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Conserved domains on  [gi|836940684|ref|NP_991311|]
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U4/U6 small nuclear ribonucleoprotein Prp3 [Danio rerio]

Protein Classification

pre-mRNA processing factor 3 family protein; PWI domain-containing protein( domain architecture ID 10478591)

pre-mRNA processing factor 3 (PRP3) family protein similar to Saccharomyces cerevisiae U4/U6 small nuclear ribonucleoprotein PRP3, which participates in pre-mRNA splicing as part of the U4/U5/U6 tri-snRNP complex, one of the building blocks of the spliceosome| PWI domain-containing protein may function as a splicing factor; similar to Saccharomyces cerevisiae U1 small nuclear ribonucleoprotein component SNU71, a component of the U1 snRNP particle, which recognizes and binds the 5'-splice site of pre-mRNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRP3 pfam08572
pre-mRNA processing factor 3 (PRP3); Pre-mRNA processing factor 3 (PRP3) is a U4/U6-associated ...
 328-540 1.33e-103

pre-mRNA processing factor 3 (PRP3); Pre-mRNA processing factor 3 (PRP3) is a U4/U6-associated splicing factor. The human PRP3 has been implicated in autosomal retinitis pigmentosa.


:

Pssm-ID: 462524  Cd Length: 219  Bit Score: 315.30  E-value: 1.33e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  328 YFDPRVALAPALKPKKGFRFHEQGRFEKIAQRIRTKAQLEKLQMEIAQAAKKTGIQASTKLALIAPKKELGEgEIPNIEW 407
Cdd:pfam08572   3 YFDPRLSAKPKRRKRRSLKFNEKGKYIKQAERLRRKAQLEELKKRIAEEARKAGLLPDTDLAEKAPKKFKDE-VPPDIEW 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  408 WDSYILP-----FHINLSAHTNLDEVEMHGVTNLVEHPTQMAPPVDTDKPVTLGVYLTKKEQKKLRRQTRREGQKEVQEK 482
Cdd:pfam08572  82 WDEPYLPdgsyyDDLIDDKYNLDIEDEDSPITNYVQHPVPIKPPQEKNKPPPKPLYLTKKEQKKLRRQRRKEALKEKQDK 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 836940684  483 VRLGLMPPPEPKVRISNLMRVLGTEAVQGPTKVEAHVRAQMAKRQKAHEEANAARKLT 540
Cdd:pfam08572 162 IRLGLEPPPPPKVKLSNLMRVLGNEAVQDPTKVEARVRRQMAERKQKHEEANEERKLT 219
DUF1115 pfam06544
Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical ...
 563-688 3.47e-60

Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical eukaryotic proteins of unknown function.


:

Pssm-ID: 461943  Cd Length: 135  Bit Score: 198.28  E-value: 3.47e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  563 AVYRIRNLHNPAKKFKVEANANQLYLTGTVVLHKDVNIVVVEGGPKAQKKFKRLMLTRIKWDEP---------NSKRDEH 633
Cdd:pfam06544   1 AVFRIKSLSNPKHRFKIDKNAKQLGLTGFCILGPPFGLVVVEGGEKSIKKYKKLMLRRIKWTENphedfeamkEITFEWD 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 836940684  634 HDDDESRRNNRCSLVWEGTSKERNYGEVKFKQCPTENMAREHFKKHGTEHYWDLA 688
Cdd:pfam06544  81 NDEDNEGEDNKCELVWEGEVKERAFRKWKFKVCETEGEAREFLKKHGVEHYWDLA 135
PWI pfam01480
PWI domain;
9-78 5.66e-16

PWI domain;


:

Pssm-ID: 460224 [Multi-domain]  Cd Length: 71  Bit Score: 72.92  E-value: 5.66e-16
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 836940684    9 DELRPWVERTVKKVLGFSEPTVVTAALHCV-GKGLDKRKTIDQLRPFLDDSASSFVERLFEALEESRNSRG 78
Cdd:pfam01480   1 EVLKPWIEKKITEILGFEDDVVVEYVVNLLeEKFPDPKELQIQLTGFLDKDAAKFVKELWKLLLSAQESPS 71
 
Name Accession Description Interval E-value
PRP3 pfam08572
pre-mRNA processing factor 3 (PRP3); Pre-mRNA processing factor 3 (PRP3) is a U4/U6-associated ...
 328-540 1.33e-103

pre-mRNA processing factor 3 (PRP3); Pre-mRNA processing factor 3 (PRP3) is a U4/U6-associated splicing factor. The human PRP3 has been implicated in autosomal retinitis pigmentosa.


Pssm-ID: 462524  Cd Length: 219  Bit Score: 315.30  E-value: 1.33e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  328 YFDPRVALAPALKPKKGFRFHEQGRFEKIAQRIRTKAQLEKLQMEIAQAAKKTGIQASTKLALIAPKKELGEgEIPNIEW 407
Cdd:pfam08572   3 YFDPRLSAKPKRRKRRSLKFNEKGKYIKQAERLRRKAQLEELKKRIAEEARKAGLLPDTDLAEKAPKKFKDE-VPPDIEW 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  408 WDSYILP-----FHINLSAHTNLDEVEMHGVTNLVEHPTQMAPPVDTDKPVTLGVYLTKKEQKKLRRQTRREGQKEVQEK 482
Cdd:pfam08572  82 WDEPYLPdgsyyDDLIDDKYNLDIEDEDSPITNYVQHPVPIKPPQEKNKPPPKPLYLTKKEQKKLRRQRRKEALKEKQDK 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 836940684  483 VRLGLMPPPEPKVRISNLMRVLGTEAVQGPTKVEAHVRAQMAKRQKAHEEANAARKLT 540
Cdd:pfam08572 162 IRLGLEPPPPPKVKLSNLMRVLGNEAVQDPTKVEARVRRQMAERKQKHEEANEERKLT 219
DUF1115 pfam06544
Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical ...
 563-688 3.47e-60

Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical eukaryotic proteins of unknown function.


Pssm-ID: 461943  Cd Length: 135  Bit Score: 198.28  E-value: 3.47e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  563 AVYRIRNLHNPAKKFKVEANANQLYLTGTVVLHKDVNIVVVEGGPKAQKKFKRLMLTRIKWDEP---------NSKRDEH 633
Cdd:pfam06544   1 AVFRIKSLSNPKHRFKIDKNAKQLGLTGFCILGPPFGLVVVEGGEKSIKKYKKLMLRRIKWTENphedfeamkEITFEWD 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 836940684  634 HDDDESRRNNRCSLVWEGTSKERNYGEVKFKQCPTENMAREHFKKHGTEHYWDLA 688
Cdd:pfam06544  81 NDEDNEGEDNKCELVWEGEVKERAFRKWKFKVCETEGEAREFLKKHGVEHYWDLA 135
Prp3_C cd24162
C-terminal domain of U4/U6 small nuclear ribonucleoprotein Prp3; Prp3 is an essential U4/U6 ...
 560-677 1.97e-56

C-terminal domain of U4/U6 small nuclear ribonucleoprotein Prp3; Prp3 is an essential U4/U6 di-snRNP-associated protein which plays a role in pre-mRNA splicing. It may be involved in U4/U6 reassembly after splicing. The C-terminal domain of Prp3 is a single-stranded RNA-binding domain.


Pssm-ID: 467813  Cd Length: 122  Bit Score: 187.78  E-value: 1.97e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684 560 VHIAVYRIRNLHNPAKKFKVEANANQLYLTGTVVLHKDVNIVVVEGGPKAQKKFKRLMLTRIKWDEPNSKRDEHHDDD-- 637
Cdd:cd24162    1 VHVAVFRVKDLSNPKHRFKVDTNAQQLHLTGVCILHPDFNLVVVEGGPKSIKKYKKLMLRRIKWNEDEEPEDDDDGEEee 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 836940684 638 --ESRRNNRCSLVWEGTSKERNYGEVKFKQCPTENMAREHFK 677
Cdd:cd24162   81 eeEDLSDNKCVLVWEGTVKKRAFKKFKFKVCPTEAEAREFLK 122
PWI pfam01480
PWI domain;
9-78 5.66e-16

PWI domain;


Pssm-ID: 460224 [Multi-domain]  Cd Length: 71  Bit Score: 72.92  E-value: 5.66e-16
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 836940684    9 DELRPWVERTVKKVLGFSEPTVVTAALHCV-GKGLDKRKTIDQLRPFLDDSASSFVERLFEALEESRNSRG 78
Cdd:pfam01480   1 EVLKPWIEKKITEILGFEDDVVVEYVVNLLeEKFPDPKELQIQLTGFLDKDAAKFVKELWKLLLSAQESPS 71
PWI smart00311
PWI, domain in splicing factors;
5-76 8.97e-13

PWI, domain in splicing factors;


Pssm-ID: 214609 [Multi-domain]  Cd Length: 74  Bit Score: 63.90  E-value: 8.97e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 836940684     5 KREVDELRPWVERTVKKVLGFSEPTVVTAALHCVG--KGLDKRKTIDQLRPFLDdsASSFVERLFEALEESRNS 76
Cdd:smart00311   3 KLKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRqhKGPQAKLLQINLTGFED--AEEFVDKLWRLLIFELKN 74
 
Name Accession Description Interval E-value
PRP3 pfam08572
pre-mRNA processing factor 3 (PRP3); Pre-mRNA processing factor 3 (PRP3) is a U4/U6-associated ...
 328-540 1.33e-103

pre-mRNA processing factor 3 (PRP3); Pre-mRNA processing factor 3 (PRP3) is a U4/U6-associated splicing factor. The human PRP3 has been implicated in autosomal retinitis pigmentosa.


Pssm-ID: 462524  Cd Length: 219  Bit Score: 315.30  E-value: 1.33e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  328 YFDPRVALAPALKPKKGFRFHEQGRFEKIAQRIRTKAQLEKLQMEIAQAAKKTGIQASTKLALIAPKKELGEgEIPNIEW 407
Cdd:pfam08572   3 YFDPRLSAKPKRRKRRSLKFNEKGKYIKQAERLRRKAQLEELKKRIAEEARKAGLLPDTDLAEKAPKKFKDE-VPPDIEW 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  408 WDSYILP-----FHINLSAHTNLDEVEMHGVTNLVEHPTQMAPPVDTDKPVTLGVYLTKKEQKKLRRQTRREGQKEVQEK 482
Cdd:pfam08572  82 WDEPYLPdgsyyDDLIDDKYNLDIEDEDSPITNYVQHPVPIKPPQEKNKPPPKPLYLTKKEQKKLRRQRRKEALKEKQDK 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 836940684  483 VRLGLMPPPEPKVRISNLMRVLGTEAVQGPTKVEAHVRAQMAKRQKAHEEANAARKLT 540
Cdd:pfam08572 162 IRLGLEPPPPPKVKLSNLMRVLGNEAVQDPTKVEARVRRQMAERKQKHEEANEERKLT 219
DUF1115 pfam06544
Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical ...
 563-688 3.47e-60

Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical eukaryotic proteins of unknown function.


Pssm-ID: 461943  Cd Length: 135  Bit Score: 198.28  E-value: 3.47e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684  563 AVYRIRNLHNPAKKFKVEANANQLYLTGTVVLHKDVNIVVVEGGPKAQKKFKRLMLTRIKWDEP---------NSKRDEH 633
Cdd:pfam06544   1 AVFRIKSLSNPKHRFKIDKNAKQLGLTGFCILGPPFGLVVVEGGEKSIKKYKKLMLRRIKWTENphedfeamkEITFEWD 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 836940684  634 HDDDESRRNNRCSLVWEGTSKERNYGEVKFKQCPTENMAREHFKKHGTEHYWDLA 688
Cdd:pfam06544  81 NDEDNEGEDNKCELVWEGEVKERAFRKWKFKVCETEGEAREFLKKHGVEHYWDLA 135
Prp3_C cd24162
C-terminal domain of U4/U6 small nuclear ribonucleoprotein Prp3; Prp3 is an essential U4/U6 ...
 560-677 1.97e-56

C-terminal domain of U4/U6 small nuclear ribonucleoprotein Prp3; Prp3 is an essential U4/U6 di-snRNP-associated protein which plays a role in pre-mRNA splicing. It may be involved in U4/U6 reassembly after splicing. The C-terminal domain of Prp3 is a single-stranded RNA-binding domain.


Pssm-ID: 467813  Cd Length: 122  Bit Score: 187.78  E-value: 1.97e-56
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684 560 VHIAVYRIRNLHNPAKKFKVEANANQLYLTGTVVLHKDVNIVVVEGGPKAQKKFKRLMLTRIKWDEPNSKRDEHHDDD-- 637
Cdd:cd24162    1 VHVAVFRVKDLSNPKHRFKVDTNAQQLHLTGVCILHPDFNLVVVEGGPKSIKKYKKLMLRRIKWNEDEEPEDDDDGEEee 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 836940684 638 --ESRRNNRCSLVWEGTSKERNYGEVKFKQCPTENMAREHFK 677
Cdd:cd24162   81 eeEDLSDNKCVLVWEGTVKKRAFKKFKFKVCPTEAEAREFLK 122
PWI pfam01480
PWI domain;
9-78 5.66e-16

PWI domain;


Pssm-ID: 460224 [Multi-domain]  Cd Length: 71  Bit Score: 72.92  E-value: 5.66e-16
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 836940684    9 DELRPWVERTVKKVLGFSEPTVVTAALHCV-GKGLDKRKTIDQLRPFLDDSASSFVERLFEALEESRNSRG 78
Cdd:pfam01480   1 EVLKPWIEKKITEILGFEDDVVVEYVVNLLeEKFPDPKELQIQLTGFLDKDAAKFVKELWKLLLSAQESPS 71
PWI smart00311
PWI, domain in splicing factors;
5-76 8.97e-13

PWI, domain in splicing factors;


Pssm-ID: 214609 [Multi-domain]  Cd Length: 74  Bit Score: 63.90  E-value: 8.97e-13
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 836940684     5 KREVDELRPWVERTVKKVLGFSEPTVVTAALHCVG--KGLDKRKTIDQLRPFLDdsASSFVERLFEALEESRNS 76
Cdd:smart00311   3 KLKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRqhKGPQAKLLQINLTGFED--AEEFVDKLWRLLIFELKN 74
Prp3_C-like cd24140
C-terminal domain of Prp3 and related proteins; This group contains the C-terminal domains of ...
 561-672 1.45e-08

C-terminal domain of Prp3 and related proteins; This group contains the C-terminal domains of Prp3 and RWD domain-containing proteins 2/3. Predicted structures (by AlphaFold) of the C-terminal domains of RWDD2 and RWDD3 reveal similarity to the C-terminal domain of Prp3, an essential U4/U6 di-snRNP-associated protein which plays a role in pre-mRNA splicing. The Prp3 C-terminal domain is a single-stranded RNA-binding domain.


Pssm-ID: 467812  Cd Length: 117  Bit Score: 53.42  E-value: 1.45e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 836940684 561 HIAVYRIRNLHNPAKKFKVEANANQLYLTGTVVLHKDVNIVVVEGGPKAQKKFKRLMLTRiKWDEPNSKRDEHHDDDESR 640
Cdd:cd24140    2 HCKVFHFKHLQNKKKRFKIKENSKELSLKGLCMRIRDPGIIIVVGNEKSCKEYENLVKKR-KWNEDFELHTNTGDIKEKC 80

                         90       100       110
                 ....*....|....*....|....*....|..
gi 836940684 641 RNNRCSLVWEGTSKERNYGEVKFKQCPTENMA 672
Cdd:cd24140   81 HNNSISKTWEGYLQDCKFKGWFLKVCNDQYSL 112
 
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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