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Conserved domains on  [gi|2329485229|gb|UZO15321|]
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hypothetical protein OCT59_006750 [Rhizophagus irregularis]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CENP-B_N super family cl47877
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 3-53 1.80e-03

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


The actual alignment was detected with superfamily member pfam04218:

Pssm-ID: 461229  Cd Length: 53  Bit Score: 33.92  E-value: 1.80e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2329485229   3 RKRVILSATQKRELCETKEKNPnlSNISLAQQYRVGKSTITDILKEKERWL 53
Cdd:pfam04218   2 RKRRSLTLREKIAIIQRYEEGE--SKASLARRFGVPASTLRRILKNKKKLL 50
HTH_Tnp_Tc5 super family cl12115
Tc5 transposase DNA-binding domain;
70-106 3.41e-03

Tc5 transposase DNA-binding domain;


The actual alignment was detected with superfamily member pfam03221:

Pssm-ID: 472278  Cd Length: 63  Bit Score: 33.37  E-value: 3.41e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2329485229  70 WPQLENALSLWVDNALNTKQDIDGNILKTKASYFANQ 106
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELAQL 37
 
Name Accession Description Interval E-value
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 3-53 1.80e-03

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


Pssm-ID: 461229  Cd Length: 53  Bit Score: 33.92  E-value: 1.80e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2329485229   3 RKRVILSATQKRELCETKEKNPnlSNISLAQQYRVGKSTITDILKEKERWL 53
Cdd:pfam04218   2 RKRRSLTLREKIAIIQRYEEGE--SKASLARRFGVPASTLRRILKNKKKLL 50
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
70-106 3.41e-03

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 33.37  E-value: 3.41e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2329485229  70 WPQLENALSLWVDNALNTKQDIDGNILKTKASYFANQ 106
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELAQL 37
 
Name Accession Description Interval E-value
CENP-B_N pfam04218
CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein ...
 3-53 1.80e-03

CENP-B N-terminal DNA-binding domain; Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure.


Pssm-ID: 461229  Cd Length: 53  Bit Score: 33.92  E-value: 1.80e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2329485229   3 RKRVILSATQKRELCETKEKNPnlSNISLAQQYRVGKSTITDILKEKERWL 53
Cdd:pfam04218   2 RKRRSLTLREKIAIIQRYEEGE--SKASLARRFGVPASTLRRILKNKKKLL 50
HTH_Tnp_Tc5 pfam03221
Tc5 transposase DNA-binding domain;
70-106 3.41e-03

Tc5 transposase DNA-binding domain;


Pssm-ID: 460850  Cd Length: 63  Bit Score: 33.37  E-value: 3.41e-03
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2329485229  70 WPQLENALSLWVDNALNTKQDIDGNILKTKASYFANQ 106
Cdd:pfam03221   1 YPDLEKALYEWILQLRARGIPITGPMIREKALELAQL 37
 
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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