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Conserved domains on  [gi|1609559146|ref|NP_001356410|]
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nuclear factor 1 B-type isoform 28 [Homo sapiens]

Protein Classification

NfI_DNAbd_pre-N and MH1 domain-containing protein( domain architecture ID 10565272)

NfI_DNAbd_pre-N and MH1 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NfI_DNAbd_pre-N pfam10524
Nuclear factor I protein pre-N-terminus; The Nuclear factor I (NFI) family of site-specific ...
 10-47 1.37e-19

Nuclear factor I protein pre-N-terminus; The Nuclear factor I (NFI) family of site-specific DNA-binding proteins (also known as CTF or CAAT box transcription factor) functions both in viral DNA replication and in the regulation of gene expression in higher organizms. The N-terminal 200 residues contains the DNA-binding and dimerization domain, but also has an 8-47 residue highly conserved region 5' of this, whose function is not known. Deletion of the N-terminal 200 amino acids removes the DNA-binding activity, dimerization-ability and the stimulation of adenovirus DNA replication.


:

Pssm-ID: 463134  Cd Length: 41  Bit Score: 78.03  E-value: 1.37e-19
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1609559146  10 QDEFHPFIEALLPHVRAIAYTWFNLQARKRKYFKKHEK 47
Cdd:pfam10524   4 QEDFHPFIEALLPYVKAFAYTWFNLQAAKRRHYKKHDK 41
MH1 super family cl45991
MH1 domain; The MH1 (MAD homology 1) domain is found at the amino terminus of MAD related ...
 69-173 1.37e-15

MH1 domain; The MH1 (MAD homology 1) domain is found at the amino terminus of MAD related proteins such as Smads. This domain is separated from the MH2 domain by a non-conserved linker region. The crystal structure of the MH1 domain shows that a highly conserved 11 residue beta hairpin is used to bind the DNA consensus sequence GNCN in the major groove, shown to be vital for the transcriptional activation of target genes. Not all examples of MH1 can bind to DNA however. Smad2 cannot bind DNA and has a large insertion within the hairpin that presumably abolishes DNA binding. A basic helix (H2) in MH1 with the nuclear localization signal KKLKK has been shown to be essential for Smad3 nuclear import. Smads also use the MH1 domain to interact with transcription factors such as Jun, TFE3, Sp1, and Runx.


The actual alignment was detected with superfamily member pfam03165:

Pssm-ID: 460833  Cd Length: 103  Bit Score: 69.32  E-value: 1.37e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1609559146  69 KQKWASRLLAKLRKDIrqEYREDFVLTVTGK---KHPCCVLSN--------PDQKGKIRRIDClrqadKVWRL-DLVMVI 136
Cdd:pfam03165   1 LKKAVESLLKKLKKKI--QQLEELELAVESRgdpPTGCVTIPRsldgrlqvAGRKGLPHVIYC-----RLWRWpDLQSQH 73

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1609559146 137 LFKGIPLESTDGErlMKSPHCtnpalCVQPHHITVSV 173
Cdd:pfam03165  74 ELKAIPTCETAFE--SKKDEV-----CINPYHYSRVE 103
 
Name Accession Description Interval E-value
NfI_DNAbd_pre-N pfam10524
Nuclear factor I protein pre-N-terminus; The Nuclear factor I (NFI) family of site-specific ...
 10-47 1.37e-19

Nuclear factor I protein pre-N-terminus; The Nuclear factor I (NFI) family of site-specific DNA-binding proteins (also known as CTF or CAAT box transcription factor) functions both in viral DNA replication and in the regulation of gene expression in higher organizms. The N-terminal 200 residues contains the DNA-binding and dimerization domain, but also has an 8-47 residue highly conserved region 5' of this, whose function is not known. Deletion of the N-terminal 200 amino acids removes the DNA-binding activity, dimerization-ability and the stimulation of adenovirus DNA replication.


Pssm-ID: 463134  Cd Length: 41  Bit Score: 78.03  E-value: 1.37e-19
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1609559146  10 QDEFHPFIEALLPHVRAIAYTWFNLQARKRKYFKKHEK 47
Cdd:pfam10524   4 QEDFHPFIEALLPYVKAFAYTWFNLQAAKRRHYKKHDK 41
MH1 pfam03165
MH1 domain; The MH1 (MAD homology 1) domain is found at the amino terminus of MAD related ...
 69-173 1.37e-15

MH1 domain; The MH1 (MAD homology 1) domain is found at the amino terminus of MAD related proteins such as Smads. This domain is separated from the MH2 domain by a non-conserved linker region. The crystal structure of the MH1 domain shows that a highly conserved 11 residue beta hairpin is used to bind the DNA consensus sequence GNCN in the major groove, shown to be vital for the transcriptional activation of target genes. Not all examples of MH1 can bind to DNA however. Smad2 cannot bind DNA and has a large insertion within the hairpin that presumably abolishes DNA binding. A basic helix (H2) in MH1 with the nuclear localization signal KKLKK has been shown to be essential for Smad3 nuclear import. Smads also use the MH1 domain to interact with transcription factors such as Jun, TFE3, Sp1, and Runx.


Pssm-ID: 460833  Cd Length: 103  Bit Score: 69.32  E-value: 1.37e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1609559146  69 KQKWASRLLAKLRKDIrqEYREDFVLTVTGK---KHPCCVLSN--------PDQKGKIRRIDClrqadKVWRL-DLVMVI 136
Cdd:pfam03165   1 LKKAVESLLKKLKKKI--QQLEELELAVESRgdpPTGCVTIPRsldgrlqvAGRKGLPHVIYC-----RLWRWpDLQSQH 73

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1609559146 137 LFKGIPLESTDGErlMKSPHCtnpalCVQPHHITVSV 173
Cdd:pfam03165  74 ELKAIPTCETAFE--SKKDEV-----CINPYHYSRVE 103
DWA smart00523
Domain A in dwarfin family proteins;
68-176 1.52e-15

Domain A in dwarfin family proteins;


Pssm-ID: 214708  Cd Length: 109  Bit Score: 69.33  E-value: 1.52e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1609559146   68 IKQKWASRLLAKLRKDIRQEYREDFVLTVTGKKHPC--CVLSNPDQKGKirridcLRQADKVWRLDLVMVILFKGIPLES 145
Cdd:smart00523   1 VEEKWAKKATESLLKKLKKKQLEELLQAVESKGGPPtrCVLIPRSLDGR------LQVAHRKGLPHVLYCRLFRWPDLQS 74

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 1609559146  146 tdGERLMKSPHC------TNPALCVQPHHITVSVKEL 176
Cdd:smart00523  75 --PHELKALPTCehafesKSDEVCCNPYHYSRVERPE 109
 
Name Accession Description Interval E-value
NfI_DNAbd_pre-N pfam10524
Nuclear factor I protein pre-N-terminus; The Nuclear factor I (NFI) family of site-specific ...
 10-47 1.37e-19

Nuclear factor I protein pre-N-terminus; The Nuclear factor I (NFI) family of site-specific DNA-binding proteins (also known as CTF or CAAT box transcription factor) functions both in viral DNA replication and in the regulation of gene expression in higher organizms. The N-terminal 200 residues contains the DNA-binding and dimerization domain, but also has an 8-47 residue highly conserved region 5' of this, whose function is not known. Deletion of the N-terminal 200 amino acids removes the DNA-binding activity, dimerization-ability and the stimulation of adenovirus DNA replication.


Pssm-ID: 463134  Cd Length: 41  Bit Score: 78.03  E-value: 1.37e-19
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1609559146  10 QDEFHPFIEALLPHVRAIAYTWFNLQARKRKYFKKHEK 47
Cdd:pfam10524   4 QEDFHPFIEALLPYVKAFAYTWFNLQAAKRRHYKKHDK 41
MH1 pfam03165
MH1 domain; The MH1 (MAD homology 1) domain is found at the amino terminus of MAD related ...
 69-173 1.37e-15

MH1 domain; The MH1 (MAD homology 1) domain is found at the amino terminus of MAD related proteins such as Smads. This domain is separated from the MH2 domain by a non-conserved linker region. The crystal structure of the MH1 domain shows that a highly conserved 11 residue beta hairpin is used to bind the DNA consensus sequence GNCN in the major groove, shown to be vital for the transcriptional activation of target genes. Not all examples of MH1 can bind to DNA however. Smad2 cannot bind DNA and has a large insertion within the hairpin that presumably abolishes DNA binding. A basic helix (H2) in MH1 with the nuclear localization signal KKLKK has been shown to be essential for Smad3 nuclear import. Smads also use the MH1 domain to interact with transcription factors such as Jun, TFE3, Sp1, and Runx.


Pssm-ID: 460833  Cd Length: 103  Bit Score: 69.32  E-value: 1.37e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1609559146  69 KQKWASRLLAKLRKDIrqEYREDFVLTVTGK---KHPCCVLSN--------PDQKGKIRRIDClrqadKVWRL-DLVMVI 136
Cdd:pfam03165   1 LKKAVESLLKKLKKKI--QQLEELELAVESRgdpPTGCVTIPRsldgrlqvAGRKGLPHVIYC-----RLWRWpDLQSQH 73

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1609559146 137 LFKGIPLESTDGErlMKSPHCtnpalCVQPHHITVSV 173
Cdd:pfam03165  74 ELKAIPTCETAFE--SKKDEV-----CINPYHYSRVE 103
DWA smart00523
Domain A in dwarfin family proteins;
68-176 1.52e-15

Domain A in dwarfin family proteins;


Pssm-ID: 214708  Cd Length: 109  Bit Score: 69.33  E-value: 1.52e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1609559146   68 IKQKWASRLLAKLRKDIRQEYREDFVLTVTGKKHPC--CVLSNPDQKGKirridcLRQADKVWRLDLVMVILFKGIPLES 145
Cdd:smart00523   1 VEEKWAKKATESLLKKLKKKQLEELLQAVESKGGPPtrCVLIPRSLDGR------LQVAHRKGLPHVLYCRLFRWPDLQS 74

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 1609559146  146 tdGERLMKSPHC------TNPALCVQPHHITVSVKEL 176
Cdd:smart00523  75 --PHELKALPTCehafesKSDEVCCNPYHYSRVERPE 109
 
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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