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Conserved domains on  [gi|18397669|ref|NP_566289|]
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PAPA-1-like family protein / zinc finger (HIT type) family protein [Arabidopsis thaliana]

Protein Classification

PAPA-1 and zf-HIT domain-containing protein( domain architecture ID 10521558)

PAPA-1 and zf-HIT domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PAPA-1 pfam04795
PAPA-1-like conserved region; Family of proteins with a conserved region found in PAPA-1, a ...
 282-363 2.75e-10

PAPA-1-like conserved region; Family of proteins with a conserved region found in PAPA-1, a PAP-1 binding protein.


:

Pssm-ID: 461431 [Multi-domain]  Cd Length: 78  Bit Score: 56.42  E-value: 2.75e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397669   282 EQQSKKAEAAQRRRMQCEKAAQEAEAEAIRKILGQDSGrkkreEKIKKQQEERAQERAARSSTLASNTIRLVIGPSGTTM 361
Cdd:pfam04795   1 EQALKRAEMARRRKNQSEKRLEEEKAETINKLLKKQAP-----KRKAAAEAELPENEATEPYRPNPQMIRWVSNPDGTTV 75


                  ..
gi 18397669   362 TF 363
Cdd:pfam04795  76 SV 77
zf-HIT super family cl04519
zinc finger HIT (zf-HIT) domain; The zinc finger HIT (zf-HIT) is a novel zinc-binding domain ...
 385-417 7.99e-09

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.


The actual alignment was detected with superfamily member cd23021:

Pssm-ID: 471044  Cd Length: 33  Bit Score: 50.74  E-value: 7.99e-09
                        10        20        30
                ....*....|....*....|....*....|...
gi 18397669 385 EKCVGPNCEKAYKYRDSKSKLPLCSLGCYNAIQ 417
Cdd:cd23021   1 ELCSVPGCTNPKKYRCSKTGVPVCSLECYKKNL 33
 
Name Accession Description Interval E-value
PAPA-1 pfam04795
PAPA-1-like conserved region; Family of proteins with a conserved region found in PAPA-1, a ...
 282-363 2.75e-10

PAPA-1-like conserved region; Family of proteins with a conserved region found in PAPA-1, a PAP-1 binding protein.


Pssm-ID: 461431 [Multi-domain]  Cd Length: 78  Bit Score: 56.42  E-value: 2.75e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397669   282 EQQSKKAEAAQRRRMQCEKAAQEAEAEAIRKILGQDSGrkkreEKIKKQQEERAQERAARSSTLASNTIRLVIGPSGTTM 361
Cdd:pfam04795   1 EQALKRAEMARRRKNQSEKRLEEEKAETINKLLKKQAP-----KRKAAAEAELPENEATEPYRPNPQMIRWVSNPDGTTV 75


                  ..
gi 18397669   362 TF 363
Cdd:pfam04795  76 SV 77
zf-HIT_IN80B cd23021
zinc finger HIT (zf-HIT) found in INO80 complex subunit B (INO80B) and similar proteins; ...
 385-417 7.99e-09

zinc finger HIT (zf-HIT) found in INO80 complex subunit B (INO80B) and similar proteins; INO80B, also called high mobility group AT-hook 1-like 4 (HMGA1L4), or IES2 homolog, or PAP-1-associated protein 1 (PAPA-1), or zinc finger HIT domain-containing protein 4 (ZNHIT4), is a nucleolar protein that induces growth and cell cycle arrests at the G1 phase of the cell cycle. It is a core component of the chromatin remodeling INO80 complex, which is involved in transcriptional regulation, DNA replication and probably DNA repair. INO80B harbors a zf-HIT domain which is characterized by a fold in "treble-clef" through interleaved CCCC and CCHC ZnF motifs that both bind a zinc atom. The yeast counterpart of INO80B is Ies2p (Ino eighty subunit 2), which doesn't have zf-HIT domain.


Pssm-ID: 467793  Cd Length: 33  Bit Score: 50.74  E-value: 7.99e-09
                        10        20        30
                ....*....|....*....|....*....|...
gi 18397669 385 EKCVGPNCEKAYKYRDSKSKLPLCSLGCYNAIQ 417
Cdd:cd23021   1 ELCSVPGCTNPKKYRCSKTGVPVCSLECYKKNL 33
zf-HIT pfam04438
HIT zinc finger; This presumed zinc finger contains up to 6 cysteine residues that could ...
 383-414 1.49e-06

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: 44.55  E-value: 1.49e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 18397669   383 PREKCVGpnCEKAYKYRDSKSKLPLCSLGCYN 414
Cdd:pfam04438   1 PRKLCSV--CGNPSKYRCPRCGVRYCSLECYK 30
 
Name Accession Description Interval E-value
PAPA-1 pfam04795
PAPA-1-like conserved region; Family of proteins with a conserved region found in PAPA-1, a ...
 282-363 2.75e-10

PAPA-1-like conserved region; Family of proteins with a conserved region found in PAPA-1, a PAP-1 binding protein.


Pssm-ID: 461431 [Multi-domain]  Cd Length: 78  Bit Score: 56.42  E-value: 2.75e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18397669   282 EQQSKKAEAAQRRRMQCEKAAQEAEAEAIRKILGQDSGrkkreEKIKKQQEERAQERAARSSTLASNTIRLVIGPSGTTM 361
Cdd:pfam04795   1 EQALKRAEMARRRKNQSEKRLEEEKAETINKLLKKQAP-----KRKAAAEAELPENEATEPYRPNPQMIRWVSNPDGTTV 75


                  ..
gi 18397669   362 TF 363
Cdd:pfam04795  76 SV 77
zf-HIT_IN80B cd23021
zinc finger HIT (zf-HIT) found in INO80 complex subunit B (INO80B) and similar proteins; ...
 385-417 7.99e-09

zinc finger HIT (zf-HIT) found in INO80 complex subunit B (INO80B) and similar proteins; INO80B, also called high mobility group AT-hook 1-like 4 (HMGA1L4), or IES2 homolog, or PAP-1-associated protein 1 (PAPA-1), or zinc finger HIT domain-containing protein 4 (ZNHIT4), is a nucleolar protein that induces growth and cell cycle arrests at the G1 phase of the cell cycle. It is a core component of the chromatin remodeling INO80 complex, which is involved in transcriptional regulation, DNA replication and probably DNA repair. INO80B harbors a zf-HIT domain which is characterized by a fold in "treble-clef" through interleaved CCCC and CCHC ZnF motifs that both bind a zinc atom. The yeast counterpart of INO80B is Ies2p (Ino eighty subunit 2), which doesn't have zf-HIT domain.


Pssm-ID: 467793  Cd Length: 33  Bit Score: 50.74  E-value: 7.99e-09
                        10        20        30
                ....*....|....*....|....*....|...
gi 18397669 385 EKCVGPNCEKAYKYRDSKSKLPLCSLGCYNAIQ 417
Cdd:cd23021   1 ELCSVPGCTNPKKYRCSKTGVPVCSLECYKKNL 33
zf-HIT pfam04438
HIT zinc finger; This presumed zinc finger contains up to 6 cysteine residues that could ...
 383-414 1.49e-06

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: 44.55  E-value: 1.49e-06
                          10        20        30
                  ....*....|....*....|....*....|..
gi 18397669   383 PREKCVGpnCEKAYKYRDSKSKLPLCSLGCYN 414
Cdd:pfam04438   1 PRKLCSV--CGNPSKYRCPRCGVRYCSLECYK 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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