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Conserved domains on  [gi|1979440475|pdb|6QX9|4A]
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Chain 4A, U4/U6 small nuclear ribonucleoprotein Prp3

Protein Classification

pre-mRNA processing factor 3 family protein; PWI domain-containing protein( domain architecture ID 10645664)

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 ...
 308-521 1.94e-110

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: 332.25  E-value: 1.94e-110
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       308 NTFFDPRVSIAPSQRQRRTFKFHDKGKFEKIAQRLRTKAQLEKLQAEISQAARKTGIHTSTRLALIAPKKELKEgDIPEI 387
Cdd:pfam08572   1 NPYFDPRLSAKPKRRKRRSLKFNEKGKYIKQAERLRRKAQLEELKKRIAEEARKAGLLPDTDLAEKAPKKFKDE-VPPDI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       388 EWWDSYIIPNGFDLTEENPKR------EDYFGITNLVEHPAQLNPPVDNDTPVTLGVYLTKKEQKKLRRQTRREAQKELQ 461
Cdd:pfam08572  80 EWWDEPYLPDGSYYDDLIDDKynldieDEDSPITNYVQHPVPIKPPQEKNKPPPKPLYLTKKEQKKLRRQRRKEALKEKQ 159

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       462 EKVRLGLMPPPEPKVRISNLMRVLGTEAVQDPTKVEAHVRAQMAKRQKAHEEANAARKLT 521
Cdd:pfam08572 160 DKIRLGLEPPPPPKVKLSNLMRVLGNEAVQDPTKVEARVRRQMAERKQKHEEANEERKLT 219
DUF1115 pfam06544
Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical ...
 544-673 3.46e-61

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: 200.59  E-value: 3.46e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       544 SVYRVRNLSNPAKKFKIEANAGQLYLTGVVVLHKDVNVVVVEGGPKAQKKFKRLMLHRIKWDEQTSNTKGDDDEESDEEA 623
Cdd:pfam06544   1 AVFRIKSLSNPKHRFKIDKNAKQLGLTGFCILGPPFGLVVVEGGEKSIKKYKKLMLRRIKWTENPHEDFEAMKEITFEWD 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
6QX9_4A       624 -----VKKTNKCVLVWEGTAKDRSFGEMKFKQCPTENMAREHFKKHGAEHYWDLA 673
Cdd:pfam06544  81 ndednEGEDNKCELVWEGEVKERAFRKWKFKVCETEGEAREFLKKHGVEHYWDLA 135
PWI smart00311
PWI, domain in splicing factors;
3-73 3.83e-19

PWI, domain in splicing factors;


:

Pssm-ID: 214609 [Multi-domain]  Cd Length: 74  Bit Score: 82.01  E-value: 3.83e-19
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
6QX9_4A          3 LSKRELDELKPWIEKTVKRVLGFSEPTVVTAALNCVG--KGMDKKKAADHLKPFLDdsTLRFVDKLFEAVEEG 73
Cdd:smart00311   1 LSKLKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRqhKGPQAKLLQINLTGFED--AEEFVDKLWRLLIFE 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 ...
 308-521 1.94e-110

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: 332.25  E-value: 1.94e-110
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       308 NTFFDPRVSIAPSQRQRRTFKFHDKGKFEKIAQRLRTKAQLEKLQAEISQAARKTGIHTSTRLALIAPKKELKEgDIPEI 387
Cdd:pfam08572   1 NPYFDPRLSAKPKRRKRRSLKFNEKGKYIKQAERLRRKAQLEELKKRIAEEARKAGLLPDTDLAEKAPKKFKDE-VPPDI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       388 EWWDSYIIPNGFDLTEENPKR------EDYFGITNLVEHPAQLNPPVDNDTPVTLGVYLTKKEQKKLRRQTRREAQKELQ 461
Cdd:pfam08572  80 EWWDEPYLPDGSYYDDLIDDKynldieDEDSPITNYVQHPVPIKPPQEKNKPPPKPLYLTKKEQKKLRRQRRKEALKEKQ 159

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       462 EKVRLGLMPPPEPKVRISNLMRVLGTEAVQDPTKVEAHVRAQMAKRQKAHEEANAARKLT 521
Cdd:pfam08572 160 DKIRLGLEPPPPPKVKLSNLMRVLGNEAVQDPTKVEARVRRQMAERKQKHEEANEERKLT 219
DUF1115 pfam06544
Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical ...
 544-673 3.46e-61

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: 200.59  E-value: 3.46e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       544 SVYRVRNLSNPAKKFKIEANAGQLYLTGVVVLHKDVNVVVVEGGPKAQKKFKRLMLHRIKWDEQTSNTKGDDDEESDEEA 623
Cdd:pfam06544   1 AVFRIKSLSNPKHRFKIDKNAKQLGLTGFCILGPPFGLVVVEGGEKSIKKYKKLMLRRIKWTENPHEDFEAMKEITFEWD 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
6QX9_4A       624 -----VKKTNKCVLVWEGTAKDRSFGEMKFKQCPTENMAREHFKKHGAEHYWDLA 673
Cdd:pfam06544  81 ndednEGEDNKCELVWEGEVKERAFRKWKFKVCETEGEAREFLKKHGVEHYWDLA 135
Prp3_C cd24162
C-terminal domain of U4/U6 small nuclear ribonucleoprotein Prp3; Prp3 is an essential U4/U6 ...
 541-662 3.36e-59

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: 194.72  E-value: 3.36e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A     541 VHISVYRVRNLSNPAKKFKIEANAGQLYLTGVVVLHKDVNVVVVEGGPKAQKKFKRLMLHRIKWDEQTSNTKGDDDEESD 620
Cdd:cd24162   1 VHVAVFRVKDLSNPKHRFKVDTNAQQLHLTGVCILHPDFNLVVVEGGPKSIKKYKKLMLRRIKWNEDEEPEDDDDGEEEE 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
6QX9_4A     621 EEAVKKTNKCVLVWEGTAKDRSFGEMKFKQCPTENMAREHFK 662
Cdd:cd24162  81 EEEDLSDNKCVLVWEGTVKKRAFKKFKFKVCPTEAEAREFLK 122
PWI smart00311
PWI, domain in splicing factors;
3-73 3.83e-19

PWI, domain in splicing factors;


Pssm-ID: 214609 [Multi-domain]  Cd Length: 74  Bit Score: 82.01  E-value: 3.83e-19
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
6QX9_4A          3 LSKRELDELKPWIEKTVKRVLGFSEPTVVTAALNCVG--KGMDKKKAADHLKPFLDdsTLRFVDKLFEAVEEG 73
Cdd:smart00311   1 LSKLKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRqhKGPQAKLLQINLTGFED--AEEFVDKLWRLLIFE 71
PWI pfam01480
PWI domain;
9-73 2.02e-15

PWI domain;


Pssm-ID: 460224 [Multi-domain]  Cd Length: 71  Bit Score: 71.38  E-value: 2.02e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
6QX9_4A         9 DELKPWIEKTVKRVLGFSEPTVVTAALNCV-GKGMDKKKAADHLKPFLDDSTLRFVDKLFEAVEEG 73
Cdd:pfam01480   1 EVLKPWIEKKITEILGFEDDVVVEYVVNLLeEKFPDPKELQIQLTGFLDKDAAKFVKELWKLLLSA 66
 
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 ...
 308-521 1.94e-110

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: 332.25  E-value: 1.94e-110
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       308 NTFFDPRVSIAPSQRQRRTFKFHDKGKFEKIAQRLRTKAQLEKLQAEISQAARKTGIHTSTRLALIAPKKELKEgDIPEI 387
Cdd:pfam08572   1 NPYFDPRLSAKPKRRKRRSLKFNEKGKYIKQAERLRRKAQLEELKKRIAEEARKAGLLPDTDLAEKAPKKFKDE-VPPDI 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       388 EWWDSYIIPNGFDLTEENPKR------EDYFGITNLVEHPAQLNPPVDNDTPVTLGVYLTKKEQKKLRRQTRREAQKELQ 461
Cdd:pfam08572  80 EWWDEPYLPDGSYYDDLIDDKynldieDEDSPITNYVQHPVPIKPPQEKNKPPPKPLYLTKKEQKKLRRQRRKEALKEKQ 159

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       462 EKVRLGLMPPPEPKVRISNLMRVLGTEAVQDPTKVEAHVRAQMAKRQKAHEEANAARKLT 521
Cdd:pfam08572 160 DKIRLGLEPPPPPKVKLSNLMRVLGNEAVQDPTKVEARVRRQMAERKQKHEEANEERKLT 219
DUF1115 pfam06544
Protein of unknown function (DUF1115); This family represents the C-terminus of hypothetical ...
 544-673 3.46e-61

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: 200.59  E-value: 3.46e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A       544 SVYRVRNLSNPAKKFKIEANAGQLYLTGVVVLHKDVNVVVVEGGPKAQKKFKRLMLHRIKWDEQTSNTKGDDDEESDEEA 623
Cdd:pfam06544   1 AVFRIKSLSNPKHRFKIDKNAKQLGLTGFCILGPPFGLVVVEGGEKSIKKYKKLMLRRIKWTENPHEDFEAMKEITFEWD 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
6QX9_4A       624 -----VKKTNKCVLVWEGTAKDRSFGEMKFKQCPTENMAREHFKKHGAEHYWDLA 673
Cdd:pfam06544  81 ndednEGEDNKCELVWEGEVKERAFRKWKFKVCETEGEAREFLKKHGVEHYWDLA 135
Prp3_C cd24162
C-terminal domain of U4/U6 small nuclear ribonucleoprotein Prp3; Prp3 is an essential U4/U6 ...
 541-662 3.36e-59

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: 194.72  E-value: 3.36e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A     541 VHISVYRVRNLSNPAKKFKIEANAGQLYLTGVVVLHKDVNVVVVEGGPKAQKKFKRLMLHRIKWDEQTSNTKGDDDEESD 620
Cdd:cd24162   1 VHVAVFRVKDLSNPKHRFKVDTNAQQLHLTGVCILHPDFNLVVVEGGPKSIKKYKKLMLRRIKWNEDEEPEDDDDGEEEE 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
6QX9_4A     621 EEAVKKTNKCVLVWEGTAKDRSFGEMKFKQCPTENMAREHFK 662
Cdd:cd24162  81 EEEDLSDNKCVLVWEGTVKKRAFKKFKFKVCPTEAEAREFLK 122
PWI smart00311
PWI, domain in splicing factors;
3-73 3.83e-19

PWI, domain in splicing factors;


Pssm-ID: 214609 [Multi-domain]  Cd Length: 74  Bit Score: 82.01  E-value: 3.83e-19
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
6QX9_4A          3 LSKRELDELKPWIEKTVKRVLGFSEPTVVTAALNCVG--KGMDKKKAADHLKPFLDdsTLRFVDKLFEAVEEG 73
Cdd:smart00311   1 LSKLKLDEIKPWITKKVIEFLGFEEDTLVEFILSQIRqhKGPQAKLLQINLTGFED--AEEFVDKLWRLLIFE 71
PWI pfam01480
PWI domain;
9-73 2.02e-15

PWI domain;


Pssm-ID: 460224 [Multi-domain]  Cd Length: 71  Bit Score: 71.38  E-value: 2.02e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
6QX9_4A         9 DELKPWIEKTVKRVLGFSEPTVVTAALNCV-GKGMDKKKAADHLKPFLDDSTLRFVDKLFEAVEEG 73
Cdd:pfam01480   1 EVLKPWIEKKITEILGFEDDVVVEYVVNLLeEKFPDPKELQIQLTGFLDKDAAKFVKELWKLLLSA 66
Prp3_C-like cd24140
C-terminal domain of Prp3 and related proteins; This group contains the C-terminal domains of ...
 542-657 5.70e-07

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: 48.80  E-value: 5.70e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
6QX9_4A     542 HISVYRVRNLSNPAKKFKIEANAGQLYLTGVVVLHKDVNVVVVEGGPKAQKKFKRLMLHRiKWDEQTSNTKGDDDEESDE 621
Cdd:cd24140   2 HCKVFHFKHLQNKKKRFKIKENSKELSLKGLCMRIRDPGIIIVVGNEKSCKEYENLVKKR-KWNEDFELHTNTGDIKEKC 80

                        90       100       110
                ....*....|....*....|....*....|....*.
6QX9_4A     622 eavkKTNKCVLVWEGTAKDRSFGEMKFKQCPTENMA 657
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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