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Conserved domains on  [gi|564364664|ref|XP_006243507|]
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high mobility group nucleosome-binding domain-containing protein 3 isoform X2 [Rattus norvegicus]

Protein Classification

high mobility group family protein( domain architecture ID 10471271)

high mobility group (HMG) family protein similar to human non-histone chromosomal protein HMG-14, also called high mobility group nucleosome-binding domain-containing protein 1, that binds to the inner side of the nucleosomal DNA thus altering the interaction between the DNA and the histone octamer

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HMG14_17 pfam01101
HMG14 and HMG17;
57-151 1.73e-11

HMG14 and HMG17;


:

Pssm-ID: 460064 [Multi-domain]  Cd Length: 90  Bit Score: 57.79  E-value: 1.73e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564364664   57 PKRKspenAEGKDGAklTKQEPTRRSARLSAKPVPPKPEPKPRKTSAKKEPGTKINRAAKGKKEEKQEAGKEGTAPSANG 136
Cdd:pfam01101   1 PKRK----ASSDKGK--VKEEPKRRSARLSAKPAPPKPEPKPKKASSDKKKGTKGKKGAKGKAAAGANQEKKGDNPAENG 74

                          90
                  ....*....|....*
gi 564364664  137 DTKAEEIHVSRSTVN 151
Cdd:pfam01101  75 EAKTEESPKSEGAGE 89
 
Name Accession Description Interval E-value
HMG14_17 pfam01101
HMG14 and HMG17;
57-151 1.73e-11

HMG14 and HMG17;


Pssm-ID: 460064 [Multi-domain]  Cd Length: 90  Bit Score: 57.79  E-value: 1.73e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564364664   57 PKRKspenAEGKDGAklTKQEPTRRSARLSAKPVPPKPEPKPRKTSAKKEPGTKINRAAKGKKEEKQEAGKEGTAPSANG 136
Cdd:pfam01101   1 PKRK----ASSDKGK--VKEEPKRRSARLSAKPAPPKPEPKPKKASSDKKKGTKGKKGAKGKAAAGANQEKKGDNPAENG 74

                          90
                  ....*....|....*
gi 564364664  137 DTKAEEIHVSRSTVN 151
Cdd:pfam01101  75 EAKTEESPKSEGAGE 89
HMG17 smart00527
domain in high mobilty group proteins HMG14 and HMG 17;
57-142 3.00e-10

domain in high mobilty group proteins HMG14 and HMG 17;


Pssm-ID: 197773 [Multi-domain]  Cd Length: 88  Bit Score: 54.57  E-value: 3.00e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564364664    57 PKRKsPENAEGKDgakltKQEPTRRSARLSAKPVPPKPEPKPRKTSAKKEP---GTKINRAAKGKkeEKQEAGKEGTAPS 133
Cdd:smart00527   1 PKRK-VAAGEGDD-----KDEPKRRSARLSAKPAPPKPEPKPKKAAAKKKSenvAAKGKKGAKGK--QTEEAGKEENNPA 72


                   ....*....
gi 564364664   134 ANGDTKAEE 142
Cdd:smart00527  73 ENGETKSEE 81
 
Name Accession Description Interval E-value
HMG14_17 pfam01101
HMG14 and HMG17;
57-151 1.73e-11

HMG14 and HMG17;


Pssm-ID: 460064 [Multi-domain]  Cd Length: 90  Bit Score: 57.79  E-value: 1.73e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564364664   57 PKRKspenAEGKDGAklTKQEPTRRSARLSAKPVPPKPEPKPRKTSAKKEPGTKINRAAKGKKEEKQEAGKEGTAPSANG 136
Cdd:pfam01101   1 PKRK----ASSDKGK--VKEEPKRRSARLSAKPAPPKPEPKPKKASSDKKKGTKGKKGAKGKAAAGANQEKKGDNPAENG 74

                          90
                  ....*....|....*
gi 564364664  137 DTKAEEIHVSRSTVN 151
Cdd:pfam01101  75 EAKTEESPKSEGAGE 89
HMG17 smart00527
domain in high mobilty group proteins HMG14 and HMG 17;
57-142 3.00e-10

domain in high mobilty group proteins HMG14 and HMG 17;


Pssm-ID: 197773 [Multi-domain]  Cd Length: 88  Bit Score: 54.57  E-value: 3.00e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564364664    57 PKRKsPENAEGKDgakltKQEPTRRSARLSAKPVPPKPEPKPRKTSAKKEP---GTKINRAAKGKkeEKQEAGKEGTAPS 133
Cdd:smart00527   1 PKRK-VAAGEGDD-----KDEPKRRSARLSAKPAPPKPEPKPKKAAAKKKSenvAAKGKKGAKGK--QTEEAGKEENNPA 72


                   ....*....
gi 564364664   134 ANGDTKAEE 142
Cdd:smart00527  73 ENGETKSEE 81
 
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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