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Conserved domains on  [gi|1800525115|ref|WP_160378910|]
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DNA-binding protein [Escherichia coli]

Protein Classification

DNA-binding protein( domain architecture ID 10569863)

DNA-binding protein such as Paenibacillus popilliae plasmid KfrA proteins and Pseudomonas aeruginosa plasmid cointegrate resolution protein T (TnpT)

Graphical summary

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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]; ...
 111-285 2.58e-09

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: 58.02  E-value: 2.58e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 111 ERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALA 190
Cdd:COG1196   247 ELEELEAELEELEAELAELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEELA 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQETRQAQAERDDARKAAAEAREQA 270
Cdd:COG1196   327 ELEEELEELEEELEELEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELE 406

                         170
                  ....*....|....*
gi 1800525115 271 ARLAGQLEALQRQQD 285
Cdd:COG1196   407 EAEEALLERLERLEE 421
KfrA_N pfam11740
Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to ...
 7-126 1.02e-03

Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to replicate in and be inherited in a stable manner in diverse Gram-negative bacterial species. It encodes a number of co-ordinately regulated operons including a central control korF1 operon that represses the kfrA operon. The KfrA polypeptide is a site-specific DNA-binding protein whose operator overlaps the kfrA promoter. The N-terminus, containing an helix-turn-helix motif, is essential for function. Downstream from this family is an extended coiled-coil domain containing a heptad repeat segment which is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning.


:

Pssm-ID: 432038 [Multi-domain]  Cd Length: 117  Bit Score: 38.05  E-value: 1.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115   7 TFEQVAAVADALAGEGQQPTIRAVRERLGdTGSPNTIHKHLSTW-REARPVAAAAAPELPQALTAAIAAEIERAAAQARG 85
Cdd:pfam11740   1 TKEQVFAAADALLAEGERPTVDAVRERLG-TGSPTTIHRHLKEWrAERAAASAVPAAALPEALQDAAQELLARLWQAALE 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1800525115  86 EIEGRLVqaqAEAAELAAAGEALESERDELAEQVAVLTTER 126
Cdd:pfam11740  80 EAEERLA---AARAELQAERAALEAERAEAEQRAEALEAEL 117
 
Name Accession Description Interval E-value
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 111-285 2.58e-09

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 58.02  E-value: 2.58e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 111 ERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALA 190
Cdd:COG1196   247 ELEELEAELEELEAELAELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEELA 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQETRQAQAERDDARKAAAEAREQA 270
Cdd:COG1196   327 ELEEELEELEEELEELEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELE 406

                         170
                  ....*....|....*
gi 1800525115 271 ARLAGQLEALQRQQD 285
Cdd:COG1196   407 EAEEALLERLERLEE 421
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 111-285 7.58e-06

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: 47.36  E-value: 7.58e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  111 ERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALA 190
Cdd:TIGR02168  685 KIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIE 764

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQETR---QAQAERDDARKAAAEAR 267
Cdd:TIGR02168  765 ELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRErleSLERRIAATERRLEDLE 844

                          170
                   ....*....|....*...
gi 1800525115  268 EQAARLAGQLEALQRQQD 285
Cdd:TIGR02168  845 EQIEELSEDIESLAAEIE 862
hsdR PRK11448
type I restriction enzyme EcoKI subunit R; Provisional
 169-255 1.85e-05

type I restriction enzyme EcoKI subunit R; Provisional


Pssm-ID: 236912 [Multi-domain]  Cd Length: 1123  Bit Score: 46.10  E-value: 1.85e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  169 EAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQE 248
Cdd:PRK11448   138 EDPENLLHALQQEVLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQELEAQLEQLQEKAAETSQERKQK 217


                   ....*..
gi 1800525115  249 TRQAQAE 255
Cdd:PRK11448   218 RKEITDQ 224
KfrA_N pfam11740
Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to ...
 7-126 1.02e-03

Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to replicate in and be inherited in a stable manner in diverse Gram-negative bacterial species. It encodes a number of co-ordinately regulated operons including a central control korF1 operon that represses the kfrA operon. The KfrA polypeptide is a site-specific DNA-binding protein whose operator overlaps the kfrA promoter. The N-terminus, containing an helix-turn-helix motif, is essential for function. Downstream from this family is an extended coiled-coil domain containing a heptad repeat segment which is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning.


Pssm-ID: 432038 [Multi-domain]  Cd Length: 117  Bit Score: 38.05  E-value: 1.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115   7 TFEQVAAVADALAGEGQQPTIRAVRERLGdTGSPNTIHKHLSTW-REARPVAAAAAPELPQALTAAIAAEIERAAAQARG 85
Cdd:pfam11740   1 TKEQVFAAADALLAEGERPTVDAVRERLG-TGSPTTIHRHLKEWrAERAAASAVPAAALPEALQDAAQELLARLWQAALE 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1800525115  86 EIEGRLVqaqAEAAELAAAGEALESERDELAEQVAVLTTER 126
Cdd:pfam11740  80 EAEERLA---AARAELQAERAALEAERAEAEQRAEALEAEL 117
 
Name Accession Description Interval E-value
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 111-285 2.58e-09

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 58.02  E-value: 2.58e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 111 ERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALA 190
Cdd:COG1196   247 ELEELEAELEELEAELAELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEELA 326

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQETRQAQAERDDARKAAAEAREQA 270
Cdd:COG1196   327 ELEEELEELEEELEELEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELE 406

                         170
                  ....*....|....*
gi 1800525115 271 ARLAGQLEALQRQQD 285
Cdd:COG1196   407 EAEEALLERLERLEE 421
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 86-285 1.48e-08

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 55.71  E-value: 1.48e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  86 EIEGRLVQAQAEAAELAAAGEALESERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATAR 165
Cdd:COG1196   243 ELEAELEELEAELEELEAELAELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELE 322

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 166 LKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAA 245
Cdd:COG1196   323 EELAELEEELEELEEELEELEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQL 402

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1800525115 246 AQETRQAQAERDDARKAAAEAREQAARLAGQLEALQRQQD 285
Cdd:COG1196   403 EELEEAEEALLERLERLEEELEELEEALAELEEEEEEEEE 442
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 86-284 6.24e-08

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 53.79  E-value: 6.24e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  86 EIEGRLVQAQAEAAELAAAGEALESERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATAR 165
Cdd:COG1196   257 ELEAELAELEAELEELRLELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEELAELEEELEELE 336

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 166 LKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAA 245
Cdd:COG1196   337 EELEELEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELEEAEEALLERL 416

                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 1800525115 246 AQETRQAQAERDDARKAAAEAREQAARLAGQLEALQRQQ 284
Cdd:COG1196   417 ERLEEELEELEEALAELEEEEEEEEEALEEAAEEEAELE 455
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 80-285 5.53e-07

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 51.09  E-value: 5.53e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  80 AAQAR---GEIEGRLVQAQAEAAELAAAGEALESERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEA 156
Cdd:COG1196   269 LEELRlelEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEELAELEEELEELEEELEELEEELEE 348

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 157 ARVEVATARLKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQ 236
Cdd:COG1196   349 AEEELEEAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELEEAEEALLERLERLEEELEELEE 428

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*....
gi 1800525115 237 QHTEARAAAAQETRQAQAERDDARKAAAEAREQAARLAGQLEALQRQQD 285
Cdd:COG1196   429 ALAELEEEEEEEEEALEEAAEEEAELEEEEEALLELLAELLEEAALLEA 477
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 65-254 7.51e-06

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 47.24  E-value: 7.51e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  65 PQALTAAIAAEIERAAAQARGEIEGRLVQAQAEAAELAAAGEALESERDELAEQVAVLTTERDTLAGKAAQQAADLADAQ 144
Cdd:COG1196   306 RLEERRRELEERLEELEEELAELEEELEELEEELEELEEELEEAEEELEEAEAELAEAEEALLEAEAELAEAEEELEELA 385

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 145 QRIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARA 224
Cdd:COG1196   386 EELLEALRAAAELAAQLEELEEAEEALLERLERLEEELEELEEALAELEEEEEEEEEALEEAAEEEAELEEEEEALLELL 465

                         170       180       190
                  ....*....|....*....|....*....|
gi 1800525115 225 EQIEQQAEKAAQQHTEARAAAAQETRQAQA 254
Cdd:COG1196   466 AELLEEAALLEAALAELLEELAEAAARLLL 495
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
116-285 7.56e-06

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 47.22  E-value: 7.56e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  116 AEQVAVLTTERDTLAGKAAQQAADLADAQQRIE--REQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAA---LA 190
Cdd:COG4913    609 RAKLAALEAELAELEEELAEAEERLEALEAELDalQERREALQRLAEYSWDEIDVASAEREIAELEAELERLDASsddLA 688

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQETRQAQAERDDARKAAAEAREQA 270
Cdd:COG4913    689 ALEEQLEELEAELEELEEELDELKGEIGRLEKELEQAEEELDELQDRLEAAEDLARLELRALLEERFAAALGDAVERELR 768

                          170
                   ....*....|....*
gi 1800525115  271 ARLAGQLEALQRQQD 285
Cdd:COG4913    769 ENLEERIDALRARLN 783
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 111-285 7.58e-06

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: 47.36  E-value: 7.58e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  111 ERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALA 190
Cdd:TIGR02168  685 KIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIE 764

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQETR---QAQAERDDARKAAAEAR 267
Cdd:TIGR02168  765 ELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRErleSLERRIAATERRLEDLE 844

                          170
                   ....*....|....*...
gi 1800525115  268 EQAARLAGQLEALQRQQD 285
Cdd:TIGR02168  845 EQIEELSEDIESLAAEIE 862
hsdR PRK11448
type I restriction enzyme EcoKI subunit R; Provisional
 169-255 1.85e-05

type I restriction enzyme EcoKI subunit R; Provisional


Pssm-ID: 236912 [Multi-domain]  Cd Length: 1123  Bit Score: 46.10  E-value: 1.85e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  169 EAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQE 248
Cdd:PRK11448   138 EDPENLLHALQQEVLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQELEAQLEQLQEKAAETSQERKQK 217


                   ....*..
gi 1800525115  249 TRQAQAE 255
Cdd:PRK11448   218 RKEITDQ 224
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
111-283 1.87e-05

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 46.06  E-value: 1.87e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  111 ERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATARLkiEAQAERVSEQAAELERLRAALA 190
Cdd:COG4913    625 ELAEAEERLEALEAELDALQERREALQRLAEYSWDEIDVASAEREIAELEAELERL--DASSDDLAALEEQLEELEAELE 702

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQETRQAQAERDDARKAAAEAREQA 270
Cdd:COG4913    703 ELEEELDELKGEIGRLEKELEQAEEELDELQDRLEAAEDLARLELRALLEERFAAALGDAVERELRENLEERIDALRARL 782

                          170
                   ....*....|...
gi 1800525115  271 ARLAGQLEALQRQ 283
Cdd:COG4913    783 NRAEEELERAMRA 795
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 86-285 6.02e-05

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 44.54  E-value: 6.02e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  86 EIEGRLVQAQAEAAELAAAGEALESERDELAEQVAVLTTERDTLAGKAAQQAADLADAQqriEREQQAAEAARVEVAtAR 165
Cdd:COG1196   299 RLEQDIARLEERRRELEERLEELEEELAELEEELEELEEELEELEEELEEAEEELEEAE---AELAEAEEALLEAEA-EL 374

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 166 LKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAA 245
Cdd:COG1196   375 AEAEEELEELAEELLEALRAAAELAAQLEELEEAEEALLERLERLEEELEELEEALAELEEEEEEEEEALEEAAEEEAEL 454

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 1800525115 246 AQETRQAQAERDDARKAAAEAREQAARLAGQLEALQRQQD 285
Cdd:COG1196   455 EEEEEALLELLAELLEEAALLEAALAELLEELAEAAARLL 494
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 86-245 3.08e-04

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 42.23  E-value: 3.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  86 EIEGRLVQAQAEAAELAAAGEALESERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATAR 165
Cdd:COG1196   355 EAEAELAEAEEALLEAEAELAEAEEELEELAEELLEALRAAAELAAQLEELEEAEEALLERLERLEEELEELEEALAELE 434

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 166 LKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAA 245
Cdd:COG1196   435 EEEEEEEEALEEAAEEEAELEEEEEALLELLAELLEEAALLEAALAELLEELAEAAARLLLLLEAEADYEGFLEGVKAAL 514
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 86-285 3.30e-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: 42.35  E-value: 3.30e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115   86 EIEGRLVQAQAEAAELAAAGEALESERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATAR 165
Cdd:TIGR02168  285 ELQKELYALANEISRLEQQKQILRERLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELE 364

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  166 LKIEAQAERVSEQAAELERLRAALAEAqqgrtaaEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAA 245
Cdd:TIGR02168  365 AELEELESRLEELEEQLETLRSKVAQL-------ELQIASLNNEIERLEARLERLEDRRERLQQEIEELLKKLEEAELKE 437

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|.
gi 1800525115  246 AQET-RQAQAERDDARKAAAEAREQAARLAGQLEALQRQQD 285
Cdd:TIGR02168  438 LQAElEELEEELEELQEELERLEEALEELREELEEAEQALD 478
hsdR PRK11448
type I restriction enzyme EcoKI subunit R; Provisional
 165-248 5.71e-04

type I restriction enzyme EcoKI subunit R; Provisional


Pssm-ID: 236912 [Multi-domain]  Cd Length: 1123  Bit Score: 41.48  E-value: 5.71e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  165 RLKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAaadrasrAEARAEQIEQQAEKAAQQHTEARAA 244
Cdd:PRK11448   148 QQEVLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQE-------LEAQLEQLQEKAAETSQERKQKRKE 220


                   ....
gi 1800525115  245 AAQE 248
Cdd:PRK11448   221 ITDQ 224
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
146-284 7.08e-04

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 41.05  E-value: 7.08e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  146 RIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALAEAQQGR-TAAEQQAAVLAAKLEAAADRASRAEARA 224
Cdd:COG4913    289 RLELLEAELEELRAELARLEAELERLEARLDALREELDELEAQIRGNGGDRlEQLEREIERLERELEERERRRARLEALL 368

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1800525115  225 EQIEQQA-------EKAAQQHTEARAAAAQETRQAQAERDDARKAAAEAREQAARLAGQLEALQRQQ 284
Cdd:COG4913    369 AALGLPLpasaeefAALRAEAAALLEALEEELEALEEALAEAEAALRDLRRELRELEAEIASLERRK 435
KfrA_N pfam11740
Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to ...
 7-126 1.02e-03

Plasmid replication region DNA-binding N-term; The broad host-range plasmid RK2 is able to replicate in and be inherited in a stable manner in diverse Gram-negative bacterial species. It encodes a number of co-ordinately regulated operons including a central control korF1 operon that represses the kfrA operon. The KfrA polypeptide is a site-specific DNA-binding protein whose operator overlaps the kfrA promoter. The N-terminus, containing an helix-turn-helix motif, is essential for function. Downstream from this family is an extended coiled-coil domain containing a heptad repeat segment which is probably responsible for formation of multimers, and may provide an example of a bridge to host structures required for plasmid partitioning.


Pssm-ID: 432038 [Multi-domain]  Cd Length: 117  Bit Score: 38.05  E-value: 1.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115   7 TFEQVAAVADALAGEGQQPTIRAVRERLGdTGSPNTIHKHLSTW-REARPVAAAAAPELPQALTAAIAAEIERAAAQARG 85
Cdd:pfam11740   1 TKEQVFAAADALLAEGERPTVDAVRERLG-TGSPTTIHRHLKEWrAERAAASAVPAAALPEALQDAAQELLARLWQAALE 79

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1800525115  86 EIEGRLVqaqAEAAELAAAGEALESERDELAEQVAVLTTER 126
Cdd:pfam11740  80 EAEERLA---AARAELQAERAALEAERAEAEQRAEALEAEL 117
PTZ00121 PTZ00121
MAEBL; Provisional
 80-256 1.47e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 40.51  E-value: 1.47e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115   80 AAQARGEIEGRLVQAQAEAAELAAAGEALESERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARV 159
Cdd:PTZ00121  1178 AEAARKAEEVRKAEELRKAEDARKAEAARKAEEERKAEEARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNNEEIRKF 1257

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  160 EVATARLKIEAQAERVSEQAAELERLRAA--LAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQ 237
Cdd:PTZ00121  1258 EEARMAHFARRQAAIKAEEARKADELKKAeeKKKADEAKKAEEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKK 1337

                          170
                   ....*....|....*....
gi 1800525115  238 HTEARAAAAQETRQAQAER 256
Cdd:PTZ00121  1338 AEEAKKAAEAAKAEAEAAA 1356
PLN02316 PLN02316
synthase/transferase
 175-245 3.24e-03

synthase/transferase


Pssm-ID: 215180 [Multi-domain]  Cd Length: 1036  Bit Score: 39.08  E-value: 3.24e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1800525115  175 VSEQAAELERLraALAEAQQGRTAAEQQAAvlaaKLEAAADRASRAEARAEqIEQQAEKAAQQHTEARAAA 245
Cdd:PLN02316   251 LEEKRRELEKL--AKEEAERERQAEEQRRR----EEEKAAMEADRAQAKAE-VEKRREKLQNLLKKASRSA 314
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 111-280 3.65e-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: 3.65e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 111 ERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALA 190
Cdd:COG1196   610 EADARYYVLGDTLLGRTLVAARLEAALRRAVTLAGRLREVTLEGEGGSAGGSLTGGSRRELLAALLEAEAELEELAERLA 689

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115 191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARAAAAQETRQAQAERDDARKAAAEAREQA 270
Cdd:COG1196   690 EEELELEEALLAEEEEERELAEAEEERLEEELEEEALEEQLEAEREELLEELLEEEELLEEEALEELPEPPDLEELEREL 769

                         170
                  ....*....|
gi 1800525115 271 ARLAGQLEAL 280
Cdd:COG1196   770 ERLEREIEAL 779
PRK09039 PRK09039
peptidoglycan -binding protein;
165-237 5.22e-03

peptidoglycan -binding protein;


Pssm-ID: 181619 [Multi-domain]  Cd Length: 343  Bit Score: 38.02  E-value: 5.22e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1800525115 165 RLKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQ 237
Cdd:PRK09039   80 QDSVANLRASLSAAEAERSRLQALLAELAGAGAAAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQ 152
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 111-283 6.08e-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: 38.11  E-value: 6.08e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  111 ERDELAEQVAVLTTERDTLAGKAAQQAADLADAQQRIEREQQAAEAARVEVATARLKIEAQAERVSEQAAELERLRAALA 190
Cdd:TIGR02168  699 ALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELA 778

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  191 EAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIE---QQAEKAAQQHTEARAAAAQETRQAQAERDDARKAAAEAR 267
Cdd:TIGR02168  779 EAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNeeaANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLA 858

                          170
                   ....*....|....*.
gi 1800525115  268 EQAARLAGQLEALQRQ 283
Cdd:TIGR02168  859 AEIEELEELIEELESE 874
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 164-281 8.55e-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: 37.73  E-value: 8.55e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1800525115  164 ARLKIEAQAERVSEQAAELERLRAALAEAQQGRTAAEQQAAVLAAKLEAAADRASRAEARAEQIEQQAEKAAQQHTEARA 243
Cdd:TIGR02168  682 LEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEA 761

                           90       100       110
                   ....*....|....*....|....*....|....*...
gi 1800525115  244 AAAQETRQAQAERDDARKAAAEAREQAARLAGQLEALQ 281
Cdd:TIGR02168  762 EIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELK 799
 
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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