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Conserved domains on  [gi|655877137|ref|XP_008271195|]
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high mobility group nucleosome-binding domain-containing protein 5 [Oryctolagus cuniculus]

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;
2-96 3.04e-10

HMG14 and HMG17;


:

Pssm-ID: 460064 [Multi-domain]  Cd Length: 90  Bit Score: 55.86  E-value: 3.04e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137    2 PKRKAAV-QGDVRQEPKRRSARLSALPAPIIPEVKPKRASTPRKMKTKNDTlEQNTDTSAKVIAETKQEEAvkeqsSKNG 80
Cdd:pfam01101   1 PKRKASSdKGKVKEEPKRRSARLSAKPAPPKPEPKPKKASSDKKKGTKGKK-GAKGKAAAGANQEKKGDNP-----AENG 74

                          90
                  ....*....|....*.
gi 655877137   81 ESKIVEAPVPEKETEE 96
Cdd:pfam01101  75 EAKTEESPKSEGAGEK 90
2A1904 super family cl36772
K+-dependent Na+/Ca+ exchanger; [Transport and binding proteins, Cations and iron carrying ...
 50-197 3.22e-04

K+-dependent Na+/Ca+ exchanger; [Transport and binding proteins, Cations and iron carrying compounds]


The actual alignment was detected with superfamily member TIGR00927:

Pssm-ID: 273344 [Multi-domain]  Cd Length: 1096  Bit Score: 42.29  E-value: 3.22e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137    50 DTLEQNTDTSAKviAETKQEEAVKEQSSKNGESKIVEAPVPEKETEESKEISEDIEE------EGGENKEAVEEDKKDED 123
Cdd:TIGR00927  726 TEDEGEIETGEE--GEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEgeiqagEDGEMKGDEGAEGKVEH 803

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 655877137   124 INKEEKGEDGKEEQDEEEKKDGKENKDGnkEGEDRKEGEDQEEKGDEKDGEDGKGKGAGVKEDEFGKEDRKEED 197
Cdd:TIGR00927  804 EGETEAGEKDEHEGQSETQADDTEVKDE--TGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEE 875
 
Name Accession Description Interval E-value
HMG14_17 pfam01101
HMG14 and HMG17;
2-96 3.04e-10

HMG14 and HMG17;


Pssm-ID: 460064 [Multi-domain]  Cd Length: 90  Bit Score: 55.86  E-value: 3.04e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137    2 PKRKAAV-QGDVRQEPKRRSARLSALPAPIIPEVKPKRASTPRKMKTKNDTlEQNTDTSAKVIAETKQEEAvkeqsSKNG 80
Cdd:pfam01101   1 PKRKASSdKGKVKEEPKRRSARLSAKPAPPKPEPKPKKASSDKKKGTKGKK-GAKGKAAAGANQEKKGDNP-----AENG 74

                          90
                  ....*....|....*.
gi 655877137   81 ESKIVEAPVPEKETEE 96
Cdd:pfam01101  75 EAKTEESPKSEGAGEK 90
HMG17 smart00527
domain in high mobilty group proteins HMG14 and HMG 17;
2-91 1.36e-04

domain in high mobilty group proteins HMG14 and HMG 17;


Pssm-ID: 197773 [Multi-domain]  Cd Length: 88  Bit Score: 39.93  E-value: 1.36e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137     2 PKRK-AAVQGDVRQEPKRRSARLSALPAPIIPEVKPKRASTPRKmktknDTLEQNTDTSAKVIAETKQEEAVKEQSSKNG 80
Cdd:smart00527   1 PKRKvAAGEGDDKDEPKRRSARLSAKPAPPKPEPKPKKAAAKKK-----SENVAAKGKKGAKGKQTEEAGKEENNPAENG 75

                           90
                   ....*....|.
gi 655877137    81 ESKIVEAPVPE 91
Cdd:smart00527  76 ETKSEEAPAAE 86
2A1904 TIGR00927
K+-dependent Na+/Ca+ exchanger; [Transport and binding proteins, Cations and iron carrying ...
 50-197 3.22e-04

K+-dependent Na+/Ca+ exchanger; [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273344 [Multi-domain]  Cd Length: 1096  Bit Score: 42.29  E-value: 3.22e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137    50 DTLEQNTDTSAKviAETKQEEAVKEQSSKNGESKIVEAPVPEKETEESKEISEDIEE------EGGENKEAVEEDKKDED 123
Cdd:TIGR00927  726 TEDEGEIETGEE--GEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEgeiqagEDGEMKGDEGAEGKVEH 803

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 655877137   124 INKEEKGEDGKEEQDEEEKKDGKENKDGnkEGEDRKEGEDQEEKGDEKDGEDGKGKGAGVKEDEFGKEDRKEED 197
Cdd:TIGR00927  804 EGETEAGEKDEHEGQSETQADDTEVKDE--TGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEE 875
 
Name Accession Description Interval E-value
HMG14_17 pfam01101
HMG14 and HMG17;
2-96 3.04e-10

HMG14 and HMG17;


Pssm-ID: 460064 [Multi-domain]  Cd Length: 90  Bit Score: 55.86  E-value: 3.04e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137    2 PKRKAAV-QGDVRQEPKRRSARLSALPAPIIPEVKPKRASTPRKMKTKNDTlEQNTDTSAKVIAETKQEEAvkeqsSKNG 80
Cdd:pfam01101   1 PKRKASSdKGKVKEEPKRRSARLSAKPAPPKPEPKPKKASSDKKKGTKGKK-GAKGKAAAGANQEKKGDNP-----AENG 74

                          90
                  ....*....|....*.
gi 655877137   81 ESKIVEAPVPEKETEE 96
Cdd:pfam01101  75 EAKTEESPKSEGAGEK 90
HMG17 smart00527
domain in high mobilty group proteins HMG14 and HMG 17;
2-91 1.36e-04

domain in high mobilty group proteins HMG14 and HMG 17;


Pssm-ID: 197773 [Multi-domain]  Cd Length: 88  Bit Score: 39.93  E-value: 1.36e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137     2 PKRK-AAVQGDVRQEPKRRSARLSALPAPIIPEVKPKRASTPRKmktknDTLEQNTDTSAKVIAETKQEEAVKEQSSKNG 80
Cdd:smart00527   1 PKRKvAAGEGDDKDEPKRRSARLSAKPAPPKPEPKPKKAAAKKK-----SENVAAKGKKGAKGKQTEEAGKEENNPAENG 75

                           90
                   ....*....|.
gi 655877137    81 ESKIVEAPVPE 91
Cdd:smart00527  76 ETKSEEAPAAE 86
2A1904 TIGR00927
K+-dependent Na+/Ca+ exchanger; [Transport and binding proteins, Cations and iron carrying ...
 50-197 3.22e-04

K+-dependent Na+/Ca+ exchanger; [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273344 [Multi-domain]  Cd Length: 1096  Bit Score: 42.29  E-value: 3.22e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137    50 DTLEQNTDTSAKviAETKQEEAVKEQSSKNGESKIVEAPVPEKETEESKEISEDIEE------EGGENKEAVEEDKKDED 123
Cdd:TIGR00927  726 TEDEGEIETGEE--GEEVEDEGEGEAEGKHEVETEGDRKETEHEGETEAEGKEDEDEgeiqagEDGEMKGDEGAEGKVEH 803

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 655877137   124 INKEEKGEDGKEEQDEEEKKDGKENKDGnkEGEDRKEGEDQEEKGDEKDGEDGKGKGAGVKEDEFGKEDRKEED 197
Cdd:TIGR00927  804 EGETEAGEKDEHEGQSETQADDTEVKDE--TGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEEEEEEE 875
2A1904 TIGR00927
K+-dependent Na+/Ca+ exchanger; [Transport and binding proteins, Cations and iron carrying ...
 60-211 4.71e-03

K+-dependent Na+/Ca+ exchanger; [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273344 [Multi-domain]  Cd Length: 1096  Bit Score: 38.44  E-value: 4.71e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137    60 AKVIAETKQEEAVKEQSSKNGESKIVEAPVPEKETEESKEISEDIEEEGGENKEAVEE--------DKKDEDINKEEKGE 131
Cdd:TIGR00927  622 AKVMALGDLSKGDVAEAEHTGERTGEEGERPTEAEGENGEESGGEAEQEGETETKGENesegeipaERKGEQEGEGEIEA 701

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 655877137   132 DGKEEQDEEEKKDGKENKDGNKEGeDRKEGEDQEEKGDEKDGEDGKGKGAGVKEDEFgKEDRKEEDNKDGADEKDKEDEN 211
Cdd:TIGR00927  702 KEADHKGETEAEEVEHEGETEAEG-TEDEGEIETGEEGEEVEDEGEGEAEGKHEVET-EGDRKETEHEGETEAEGKEDED 779
 
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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