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Conserved domains on  [gi|1070101345|ref|YP_009285301|]
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chromosome segregation protein [Bacillus phage PfEFR-5]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG2433 super family cl43687
Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];
18-86 1.72e-03

Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];


The actual alignment was detected with superfamily member COG2433:

Pssm-ID: 441980 [Multi-domain]  Cd Length: 644  Bit Score: 35.22  E-value: 1.72e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1070101345  18 VKQLKQRNKEIELLRASRDSSIHEY-RQLfnERMKLKEEIEFLKDD-VQIRDEHIERLEKELQEYKRAASK 86
Cdd:COG2433   422 VERLEAEVEELEAELEEKDERIERLeREL--SEARSEERREIRKDReISRLDREIERLERELEEERERIEE 490
 
Name Accession Description Interval E-value
COG2433 COG2433
Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];
18-86 1.72e-03

Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];


Pssm-ID: 441980 [Multi-domain]  Cd Length: 644  Bit Score: 35.22  E-value: 1.72e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1070101345  18 VKQLKQRNKEIELLRASRDSSIHEY-RQLfnERMKLKEEIEFLKDD-VQIRDEHIERLEKELQEYKRAASK 86
Cdd:COG2433   422 VERLEAEVEELEAELEEKDERIERLeREL--SEARSEERREIRKDReISRLDREIERLERELEEERERIEE 490
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 5-86 9.69e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 33.49  E-value: 9.69e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1070101345    5 TKYQLLKADFDHA-----VKQLKQRNKEIELLRASRDSSIHEYRQLFNERMKLKEEIEFLKDDVQIRDEHIERLEKELQE 79
Cdd:TIGR02168  213 ERYKELKAELRELelallVLRLEELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYA 292


                   ....*..
gi 1070101345   80 YKRAASK 86
Cdd:TIGR02168  293 LANEISR 299
 
Name Accession Description Interval E-value
COG2433 COG2433
Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];
18-86 1.72e-03

Possible nuclease of RNase H fold, RuvC/YqgF family [General function prediction only];


Pssm-ID: 441980 [Multi-domain]  Cd Length: 644  Bit Score: 35.22  E-value: 1.72e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1070101345  18 VKQLKQRNKEIELLRASRDSSIHEY-RQLfnERMKLKEEIEFLKDD-VQIRDEHIERLEKELQEYKRAASK 86
Cdd:COG2433   422 VERLEAEVEELEAELEEKDERIERLeREL--SEARSEERREIRKDReISRLDREIERLERELEEERERIEE 490
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 5-86 9.69e-03

chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 33.49  E-value: 9.69e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1070101345    5 TKYQLLKADFDHA-----VKQLKQRNKEIELLRASRDSSIHEYRQLFNERMKLKEEIEFLKDDVQIRDEHIERLEKELQE 79
Cdd:TIGR02168  213 ERYKELKAELRELelallVLRLEELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYA 292


                   ....*..
gi 1070101345   80 YKRAASK 86
Cdd:TIGR02168  293 LANEISR 299
 
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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