Table 1

Common RNA binding proteins and their conserved domains
Gene name Protein description (NCBI Protein) Conserved % of all RNAs significantly bound
Domains
CIRBP Cold-inducible RNA-binding protein RRM 90%
SFRS13A FUSIP1 protein RRM 85%
CPEB4 CPEB4 protein RRM 85%
PTBP2 Polypyrimidine tract binding protein 2 RRM 80%
TIA1 TIA1 protein RRM 80%
TIAL1 TIAL1 protein RRM 75%
RBMS3 RNA-binding motif, single-stranded-interacting protein 3 RRM 95%
PTBP1 Polypyrimidine tract-binding protein 1 isoform c RRM 95%
PCBP2 Poly(rC)-binding protein 2 isoform b PCBP_like_KH, KH-I 100%
NOVA1 RNA-binding protein Nova-1 isoform 1 PCBP_like_KH,KH-I 90%
PCBP2 Poly(rC)-binding protein 2 isoform a PCBP_like_KH, KH-I 90%
PCBP1 Poly(rC) binding protein 1 PCBP_like_KH, KH-I 80%
QKI Protein quaking isoform HQK-6 SF1_like-KH 95%
QKI Protein quaking isoform HQK-7B SF1_like-KH 90%
QKI Protein quaking isoform HQK-5 SF1_like-KH 80%
KHDRBS2 KH domain-containing,RNA-binding protein 2 SF1_like-KH 85%
KHDRBS3 KHDRBS3 protein SF1_like-KH 75%
ZNF385b ZNF385B protein Zf-met 90%
MBNL1 Muscleblind-like protein 1 isoform a Zf-CCCH 75%
ZC3H10 Zinc finger CCCH domain-containing protein 10 Zf-CCCH 95%
TARBP2 RISC-loading complex subunit TARBP2 isoform b DSRM 95%
TARBP2 RISC-loading complex subunit TARBP2 isoform a DSRM 100%
RPA1 Replication protein A 70 kDa DNA-binding subunit RPA1N,RPA1_DBD_C 75%
UNG Uracil-DNA glycosylase isoform UNG2 UDG_F1 95%
KCNAB1 Voltage-gated potassium channel subunit beta-1 isoform 1 Aldo_ket_red, Tas 95%
STK40 Serine/threonine-protein kinase 40 PKc_like 75%
PAGE1 G antigen family B member 1 GAGE 75%
NUDT16L1 Protein syndesmos isoform 1 None 75%

RRM – RNA recognition motif, PCBP_like_KH – Poly r(C) binding protein like K homology domain, KH – K homology RNA binding domain, KH-I – K homology RNA binding domain type I, SF1_like-KH – Splicing factor K homology RNA binding domain, Zf-CCCH – Zinc-finger of CCCH [C-x8-C-x5-Cx3-H] type, DSRM – Double-stranded RNA binding motif, Aldo_ket_red – Aldo-keto reductase, Tas – predicted oxidoreductase, UDG_F1 – family 1 of Uracil-DNA glycosylase, RPA1N – replication protein A N-terminal OB fold domain, RPA1_DBD_C – replication protein ssDNA binding domain DBD-C, PKc_like – Protein Kinase C family, GAGE – GAGE protein family.

Siprashvili et al.

Siprashvili et al. BMC Genomics 2012 13:633   doi:10.1186/1471-2164-13-633

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