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Conserved domains on  [gi|6323329|ref|NP_013401|]
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Yhc1p [Saccharomyces cerevisiae S288C]

Protein Classification

C2H2-type zinc finger protein( domain architecture ID 10009094)

Cys2His2 (C2H2)-type zinc finger protein may be involved in transcriptional regulation, similar to U1 small nuclear ribonucleoprotein C that is a component of the spliceosomal U1 snRNP

CATH:  3.30.160.60
Gene Ontology:  GO:0008270|GO:0003676
PubMed:  11179890|12665246|11361095|10940247|22803940
SCOP:  4003583

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG5136 COG5136
U1 snRNP-specific protein C [RNA processing and modification];
1-217 1.43e-90

U1 snRNP-specific protein C [RNA processing and modification];


:

Pssm-ID: 227465 [Multi-domain]  Cd Length: 188  Bit Score: 264.64  E-value: 1.43e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323329    1 MTRYYCEYCHSYLTHDTLSVRKSHLVGKNHLRITADYYRNKARDIINKHNHKRRHIGKRGrkerenssqnetLKVTCLSN 80
Cdd:COG5136   1 MPRYFCEYCNKMLTHDRLSVRKMHCGGAKHGLMRKDYYMEMAEDIAAEMASILRDIKTAG------------EKVECEGN 68

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323329   81 KEkrhiMHVKKMNQKElaqtSIDTLKLLYDGSPGysKVFVDANRFDIGDLVKASKLPQRANEKSAHHSFKQTSRSRDETC 160
Cdd:COG5136  69 KS----TSYPPFPAFP----PGDFYLNLALPEPP--KGFVLANGFDFRDKKNAPENITEAIERYAVNLTNQVAFSAPQTT 138

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 6323329  161 ESNPfPRLNNPKKLEPPKILSQWSNTIPKTSIFYSVDILQTtikeskKRMHSDGIRK 217
Cdd:COG5136 139 ASSN-TQLTQQQQSLPQTNEHQRARTHSNANNHFTKTHHQG------QRSHQRFVRA 188
 
Name Accession Description Interval E-value
COG5136 COG5136
U1 snRNP-specific protein C [RNA processing and modification];
1-217 1.43e-90

U1 snRNP-specific protein C [RNA processing and modification];


Pssm-ID: 227465 [Multi-domain]  Cd Length: 188  Bit Score: 264.64  E-value: 1.43e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323329    1 MTRYYCEYCHSYLTHDTLSVRKSHLVGKNHLRITADYYRNKARDIINKHNHKRRHIGKRGrkerenssqnetLKVTCLSN 80
Cdd:COG5136   1 MPRYFCEYCNKMLTHDRLSVRKMHCGGAKHGLMRKDYYMEMAEDIAAEMASILRDIKTAG------------EKVECEGN 68

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323329   81 KEkrhiMHVKKMNQKElaqtSIDTLKLLYDGSPGysKVFVDANRFDIGDLVKASKLPQRANEKSAHHSFKQTSRSRDETC 160
Cdd:COG5136  69 KS----TSYPPFPAFP----PGDFYLNLALPEPP--KGFVLANGFDFRDKKNAPENITEAIERYAVNLTNQVAFSAPQTT 138

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 6323329  161 ESNPfPRLNNPKKLEPPKILSQWSNTIPKTSIFYSVDILQTtikeskKRMHSDGIRK 217
Cdd:COG5136 139 ASSN-TQLTQQQQSLPQTNEHQRARTHSNANNHFTKTHHQG------QRSHQRFVRA 188
zf-U1 pfam06220
U1 zinc finger; This family consists of several U1 small nuclear ribonucleoprotein C (U1-C) ...
 1-38 2.06e-14

U1 zinc finger; 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 stabilize 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. This domain is probably a zinc-binding. It is found in multiple copies in some members of the family.


Pssm-ID: 368798  Cd Length: 38  Bit Score: 64.76  E-value: 2.06e-14
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 6323329      1 MTRYYCEYCHSYLTHDTLSVRKSHLVGKNHLRITADYY 38
Cdd:pfam06220   1 MPKYYCDYCDCYLTHDSPSVRKSHNGGRKHKDNVKDYY 38
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 1-37 6.45e-03

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 33.38  E-value: 6.45e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 6323329       1 MTRYYCEYCHSYLThDTLSVRkSHLVGKNHLRITADY 37
Cdd:smart00451   1 TGGFYCKLCNVTFT-DEISVE-AHLKGKKHKKNVKKR 35
 
Name Accession Description Interval E-value
COG5136 COG5136
U1 snRNP-specific protein C [RNA processing and modification];
1-217 1.43e-90

U1 snRNP-specific protein C [RNA processing and modification];


Pssm-ID: 227465 [Multi-domain]  Cd Length: 188  Bit Score: 264.64  E-value: 1.43e-90
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323329    1 MTRYYCEYCHSYLTHDTLSVRKSHLVGKNHLRITADYYRNKARDIINKHNHKRRHIGKRGrkerenssqnetLKVTCLSN 80
Cdd:COG5136   1 MPRYFCEYCNKMLTHDRLSVRKMHCGGAKHGLMRKDYYMEMAEDIAAEMASILRDIKTAG------------EKVECEGN 68

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6323329   81 KEkrhiMHVKKMNQKElaqtSIDTLKLLYDGSPGysKVFVDANRFDIGDLVKASKLPQRANEKSAHHSFKQTSRSRDETC 160
Cdd:COG5136  69 KS----TSYPPFPAFP----PGDFYLNLALPEPP--KGFVLANGFDFRDKKNAPENITEAIERYAVNLTNQVAFSAPQTT 138

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 6323329  161 ESNPfPRLNNPKKLEPPKILSQWSNTIPKTSIFYSVDILQTtikeskKRMHSDGIRK 217
Cdd:COG5136 139 ASSN-TQLTQQQQSLPQTNEHQRARTHSNANNHFTKTHHQG------QRSHQRFVRA 188
zf-U1 pfam06220
U1 zinc finger; This family consists of several U1 small nuclear ribonucleoprotein C (U1-C) ...
 1-38 2.06e-14

U1 zinc finger; 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 stabilize 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. This domain is probably a zinc-binding. It is found in multiple copies in some members of the family.


Pssm-ID: 368798  Cd Length: 38  Bit Score: 64.76  E-value: 2.06e-14
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 6323329      1 MTRYYCEYCHSYLTHDTLSVRKSHLVGKNHLRITADYY 38
Cdd:pfam06220   1 MPKYYCDYCDCYLTHDSPSVRKSHNGGRKHKDNVKDYY 38
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 1-37 6.45e-03

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 33.38  E-value: 6.45e-03
                           10        20        30
                   ....*....|....*....|....*....|....*..
gi 6323329       1 MTRYYCEYCHSYLThDTLSVRkSHLVGKNHLRITADY 37
Cdd:smart00451   1 TGGFYCKLCNVTFT-DEISVE-AHLKGKKHKKNVKKR 35
 
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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