF00467KOW motif (KOW)KOW motif- Family
UAPF01386Ribosomal L25p family (Ribosomal_L25p)Ribosomal L25p familyRibosomal protein L25 is an RNA binding protein, that binds 5S rRNA. This family includes Ctc from B. subtilis Swiss:P14194, which is induced by stress.Domain
VAPF01016Ribosomal L27 protein (Ribosomal_L27)Ribosomal L27 protein- Family
WAPF00830Ribosomal L28 family (Ribosomal_L28)Ribosomal L28 family- Family
XAPF00831Ribosomal L29 protein (Ribosomal_L29)Ribosomal L29 protein- Family
YAPF00327Ribosomal protein L30p/L7e (Ribosomal_L30)Ribosomal protein L30p/L7eThis family includes prokaryotic L30 and eukaryotic L7.Domain
ZAPF01783Ribosomal L32p protein family (Ribosomal_L32p)Ribosomal L32p protein family- Family
ABPF00471Ribosomal protein L33 (Ribosomal_L33)Ribosomal protein L33- Family
BBPF00468Ribosomal protein L34 (Ribosomal_L34)Ribosomal protein L34- Family
CBPF01632Ribosomal protein L35 (Ribosomal_L35p)Ribosomal protein L35- Family
DBPF00444Ribosomal protein L36 (Ribosomal_L36)Ribosomal protein L36- Domain
EBPF01197Ribosomal protein L31 (Ribosomal_L31)Ribosomal protein L31- Family
MPF00416Ribosomal protein S13/S18 (Ribosomal_S13)Ribosomal protein S13/S18- Family
RPF01084Ribosomal protein S18 (Ribosomal_S18)Ribosomal protein S18- Family
SPF00203Ribosomal protein S19 (Ribosomal_S19)Ribosomal protein S19- Domain
UPF01165Ribosomal protein S21 (Ribosomal_S21)Ribosomal protein S21- Family
HAPF01281Ribosomal protein L9, N-terminal domain (Ribosomal_L9_N)Ribosomal protein L9, N-terminal domain- Domain
HAPF03948Ribosomal protein L9, C-terminal domain (Ribosomal_L9_C)Ribosomal protein L9, C-terminal domain- Domain
KAPF00828Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A (Ribosomal_L27A)Ribosomal proteins 50S-L15, 50S-L18e, 60S-L27A- Family

Gene Product Annotation Gene Product Annotation

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
a16S ribosomal RNAnone none none
b30S ribosomal protein S2
c30S ribosomal protein S3
d30S ribosomal protein S4
e30S ribosomal protein S5
f30S ribosomal protein S6
g30S ribosomal protein S7
h30S ribosomal protein S8
i30S ribosomal protein S9
j30S ribosomal protein S10
k30S ribosomal protein S11
l30S ribosomal protein S12
n30S ribosomal protein S14
o30S ribosomal protein S15
p30S ribosomal protein S16
q30S ribosomal protein S17
t30S ribosomal protein S20
xSECIS mRNAnone none none
ySec-tRNASecnone none none
zSelenocysteine-specific elongation factor
A23S ribosomal RNAnone none none
B5S ribosomal RNAnone none none
C50S ribosomal protein L2
D50S ribosomal protein L3
E50S ribosomal protein L4
F50S ribosomal protein L5
G50S ribosomal protein L6
I50S ribosomal protein L11
J50S ribosomal protein L13
K50S ribosomal protein L14
M50S ribosomal protein L16
N50S ribosomal protein L17
O50S ribosomal protein L18
P50S ribosomal protein L19
Q50S ribosomal protein L20
R50S ribosomal protein L21
S50S ribosomal protein L22
T50S ribosomal protein L23
U50S ribosomal protein L24
V50S ribosomal protein L25
W50S ribosomal protein L27
X50S ribosomal protein L28
Y50S ribosomal protein L29
Z50S ribosomal protein L30
050S ribosomal protein L32
150S ribosomal protein L33
250S ribosomal protein L34
350S ribosomal protein L35
450S ribosomal protein L36
650S ribosomal protein L31
wCCA 3' end of E-site tRNASec (low occupancy)none none none
m30S ribosomal protein S13
r30S ribosomal protein S18
s30S ribosomal protein S19
u30S ribosomal protein S21
vfMet-tRNAfMetnone none none
H50S ribosomal protein L9
L50S ribosomal protein L15