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Conserved domains on  [gi|62899050|ref|NP_001017401|]
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zinc finger HIT domain-containing protein 1 [Danio rerio]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
zf-HIT_ZNHIT1_like cd21437
HIT zinc finger found in zinc finger HIT domain-containing protein 1 (ZNHIT1) and similar ...
 108-150 2.22e-22

HIT zinc finger found in zinc finger HIT domain-containing protein 1 (ZNHIT1) and similar proteins; The family includes ZNHIT1 and its yeast counterpart, the vacuolar protein sorting-associated protein 71 (Vps71p). ZNHIT1, also known as cyclin-G1-binding protein 1 (CGBP1), zinc finger protein subfamily 4A member 1 (ZNFN4A1), or p18 Hamlet, may have a role in inducing apoptosis through p53 signaling. It binds to Rev-erb beta and releases its inhibitory effect on the transcription of apolipoprotein C3 (APOC3) without affecting its DNA-binding activity. The yeast counterpart Vps71p, also referred to as SWR complex protein 6 (Swc6p), plays a role in the exchange of histone H2A for the H2A variant HZT1, a euchromatin-specific factor, leading to chromatin remodeling and transcriptional changes of targeted genes. It is indirectly involved in vacuolar protein sorting. Members of this family contain a zf-HIT domain characterized by a "treble-clef" fold through interleaved CCCC and CCHC zinc finger motifs, both of which bind a zinc ion.


:

Pssm-ID: 467791  Cd Length: 43  Bit Score: 83.44  E-value: 2.22e-22
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 62899050 108 PSKIPQRHFCAVCGFPSNYTCVSCGARYCCVRCLGTHHETRCL 150
Cdd:cd21437   1 PSRLPPRKFCSVCGYWGKYTCVRCGARYCSLKCLETHNETRCL 43
YL1_C super family cl02154
YL1 nuclear protein C-terminal domain; This domain is found in proteins of the YL1 family. ...
 59-135 3.66e-04

YL1 nuclear protein C-terminal domain; This domain is found in proteins of the YL1 family. These proteins have been shown to be DNA-binding and may be a transcription factor. This domain is found in proteins that are not YL1 proteins.


The actual alignment was detected with superfamily member COG5195:

Pssm-ID: 470478 [Multi-domain]  Cd Length: 118  Bit Score: 38.05  E-value: 3.66e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62899050  59 DESNESGKRRKKTRGDHFK---QRFRKNFQTLLEEEDLSVSEGPNYLTACAEPSKIPQRHFCAVCGFPSNYTCVSCGARY 135
Cdd:COG5195   8 DGGDMKLLKRPWFKKSTYKgknRRFKTLRQLIPRLTIENESSKHRYLSIEAPPSVKPRMKYCDVTGLPAPYTCPNTGLRY 87
 
Name Accession Description Interval E-value
zf-HIT_ZNHIT1_like cd21437
HIT zinc finger found in zinc finger HIT domain-containing protein 1 (ZNHIT1) and similar ...
 108-150 2.22e-22

HIT zinc finger found in zinc finger HIT domain-containing protein 1 (ZNHIT1) and similar proteins; The family includes ZNHIT1 and its yeast counterpart, the vacuolar protein sorting-associated protein 71 (Vps71p). ZNHIT1, also known as cyclin-G1-binding protein 1 (CGBP1), zinc finger protein subfamily 4A member 1 (ZNFN4A1), or p18 Hamlet, may have a role in inducing apoptosis through p53 signaling. It binds to Rev-erb beta and releases its inhibitory effect on the transcription of apolipoprotein C3 (APOC3) without affecting its DNA-binding activity. The yeast counterpart Vps71p, also referred to as SWR complex protein 6 (Swc6p), plays a role in the exchange of histone H2A for the H2A variant HZT1, a euchromatin-specific factor, leading to chromatin remodeling and transcriptional changes of targeted genes. It is indirectly involved in vacuolar protein sorting. Members of this family contain a zf-HIT domain characterized by a "treble-clef" fold through interleaved CCCC and CCHC zinc finger motifs, both of which bind a zinc ion.


Pssm-ID: 467791  Cd Length: 43  Bit Score: 83.44  E-value: 2.22e-22
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 62899050 108 PSKIPQRHFCAVCGFPSNYTCVSCGARYCCVRCLGTHHETRCL 150
Cdd:cd21437   1 PSRLPPRKFCSVCGYWGKYTCVRCGARYCSLKCLETHNETRCL 43
zf-HIT pfam04438
HIT zinc finger; This presumed zinc finger contains up to 6 cysteine residues that could ...
 113-140 9.44e-09

HIT zinc finger; This presumed zinc finger contains up to 6 cysteine residues that could coordinate zinc. The domain is named after the HIT protein. This domain is also found in the Thyroid receptor interacting protein 3 (TRIP-3) that specifically interact with the ligand binding domain of the thyroid receptor.


Pssm-ID: 461310  Cd Length: 30  Bit Score: 48.40  E-value: 9.44e-09
                          10        20
                  ....*....|....*....|....*...
gi 62899050   113 QRHFCAVCGFPSNYTCVSCGARYCCVRC 140
Cdd:pfam04438   1 PRKLCSVCGNPSKYRCPRCGVRYCSLEC 28
COG5195 COG5195
Uncharacterized conserved protein [Function unknown];
59-135 3.66e-04

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 227522 [Multi-domain]  Cd Length: 118  Bit Score: 38.05  E-value: 3.66e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62899050  59 DESNESGKRRKKTRGDHFK---QRFRKNFQTLLEEEDLSVSEGPNYLTACAEPSKIPQRHFCAVCGFPSNYTCVSCGARY 135
Cdd:COG5195   8 DGGDMKLLKRPWFKKSTYKgknRRFKTLRQLIPRLTIENESSKHRYLSIEAPPSVKPRMKYCDVTGLPAPYTCPNTGLRY 87
 
Name Accession Description Interval E-value
zf-HIT_ZNHIT1_like cd21437
HIT zinc finger found in zinc finger HIT domain-containing protein 1 (ZNHIT1) and similar ...
 108-150 2.22e-22

HIT zinc finger found in zinc finger HIT domain-containing protein 1 (ZNHIT1) and similar proteins; The family includes ZNHIT1 and its yeast counterpart, the vacuolar protein sorting-associated protein 71 (Vps71p). ZNHIT1, also known as cyclin-G1-binding protein 1 (CGBP1), zinc finger protein subfamily 4A member 1 (ZNFN4A1), or p18 Hamlet, may have a role in inducing apoptosis through p53 signaling. It binds to Rev-erb beta and releases its inhibitory effect on the transcription of apolipoprotein C3 (APOC3) without affecting its DNA-binding activity. The yeast counterpart Vps71p, also referred to as SWR complex protein 6 (Swc6p), plays a role in the exchange of histone H2A for the H2A variant HZT1, a euchromatin-specific factor, leading to chromatin remodeling and transcriptional changes of targeted genes. It is indirectly involved in vacuolar protein sorting. Members of this family contain a zf-HIT domain characterized by a "treble-clef" fold through interleaved CCCC and CCHC zinc finger motifs, both of which bind a zinc ion.


Pssm-ID: 467791  Cd Length: 43  Bit Score: 83.44  E-value: 2.22e-22
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 62899050 108 PSKIPQRHFCAVCGFPSNYTCVSCGARYCCVRCLGTHHETRCL 150
Cdd:cd21437   1 PSRLPPRKFCSVCGYWGKYTCVRCGARYCSLKCLETHNETRCL 43
zf-HIT pfam04438
HIT zinc finger; This presumed zinc finger contains up to 6 cysteine residues that could ...
 113-140 9.44e-09

HIT zinc finger; This presumed zinc finger contains up to 6 cysteine residues that could coordinate zinc. The domain is named after the HIT protein. This domain is also found in the Thyroid receptor interacting protein 3 (TRIP-3) that specifically interact with the ligand binding domain of the thyroid receptor.


Pssm-ID: 461310  Cd Length: 30  Bit Score: 48.40  E-value: 9.44e-09
                          10        20
                  ....*....|....*....|....*...
gi 62899050   113 QRHFCAVCGFPSNYTCVSCGARYCCVRC 140
Cdd:pfam04438   1 PRKLCSVCGNPSKYRCPRCGVRYCSLEC 28
COG5195 COG5195
Uncharacterized conserved protein [Function unknown];
59-135 3.66e-04

Uncharacterized conserved protein [Function unknown];


Pssm-ID: 227522 [Multi-domain]  Cd Length: 118  Bit Score: 38.05  E-value: 3.66e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 62899050  59 DESNESGKRRKKTRGDHFK---QRFRKNFQTLLEEEDLSVSEGPNYLTACAEPSKIPQRHFCAVCGFPSNYTCVSCGARY 135
Cdd:COG5195   8 DGGDMKLLKRPWFKKSTYKgknRRFKTLRQLIPRLTIENESSKHRYLSIEAPPSVKPRMKYCDVTGLPAPYTCPNTGLRY 87
zf-HIT_ZNHIT2-3 cd23024
zinc finger HIT (zf-HIT) found in zinc finger HIT domain-containing protein 2 (ZNHIT2), 3 ...
 117-147 2.23e-03

zinc finger HIT (zf-HIT) found in zinc finger HIT domain-containing protein 2 (ZNHIT2), 3 (ZNHIT3) and similar proteins; ZNHIT2 and ZNHIT3 are members of the zf-HIT domain-containing protein family that play crucial roles in various biological processes. ZNHIT2 acts as a bridging factor between the R2TP/PFDL complex and U5 snRNP, while ZNHIT3 interacts specifically with the ligand binding domain of the thyroid receptor and is involved in small nucleolar ribonucleoprotein particle assembly, transcriptional regulation, and snoRNP assembly. ZNHIT3 is also associated with HNF-4alpha and may play a role in MODY, while its dysfunction is linked to PEHO syndrome. Both proteins contain the zf-HIT domain and interact with other proteins through their HIT-type zinc finger in the presence of ATP, ADP, or other factors.


Pssm-ID: 467796 [Multi-domain]  Cd Length: 37  Bit Score: 34.15  E-value: 2.23e-03
                        10        20        30
                ....*....|....*....|....*....|..
gi 62899050 117 CAVCG-FPSNYTCVSCGARYCCVRCLGTHHET 147
Cdd:cd23024   3 CGVCNkNESKYKCPRCNIPYCSLACYKSHKES 34
zf-HIT cd23020
zinc finger HIT (zf-HIT) domain; The zinc finger HIT (zf-HIT) is a novel zinc-binding domain ...
 117-144 7.55e-03

zinc finger HIT (zf-HIT) domain; The zinc finger HIT (zf-HIT) is a novel zinc-binding domain with about 50 amino acids. It is characterized by a fold in "treble-clef" through interleaved CCCC and CCHC zinc finger motifs that both bind a zinc ion. zf-HIT domain may function as a protein-protein interaction domain. It is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. The zf-HIT family includes six proteins containing zf-HIT domain present in human and three in yeast proteome, all belonging to multimodular RNA/protein complexes.


Pssm-ID: 467792  Cd Length: 31  Bit Score: 32.47  E-value: 7.55e-03
                        10        20
                ....*....|....*....|....*....
gi 62899050 117 CAVCG-FPSNYTCVSCGARYCCVRCLGTH 144
Cdd:cd23020   2 CGICGgYPGKYKCPRCGVPYCSLECYRKH 30
 
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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