CISBP-RNA Database: Catalog of Inferred Sequence Binding Preferences of RNA binding proteins
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PABPC1L
(
Ochotona princeps
)
RRM
RBP Information
Pfam ID
Interpro ID
Gene ID
CISBP-RNA ID
Sequence source
PF00076 (RRM_1)
IPR000504
ENSOPRG00000011846
T40020_0.6
Ensembl (2011-Oct-26)
Link out
Directly determined binding motifs
Name/Motif ID
Species
Sequence Logo
IUPAC
Type/Study/Study ID
RBD
Identity
No direct experiments
Motifs from related RBPs
Name/Motif ID
Species
Sequence Logo
IUPAC
Type/Study/Study ID
RBD
Identity
PABPC1
M349_0.6
Homo sapiens
ACDAAYM
SELEX
Cook et al.(2011)
950_7908267
0.777
PABPC1
M275_0.6
Homo sapiens
AAAAA
SELEX
Cook et al.(2011)
24_7908267
0.777
PABPC1
M146_0.6
Homo sapiens
ARAAAAM
RNAcompete
Ray et al.(2013)
RNCMPT00155
0.777
PABPC4
M042_0.6
Homo sapiens
AAAAAAR
RNAcompete
Ray et al.(2013)
RNCMPT00043
0.762
PABPC3
M144_0.6
Homo sapiens
RAAAACM
RNAcompete
Ray et al.(2013)
RNCMPT00153
0.730
For this family, RBPs with RBD identity >
0.7
will likely have a similar motif
RNA Binding Domains
Protein ID
Domain
From
To
Sequence
ENSOPRP00000010811
RRM
13
83
LYVGDLHPDVTEAMLYETFSPAGPILSIRVCRDVATRRSLGYAYINFQQPADAERALDTMNFEVIKGQPIR
ENSOPRP00000010811
RRM
101
169
VFIKNLEDSIDNKALYDTFSTFGNILSCKVVCNEHGSRGFGFVHFETHEAAQQAIRTMNGMLLNDRKVF
ENSOPRP00000010811
RRM
193
262
FYVEDLRVDVDEQGLQDLFSQFGKMLSVKVMRDNSGFSRGFGFVNFEKHEEAQKAVDHMNGKEVNGRLLY
ENSOPRP00000010811
RRM
296
364
LYVKNLDDSIDDEKLRKEFSPYGVITSAKVMTEGDHSKGFGFVCFSSPEEATKAVTEMNGRIVGTKPLY
Links
Other
RRM
family RBPs
Other
Ochotona princeps
RBPs
124 Related RBPs
Due to potential differences in protein isoforms or tested constructs, some RBPs without inferred motifs might appear in this list.
Name
Species
Gene ID
Motif Evidence
RBD
Identity
Action
29609.m000599
Ricinus communis
29609.m000599
N
0.000
AT1G10320
Arabidopsis thaliana
AT1G10320-TAIR-G
N
0.000
BGIOSIBCE007424
Oryza indica
BGIOSIBCE007424
N
0.000
Glyma08g17310.1
Glycine max
Glyma08g17310.1
N
0.000
Glyma15g39220.1
Glycine max
Glyma15g39220.1
N
0.000
GSVIVG00023150001
Vitis vinifera
GSVIVG00023150001
N
0.000
LOC_Os02g35150
Oryza sativa
LOC_Os02g35150
N
0.000
MDP0000172441
Malus x domestica
MDP0000172441
N
0.000
mgf026159m
Mimulus guttatus
mgf026159m
N
0.000
PK13905.1
Cannabis sativa
PK13905.1
N
0.000
ppa023225m
Prunus persica
ppa023225m
N
0.000