NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2002763931|emb|CAF5708109|]
View 

unnamed protein product, partial [Oxyrrhis marina]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Smc super family cl34174
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 139-245 7.33e-05

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


The actual alignment was detected with superfamily member COG1196:

Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 45.31  E-value: 7.33e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931 139 AALALQRTERNALEESESAVQQVRQIAESSRNEMEAVLEQKTAVERQLEAATTEMRLKIRMLDEELGTTLQQLEQTEQET 218
Cdd:COG1196   246 AELEELEAELEELEAELAELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEEL 325

                          90       100
                  ....*....|....*....|....*..
gi 2002763931 219 RTIREQGQHHFGQLTKVQAQLEEYKEE 245
Cdd:COG1196   326 AELEEELEELEEELEELEEELEEAEEE 352
 
Name Accession Description Interval E-value
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 139-245 7.33e-05

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 45.31  E-value: 7.33e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931 139 AALALQRTERNALEESESAVQQVRQIAESSRNEMEAVLEQKTAVERQLEAATTEMRLKIRMLDEELGTTLQQLEQTEQET 218
Cdd:COG1196   246 AELEELEAELEELEAELAELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEEL 325

                          90       100
                  ....*....|....*....|....*..
gi 2002763931 219 RTIREQGQHHFGQLTKVQAQLEEYKEE 245
Cdd:COG1196   326 AELEEELEELEEELEELEEELEEAEEE 352
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 138-278 2.41e-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: 40.43  E-value: 2.41e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931  138 TAALALQRTERNALEESESAVQQVRQIAESSRNEMEAVLEQKTAVERQLEAATTEMRLKIRMLDEELGTTLQQLEQTEQE 217
Cdd:TIGR02168  697 EKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEE 776

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2002763931  218 TRTIREqgqhhfgQLTKVQAQLEEYKEENNTDIRIG---QSSLFDTlvHMFFFVLKERYGSLEK 278
Cdd:TIGR02168  777 LAEAEA-------EIEELEAQIEQLKEELKALREALdelRAELTLL--NEEAANLRERLESLER 831
 
Name Accession Description Interval E-value
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 139-245 7.33e-05

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 45.31  E-value: 7.33e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931 139 AALALQRTERNALEESESAVQQVRQIAESSRNEMEAVLEQKTAVERQLEAATTEMRLKIRMLDEELGTTLQQLEQTEQET 218
Cdd:COG1196   246 AELEELEAELEELEAELAELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEEL 325

                          90       100
                  ....*....|....*....|....*..
gi 2002763931 219 RTIREQGQHHFGQLTKVQAQLEEYKEE 245
Cdd:COG1196   326 AELEEELEELEEELEELEEELEEAEEE 352
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 138-278 2.41e-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: 40.43  E-value: 2.41e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931  138 TAALALQRTERNALEESESAVQQVRQIAESSRNEMEAVLEQKTAVERQLEAATTEMRLKIRMLDEELGTTLQQLEQTEQE 217
Cdd:TIGR02168  697 EKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEE 776

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2002763931  218 TRTIREqgqhhfgQLTKVQAQLEEYKEENNTDIRIG---QSSLFDTlvHMFFFVLKERYGSLEK 278
Cdd:TIGR02168  777 LAEAEA-------EIEELEAQIEQLKEELKALREALdelRAELTLL--NEEAANLRERLESLER 831
COG4372 COG4372
Uncharacterized protein, contains DUF3084 domain [Function unknown];
148-247 3.43e-03

Uncharacterized protein, contains DUF3084 domain [Function unknown];


Pssm-ID: 443500 [Multi-domain]  Cd Length: 370  Bit Score: 39.50  E-value: 3.43e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931 148 RNALEESESAVQQVRQIAESSRNEMEAVLEQKTAVERQLEAATTEMRL---KIRMLDEELGTTLQQLEQTEQETRTIREQ 224
Cdd:COG4372    51 REELEQAREELEQLEEELEQARSELEQLEEELEELNEQLQAAQAELAQaqeELESLQEEAEELQEELEELQKERQDLEQQ 130

                          90       100
                  ....*....|....*....|...
gi 2002763931 225 GQHHFGQLTKVQAQLEEYKEENN 247
Cdd:COG4372   131 RKQLEAQIAELQSEIAEREEELK 153
SMC_prok_A TIGR02169
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ...
 147-244 4.18e-03

chromosome segregation protein SMC, primarily archaeal 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. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274009 [Multi-domain]  Cd Length: 1164  Bit Score: 39.67  E-value: 4.18e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931  147 ERNALEESESAVQQVRQIAESSRNEMEAVLEQKTAVERQLEAATTEMRLKIRMLDEELGttlqQLEQTEQETRTIREQGQ 226
Cdd:TIGR02169  841 QRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLR----ELERKIEELEAQIEKKR 916

                           90
                   ....*....|....*....
gi 2002763931  227 HHFGQL-TKVQAQLEEYKE 244
Cdd:TIGR02169  917 KRLSELkAKLEALEEELSE 935
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 145-245 4.72e-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: 4.72e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931  145 RTERNALEESESAVQQVRQIAESSRNEMEAVLEQKTAVERQLEAATTEMRLKIRMLDEELGTTLQQLEQTEQETRTIREQ 224
Cdd:TIGR02168  683 EEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAE 762

                           90       100
                   ....*....|....*....|.
gi 2002763931  225 GQHHFGQLTKVQAQLEEYKEE 245
Cdd:TIGR02168  763 IEELEERLEEAEEELAEAEAE 783
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 98-245 7.82e-03

Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 38.76  E-value: 7.82e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2002763931  98 LHLRKHDAHRVKAKKVAVRIAASLVASVDRLALgrlwngWTAALALQRTERNALEESESAVQQVRQIAESSRNEMEAVLE 177
Cdd:COG1196   232 LKLRELEAELEELEAELEELEAELEELEAELAE------LEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIA 305

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2002763931 178 QKTAVERQLEAATTEmrlkirmLDEELGTTLQQLEQTEQETRTIREQGQHHFGQLTKVQAQLEEYKEE 245
Cdd:COG1196   306 RLEERRRELEERLEE-------LEEELAELEEELEELEEELEELEEELEEAEEELEEAEAELAEAEEA 366
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH