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Conserved domains on  [gi|215765697|dbj|BAG87394|]
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unnamed protein product [Oryza sativa Japonica Group]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SMC_prok_B super family cl37069
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 133-283 2.27e-04

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]


The actual alignment was detected with superfamily member TIGR02168:

Pssm-ID: 274008 [Multi-domain]  Cd Length: 1179  Bit Score: 43.12  E-value: 2.27e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697   133 EKDQEISVARQRIEELEGLVCNKQKEICMLTSRLAAVDSMTHDIIRELLGVKLDMTNyanmlDQEELQKLLMASQQQIEQ 212
Cdd:TIGR02168  674 ERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISA-----LRKDLARLEAEVEQLEER 748

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 215765697   213 SKAKDVELDMLKEQFDHLIQERDSLFDDMDQRKADLLESQLLIEQLEQREQMLEAQNGILQMEKDNLQQRI 283
Cdd:TIGR02168  749 IAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEA 819
 
Name Accession Description Interval E-value
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 133-283 2.27e-04

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: 43.12  E-value: 2.27e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697   133 EKDQEISVARQRIEELEGLVCNKQKEICMLTSRLAAVDSMTHDIIRELLGVKLDMTNyanmlDQEELQKLLMASQQQIEQ 212
Cdd:TIGR02168  674 ERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISA-----LRKDLARLEAEVEQLEER 748

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 215765697   213 SKAKDVELDMLKEQFDHLIQERDSLFDDMDQRKADLLESQLLIEQLEQREQMLEAQNGILQMEKDNLQQRI 283
Cdd:TIGR02168  749 IAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEA 819
PRK12704 PRK12704
phosphodiesterase; Provisional
 196-291 1.95e-03

phosphodiesterase; Provisional


Pssm-ID: 237177 [Multi-domain]  Cd Length: 520  Bit Score: 40.15  E-value: 1.95e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697 196 QEELQKLLMASQQQIEQSK------AKDvELDMLKEQFDHLIQERDSLFDDMDQR---KADLLESQLliEQLEQREQMLE 266
Cdd:PRK12704  37 EEEAKRILEEAKKEAEAIKkealleAKE-EIHKLRNEFEKELRERRNELQKLEKRllqKEENLDRKL--ELLEKREEELE 113

                         90       100
                 ....*....|....*....|....*
gi 215765697 267 AQNGILQMEKDNLQQRIMEMDEEIQ 291
Cdd:PRK12704 114 KKEKELEQKQQELEKKEEELEELIE 138
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
141-268 4.81e-03

Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 39.13  E-value: 4.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697  141 ARQRIEELEGLVCNKQKEICMLTSRLAAVDSmTHDIIRELLGVKLDMTNYA-NMLDQEELQKLLMASQQQIEQSKAKDVE 219
Cdd:COG4913   608 NRAKLAALEAELAELEEELAEAEERLEALEA-ELDALQERREALQRLAEYSwDEIDVASAEREIAELEAELERLDASSDD 686

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 215765697  220 LDMLKEQFDHLIQERDSLFDDMDQRKADLLESQLLIEQLEQREQMLEAQ 268
Cdd:COG4913   687 LAALEEQLEELEAELEELEEELDELKGEIGRLEKELEQAEEELDELQDR 735
 
Name Accession Description Interval E-value
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 133-283 2.27e-04

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: 43.12  E-value: 2.27e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697   133 EKDQEISVARQRIEELEGLVCNKQKEICMLTSRLAAVDSMTHDIIRELLGVKLDMTNyanmlDQEELQKLLMASQQQIEQ 212
Cdd:TIGR02168  674 ERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISA-----LRKDLARLEAEVEQLEER 748

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 215765697   213 SKAKDVELDMLKEQFDHLIQERDSLFDDMDQRKADLLESQLLIEQLEQREQMLEAQNGILQMEKDNLQQRI 283
Cdd:TIGR02168  749 IAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEA 819
PRK12704 PRK12704
phosphodiesterase; Provisional
 196-291 1.95e-03

phosphodiesterase; Provisional


Pssm-ID: 237177 [Multi-domain]  Cd Length: 520  Bit Score: 40.15  E-value: 1.95e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697 196 QEELQKLLMASQQQIEQSK------AKDvELDMLKEQFDHLIQERDSLFDDMDQR---KADLLESQLliEQLEQREQMLE 266
Cdd:PRK12704  37 EEEAKRILEEAKKEAEAIKkealleAKE-EIHKLRNEFEKELRERRNELQKLEKRllqKEENLDRKL--ELLEKREEELE 113

                         90       100
                 ....*....|....*....|....*
gi 215765697 267 AQNGILQMEKDNLQQRIMEMDEEIQ 291
Cdd:PRK12704 114 KKEKELEQKQQELEKKEEELEELIE 138
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 127-285 3.64e-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: 39.27  E-value: 3.64e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697   127 VQQMNSEKDQ---EISVARQRIEELEGLVCNKQKEICMLTSRLAAVDSMTHDIIRELLGVKLDMTNYAnmLDQEELQKLL 203
Cdd:TIGR02168  791 IEQLKEELKAlreALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLA--AEIEELEELI 868

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697   204 MASQQQIE----QSKAKDVELDMLKEQFDHLIQERDSLFDDMDQRKADLLESQLLIEQLEQREQmleaqngILQMEKDNL 279
Cdd:TIGR02168  869 EELESELEallnERASLEEALALLRSELEELSEELRELESKRSELRRELEELREKLAQLELRLE-------GLEVRIDNL 941


                   ....*.
gi 215765697   280 QQRIME 285
Cdd:TIGR02168  942 QERLSE 947
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
141-268 4.81e-03

Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 39.13  E-value: 4.81e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 215765697  141 ARQRIEELEGLVCNKQKEICMLTSRLAAVDSmTHDIIRELLGVKLDMTNYA-NMLDQEELQKLLMASQQQIEQSKAKDVE 219
Cdd:COG4913   608 NRAKLAALEAELAELEEELAEAEERLEALEA-ELDALQERREALQRLAEYSwDEIDVASAEREIAELEAELERLDASSDD 686

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 215765697  220 LDMLKEQFDHLIQERDSLFDDMDQRKADLLESQLLIEQLEQREQMLEAQ 268
Cdd:COG4913   687 LAALEEQLEELEAELEELEEELDELKGEIGRLEKELEQAEEELDELQDR 735
 
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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