3JCR


Conserved Protein Domain Family
U6-snRNA_bdg

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pfam10596: U6-snRNA_bdg 
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U6-snRNA interacting domain of PrP8
This domain incorporates the interacting site for the U6-snRNA as part of the U4/U6.U5 tri-snRNPs complex of the spliceosome, and is the prime candidate for the role of cofactor for the spliceosome's RNA core. The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis. This close association with crucial RNA sequences, together with extensive genetic evidence, suggests that Prp8 could directly affect the function of the catalytic core, perhaps acting as a splicing cofactor.
Statistics
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PSSM-Id: 371153
View PSSM: pfam10596
Aligned: 11 rows
Threshold Bit Score: 246.996
Threshold Setting Gi: 159109144
Created: 11-May-2020
Updated: 7-Aug-2020
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
3JCR_A       1442 FKQYQVLKQNpfwwTHQRHDGKLWNlnnyrtdmi--qalggvegILEHTLFKGTYF------PTWEGLFWEK-------- 1505
Q5KPW2       1640 QQKYQLFRST----ASVRHERPSTS-------------------KLDTTLLRINSIeledepTKWSGFVVDKdslylrhd 1696 Cryptococcus ...
EPE02162     1452 FKLYQIMRHNpfgwTSARHDGKLWNlqayrtdvi--qalgsvetILAHTLFAATGF------TSWEGLFWEK-------- 1515 Ophiostoma pi...
CCD23994     1515 FKKYSLERNSpfwwTNAHHDGKLWNlnsyrtdvi--qalggietILEHTLFKGTGF------TSWEGLFWEK-------- 1578 Naumovozyma d...
XP_001330664 1432 FKKYSLFKTNpyawTHHHHDGKLWNlkdyradvi--qalggvegILSHSIFKATGY------KHWEGLFWDN-------- 1495 Trichomonas v...
CBQ71752     1485 FKKYQIAKAQpfawTNQRHDGKLYNlnqlrtdti--aalggvetILEHSLFAATGH------PTWEGLFWEK-------- 1548 Sporisorium r...
XP_001704838 1335 igNALTLKSw----YNKKLLGSLYDlqgykkiit--aifggveeILHHTLYPATDF------SDYKSVVWST-------- 1394 Giardia lambl...
XP_012892321   55 FKQYQVLKQNpfwwTHQRHDGKLWNlnnyrtdmi--qalggvegILEHTLFKGTYF------PTWEGLFWEK-------- 118  Ord's kangaro...
Q8SVU6       1407 mfriysgKPDwfwfTDAKHDGKLWSmerftldtl--ealggvggIADHTLFGATYF------RSFSKVFWED-------- 1470 Encephalitozo...
EOB14667     1205 FKKFTSLQYDplpfTSLRHDGLLYNldrykdsit--sylggpslILKHTLFKATFS------KIFSKLFWDD-------- 1268 Nosema bombyc...
XP_003722790 1514 FQRYLAGKYLknwwFHMEHDGNICGgvmeryradmnnalggveaILEHSLFKGTGF------PSWEGIEFDR-------- 1579 Leishmania ma...
3JCR_A       1506 -----ASGFEESM-KWKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKISLIQIFRA 1579
Q5KPW2       1697 ylvlhNSGFEESM-KNKRLTNAQRSGLSQIPNRRFTMWWSPTINRANVYVGFQVQLDLTGVFMHGKIPTLKISLIQIFRA 1775 Cryptococcus ...
EPE02162     1516 -----ASGFEQSI-AAKKLTNAQRQGLSAIPNRRFCLWWSPTINRGSVYVGFRVQLDLTGIFLQAKLPTLKISFVQIFRA 1589 Ophiostoma pi...
CCD23994     1579 -----ASGFEDSL-QFKKLTHAQRTGLSQIPNRRFTLWWSPTINRANVYVGFVVQLDLTGIFLHGKIPTLKISLVQIFRA 1652 Naumovozyma d...
XP_001330664 1496 -----TTGFEEAL-KYRKLTNAQRQGMSQVPNRRYTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPSLKVSLIQLFRG 1569 Trichomonas v...
CBQ71752     1549 -----SSSFEESM-QQKRLTNAQRSGLSQIPNRRFTLWWSPTLNRSSVYIGFQVQLDLCGVLMSGKMPSLKISYIQLFRA 1622 Sporisorium r...
XP_001704838 1395 -----ATEHETGLaKRTNLTRARRQGLSQIPNRRFALWWSPTINRSSVYIGYRSQIDLTGVYMCGKLATLKTAYVSLFRG 1469 Giardia lambl...
XP_012892321  119 -----ASGFEESM-KWKKLTNAQRSGLNQIPNRRFTLWWSPTINRANVYVGFQVQLDLTGIFMHGKIPTLKISLIQIFRA 192  Ord's kangaro...
Q8SVU6       1471 -----MV----VE-KYRKLTNAQKMGLSQIPNRRFILWWSPTINRGNVYVGYQVQLDQTGILMHGKLPTLKISFIQIFRN 1540 Encephalitozo...
EOB14667     1269 ----------SYL-SLKTNTFAQKRGLNQIPNKRFIFWWSPTINRADVYVGYETILEPTGVVMHGKLPTLKMSYLGIFKN 1337 Nosema bombyc...
XP_003722790 1580 -----SGGFENSK-KDTKLAKQQRAGLSKVPNQRFALWWSPTINRSDIQAGFESKVETTGVFMCGKLETIKKSLIKIFSG 1653 Leishmania ma...
3JCR_A       1580 HLWQKIHESIVMDLCQVFDQE 1600
Q5KPW2       1776 HLWQKIHESVVMDLCQVFDQE 1796 Cryptococcus neoformans
EPE02162     1590 HLWQKIHESVVMDLCQVFDQE 1610 Ophiostoma piceae UAMH 11346
CCD23994     1653 HLWQKIHESVVFDICQILDGE 1673 Naumovozyma dairenensis CBS 421
XP_001330664 1570 HMWQKTHESIVMDVMQVLDSH 1590 Trichomonas vaginalis G3
CBQ71752     1623 HLWQKIHESVVMDLCQVFDQE 1643 Sporisorium reilianum SRZ2
XP_001704838 1470 HAWPMIHSSLVKTLLAILQDA 1490 Giardia lamblia ATCC 50803
XP_012892321  193 HLWQKIHESIVMDLCQVFDQE 213  Ord's kangaroo rat
Q8SVU6       1541 QLWRRIHESVVGGLCDVFRky 1561 Encephalitozoon cuniculi
EOB14667     1338 NLWKKIQESLVYDFFKTkkyy 1358 Nosema bombycis CQ1
XP_003722790 1654 SLWEKSHGAVVNDVASKLKDS 1674 Leishmania major strain Friedlin
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