6G90

Prespliceosome structure provides insight into spliceosome assembly and regulation (map A2)

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
N [auth P]SCOP2B SuperfamilyWD40 repeat-like8052528 3001694 SCOP2B (2022-06-29)
N [auth P]SCOP2B SuperfamilyWD40 repeat-like8051196 3001694 SCOP2B (2022-06-29)
N [auth P]SCOP2B SuperfamilyWD40 repeat-like8052528 3001694 SCOP2B (2022-06-29)
N [auth P]SCOP2B SuperfamilyWD40 repeat-like8052529 3001694 SCOP2B (2022-06-29)
P [auth R]SCOP2B SuperfamilyRNA-binding domain RBD8067306 3000110 SCOP2B (2022-06-29)
Q [auth S]SCOP2B SuperfamilyTriquetra zinc finger motif8051849 3002040 SCOP2B (2022-06-29)
R [auth T]SCOP2B SuperfamilyPrp9-like8046394 3002670 SCOP2B (2022-06-29)
R [auth T]SCOP2B SuperfamilyPrp9-like8046394 3002670 SCOP2B (2022-06-29)
R [auth T]SCOP2B Superfamilybeta-beta-alpha zinc fingers8093057 3001077 SCOP2B (2022-06-29)
S [auth U]SCOP2B SuperfamilyHsp20 chaperone-like8093058 3001242 SCOP2B (2022-06-29)
T [auth V]SCOP2B SuperfamilyPrp21-like8093059 3002671 SCOP2B (2022-06-29)
W [auth Y]SCOP2B SuperfamilyRNA-binding domain RBD8073745 3000110 SCOP2B (2022-06-29)
Y [auth b]SCOP2B SuperfamilySm-like ribonucleoproteins8077613 3000419 SCOP2B (2022-06-29)
IA [auth v]SCOP2B SuperfamilySm-like ribonucleoproteins8098694 3000419 SCOP2B (2022-06-29)
Z [auth d]SCOP2 FamilySm motif of small nuclear ribonucleoproteins SNRNP8098693 4001809 SCOP2 (2022-06-29)
Z [auth d]SCOP2 SuperfamilySm-like ribonucleoproteins8098694 3000419 SCOP2 (2022-06-29)
KA [auth x]SCOP2B SuperfamilySm-like ribonucleoproteins8043703 3000419 SCOP2B (2022-06-29)
BA [auth f]SCOP2B SuperfamilySm-like ribonucleoproteins8043703 3000419 SCOP2B (2022-06-29)
CA [auth g]SCOP2B SuperfamilySm-like ribonucleoproteins8098668 3000419 SCOP2B (2022-06-29)
LA [auth y]SCOP2B SuperfamilySm-like ribonucleoproteins8098668 3000419 SCOP2B (2022-06-29)
DA [auth h]SCOP2B SuperfamilySm-like ribonucleoproteins8082631 3000419 SCOP2B (2022-06-29)
HA [auth u]SCOP2B SuperfamilySm-like ribonucleoproteins8063490 3000419 SCOP2B (2022-06-29)
EA [auth i]SCOP2B SuperfamilySm-like ribonucleoproteins8063490 3000419 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
J [auth H]F_UNCLASSIFIEDe6g90H1 A: few secondary structure elementsX: CCCH zinc fingerH: CCCH zinc finger (From Topology)T: CCCH zinc fingerF: F_UNCLASSIFIEDECOD (1.6)
M [auth O]KOG0213e6g90O1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: KOG0213ECOD (1.6)
N [auth P]CPSF_A_Ne6g90P4 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: CPSF_A_NECOD (1.6)
N [auth P]MMS1_N_Ce6g90P2 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: MMS1_N_CECOD (1.6)
N [auth P]MMS1_N_Ne6g90P1 A: beta duplicates or obligate multimersX: beta-propeller-likeH: beta-propellerT: 7-bladedF: MMS1_N_NECOD (1.6)
N [auth P]CPSF_A_Ce6g90P3 A: alpha arraysX: HTHH: HTHT: tri-helicalF: CPSF_A_CECOD (1.6)
P [auth R]RRM_1_1e6g90R2 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: RRM_1_1ECOD (1.6)
P [auth R]RRM_1_4e6g90R1 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: RRM_1_4ECOD (1.6)
Q [auth S]KOG1705_likee6g90S2 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: KOG1705_likeECOD (1.6)
Q [auth S]PHF5_2e6g90S1 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: PHF5_2ECOD (1.6)
Q [auth S]PHF5_1,PHF5_2e6g90S3 A: few secondary structure elementsX: Glucocorticoid receptor-likeH: LIM domain-likeT: LIM domain-likeF: PHF5_1,PHF5_2ECOD (1.6)
S [auth U]SF3A2e6g90U1 A: beta sandwichesX: HSP20-likeH: Pre-mRNA-splicing factor PRP11 C-terminal domain (From Topology)T: Pre-mRNA-splicing factor PRP11 C-terminal domainF: SF3A2ECOD (1.6)
S [auth U]zf-met_1e6g90U2 A: few secondary structure elementsX: beta-beta-alpha zinc fingersH: beta-beta-alpha zinc fingers (From Topology)T: beta-beta-alpha zinc fingersF: zf-met_1ECOD (1.6)
T [auth V]PRP21_like_Pe6g90V1 A: alpha bundlesX: Surp module (SWAP domain) (From Topology)H: Surp module (SWAP domain) (From Topology)T: Surp module (SWAP domain)F: PRP21_like_PECOD (1.6)
U [auth W]LRR_9e6g90W1 A: beta duplicates or obligate multimersX: Single-stranded right-handed beta-helixH: Leucine-rich repeats (From Topology)T: Leucine-rich repeatsF: LRR_9ECOD (1.6)
W [auth Y]RRM_1_2e6g90Y1 A: a+b two layersX: Alpha-beta plaitsH: RNA-binding domain, RBD (From Topology)T: RNA-binding domain, RBDF: RRM_1_2ECOD (1.6)
X [auth Z]SF3b10e6g90Z1 A: alpha arraysX: RDS3 complex subunit 10 (From Topology)H: RDS3 complex subunit 10 (From Topology)T: RDS3 complex subunit 10F: SF3b10ECOD (1.6)
FA [auth s]LSMe6g90s1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
IA [auth v]LSMe6g90v1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
Z [auth d]LSMe6g90d1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
AA [auth e]LSMe6g90e1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
JA [auth w]LSMe6g90w1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
KA [auth x]LSMe6g90x1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
BA [auth f]LSMe6g90f1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
CA [auth g]LSMe6g90g1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
LA [auth y]LSMe6g90y1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
DA [auth h]LSMe6g90h1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
GA [auth t]LSMe6g90t1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
HA [auth u]LSMe6g90u1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
EA [auth i]LSMe6g90i1 A: beta barrelsX: SH3H: SH3T: SH3F: LSMECOD (1.6)
G [auth E]UNK_F_TYPEe6g90E1 A: alpha superhelicesX: Repetitive alpha hairpinsH: ARM repeat (From Topology)T: ARM repeatF: UNK_F_TYPEECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
T [auth V]1.10.10.790 Mainly Alpha Orthogonal Bundle Arc Repressor Mutant, subunit A Surp moduleCATH (4.3.0)
T [auth V]6.10.250.1320 Special Helix non-globular Single alpha-helices involved in coiled-coils or other helix-helix interfaces CATH (4.3.0)
W [auth Y]3.30.70.330 Alpha Beta 2-Layer Sandwich Alpha-Beta Plaits RRM (RNA recognition motif) domainCATH (4.3.0)
FA [auth s]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (utative)
IA [auth v]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
Z [auth d]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
AA [auth e]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
JA [auth w]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
KA [auth x]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
BA [auth f]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
CA [auth g]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
LA [auth y]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
HA [auth u]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)
EA [auth i]2.30.30.100 Mainly Beta Roll SH3 type barrels. CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
J [auth H]PF03194LUC7 N_terminus (LUC7)LUC7 N_terminus- Family
N [auth P]PF10433Mono-functional DNA-alkylating methyl methanesulfonate N-term (MMS1_N)Mono-functional DNA-alkylating methyl methanesulfonate N-term- Repeat
N [auth P]PF03178CPSF A subunit region (CPSF_A)CPSF A subunit region- Repeat
O [auth Q]PF04037Domain of unknown function (DUF382) (DUF382)Domain of unknown function (DUF382)- Family
O [auth Q]PF04046PSP (PSP)PSP- Family
P [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
Q [auth S]PF03660PHF5-like protein (PHF5)PHF5-like protein- Family
R [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
R [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
R [auth T]PF12171Zinc-finger double-stranded RNA-binding (zf-C2H2_jaz)Zinc-finger double-stranded RNA-binding- Family
S [auth U]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
S [auth U]PF16835Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11) (SF3A2)Pre-mRNA-splicing factor SF3a complex subunit 2 (Prp11)SF3A2 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 ...SF3A2 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). with Prp21 wrapping around Prp11 [1].
Domain
T [auth V]PF01805Surp module (Surp)Surp module- Family
T [auth V]PF12230Pre-mRNA splicing factor PRP21 like protein (PRP21_like_P)Pre-mRNA splicing factor PRP21 like protein- Family
U [auth W]PF14580Leucine-rich repeat (LRR_9)Leucine-rich repeat- Repeat
W [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
X [auth Z]PF07189Splicing factor 3B subunit 10 (SF3b10) (SF3b10)Splicing factor 3B subunit 10 (SF3b10)- Family
FA [auth s],
Y [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
IA [auth v],
Z [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
AA [auth e],
JA [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
BA [auth f],
KA [auth x]		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
CA [auth g],
LA [auth y]		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
DA [auth h],
GA [auth t]		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
EA [auth i],
HA [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
D [auth B]PF12220U1 small nuclear ribonucleoprotein of 70kDa MW N terminal (U1snRNP70_N)U1 small nuclear ribonucleoprotein of 70kDa MW N terminal- Family
D [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
E [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
H [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
I [auth G]PF19097Snu56-like U1 small nuclear ribonucleoprotein component (Snu56_snRNP)Snu56-like U1 small nuclear ribonucleoprotein component- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth 1]U1 snRNA,U1 snRNA,U1 snRNA,U1 snRNA,U1 snRNA---
J [auth H]Protein LUC7,Protein LUC7,Protein LUC7
K [auth I]Yeast UBC4 pre-mRNA (mutant)---
L [auth J]U1 small nuclear ribonucleoprotein component SNU71
M [auth O]U2 snRNP component HSH155
N [auth P]Pre-mRNA-splicing factor RSE1
O [auth Q]Cold sensitive U2 snRNA suppressor 1
P [auth R]Protein HSH49
Q [auth S]Pre-mRNA-splicing factor RDS3-
R [auth T]Pre-mRNA-splicing factor PRP9
S [auth U]Pre-mRNA-splicing factor PRP11,Pre-mRNA-splicing factor PRP11,Pre-mRNA-splicing factor PRP11
B [auth 2]U2 snRNA---
T [auth V]Pre-mRNA-splicing factor PRP21
U [auth W]U2 small nuclear ribonucleoprotein A'
V [auth X]Unknown---
W [auth Y]U2 small nuclear ribonucleoprotein B''
X [auth Z]RDS3 complex subunit 10-
FA [auth s],
Y [auth b]		Small nuclear ribonucleoprotein-associated protein B
IA [auth v],
Z [auth d]		Small nuclear ribonucleoprotein Sm D3
AA [auth e],
JA [auth w]		Small nuclear ribonucleoprotein E
BA [auth f],
KA [auth x]		Small nuclear ribonucleoprotein F
CA [auth g],
LA [auth y]		Small nuclear ribonucleoprotein G
C [auth A]U1 small nuclear ribonucleoprotein A,U1 small nuclear ribonucleoprotein A,U1 small nuclear ribonucleoprotein A,U1 small nuclear ribonucleoprotein A,U1 small nuclear ribonucleoprotein A
DA [auth h],
GA [auth t]		Small nuclear ribonucleoprotein Sm D1
EA [auth i],
HA [auth u]		Small nuclear ribonucleoprotein Sm D2
D [auth B]U1 small nuclear ribonucleoprotein 70 kDa homolog,U1 small nuclear ribonucleoprotein 70 kDa homolog,U1 small nuclear ribonucleoprotein 70 kDa homolog
E [auth C]U1 small nuclear ribonucleoprotein C
F [auth D]Pre-mRNA-processing factor 39-
G [auth E]U1 small nuclear ribonucleoprotein component PRP42
H [auth F]Protein NAM8
I [auth G]56 kDa U1 small nuclear ribonucleoprotein component

InterPro: Protein Family Classification InterPro Database Homepage

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