5OPT

Structure of KSRP in context of Trypanosoma cruzi 40S


ChainDomainClassArchitectureTopologyHomology
A2.130.10.10 Mainly Beta 7 Propeller Methylamine Dehydrogenase Chain H
C3.30.230.10 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5 domain 2
F3.10.290.10 Alpha Beta Roll Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region Chain A
F2.40.50.740 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Ribosomal protein S4, central domain
F2.30.30.30 Mainly Beta Roll SH3 type barrels.
H1.10.455.10 Mainly Alpha Orthogonal Bundle Ribosomal Protein S7 Ribosomal protein S7/S5
J1.10.287.10 Mainly Alpha Orthogonal Bundle Helix Hairpins S15/NS1, RNA-binding
K2.20.25.100 Mainly Beta Single Sheet N-terminal domain of TfIIb Ribosomal protein S27
L3.30.1740.20 Alpha Beta 2-Layer Sandwich first zn-finger domain of poly(adp-ribose) polymerase-1 Ribosomal protein S26
M2.40.50.140 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Nucleic acid-binding proteins
N3.30.420.80 Alpha Beta 2-Layer Sandwich Nucleotidyltransferase domain 5
P2.40.50.1000 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Q3.30.70.3370 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits
U3.30.160.20 Alpha Beta 2-Layer Sandwich Double Stranded RNA Binding Domain
U3.30.230.10 Alpha Beta 2-Layer Sandwich Ribosomal Protein S5 domain 2
V3.30.1370.30 Alpha Beta 2-Layer Sandwich Ribosomal Protein S8 Chain: A, domain 1
V3.30.1490.10 Alpha Beta 2-Layer Sandwich Dna Ligase domain 1
W3.30.1230.20 Alpha Beta 2-Layer Sandwich Hypothetical Cytosolic Protein Chain: A
Y3.30.1330.30 Alpha Beta 2-Layer Sandwich 60s Ribosomal Protein L30 Chain: A
BA1.10.60.20 Mainly Alpha Orthogonal Bundle Diphtheria Toxin Repressor domain 2
CA3.30.70.600 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits Ribosomal protein S10
DA3.30.300.20 Alpha Beta 2-Layer Sandwich GMP Synthetase Chain A, domain 3
DA3.30.1140.32 Alpha Beta 2-Layer Sandwich Ribosomal protein S3 C-terminal domain Ribosomal protein S3, C-terminal domain
EA1.10.10.10 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain
T3.40.50.10490 Alpha Beta 3-Layer(aba) Sandwich Rossmann fold Glucose-6-phosphate isomerase like protein

Protein Family Annotation Pfam Database Homepage

ChainsAccessionIdentifierDescriptionCommentsSource
APF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
BPF00253Ribosomal protein S14p/S29e (Ribosomal_S14)Ribosomal protein S14p/S29e- Family
CPF00380Ribosomal protein S9/S16 (Ribosomal_S9)Ribosomal protein S9/S16- Family
DPF00203Ribosomal protein S19 (Ribosomal_S19)Ribosomal protein S19- Domain
EPF00416Ribosomal protein S13/S18 (Ribosomal_S13)Ribosomal protein S13/S18- Family
FPF00900Ribosomal family S4e (Ribosomal_S4e)Ribosomal family S4e- Family
FPF1612140S ribosomal protein S4 C-terminus (40S_S4_C)40S ribosomal protein S4 C-terminus- Family
FPF08071RS4NT (NUC023) domain (RS4NT)RS4NT (NUC023) domainThis is the N-terminal domain of Ribosomal S4 / S4e proteins. This domain is associated with S4 and KOW domains [1].Domain
FPF01479S4 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
FPF00467KOW motif (KOW)KOW motif- Family
GPF00164Ribosomal protein S12/S23 (Ribosom_S12_S23)Ribosomal protein S12/S23- Family
HPF00177Ribosomal protein S7p/S5e (Ribosomal_S7)Ribosomal protein S7p/S5eThis family contains ribosomal protein S7 from prokaryotes and S5 from eukaryotes.Domain
IPF01251Ribosomal protein S7e (Ribosomal_S7e)Ribosomal protein S7e- Family
JPF08069Ribosomal S13/S15 N-terminal domain (Ribosomal_S13_N)Ribosomal S13/S15 N-terminal domainThis domain is found at the N-terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [1].Domain
JPF00312Ribosomal protein S15 (Ribosomal_S15)Ribosomal protein S15- Domain
KPF01667Ribosomal protein S27 (Ribosomal_S27e)Ribosomal protein S27- Family
LPF01283Ribosomal protein S26e (Ribosomal_S26e)Ribosomal protein S26e- Family
MPF01200Ribosomal protein S28e (Ribosomal_S28e)Ribosomal protein S28e- Family
NPF00411Ribosomal protein S11 (Ribosomal_S11)Ribosomal protein S11- Family
OPF01015Ribosomal S3Ae family (Ribosomal_S3Ae)Ribosomal S3Ae family- Family
PPF00366Ribosomal protein S17 (Ribosomal_S17)Ribosomal protein S17- Domain
PPF16205Ribosomal_S17 N-terminal (Ribosomal_S17_N)Ribosomal_S17 N-terminal- Family
QPF01282Ribosomal protein S24e (Ribosomal_S24e)Ribosomal protein S24e- Family
RPF01201Ribosomal protein S8e (Ribosomal_S8e)Ribosomal protein S8e- Family
SPF00163Ribosomal protein S4/S9 N-terminal domain (Ribosomal_S4)Ribosomal protein S4/S9 N-terminal domain- Family
SPF01479S4 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
UPF03719Ribosomal protein S5, C-terminal domain (Ribosomal_S5_C)Ribosomal protein S5, C-terminal domain- Domain
UPF00333Ribosomal protein S5, N-terminal domain (Ribosomal_S5)Ribosomal protein S5, N-terminal domain- Domain
VPF00410Ribosomal protein S8 (Ribosomal_S8)Ribosomal protein S8- Domain
WPF01249Ribosomal protein S21e (Ribosomal_S21e)Ribosomal protein S21e- Family
XPF03297S25 ribosomal protein (Ribosomal_S25)S25 ribosomal protein- Family
YPF01248Ribosomal 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
ZPF00240Ubiquitin family (ubiquitin)Ubiquitin familyThis family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].
Domain
ZPF01599Ribosomal protein S27a (Ribosomal_S27)Ribosomal protein S27aThis family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins ...This family of ribosomal proteins consists mainly of the 40S ribosomal protein S27a which is synthesised as a C-terminal extension of ubiquitin (CEP). The S27a domain compromises the C-terminal half of the protein. The synthesis of ribosomal proteins as extensions of ubiquitin promotes their incorporation into nascent ribosomes by a transient metabolic stabilisation and is required for efficient ribosome biogenesis [3]. The ribosomal extension protein S27a contains a basic region that is proposed to form a zinc finger; its fusion gene is proposed as a mechanism to maintain a fixed ratio between ubiquitin necessary for degrading proteins and ribosomes a source of proteins [2].
Domain
AAPF01092Ribosomal protein S6e (Ribosomal_S6e)Ribosomal protein S6e- Family
BAPF00833Ribosomal S17 (Ribosomal_S17e)Ribosomal S17- Family
CAPF00338Ribosomal protein S10p/S20e (Ribosomal_S10)Ribosomal protein S10p/S20eThis family includes small ribosomal subunit S10 from prokaryotes and S20 from eukaryotes.Domain
DAPF07650KH domain (KH_2)KH domain- Domain
DAPF00189Ribosomal 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
EAPF03501Plectin/S10 domain (S10_plectin)Plectin/S10 domainThis presumed domain is found at the N-terminus of some isoforms of the cytoskeletal muscle protein plectin as well as the ribosomal S10 protein. This domain may be involved in RNA binding.Domain
FAPF01090Ribosomal protein S19e (Ribosomal_S19e)Ribosomal protein S19e- Family
GAPF04758Ribosomal protein S30 (Ribosomal_S30)Ribosomal protein S30- Family
HAPF00076RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) (RRM_1)RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The mo ...The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (Swiss:P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (Swiss:P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.
Domain
TPF00318Ribosomal protein S2 (Ribosomal_S2)Ribosomal protein S2- Family

Gene Product Annotation Gene Product Annotation

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
pActivated protein kinase C receptor, putative
qRibosomal protein S29, putative
r40S ribosomal protein S16, putative
t40S ribosomal protein S15, putative
u40S ribosomal protein S18, putative
L40S ribosomal protein S4
M40S ribosomal protein S23, putative
O40S ribosomal protein S5, putative
QRibosomal protein S7, putative
R40S ribosomal protein S13, putative
S40S ribosomal protein S27, putative
T40S ribosomal protein S26
U40S ribosomal protein S33, putative
V40S ribosomal protein S14, putative
W40S ribosomal protein S3a-2
X40S ribosomal protein S11, putative
Y40S ribosomal protein S24
Z40S ribosomal protein S8
b40S ribosomal protein S9, putative
d40S ribosomal protein S2, putative
e40S ribosomal protein S15a, putative
g40S ribosomal protein S21, putative
aRibosomal protein S25, putative
i40S ribosomal protein S12
jUbiquitin/ribosomal protein S27a, putative
P40S ribosomal protein S6
k40S ribosomal protein S17, putative
lRibosomal protein S20, putative
m40S ribosomal protein S3, putative
n40S ribosomal protein S10, putative
oRibosomal protein S19, putative
c40S ribosomal protein S30
hRNA-binding protein, putative
E18S rRNAnone none none
f40S ribosomal protein SA