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Conserved domains on  [gi|1154067530|ref|NP_001336120|]
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RNA-binding protein 6 isoform 2 [Homo sapiens]

Protein Classification

G patch domain-containing protein( domain architecture ID 10880651)

G patch domain-containing protein similar to Saccharomyces cerevisiae protein PXR1 that is involved in rRNA-processing at A0, A1 and A2 sites through its action in U18 and U24 snoRNA 3'-end final trimming, and pre-mRNA-splicing factor SPP382 that is involved in pre-mRNA splicing and spliceosome disassembly

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RRM2_RBM6 cd12563
RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6); This subgroup ...
 132-218 3.03e-50

RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6); This subgroup corresponds to the RRM2 of RBM6, also termed lung cancer antigen NY-LU-12, or protein G16, or RNA-binding protein DEF-3, which has been predicted to be a nuclear factor based on its nuclear localization signal. It shows high sequence similarity to RNA-binding protein 5 (RBM5 or LUCA15 or NY-REN-9). Both, RBM6 and RBM5, specifically bind poly(G) RNA. They contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain. In contrast to RBM5, RBM6 has two additional unique domains: the decamer repeat occurring more than 20 times, and the POZ (poxvirus and zinc finger) domain. The POZ domain may be involved in protein-protein interactions and inhibit binding of target sequences by zinc fingers.


:

Pssm-ID: 409979 [Multi-domain]  Cd Length: 87  Bit Score: 168.49  E-value: 3.03e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 132 ESKTIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNLDPPFSIDGKMV 211
Cdd:cd12563     1 DSKTIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNKTGPMGHTYGFIDLDSHAEALRLVKLLQNLDPPLYIDGRRV 80


                  ....*..
gi 1154067530 212 AVNLATG 218
Cdd:cd12563    81 YVNVATG 87
OCRE_RBM6 cd16163
OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins; RBM6, also called lung ...
 244-303 3.61e-14

OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins; RBM6, also called lung cancer antigen NY-LU-12, or protein G16, or RNA-binding protein DEF-3, has been predicted to be a nuclear factor based on its nuclear localization signal. It shows high sequence similarity to RNA-binding protein 5 (RBM5 or LUCA15 or NY-REN-9). Both specifically binds poly(G) RNA. RBM6 contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain. In contrast to RBM5, RBM6 has an additional unique domain, the POZ (poxvirus and zinc finger) domain, which may be involved in protein-protein interactions and inhibit binding of target sequences by zinc fingers.


:

Pssm-ID: 293882 [Multi-domain]  Cd Length: 57  Bit Score: 66.99  E-value: 3.61e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 244 RGGGRNSDWSSDTNrqgqqsssDCYIYDSATGYYYDPLAGTYYDPNTqQEVYVPQDPGLP 303
Cdd:cd16163     1 EGSGPAPTYRSDPD--------SGYIYDPETGYYYDPVTGLYYDPAT-GEYVDPDTGTLP 51
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 529-572 7.70e-09

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


:

Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 51.74  E-value: 7.70e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1154067530 529 TSSKGGCVQQATGWRKGTGLGYGHPGLASSEEAEGRMRGPSVGA 572
Cdd:pfam01585   1 TSNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDRRGLGA 44
 
Name Accession Description Interval E-value
RRM2_RBM6 cd12563
RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6); This subgroup ...
 132-218 3.03e-50

RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6); This subgroup corresponds to the RRM2 of RBM6, also termed lung cancer antigen NY-LU-12, or protein G16, or RNA-binding protein DEF-3, which has been predicted to be a nuclear factor based on its nuclear localization signal. It shows high sequence similarity to RNA-binding protein 5 (RBM5 or LUCA15 or NY-REN-9). Both, RBM6 and RBM5, specifically bind poly(G) RNA. They contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain. In contrast to RBM5, RBM6 has two additional unique domains: the decamer repeat occurring more than 20 times, and the POZ (poxvirus and zinc finger) domain. The POZ domain may be involved in protein-protein interactions and inhibit binding of target sequences by zinc fingers.


Pssm-ID: 409979 [Multi-domain]  Cd Length: 87  Bit Score: 168.49  E-value: 3.03e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 132 ESKTIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNLDPPFSIDGKMV 211
Cdd:cd12563     1 DSKTIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNKTGPMGHTYGFIDLDSHAEALRLVKLLQNLDPPLYIDGRRV 80


                  ....*..
gi 1154067530 212 AVNLATG 218
Cdd:cd12563    81 YVNVATG 87
OCRE_RBM6 cd16163
OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins; RBM6, also called lung ...
 244-303 3.61e-14

OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins; RBM6, also called lung cancer antigen NY-LU-12, or protein G16, or RNA-binding protein DEF-3, has been predicted to be a nuclear factor based on its nuclear localization signal. It shows high sequence similarity to RNA-binding protein 5 (RBM5 or LUCA15 or NY-REN-9). Both specifically binds poly(G) RNA. RBM6 contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain. In contrast to RBM5, RBM6 has an additional unique domain, the POZ (poxvirus and zinc finger) domain, which may be involved in protein-protein interactions and inhibit binding of target sequences by zinc fingers.


Pssm-ID: 293882 [Multi-domain]  Cd Length: 57  Bit Score: 66.99  E-value: 3.61e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 244 RGGGRNSDWSSDTNrqgqqsssDCYIYDSATGYYYDPLAGTYYDPNTqQEVYVPQDPGLP 303
Cdd:cd16163     1 EGSGPAPTYRSDPD--------SGYIYDPETGYYYDPVTGLYYDPAT-GEYVDPDTGTLP 51
OCRE pfam17780
OCRE domain; The OCtamer REpeat (OCRE) has been annotated as a 42-residue sequence motif with ...
 264-296 3.23e-10

OCRE domain; The OCtamer REpeat (OCRE) has been annotated as a 42-residue sequence motif with 12 tyrosine residues in the spliceosome trans-regulatory elements RBM5 and RBM10 (RBM [RNA-binding motif]), which are known to regulate alternative splicing of Fas and Bcl-x pre-mRNA transcripts. The structure of the domain consists of an anti-parallel arrangement of six beta strands.


Pssm-ID: 465502  Cd Length: 51  Bit Score: 55.71  E-value: 3.23e-10
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1154067530 264 SSDCYIYDSATGYYYDPLAGTYYDPNTQQEVYV 296
Cdd:pfam17780   1 DSSGYVYDEASGYYYDPTTGYYYDPNTGLYYDP 33
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 529-572 7.70e-09

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 51.74  E-value: 7.70e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1154067530 529 TSSKGGCVQQATGWRKGTGLGYGHPGLASSEEAEGRMRGPSVGA 572
Cdd:pfam01585   1 TSNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDRRGLGA 44
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 527-573 1.17e-08

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 51.01  E-value: 1.17e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1154067530  527 IDTSSKGGCVQQATGWRKGTGLGYGHPGLASSEEAEGRMRGPSVGAS 573
Cdd:smart00443   1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGAV 47
RRM smart00360
RNA recognition motif;
135-213 2.20e-03

RNA recognition motif;


Pssm-ID: 214636 [Multi-domain]  Cd Length: 73  Bit Score: 37.19  E-value: 2.20e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1154067530  135 TIMLKRIYRSTPPEVIVEVLEPYVRLTtaNVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNldppFSIDGKMVAV 213
Cdd:smart00360   1 TLFVGNLPPDTTEEELRELFSKFGKVE--SVRLVRDKETGKSKGFAFVEFESEEDAEKALEALNG----KELDGRPLKV 73
 
Name Accession Description Interval E-value
RRM2_RBM6 cd12563
RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6); This subgroup ...
 132-218 3.03e-50

RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 6 (RBM6); This subgroup corresponds to the RRM2 of RBM6, also termed lung cancer antigen NY-LU-12, or protein G16, or RNA-binding protein DEF-3, which has been predicted to be a nuclear factor based on its nuclear localization signal. It shows high sequence similarity to RNA-binding protein 5 (RBM5 or LUCA15 or NY-REN-9). Both, RBM6 and RBM5, specifically bind poly(G) RNA. They contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain. In contrast to RBM5, RBM6 has two additional unique domains: the decamer repeat occurring more than 20 times, and the POZ (poxvirus and zinc finger) domain. The POZ domain may be involved in protein-protein interactions and inhibit binding of target sequences by zinc fingers.


Pssm-ID: 409979 [Multi-domain]  Cd Length: 87  Bit Score: 168.49  E-value: 3.03e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 132 ESKTIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNLDPPFSIDGKMV 211
Cdd:cd12563     1 DSKTIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNKTGPMGHTYGFIDLDSHAEALRLVKLLQNLDPPLYIDGRRV 80


                  ....*..
gi 1154067530 212 AVNLATG 218
Cdd:cd12563    81 YVNVATG 87
RRM1_RRM2_RBM5_like cd12313
RNA recognition motif 1 (RRM1) and 2 (RRM2) found in RNA-binding protein 5 (RBM5) and similar ...
 132-216 7.61e-29

RNA recognition motif 1 (RRM1) and 2 (RRM2) found in RNA-binding protein 5 (RBM5) and similar proteins; This subfamily includes the RRM1 and RRM2 of RNA-binding protein 5 (RBM5 or LUCA15 or H37) and RNA-binding protein 10 (RBM10 or S1-1), and the RRM2 of RNA-binding protein 6 (RBM6 or NY-LU-12 or g16 or DEF-3). These RBMs share high sequence homology and may play an important role in regulating apoptosis. RBM5 is a known modulator of apoptosis. It may also act as a tumor suppressor or an RNA splicing factor. RBM6 has been predicted to be a nuclear factor based on its nuclear localization signal. Both, RBM6 and RBM5, specifically bind poly(G) RNA. RBM10 is a paralog of RBM5. It may play an important role in mRNA generation, processing and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. All family members contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, and a G-patch/D111 domain.


Pssm-ID: 409752 [Multi-domain]  Cd Length: 85  Bit Score: 109.66  E-value: 7.61e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 132 ESKTIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNLDPPFSIDGKMV 211
Cdd:cd12313     1 PTNVLILRGLDVLTTEEDILSALQAHADLPIKDVRLIRDKLTGTSRGFAFVEFSSLEDATQVMDALQNLLPPFKIDGRVV 80


                  ....*
gi 1154067530 212 AVNLA 216
Cdd:cd12313    81 SVSYA 85
RRM2_RBM5_like cd12562
RNA recognition motif 2 (RRM2) found in RNA-binding protein 5 (RBM5) and similar proteins; ...
 135-216 2.75e-16

RNA recognition motif 2 (RRM2) found in RNA-binding protein 5 (RBM5) and similar proteins; This subgroup corresponds to the RRM2 of RNA-binding protein 5 (RBM5 or LUCA15 or H37), RNA-binding protein 10 (RBM10 or S1-1) and similar proteins. RBM5 is a known modulator of apoptosis. It may also act as a tumor suppressor or an RNA splicing factor; it specifically binds poly(G) RNA. RBM10, a paralog of RBM5, may play an important role in mRNA generation, processing and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. Both, RBM5 and RBM10, contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, and a G-patch/D111 domain.


Pssm-ID: 409978 [Multi-domain]  Cd Length: 86  Bit Score: 74.21  E-value: 2.75e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 135 TIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNLDPPFSIDGKMVAVN 214
Cdd:cd12562     4 TIILRNINPHTTVDSILGALAPYAVLSSSNVRLIKDKQTQLNRGFAFVQLSSPIEASQLLQILQSLHPPLTIDGKTINVD 83


                  ..
gi 1154067530 215 LA 216
Cdd:cd12562    84 FA 85
RRM2_RBM10 cd12754
RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 10 (RBM10); This ...
 135-218 2.02e-15

RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 10 (RBM10); This subgroup corresponds to the RRM2 of RBM10, also termed G patch domain-containing protein 9, or RNA-binding protein S1-1 (S1-1), a paralog of putative tumor suppressor RNA-binding protein 5 (RBM5 or LUCA15 or H37). It may play an important role in mRNA generation, processing and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. RBM10 is structurally related to RBM5 and RNA-binding protein 6 (RBM6 or NY-LU-12 or g16 or DEF-3). It contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, and a G-patch/D111 domain.


Pssm-ID: 410148 [Multi-domain]  Cd Length: 87  Bit Score: 71.58  E-value: 2.02e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 135 TIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNLDPPFSIDGKMVAVN 214
Cdd:cd12754     4 TIILRNLNPHSTMDSILSALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTIVEAAQLLQILQALHPPLTIDGKTINVE 83


                  ....
gi 1154067530 215 LATG 218
Cdd:cd12754    84 FAKG 87
RRM2_RBM5 cd12755
RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 5 (RBM5); This subgroup ...
 133-216 2.05e-14

RNA recognition motif 2 (RRM2) found in vertebrate RNA-binding protein 5 (RBM5); This subgroup corresponds to the RRM2 of RBM5, also termed protein G15, or putative tumor suppressor LUCA15, or renal carcinoma antigen NY-REN-9, a known modulator of apoptosis. It may also act as a tumor suppressor or an RNA splicing factor. RBM5 shows high sequence similarity to RNA-binding protein 6 (RBM6 or NY-LU-12 or g16 or DEF-3). Both, RBM5 and RBM6, specifically bind poly(G) RNA. They contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain.


Pssm-ID: 410149 [Multi-domain]  Cd Length: 86  Bit Score: 68.80  E-value: 2.05e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 133 SKTIMLKRIYRSTPPEVIVEVLEPYVRLTTANVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNLDPPFSIDGKMVA 212
Cdd:cd12755     2 SDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSALEASQLLQILQSLHPPLKIDGKTIG 81


                  ....
gi 1154067530 213 VNLA 216
Cdd:cd12755    82 VDFA 85
OCRE_RBM6 cd16163
OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins; RBM6, also called lung ...
 244-303 3.61e-14

OCRE domain found in RNA-binding protein 6 (RBM6) and similar proteins; RBM6, also called lung cancer antigen NY-LU-12, or protein G16, or RNA-binding protein DEF-3, has been predicted to be a nuclear factor based on its nuclear localization signal. It shows high sequence similarity to RNA-binding protein 5 (RBM5 or LUCA15 or NY-REN-9). Both specifically binds poly(G) RNA. RBM6 contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain. In contrast to RBM5, RBM6 has an additional unique domain, the POZ (poxvirus and zinc finger) domain, which may be involved in protein-protein interactions and inhibit binding of target sequences by zinc fingers.


Pssm-ID: 293882 [Multi-domain]  Cd Length: 57  Bit Score: 66.99  E-value: 3.61e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1154067530 244 RGGGRNSDWSSDTNrqgqqsssDCYIYDSATGYYYDPLAGTYYDPNTqQEVYVPQDPGLP 303
Cdd:cd16163     1 EGSGPAPTYRSDPD--------SGYIYDPETGYYYDPVTGLYYDPAT-GEYVDPDTGTLP 51
OCRE pfam17780
OCRE domain; The OCtamer REpeat (OCRE) has been annotated as a 42-residue sequence motif with ...
 264-296 3.23e-10

OCRE domain; The OCtamer REpeat (OCRE) has been annotated as a 42-residue sequence motif with 12 tyrosine residues in the spliceosome trans-regulatory elements RBM5 and RBM10 (RBM [RNA-binding motif]), which are known to regulate alternative splicing of Fas and Bcl-x pre-mRNA transcripts. The structure of the domain consists of an anti-parallel arrangement of six beta strands.


Pssm-ID: 465502  Cd Length: 51  Bit Score: 55.71  E-value: 3.23e-10
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1154067530 264 SSDCYIYDSATGYYYDPLAGTYYDPNTQQEVYV 296
Cdd:pfam17780   1 DSSGYVYDEASGYYYDPTTGYYYDPNTGLYYDP 33
OCRE cd16074
OCRE domain; The OCRE (OCtamer REpeat) domain contains 5 repeats of an 8-residue motif, which ...
 245-303 3.88e-10

OCRE domain; The OCRE (OCtamer REpeat) domain contains 5 repeats of an 8-residue motif, which were shown to form beta-strands. Based on the architectures of proteins containing OCRE domains, a role in RNA metabolism and/or signalling has been proposed.


Pssm-ID: 293880  Cd Length: 54  Bit Score: 55.37  E-value: 3.88e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1154067530 245 GGGRNSDWSSDTNrqgqqsssDCYIYDSATGYYYDPLAGTYYDPNTQQevYVPQDPGLP 303
Cdd:cd16074     1 GSPDPSGFVFDPN--------SGYYYDPSTGLYYDPNTGYYYDPTSGT--YYIWDDELG 49
G-patch pfam01585
G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in ...
 529-572 7.70e-09

G-patch domain; This domain is found in a number of RNA binding proteins, and is also found in proteins that contain RNA binding domains. This suggests that this domain may have an RNA binding function. This domain has seven highly conserved glycines.


Pssm-ID: 396249 [Multi-domain]  Cd Length: 45  Bit Score: 51.74  E-value: 7.70e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 1154067530 529 TSSKGGCVQQATGWRKGTGLGYGHPGLASSEEAEGRMRGPSVGA 572
Cdd:pfam01585   1 TSNIGFKLLQKMGWKEGQGLGKNEQGIAEPIEAKIKKDRRGLGA 44
G_patch smart00443
glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in ...
 527-573 1.17e-08

glycine rich nucleic binding domain; A predicted glycine rich nucleic binding domain found in the splicing factor 45, SON DNA binding protein and D-type Retrovirus- polyproteins.


Pssm-ID: 197727 [Multi-domain]  Cd Length: 47  Bit Score: 51.01  E-value: 1.17e-08
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 1154067530  527 IDTSSKGGCVQQATGWRKGTGLGYGHPGLASSEEAEGRMRGPSVGAS 573
Cdd:smart00443   1 ISTSNIGAKLLRKMGWKEGQGLGKNEQGIVEPISAEIKKDRKGLGAV 47
OCRE_RBM5 cd16168
OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins; RBM5 is also called ...
 268-291 2.63e-08

OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins; RBM5 is also called protein G15, H37, putative tumor suppressor LUCA15, or renal carcinoma antigen NY-REN-9. It is a known modulator of apoptosis. It acts as a tumor suppressor or an RNA splicing factor. RBM5 shows high sequence similarity to RNA-binding protein 6 (RBM6 or NY-LU-12 or g16 or DEF-3). Both of them specifically binds poly(G) RNA. RBM5 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain.


Pssm-ID: 293887  Cd Length: 56  Bit Score: 50.49  E-value: 2.63e-08
                          10        20
                  ....*....|....*....|....
gi 1154067530 268 YIYDSATGYYYDPLAGTYYDPNTQ 291
Cdd:cd16168     8 YQYDESSGYYYDPITGLYYDPNSQ 31
OCRE_RBM5_like cd16162
OCRE domain found in RNA-binding protein RBM5, RBM10, and similar proteins; RBM5 is a known ...
 268-291 1.76e-07

OCRE domain found in RNA-binding protein RBM5, RBM10, and similar proteins; RBM5 is a known modulator of apoptosis. It may also act as a tumor suppressor or an RNA splicing factor; it specifically binds poly(G) RNA. RBM10, a paralog of RBM5, may play an important role in mRNA generation, processing, and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. Both RBM5 and RBM10, contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, and a G-patch/D111 domain.


Pssm-ID: 293881  Cd Length: 56  Bit Score: 48.08  E-value: 1.76e-07
                          10        20
                  ....*....|....*....|....
gi 1154067530 268 YIYDSATGYYYDPLAGTYYDPNTQ 291
Cdd:cd16162     8 YQYDETSGYYYDPTTGLYYDPNSQ 31
OCRE_RBM10 cd16167
OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins; RBM10, also called G ...
 268-291 4.16e-07

OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins; RBM10, also called G patch domain-containing protein 9, or RNA-binding protein S1-1 (S1-1), is a paralogue of putative tumor suppressor RNA-binding protein 5 (RBM5 or LUCA15 or H37). It may play an important role in mRNA generation, processing and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. RBM10 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, and a G-patch/D111 domain.


Pssm-ID: 293886  Cd Length: 64  Bit Score: 47.36  E-value: 4.16e-07
                          10        20
                  ....*....|....*....|....
gi 1154067530 268 YIYDSATGYYYDPLAGTYYDPNTQ 291
Cdd:cd16167     9 YQYDETSGYYYDPQTGLYYDPNSQ 32
OCRE_RBM5_like cd16162
OCRE domain found in RNA-binding protein RBM5, RBM10, and similar proteins; RBM5 is a known ...
 268-295 6.36e-07

OCRE domain found in RNA-binding protein RBM5, RBM10, and similar proteins; RBM5 is a known modulator of apoptosis. It may also act as a tumor suppressor or an RNA splicing factor; it specifically binds poly(G) RNA. RBM10, a paralog of RBM5, may play an important role in mRNA generation, processing, and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. Both RBM5 and RBM10, contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, and a G-patch/D111 domain.


Pssm-ID: 293881  Cd Length: 56  Bit Score: 46.54  E-value: 6.36e-07
                          10        20
                  ....*....|....*....|....*...
gi 1154067530 268 YIYDSATGYYYDPLAGTYYDPNTQQEVY 295
Cdd:cd16162    16 YYYDPTTGLYYDPNSQYFYNSQTQQYLY 43
OCRE_SUA_like cd16166
OCRE domain found in Suppressor of ABI3-5 (SUA) and similar proteins; SUA is an RNA-binding ...
 268-291 3.77e-06

OCRE domain found in Suppressor of ABI3-5 (SUA) and similar proteins; SUA is an RNA-binding protein located in the nucleus and expressed in all plant tissues. It functions as a splicing factor that influences seed maturation by controlling alternative splicing of ABI3. The suppression of the cryptic ABI3 intron indicates a role of SUA in mRNA processing. SUA also interacts with the prespliceosomal component U2AF65, the larger subunit of the conserved pre-mRNA splicing factor U2AF. SUA contains two RNA recognition motifs surrounding a zinc finger domain, an OCtamer REpeat (OCRE) domain, and a Gly-rich domain close to the C-terminus.


Pssm-ID: 293885  Cd Length: 54  Bit Score: 44.21  E-value: 3.77e-06
                          10        20
                  ....*....|....*....|....
gi 1154067530 268 YIYDSATGYYYDPLAGTYYDPNTQ 291
Cdd:cd16166     8 FVYDPASGYYYDASSGYYYDANTG 31
OCRE_VG5Q cd16164
OCRE domain found in angiogenic factor VG5Q and similar proteins; VG5Q, also called angiogenic ...
 268-291 1.04e-05

OCRE domain found in angiogenic factor VG5Q and similar proteins; VG5Q, also called angiogenic factor with G patch and FHA domains 1 (AGGF1), or G patch domain-containing protein 7, or vasculogenesis gene on 5q protein, functions as a potent angiogenic factor in promoting angiogenesis through interacting with TWEAK (also known as TNFSF12), which is a member of the tumor necrosis factor (TNF) superfamily that induces angiogenesis in vivo. VG5Q can bind to the surface of endothelial cells and promote cell proliferation, suggesting that it may act in an autocrine fashion. The chromosomal translocation t(5;11) and the E133K variant in VG5Q are associated with Klippel-Trenaunay syndrome (KTS), a disorder characterized by diverse effects in the vascular system. In addition to a forkhead-associated (FHA) domain and a G-patch motif, VG5Q contains an N-terminal OCtamer REpeat (OCRE) domain that is characterized by a 5-fold, imperfectly repeated octameric sequence.


Pssm-ID: 293883  Cd Length: 54  Bit Score: 43.04  E-value: 1.04e-05
                          10        20
                  ....*....|....*....|....
gi 1154067530 268 YIYDSATGYYYDPLAGTYYDPNTQ 291
Cdd:cd16164     8 FVYDEATGMYYDPSTGYYYDSETQ 31
OCRE_RBM5 cd16168
OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins; RBM5 is also called ...
 261-295 2.05e-05

OCRE domain found in RNA-binding protein 5 (RBM5) and similar proteins; RBM5 is also called protein G15, H37, putative tumor suppressor LUCA15, or renal carcinoma antigen NY-REN-9. It is a known modulator of apoptosis. It acts as a tumor suppressor or an RNA splicing factor. RBM5 shows high sequence similarity to RNA-binding protein 6 (RBM6 or NY-LU-12 or g16 or DEF-3). Both of them specifically binds poly(G) RNA. RBM5 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, a nuclear localization signal, and a G-patch/D111 domain.


Pssm-ID: 293887  Cd Length: 56  Bit Score: 42.40  E-value: 2.05e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1154067530 261 QQSSSDCYIYDSATGYYYDPLAGTYYDPNTQQEVY 295
Cdd:cd16168     9 QYDESSGYYYDPITGLYYDPNSQYYYNSLTQQYLY 43
OCRE_VG5Q cd16164
OCRE domain found in angiogenic factor VG5Q and similar proteins; VG5Q, also called angiogenic ...
 270-290 4.40e-05

OCRE domain found in angiogenic factor VG5Q and similar proteins; VG5Q, also called angiogenic factor with G patch and FHA domains 1 (AGGF1), or G patch domain-containing protein 7, or vasculogenesis gene on 5q protein, functions as a potent angiogenic factor in promoting angiogenesis through interacting with TWEAK (also known as TNFSF12), which is a member of the tumor necrosis factor (TNF) superfamily that induces angiogenesis in vivo. VG5Q can bind to the surface of endothelial cells and promote cell proliferation, suggesting that it may act in an autocrine fashion. The chromosomal translocation t(5;11) and the E133K variant in VG5Q are associated with Klippel-Trenaunay syndrome (KTS), a disorder characterized by diverse effects in the vascular system. In addition to a forkhead-associated (FHA) domain and a G-patch motif, VG5Q contains an N-terminal OCtamer REpeat (OCRE) domain that is characterized by a 5-fold, imperfectly repeated octameric sequence.


Pssm-ID: 293883  Cd Length: 54  Bit Score: 41.11  E-value: 4.40e-05
                          10        20
                  ....*....|....*....|.
gi 1154067530 270 YDSATGYYYDPLAGTYYDPNT 290
Cdd:cd16164    18 YDPSTGYYYDSETQLYYDPNT 38
OCRE_ZOP1_plant cd16165
OCRE domain found in Zinc-finger and OCRE domain-containing Protein 1 (ZOP1) and similar ...
 246-303 6.01e-05

OCRE domain found in Zinc-finger and OCRE domain-containing Protein 1 (ZOP1) and similar proteins found in plant; ZOP1 is a novel plant-specific nucleic acid-binding protein required for both RNA-directed DNA methylation (RdDM) and pre-mRNA splicing. It promotes RNA polymerase IV (Pol IV)-dependent siRNA accumulation, DNA methylation, and transcriptional silencing. As a pre-mRNA splicing factor, ZOP1 associates with several typical splicing proteins as well as with RNA polymerase II (RNAP II and Pol II). It also shows both RdDM-dependent and -independent roles in transcriptional silencing. ZOP1 contains an N-terminal C2H2-type ZnF domain and an OCtamer REpeat (OCRE) domain that is usually related to RNA processing.


Pssm-ID: 293884  Cd Length: 55  Bit Score: 40.84  E-value: 6.01e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1154067530 246 GGRNSDWSSDtnrqgqqSSSDcYIYDSATGYYYDPLAGTYYDPNTQQEVYVPQDPGLP 303
Cdd:cd16165     2 ADGAGDWVLD-------SKSG-YYYNAATRYYYDPKTGMYYSDETGKWTTQPPEHAEA 51
OCRE_SUA_like cd16166
OCRE domain found in Suppressor of ABI3-5 (SUA) and similar proteins; SUA is an RNA-binding ...
 268-292 6.83e-05

OCRE domain found in Suppressor of ABI3-5 (SUA) and similar proteins; SUA is an RNA-binding protein located in the nucleus and expressed in all plant tissues. It functions as a splicing factor that influences seed maturation by controlling alternative splicing of ABI3. The suppression of the cryptic ABI3 intron indicates a role of SUA in mRNA processing. SUA also interacts with the prespliceosomal component U2AF65, the larger subunit of the conserved pre-mRNA splicing factor U2AF. SUA contains two RNA recognition motifs surrounding a zinc finger domain, an OCtamer REpeat (OCRE) domain, and a Gly-rich domain close to the C-terminus.


Pssm-ID: 293885  Cd Length: 54  Bit Score: 40.74  E-value: 6.83e-05
                          10        20
                  ....*....|....*....|....*
gi 1154067530 268 YIYDSATGYYYDPLAGTYYDPNTQQ 292
Cdd:cd16166    16 YYYDASSGYYYDANTGLYYDAASGR 40
OCRE_VG5Q cd16164
OCRE domain found in angiogenic factor VG5Q and similar proteins; VG5Q, also called angiogenic ...
 246-296 1.68e-04

OCRE domain found in angiogenic factor VG5Q and similar proteins; VG5Q, also called angiogenic factor with G patch and FHA domains 1 (AGGF1), or G patch domain-containing protein 7, or vasculogenesis gene on 5q protein, functions as a potent angiogenic factor in promoting angiogenesis through interacting with TWEAK (also known as TNFSF12), which is a member of the tumor necrosis factor (TNF) superfamily that induces angiogenesis in vivo. VG5Q can bind to the surface of endothelial cells and promote cell proliferation, suggesting that it may act in an autocrine fashion. The chromosomal translocation t(5;11) and the E133K variant in VG5Q are associated with Klippel-Trenaunay syndrome (KTS), a disorder characterized by diverse effects in the vascular system. In addition to a forkhead-associated (FHA) domain and a G-patch motif, VG5Q contains an N-terminal OCtamer REpeat (OCRE) domain that is characterized by a 5-fold, imperfectly repeated octameric sequence.


Pssm-ID: 293883  Cd Length: 54  Bit Score: 39.57  E-value: 1.68e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1154067530 246 GGRNSDWSSDTNRQGQQSSSDCYIYDSATGYYYDPLAGTYY--DPNTQQEVYV 296
Cdd:cd16164     2 AVSQSGFVYDEATGMYYDPSTGYYYDSETQLYYDPNTGTYYyyDEESGSYQFH 54
OCRE_RBM10 cd16167
OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins; RBM10, also called G ...
 261-295 5.50e-04

OCRE domain found in RNA-binding protein 10 (RBM10) and similar proteins; RBM10, also called G patch domain-containing protein 9, or RNA-binding protein S1-1 (S1-1), is a paralogue of putative tumor suppressor RNA-binding protein 5 (RBM5 or LUCA15 or H37). It may play an important role in mRNA generation, processing and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. RBM10 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), an OCtamer REpeat (OCRE) domain, two C2H2-type zinc fingers, and a G-patch/D111 domain.


Pssm-ID: 293886  Cd Length: 64  Bit Score: 38.50  E-value: 5.50e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1154067530 261 QQSSSDCYIYDSATGYYYDPLAGTYYDPNTQQEVY 295
Cdd:cd16167    10 QYDETSGYYYDPQTGLYYDPNSQYYYNAQTQQYLY 44
RRM smart00360
RNA recognition motif;
135-213 2.20e-03

RNA recognition motif;


Pssm-ID: 214636 [Multi-domain]  Cd Length: 73  Bit Score: 37.19  E-value: 2.20e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1154067530  135 TIMLKRIYRSTPPEVIVEVLEPYVRLTtaNVRIIKNRTGPMGHTYGFIDLDSHAEALRVVKILQNldppFSIDGKMVAV 213
Cdd:smart00360   1 TLFVGNLPPDTTEEELRELFSKFGKVE--SVRLVRDKETGKSKGFAFVEFESEEDAEKALEALNG----KELDGRPLKV 73
OCRE_SUA_like cd16166
OCRE domain found in Suppressor of ABI3-5 (SUA) and similar proteins; SUA is an RNA-binding ...
 263-297 7.06e-03

OCRE domain found in Suppressor of ABI3-5 (SUA) and similar proteins; SUA is an RNA-binding protein located in the nucleus and expressed in all plant tissues. It functions as a splicing factor that influences seed maturation by controlling alternative splicing of ABI3. The suppression of the cryptic ABI3 intron indicates a role of SUA in mRNA processing. SUA also interacts with the prespliceosomal component U2AF65, the larger subunit of the conserved pre-mRNA splicing factor U2AF. SUA contains two RNA recognition motifs surrounding a zinc finger domain, an OCtamer REpeat (OCRE) domain, and a Gly-rich domain close to the C-terminus.


Pssm-ID: 293885  Cd Length: 54  Bit Score: 34.96  E-value: 7.06e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1154067530 263 SSSDCYiYDSATGYYYDPLAGTYYDPNTQQEVYVP 297
Cdd:cd16166    20 ASSGYY-YDANTGLYYDAASGRWYSYDEETGQYVE 53
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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