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Conserved domains on  [gi|282165823|ref|NP_060423|]
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box C/D snoRNA protein 1 isoform 1 [Homo sapiens]

Protein Classification

zinc finger HIT domain-containing protein( domain architecture ID 19225337)

zinc finger HIT domain-containing protein may be involved in Box C/D snoRNP Biogenesis

CATH:  3.30.60.190
Gene Ontology:  GO:0046872
PubMed:  27139642

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
zf-HIT_BCD1 cd23023
zinc finger HIT (zf-HIT) found in Box C/D snoRNA protein 1 (BCD1) and similar proteins; The ...
 218-257 6.11e-19

zinc finger HIT (zf-HIT) found in Box C/D snoRNA protein 1 (BCD1) and similar proteins; The zf-HIT domain-containing family includes BCD1 and its yeast counterpart Bcd1p, both of which have been characterized as assembly factors for box C/D snoRNPs. BCD1, also known as serologically defined breast cancer antigen NY-BR-75 or zinc finger HIT domain-containing protein 6 (ZNHIT6), is required for the accumulation, processing, transport, and biogenesis of box C/D snoRNAs, specifically U3 and U8, in the nucleoplasm. Bcd1p is essential for cellular viability in Saccharomyces cerevisiae and contributes to the specific stability of box C/D snoRNAs. Members of this family contain a zf-HIT domain, characterized by a fold in "treble-clef" through interleaved CCCC and CCHC ZnF motifs that both bind a zinc atom. The zf-HIT domain of Bcd1p is necessary but not sufficient for yeast growth, and although it lacks direct RNA-binding capacity, it helps Bcd1p maintain steady-state levels of box C/D snoRNAs. Additionally, the zf-HIT domain of Bcd1p is functionally interchangeable with that of Hit1p, another box C/D snoRNP assembly factor belonging to the zf-HIT family.


:

Pssm-ID: 467795  Cd Length: 40  Bit Score: 79.97  E-value: 6.11e-19
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 282165823 218 SRCETCGTEEAKYRCPRCMRYSCSLPCVKKHKAELTCNGV 257
Cdd:cd23023    1 GLCEVCGENEAKYTCPRCGARTCSLACVKAHKEETGCSGK 40
 
Name Accession Description Interval E-value
zf-HIT_BCD1 cd23023
zinc finger HIT (zf-HIT) found in Box C/D snoRNA protein 1 (BCD1) and similar proteins; The ...
 218-257 6.11e-19

zinc finger HIT (zf-HIT) found in Box C/D snoRNA protein 1 (BCD1) and similar proteins; The zf-HIT domain-containing family includes BCD1 and its yeast counterpart Bcd1p, both of which have been characterized as assembly factors for box C/D snoRNPs. BCD1, also known as serologically defined breast cancer antigen NY-BR-75 or zinc finger HIT domain-containing protein 6 (ZNHIT6), is required for the accumulation, processing, transport, and biogenesis of box C/D snoRNAs, specifically U3 and U8, in the nucleoplasm. Bcd1p is essential for cellular viability in Saccharomyces cerevisiae and contributes to the specific stability of box C/D snoRNAs. Members of this family contain a zf-HIT domain, characterized by a fold in "treble-clef" through interleaved CCCC and CCHC ZnF motifs that both bind a zinc atom. The zf-HIT domain of Bcd1p is necessary but not sufficient for yeast growth, and although it lacks direct RNA-binding capacity, it helps Bcd1p maintain steady-state levels of box C/D snoRNAs. Additionally, the zf-HIT domain of Bcd1p is functionally interchangeable with that of Hit1p, another box C/D snoRNP assembly factor belonging to the zf-HIT family.


Pssm-ID: 467795  Cd Length: 40  Bit Score: 79.97  E-value: 6.11e-19
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 282165823 218 SRCETCGTEEAKYRCPRCMRYSCSLPCVKKHKAELTCNGV 257
Cdd:cd23023    1 GLCEVCGENEAKYTCPRCGARTCSLACVKAHKEETGCSGK 40
zf-HIT pfam04438
HIT zinc finger; This presumed zinc finger contains up to 6 cysteine residues that could ...
 219-246 4.77e-07

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: 45.70  E-value: 4.77e-07
                          10        20
                  ....*....|....*....|....*...
gi 282165823  219 RCETCGtEEAKYRCPRCMRYSCSLPCVK 246
Cdd:pfam04438   4 LCSVCG-NPSKYRCPRCGVRYCSLECYK 30
 
Name Accession Description Interval E-value
zf-HIT_BCD1 cd23023
zinc finger HIT (zf-HIT) found in Box C/D snoRNA protein 1 (BCD1) and similar proteins; The ...
 218-257 6.11e-19

zinc finger HIT (zf-HIT) found in Box C/D snoRNA protein 1 (BCD1) and similar proteins; The zf-HIT domain-containing family includes BCD1 and its yeast counterpart Bcd1p, both of which have been characterized as assembly factors for box C/D snoRNPs. BCD1, also known as serologically defined breast cancer antigen NY-BR-75 or zinc finger HIT domain-containing protein 6 (ZNHIT6), is required for the accumulation, processing, transport, and biogenesis of box C/D snoRNAs, specifically U3 and U8, in the nucleoplasm. Bcd1p is essential for cellular viability in Saccharomyces cerevisiae and contributes to the specific stability of box C/D snoRNAs. Members of this family contain a zf-HIT domain, characterized by a fold in "treble-clef" through interleaved CCCC and CCHC ZnF motifs that both bind a zinc atom. The zf-HIT domain of Bcd1p is necessary but not sufficient for yeast growth, and although it lacks direct RNA-binding capacity, it helps Bcd1p maintain steady-state levels of box C/D snoRNAs. Additionally, the zf-HIT domain of Bcd1p is functionally interchangeable with that of Hit1p, another box C/D snoRNP assembly factor belonging to the zf-HIT family.


Pssm-ID: 467795  Cd Length: 40  Bit Score: 79.97  E-value: 6.11e-19
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 282165823 218 SRCETCGTEEAKYRCPRCMRYSCSLPCVKKHKAELTCNGV 257
Cdd:cd23023    1 GLCEVCGENEAKYTCPRCGARTCSLACVKAHKEETGCSGK 40
zf-HIT_ZNHIT2-3 cd23024
zinc finger HIT (zf-HIT) found in zinc finger HIT domain-containing protein 2 (ZNHIT2), 3 ...
 220-250 3.79e-10

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: 54.96  E-value: 3.79e-10
                         10        20        30
                 ....*....|....*....|....*....|.
gi 282165823 220 CETCGTEEAKYRCPRCMRYSCSLPCVKKHKA 250
Cdd:cd23024    3 CGVCNKNESKYKCPRCNIPYCSLACYKSHKE 33
zf-HIT pfam04438
HIT zinc finger; This presumed zinc finger contains up to 6 cysteine residues that could ...
 219-246 4.77e-07

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: 45.70  E-value: 4.77e-07
                          10        20
                  ....*....|....*....|....*...
gi 282165823  219 RCETCGtEEAKYRCPRCMRYSCSLPCVK 246
Cdd:pfam04438   4 LCSVCG-NPSKYRCPRCGVRYCSLECYK 30
zf-HIT cd23020
zinc finger HIT (zf-HIT) domain; The zinc finger HIT (zf-HIT) is a novel zinc-binding domain ...
 219-249 2.72e-06

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: 43.64  E-value: 2.72e-06
                         10        20        30
                 ....*....|....*....|....*....|.
gi 282165823 219 RCETCGTEEAKYRCPRCMRYSCSLPCVKKHK 249
Cdd:cd23020    1 TCGICGGYPGKYKCPRCGVPYCSLECYRKHL 31
zf-HIT_ZNHIT1_like cd21437
HIT zinc finger found in zinc finger HIT domain-containing protein 1 (ZNHIT1) and similar ...
 212-249 1.37e-03

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: 36.44  E-value: 1.37e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 282165823 212 KRKLamsrCETCGTEeAKYRCPRC-MRYsCSLPCVKKHK 249
Cdd:cd21437    6 PRKF----CSVCGYW-GKYTCVRCgARY-CSLKCLETHN 38
 
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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