7OQE

Saccharomyces cerevisiae spliceosomal pre-A complex (delta BS-A ACT1)

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
HA [auth v]SCOP2B SuperfamilySm-like ribonucleoproteins8098694 3000419 SCOP2B (2022-06-29)
J [auth d]SCOP2B SuperfamilySm-like ribonucleoproteins8098694 3000419 SCOP2B (2022-06-29)
JA [auth x]SCOP2B SuperfamilySm-like ribonucleoproteins8043703 3000419 SCOP2B (2022-06-29)
L [auth f]SCOP2B SuperfamilySm-like ribonucleoproteins8043703 3000419 SCOP2B (2022-06-29)
M [auth g]SCOP2B SuperfamilySm-like ribonucleoproteins8098668 3000419 SCOP2B (2022-06-29)
KA [auth y]SCOP2B SuperfamilySm-like ribonucleoproteins8098668 3000419 SCOP2B (2022-06-29)
N [auth h]SCOP2B SuperfamilySm-like ribonucleoproteins8082631 3000419 SCOP2B (2022-06-29)
GA [auth u]SCOP2B SuperfamilySm-like ribonucleoproteins8063490 3000419 SCOP2B (2022-06-29)
O [auth i]SCOP2B SuperfamilySm-like ribonucleoproteins8063490 3000419 SCOP2B (2022-06-29)
S [auth K]SCOP2B SuperfamilyFF domain8033511 3000078 SCOP2B (2022-06-29)
USCOP2B SuperfamilyHsp20 chaperone-like8093058 3001242 SCOP2B (2022-06-29)
W [auth T]SCOP2B SuperfamilyPrp9-like8046394 3002670 SCOP2B (2022-06-29)
W [auth T]SCOP2B SuperfamilyPrp9-like8046394 3002670 SCOP2B (2022-06-29)
W [auth T]SCOP2B Superfamilybeta-beta-alpha zinc fingers8093057 3001077 SCOP2B (2022-06-29)
X [auth S]SCOP2B SuperfamilyTriquetra zinc finger motif8051849 3002040 SCOP2B (2022-06-29)
Z [auth P]SCOP2B SuperfamilyWD40 repeat-like8051196 3001694 SCOP2B (2022-06-29)
Z [auth P]SCOP2B SuperfamilyWD40 repeat-like8052528 3001694 SCOP2B (2022-06-29)
Z [auth P]SCOP2B SuperfamilyWD40 repeat-like8052528 3001694 SCOP2B (2022-06-29)
Z [auth P]SCOP2B SuperfamilyWD40 repeat-like8052529 3001694 SCOP2B (2022-06-29)
AA [auth R]SCOP2B SuperfamilyRNA-binding domain RBD8067306 3000110 SCOP2B (2022-06-29)
DA [auth Y]SCOP2B SuperfamilyRNA-binding domain RBD8073745 3000110 SCOP2B (2022-06-29)
I [auth b]SCOP2B SuperfamilySm-like ribonucleoproteins8077613 3000419 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
BA [auth Z]PF07189e7oqeZ1 A: alpha arraysX: RDS3 complex subunit 10 (From Topology)H: RDS3 complex subunit 10 (From Topology)T: RDS3 complex subunit 10F: PF07189ECOD (1.6)
HA [auth v]PF01423e7oqev1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
J [auth d]PF01423e7oqed1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
IA [auth w]PF01423e7oqew1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
K [auth e]PF01423e7oqee1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
JA [auth x]PF01423e7oqex1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
L [auth f]PF01423e7oqef1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
M [auth g]PF01423e7oqeg1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
KA [auth y]PF01423e7oqey1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
FA [auth t]PF01423e7oqet1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
N [auth h]PF01423e7oqeh1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
GA [auth u]PF01423e7oqeu1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
O [auth i]PF01423e7oqei1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)
T [auth O]PF22646e7oqeO1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: PF22646ECOD (1.6)
UPF16835e7oqeU2 A: beta sandwichesX: HSP20-likeH: Pre-mRNA-splicing factor PRP11 C-terminal domain (From Topology)T: Pre-mRNA-splicing factor PRP11 C-terminal domainF: PF16835ECOD (1.6)
UPF12874e7oqeU1 A: few secondary structure elementsX: beta-beta-alpha zinc fingersH: beta-beta-alpha zinc fingers (From Topology)T: beta-beta-alpha zinc fingersF: PF12874ECOD (1.6)
VPF01805e7oqeV1 A: alpha bundlesX: Surp module (SWAP domain) (From Topology)H: Surp module (SWAP domain) (From Topology)T: Surp module (SWAP domain)F: PF01805ECOD (1.6)
X [auth S]PF03660e7oqeS1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: PHD finger-like domain-containing protein 5AF: PF03660ECOD (1.6)
Z [auth P]PF03178e7oqeP2 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: PF03178ECOD (1.6)
Z [auth P]PF10433e7oqeP4 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: PF10433ECOD (1.6)
Z [auth P]PF03178e7oqeP3 A: alpha arraysX: HTHH: HTHT: tri-helicalF: PF03178ECOD (1.6)
AA [auth R]PF00076e7oqeR1 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: PF00076ECOD (1.6)
CA [auth W]PF14580e7oqeW1 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Leucine-rich repeats (From Topology)T: Leucine-rich repeatsF: PF14580ECOD (1.6)
C [auth E]F_UNCLASSIFIEDe7oqeE1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: F_UNCLASSIFIEDECOD (1.6)
DA [auth Y]PF13893e7oqeY1 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: PF13893ECOD (1.6)
LA [auth p]PF00270e7oqep2 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: PF00270ECOD (1.6)
LA [auth p]PF00271e7oqep1 A: a/b three-layered sandwichesX: P-loop domains-likeH: P-loop domains-relatedT: P-loop containing nucleoside triphosphate hydrolasesF: PF00271ECOD (1.6)
EA [auth s]PF01423e7oqes1 A: beta barrelsX: SH3H: SH3T: SH3F: PF01423ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
F [auth G]PF19097Snu56-like U1 small nuclear ribonucleoprotein component (Snu56_snRNP)Snu56-like U1 small nuclear ribonucleoprotein component- Family
BA [auth Z]PF07189Splicing factor 3B subunit 10 (SF3b10) (SF3b10)Splicing factor 3B subunit 10 (SF3b10)- Family
A [auth F]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
HA [auth v],
J [auth d]		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
IA [auth w],
K [auth e]		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
JA [auth x],
L [auth f]		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
KA [auth y],
M [auth g]		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
FA [auth t],
N [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
GA [auth u],
O [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
P [auth H]PF03194LUC7 N_terminus (LUC7)LUC7 N_terminus- Family
R [auth B]PF12220U1 small nuclear ribonucleoprotein of 70kDa MW N terminal (U1snRNP70_N)U1 small nuclear ribonucleoprotein of 70kDa MW N terminal- Family
R [auth B]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
S [auth K]PF01846FF domain (FF)FF domain- Family
PF12874Zinc-finger of C2H2 type (zf-met)Zinc-finger of C2H2 typeThis is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found in multiple copies in a wide range of proteins from plants to metazoans. Some member proteins, particularly those from plants, are annotated as being RNA-binding.Domain
PF01805Surp module (Surp)Surp module- Family
PF12230Pre-mRNA splicing factor PRP21 like protein (PRP21_like_P)Pre-mRNA splicing factor PRP21 like protein- Family
W [auth T]PF16837Pre-mRNA-splicing factor SF3A3, of SF3a complex, Prp9 (SF3A3)Pre-mRNA-splicing factor SF3A3, of SF3a complex, Prp9SF3A3 is one of the components of the SF3a splicing factor complex of the mature U2 snRNP (small nuclear ribonucleoprotein particle). In yeast, SF3a shows a bifurcated assembly structure of three subunits, Prp9 (subunit 3), Prp11 (subunit 2) and Prp2 ...SF3A3 is one of the components of the SF3a splicing factor complex of the mature U2 snRNP (small nuclear ribonucleoprotein particle). In yeast, SF3a shows a bifurcated assembly structure of three subunits, Prp9 (subunit 3), Prp11 (subunit 2) and Prp21 (subunit 1). Prp9 and Prp21 were not thought to interact with each other but the alpha1 helix of Prp9 does make important contacts with the SURP2 domain of Prp21, thus the two do interact via a bidentate-binding mode. Prp9 harbours a major binding site for stem-loop IIa of U2 snRNA [1].
Domain
W [auth T]PF16958Pre-mRNA-splicing factor PRP9 N-terminus (PRP9_N)Pre-mRNA-splicing factor PRP9 N-terminusThis is the N-terminal domain of pre-mRNA-splicing factor PRP9 [1].Domain
W [auth T]PF12171Zinc-finger double-stranded RNA-binding (zf-C2H2_jaz)Zinc-finger double-stranded RNA-binding- Family
X [auth S]PF03660PHF5-like protein (PHF5)PHF5-like protein- Family
Y [auth Q]PF04037Domain of unknown function (DUF382) (DUF382)Domain of unknown function (DUF382)- Family
Y [auth Q]PF04046PSP (PSP)PSP- Family
Z [auth P]PF10433Mono-functional DNA-alkylating methyl methanesulfonate N-term (MMS1_N)Mono-functional DNA-alkylating methyl methanesulfonate N-term- Repeat
Z [auth P]PF03178CPSF A subunit region (CPSF_A)CPSF A subunit region- Repeat
AA [auth R]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
CA [auth W]PF14580Leucine-rich repeat (LRR_9)Leucine-rich repeat- Repeat
DA [auth Y]PF13893RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) (RRM_5)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.
Domain
LA [auth p]PF00270DEAD/DEAH box helicase (DEAD)DEAD/DEAH box helicaseMembers of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome ...Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.
Domain
H [auth C]PF06220U1 zinc finger (zf-U1)U1 zinc fingerThis family consists of several U1 small nuclear ribonucleoprotein C (U1-C) proteins. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site (ss) at early stages of spliceosome assembly. Recruitment of U1 to a class o ...This family consists of several U1 small nuclear ribonucleoprotein C (U1-C) proteins. The U1 small nuclear ribonucleoprotein (U1 snRNP) binds to the pre-mRNA 5' splice site (ss) at early stages of spliceosome assembly. Recruitment of U1 to a class of weak 5' ss is promoted by binding of the protein TIA-1 to uridine-rich sequences immediately downstream from the 5' ss. Binding of TIA-1 in the vicinity of a 5' ss helps to stabilise U1 snRNP recruitment, at least in part, via a direct interaction with U1-C, thus providing one molecular mechanism for the function of this splicing regulator [1]. This domain is probably a zinc-binding. It is found in multiple copies in some members of the family.
Domain
EA [auth s],
I [auth b]		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
F [auth G]56 kDa U1 small nuclear ribonucleoprotein component
BA [auth Z]RDS3 complex subunit 10-
A [auth F]Protein NAM8
HA [auth v],
J [auth d]		Small nuclear ribonucleoprotein Sm D3
IA [auth w],
K [auth e]		Small nuclear ribonucleoprotein E
JA [auth x],
L [auth f]		Small nuclear ribonucleoprotein F
KA [auth y],
M [auth g]		Small nuclear ribonucleoprotein G
FA [auth t],
N [auth h]		Small nuclear ribonucleoprotein Sm D1
GA [auth u],
O [auth i]		Small nuclear ribonucleoprotein Sm D2
P [auth H]Protein LUC7
Q [auth D]Pre-mRNA-processing factor 39-
R [auth B]U1 small nuclear ribonucleoprotein 70 kDa homolog
S [auth K]Pre-mRNA-processing protein PRP40
B [auth I]ACT1 pre-mRNA (delta BS-A)---
T [auth O]U2 snRNP component HSH155
Pre-mRNA-splicing factor PRP11
Pre-mRNA-splicing factor PRP21
W [auth T]Pre-mRNA-splicing factor PRP9
X [auth S]Pre-mRNA-splicing factor RDS3-
Y [auth Q]Cold sensitive U2 snRNA suppressor 1
Z [auth P]Pre-mRNA-splicing factor RSE1
AA [auth R]Protein HSH49
CA [auth W]U2 small nuclear ribonucleoprotein A'
C [auth E]U1 small nuclear ribonucleoprotein component PRP42
DA [auth Y]U2 small nuclear ribonucleoprotein B''
LA [auth p]Pre-mRNA-processing ATP-dependent RNA helicase PRP5
MA [auth 2]U2 snRNA---
D [auth J]U1 small nuclear ribonucleoprotein component SNU71
E [auth 1]U1 snRNA---
G [auth A]U1 small nuclear ribonucleoprotein A
H [auth C]U1 small nuclear ribonucleoprotein C
EA [auth s],
I [auth b]		Small nuclear ribonucleoprotein-associated protein B

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
F [auth G]IPR043954Snu56-like U1 small nuclear ribonucleoprotein componentFamily
BA [auth Z]IPR009846Splicing factor 3B subunit 5/RDS3 complex subunit 10Family
A [auth F]IPR000504RNA recognition motif domainDomain
A [auth F]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
A [auth F]IPR035979RNA-binding domain superfamilyHomologous Superfamily
HA [auth v],
J [auth d]		IPR027141Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3Family
HA [auth v],
J [auth d]		IPR034099Small nuclear ribonucleoprotein Sm D3Family
HA [auth v],
J [auth d]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
HA [auth v],
J [auth d]		IPR047575Sm domainDomain
HA [auth v],
J [auth d]		IPR010920LSM domain superfamilyHomologous Superfamily
IA [auth w],
K [auth e]		IPR027078Small nuclear ribonucleoprotein EFamily
IA [auth w],
K [auth e]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
IA [auth w],
K [auth e]		IPR047575Sm domainDomain
IA [auth w],
K [auth e]		IPR010920LSM domain superfamilyHomologous Superfamily
JA [auth x],
L [auth f]		IPR016487Sm-like protein Lsm6/SmFFamily
JA [auth x],
L [auth f]		IPR034100Small nuclear ribonucleoprotein FFamily
JA [auth x],
L [auth f]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
JA [auth x],
L [auth f]		IPR047575Sm domainDomain
JA [auth x],
L [auth f]		IPR010920LSM domain superfamilyHomologous Superfamily
KA [auth y],
M [auth g]		IPR044641Sm-like protein Lsm7/SmGFamily
KA [auth y],
M [auth g]		IPR034098Small nuclear ribonucleoprotein GFamily
KA [auth y],
M [auth g]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
KA [auth y],
M [auth g]		IPR047575Sm domainDomain
KA [auth y],
M [auth g]		IPR010920LSM domain superfamilyHomologous Superfamily
FA [auth t],
N [auth h]		IPR027141Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3Family
FA [auth t],
N [auth h]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
FA [auth t],
N [auth h]		IPR047575Sm domainDomain
FA [auth t],
N [auth h]		IPR010920LSM domain superfamilyHomologous Superfamily
GA [auth u],
O [auth i]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
GA [auth u],
O [auth i]		IPR047575Sm domainDomain
GA [auth u],
O [auth i]		IPR027248Small nuclear ribonucleoprotein Sm D2Family
GA [auth u],
O [auth i]		IPR010920LSM domain superfamilyHomologous Superfamily
P [auth H]IPR004882Luc7-relatedFamily
Q [auth D]IPR003107HAT (Half-A-TPR) repeatRepeat
Q [auth D]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
R [auth B]IPR000504RNA recognition motif domainDomain
R [auth B]IPR022023U1 small nuclear ribonucleoprotein of 70kDa N-terminalDomain
R [auth B]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
R [auth B]IPR035979RNA-binding domain superfamilyHomologous Superfamily
S [auth K]IPR039726Pre-mRNA-processing factor Prp40Family
S [auth K]IPR036517FF domain superfamilyHomologous Superfamily
S [auth K]IPR002713FF domainDomain
S [auth K]IPR036020WW domain superfamilyHomologous Superfamily
S [auth K]IPR001202WW domainDomain
T [auth O]IPR016024Armadillo-type foldHomologous Superfamily
T [auth O]IPR011989Armadillo-like helicalHomologous Superfamily
T [auth O]IPR038737Splicing factor 3B subunit 1-likeFamily
IPR031781SF3A2 domainDomain
IPR003604Matrin/U1-C-like, C2H2-type zinc fingerDomain
IPR013087Zinc finger C2H2-typeDomain
IPR036236Zinc finger C2H2 superfamilyHomologous Superfamily
IPR045146Splicing factor 3A subunit 1Family
IPR035967SWAP/Surp superfamilyHomologous Superfamily
IPR000061SWAP/SurpDomain
IPR022030Splicing factor 3A subunit 1, conserved domainDomain
W [auth T]IPR003604Matrin/U1-C-like, C2H2-type zinc fingerDomain
W [auth T]IPR013087Zinc finger C2H2-typeDomain
W [auth T]IPR036236Zinc finger C2H2 superfamilyHomologous Superfamily
W [auth T]IPR031590Pre-mRNA-splicing factor Prp9, N-terminalDomain
W [auth T]IPR031774SF3A3 domainDomain
W [auth T]IPR024598Splicing factor SF3a60 /Prp9 subunit, C-terminalDomain
W [auth T]IPR000690Matrin/U1-C, C2H2-type zinc fingerDomain
W [auth T]IPR022755Zinc finger, double-stranded RNA bindingDomain
X [auth S]IPR005345PHF5-likeFamily
Y [auth Q]IPR006568PSP, proline-richDomain
Y [auth Q]IPR007180Domain of unknown function DUF382Domain
Z [auth P]IPR018846Cleavage/polyadenylation specificity factor, A subunit, N-terminalDomain
Z [auth P]IPR015943WD40/YVTN repeat-like-containing domain superfamilyHomologous Superfamily
Z [auth P]IPR004871Cleavage/polyadenylation specificity factor, A subunit, C-terminalDomain
AA [auth R]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
AA [auth R]IPR000504RNA recognition motif domainDomain
AA [auth R]IPR035979RNA-binding domain superfamilyHomologous Superfamily
AA [auth R]IPR034158SF3B4, RNA recognition motif 1Domain
CA [auth W]IPR032675Leucine-rich repeat domain superfamilyHomologous Superfamily
CA [auth W]IPR001611Leucine-rich repeatRepeat
CA [auth W]IPR003603U2A'/phosphoprotein 32 family A, C-terminalDomain
C [auth E]IPR003107HAT (Half-A-TPR) repeatRepeat
C [auth E]IPR011990Tetratricopeptide-like helical domain superfamilyHomologous Superfamily
DA [auth Y]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
DA [auth Y]IPR000504RNA recognition motif domainDomain
DA [auth Y]IPR035979RNA-binding domain superfamilyHomologous Superfamily
LA [auth p]IPR001650Helicase, C-terminal domain-likeDomain
LA [auth p]IPR000629ATP-dependent RNA helicase DEAD-box, conserved siteConserved Site
LA [auth p]IPR014001Helicase superfamily 1/2, ATP-binding domainDomain
LA [auth p]IPR014014RNA helicase, DEAD-box type, Q motifDomain
LA [auth p]IPR011545DEAD/DEAH box helicase domainDomain
LA [auth p]IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
D [auth J]IPR002483PWI domainDomain
G [auth A]IPR012677Nucleotide-binding alpha-beta plait domain superfamilyHomologous Superfamily
G [auth A]IPR000504RNA recognition motif domainDomain
G [auth A]IPR035979RNA-binding domain superfamilyHomologous Superfamily
H [auth C]IPR003604Matrin/U1-C-like, C2H2-type zinc fingerDomain
H [auth C]IPR036236Zinc finger C2H2 superfamilyHomologous Superfamily
H [auth C]IPR000690Matrin/U1-C, C2H2-type zinc fingerDomain
H [auth C]IPR013085U1-C, C2H2-type zinc fingerDomain
H [auth C]IPR017340U1 small nuclear ribonucleoprotein CFamily
EA [auth s],
I [auth b]		IPR001163Sm domain, eukaryotic/archaea-typeDomain
EA [auth s],
I [auth b]		IPR047575Sm domainDomain
EA [auth s],
I [auth b]		IPR010920LSM domain superfamilyHomologous Superfamily