Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
Q [auth H]SCOP2 FamilySm motif of small nuclear ribonucleoproteins SNRNP8063475 4001809 SCOP2 (2022-06-29)
Q [auth H]SCOP2 SuperfamilySm-like ribonucleoproteins8063476 3000419 SCOP2 (2022-06-29)
H [auth E]SCOP2B SuperfamilySm-like ribonucleoproteins8063476 3000419 SCOP2B (2022-06-29)
J [auth P]SCOP2B SuperfamilyRNA-binding domain RBD8043930 3000110 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyRNA-binding domain RBD8043930 3000110 SCOP2B (2022-06-29)
B [auth S]SCOP2B SuperfamilyRNA-binding domain RBD8088186 3000110 SCOP2B (2022-06-29)
K [auth L]SCOP2B SuperfamilyRNA-binding domain RBD8088186 3000110 SCOP2B (2022-06-29)
C [auth Z]SCOP2B SuperfamilySm-like ribonucleoproteins8041751 3000419 SCOP2B (2022-06-29)
L [auth W]SCOP2B SuperfamilySm-like ribonucleoproteins8041751 3000419 SCOP2B (2022-06-29)
D [auth B]SCOP2B SuperfamilySm-like ribonucleoproteins8041747 3000419 SCOP2B (2022-06-29)
M [auth Q]SCOP2B SuperfamilySm-like ribonucleoproteins8041747 3000419 SCOP2B (2022-06-29)
E [auth X]SCOP2B SuperfamilySm-like ribonucleoproteins8041748 3000419 SCOP2B (2022-06-29)
N [auth U]SCOP2B SuperfamilySm-like ribonucleoproteins8041748 3000419 SCOP2B (2022-06-29)
F [auth Y]SCOP2B SuperfamilySm-like ribonucleoproteins8041749 3000419 SCOP2B (2022-06-29)
O [auth V]SCOP2B SuperfamilySm-like ribonucleoproteins8041749 3000419 SCOP2B (2022-06-29)
G [auth F]SCOP2B SuperfamilySm-like ribonucleoproteins8063452 3000419 SCOP2B (2022-06-29)
P [auth I]SCOP2 FamilySm motif of small nuclear ribonucleoproteins SNRNP8063451 4001809 SCOP2 (2022-06-29)
P [auth I]SCOP2 SuperfamilySm-like ribonucleoproteins8063452 3000419 SCOP2 (2022-06-29)
I [auth G]SCOP2B SuperfamilySm-like ribonucleoproteins8063468 3000419 SCOP2B (2022-06-29)
R [auth J]SCOP2B SuperfamilySm-like ribonucleoproteins8063468 3000419 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
Q [auth H]PF01423e3pgwH1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
H [auth E]PF01423e3pgwE1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
J [auth P]PF00076e3pgwP1 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: PF00076ECOD (1.6)
APF00076e3pgwA1 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: PF00076ECOD (1.6)
K [auth L]PF00076e3pgwL1 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: PF00076ECOD (1.6)
C [auth Z]PF01423e3pgwZ1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
L [auth W]PF01423e3pgwW1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
D [auth B]PF01423e3pgwB1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
M [auth Q]PF01423e3pgwQ1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
E [auth X]PF01423e3pgwX1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
N [auth U]PF01423e3pgwU1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
F [auth Y]PF01423e3pgwY1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
O [auth V]PF01423e3pgwV1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
G [auth F]PF01423e3pgwF1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
P [auth I]PF01423e3pgwI1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
I [auth G]PF01423e3pgwG1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
R [auth J]PF01423e3pgwJ1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
H [auth E],
Q [auth H]
PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
A,
J [auth P]
PF00076RNA recognition motif (RRM_1)RNA recognition motifThe RRM motif (a.k.a. RRM, RBD, or RNP domain) 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 pro ...The RRM motif (a.k.a. RRM, RBD, or RNP domain) 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
B [auth S],
K [auth L]
PF12220U1 small nuclear ribonucleoprotein of 70kDa MW N terminal (U1snRNP70_N)U1 small nuclear ribonucleoprotein of 70kDa MW N terminal- Family
B [auth S],
K [auth L]
PF00076RNA recognition motif (RRM_1)RNA recognition motifThe RRM motif (a.k.a. RRM, RBD, or RNP domain) 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 pro ...The RRM motif (a.k.a. RRM, RBD, or RNP domain) 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
C [auth Z],
L [auth W]
PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
D [auth B],
M [auth Q]
PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
E [auth X],
N [auth U]
PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
F [auth Y],
O [auth V]
PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
G [auth F],
P [auth I]
PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain
I [auth G],
R [auth J]
PF01423LSM domain (LSM)LSM domainThe LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) i ...The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
H [auth E],
Q [auth H]
Sm-E
A,
J [auth P]
U1-A
S [auth R],
T [auth N]
U1 snRNA---
U [auth D],
V [auth M]
DNA 5'-D(*AP*GP*GP*TP*AP*AP*GP*TP*A)-3'---
B [auth S],
K [auth L]
U1-70K
C [auth Z],
L [auth W]
Sm-D3
D [auth B],
M [auth Q]
Sm B
E [auth X],
N [auth U]
Sm-D1
F [auth Y],
O [auth V]
Sm-D2
G [auth F],
P [auth I]
Sm-F
I [auth G],
R [auth J]
Sm G

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
H [auth E],
Q [auth H]
IPR027078Small nuclear ribonucleoprotein EFamily
H [auth E],
Q [auth H]
IPR001163Sm domain, eukaryotic/archaea-typeDomain
H [auth E],
Q [auth H]
IPR047575Sm domainDomain
H [auth E],
Q [auth H]
IPR010920LSM domain superfamilyHomologous Superfamily
A,
J [auth P]
IPR000504RNA recognition motif domainDomain
A,
J [auth P]
IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
A,
J [auth P]
IPR034407U1 small nuclear ribonucleoprotein A, RNA recognition motif 1Domain
A,
J [auth P]
IPR034409U1 small nuclear ribonucleoprotein A, RNA recognition motif 2Domain
A,
J [auth P]
IPR035979RNA-binding domain superfamilyHomologous Superfamily
B [auth S],
K [auth L]
IPR000504RNA recognition motif domainDomain
B [auth S],
K [auth L]
IPR034143snRNP70, RNA recognition motifDomain
B [auth S],
K [auth L]
IPR022023U1 small nuclear ribonucleoprotein of 70kDa N-terminalDomain
B [auth S],
K [auth L]
IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
B [auth S],
K [auth L]
IPR035979RNA-binding domain superfamilyHomologous Superfamily
C [auth Z],
L [auth W]
IPR027141Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3Family
C [auth Z],
L [auth W]
IPR034099Small nuclear ribonucleoprotein Sm D3Family
C [auth Z],
L [auth W]
IPR001163Sm domain, eukaryotic/archaea-typeDomain
C [auth Z],
L [auth W]
IPR047575Sm domainDomain
C [auth Z],
L [auth W]
IPR010920LSM domain superfamilyHomologous Superfamily
D [auth B],
M [auth Q]
IPR001163Sm domain, eukaryotic/archaea-typeDomain
D [auth B],
M [auth Q]
IPR017131Small ribonucleoprotein associated, SmB/SmNFamily
D [auth B],
M [auth Q]
IPR047575Sm domainDomain
D [auth B],
M [auth Q]
IPR010920LSM domain superfamilyHomologous Superfamily
E [auth X],
N [auth U]
IPR027141Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3Family
E [auth X],
N [auth U]
IPR034102Small nuclear ribonucleoprotein D1Domain
E [auth X],
N [auth U]
IPR001163Sm domain, eukaryotic/archaea-typeDomain
E [auth X],
N [auth U]
IPR047575Sm domainDomain
E [auth X],
N [auth U]
IPR010920LSM domain superfamilyHomologous Superfamily
F [auth Y],
O [auth V]
IPR001163Sm domain, eukaryotic/archaea-typeDomain
F [auth Y],
O [auth V]
IPR047575Sm domainDomain
F [auth Y],
O [auth V]
IPR027248Small nuclear ribonucleoprotein Sm D2Family
F [auth Y],
O [auth V]
IPR010920LSM domain superfamilyHomologous Superfamily
G [auth F],
P [auth I]
IPR016487Sm-like protein Lsm6/SmFFamily
G [auth F],
P [auth I]
IPR034100Small nuclear ribonucleoprotein FFamily
G [auth F],
P [auth I]
IPR001163Sm domain, eukaryotic/archaea-typeDomain
G [auth F],
P [auth I]
IPR047575Sm domainDomain
G [auth F],
P [auth I]
IPR010920LSM domain superfamilyHomologous Superfamily
I [auth G],
R [auth J]
IPR044641Sm-like protein Lsm7/SmGFamily
I [auth G],
R [auth J]
IPR034098Small nuclear ribonucleoprotein GFamily
I [auth G],
R [auth J]
IPR001163Sm domain, eukaryotic/archaea-typeDomain
I [auth G],
R [auth J]
IPR047575Sm domainDomain
I [auth G],
R [auth J]
IPR010920LSM domain superfamilyHomologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
H [auth E],
Q [auth H]
PharosP62304
A,
J [auth P]
PharosP09012
B [auth S],
K [auth L]
PharosP08621
C [auth Z],
L [auth W]
PharosP62318
D [auth B],
M [auth Q]
PharosP14678
E [auth X],
N [auth U]
PharosP62314
F [auth Y],
O [auth V]
PharosP62316
G [auth F],
P [auth I]
PharosP62306
I [auth G],
R [auth J]
PharosP62308