NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|564337224|ref|XP_006232731|]
View 

pre-B-cell leukemia transcription factor-interacting protein 1 isoform X2 [Rattus norvegicus]

Protein Classification

splicing factor U2AF large subunit( domain architecture ID 1002097)

splicing factor U2AF large subunit such as U2AF65, also termed U2AF2, which is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
COG4913 super family cl25907
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
268-442 8.69e-05

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


The actual alignment was detected with superfamily member COG4913:

Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 46.06  E-value: 8.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  268 LDKLAKENQDIRLLQAQLQAQKEELQSLLhqpkgLEEENARLREALQQGKTSHQALESELQQLRARLQGLEANcVRGVDG 347
Cdd:COG4913   264 YAAARERLAELEYLRAALRLWFAQRRLEL-----LEAELEELRAELARLEAELERLEARLDALREELDELEAQ-IRGNGG 337

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  348 vclnwggspqggkatteqghkgqepdtsllEQHKQLEAEAKALRQELQKQWQLLGsvhrNLQRGLQDAGQGAPAHA-GLA 426
Cdd:COG4913   338 ------------------------------DRLEQLEREIERLERELEERERRRA----RLEALLAALGLPLPASAeEFA 383

                         170
                  ....*....|....*.
gi 564337224  427 ELGHMLAQTLQGLESQ 442
Cdd:COG4913   384 ALRAEAAALLEALEEE 399
U2AF_lg super family cl36941
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 472-592 6.59e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


The actual alignment was detected with superfamily member TIGR01642:

Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 42.96  E-value: 6.59e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  472 REKWRGGQRDQKAEHWKLKKEESGQDRKKS-WRDEGREftgHWKENRPRAEESGSRKDSKRQDPKVH------------- 537
Cdd:TIGR01642   1 RDEEPDREREKSRGRDRDRSSERPRRRSRDrSRFRDRH---RRSRERSYREDSRPRDRRRYDSRSPRslryssvrrsrdr 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 564337224  538 -PRKSGNSHSGERQKHSwGKDNSPDSVSWEELLRRKY--RPPQGCSGVADCARQEGLA 592
Cdd:TIGR01642  78 pRRRSRSVRSIEQHRRR-LRDRSPSNQWRKDDKKRSLwdIKPPGYELVTADQAKASQV 134
 
Name Accession Description Interval E-value
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
268-442 8.69e-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: 8.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  268 LDKLAKENQDIRLLQAQLQAQKEELQSLLhqpkgLEEENARLREALQQGKTSHQALESELQQLRARLQGLEANcVRGVDG 347
Cdd:COG4913   264 YAAARERLAELEYLRAALRLWFAQRRLEL-----LEAELEELRAELARLEAELERLEARLDALREELDELEAQ-IRGNGG 337

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  348 vclnwggspqggkatteqghkgqepdtsllEQHKQLEAEAKALRQELQKQWQLLGsvhrNLQRGLQDAGQGAPAHA-GLA 426
Cdd:COG4913   338 ------------------------------DRLEQLEREIERLERELEERERRRA----RLEALLAALGLPLPASAeEFA 383

                         170
                  ....*....|....*.
gi 564337224  427 ELGHMLAQTLQGLESQ 442
Cdd:COG4913   384 ALRAEAAALLEALEEE 399
SH3_and_anchor TIGR04211
SH3 domain protein; Members of this protein family have a signal peptide, a strongly conserved ...
 279-402 4.20e-04

SH3 domain protein; Members of this protein family have a signal peptide, a strongly conserved SH3 domain, a variable region, and then a C-terminal hydrophobic transmembrane alpha helix region.


Pssm-ID: 275056 [Multi-domain]  Cd Length: 198  Bit Score: 41.92  E-value: 4.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  279 RLLQAQLQAQKEELQSllhQPKGLEEENARLREALQQGKTSHQALESELQQLRARLQGLEAncvrgvdgvclnwggSPQG 358
Cdd:TIGR04211  65 RERLPELQQELAELQE---ELAELQEQLAELRQENQELKQQLSTLEAELEELQKELERIKQ---------------ISAN 126

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 564337224  359 GKATTEQGHKGQEPDTSLLEQHKQLEAEAKALRQELQKQWQLLG 402
Cdd:TIGR04211 127 AIELDEENRELREELAELKQENEALEAENERLQENEQRRWFLYG 170
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 472-592 6.59e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 42.96  E-value: 6.59e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  472 REKWRGGQRDQKAEHWKLKKEESGQDRKKS-WRDEGREftgHWKENRPRAEESGSRKDSKRQDPKVH------------- 537
Cdd:TIGR01642   1 RDEEPDREREKSRGRDRDRSSERPRRRSRDrSRFRDRH---RRSRERSYREDSRPRDRRRYDSRSPRslryssvrrsrdr 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 564337224  538 -PRKSGNSHSGERQKHSwGKDNSPDSVSWEELLRRKY--RPPQGCSGVADCARQEGLA 592
Cdd:TIGR01642  78 pRRRSRSVRSIEQHRRR-LRDRSPSNQWRKDDKKRSLwdIKPPGYELVTADQAKASQV 134
ZapB pfam06005
Cell division protein ZapB; ZapB is a non-essential, abundant cell division factor that is ...
 260-335 5.30e-03

Cell division protein ZapB; ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation.


Pssm-ID: 428718 [Multi-domain]  Cd Length: 71  Bit Score: 36.09  E-value: 5.30e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564337224  260 SLQSMGLLLDKLAKENQDIRLLQAQLQAQKEELQSLlhqpkglEEENARLREALQQGKTSHQALESELQQLRARLQ 335
Cdd:pfam06005   2 SLELLEQLETKIQAAVDTIALLQMENEELKEENEEL-------KEEANELEEENQQLKQERNQWQERIRGLLGKLD 70
PRK13922 PRK13922
rod shape-determining protein MreC; Provisional
 268-314 7.84e-03

rod shape-determining protein MreC; Provisional


Pssm-ID: 237560  Cd Length: 276  Bit Score: 38.81  E-value: 7.84e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 564337224 268 LDKLAKENQDIRLLQAQLQAQKEELQSLlhqpkglEEENARLREALQ 314
Cdd:PRK13922  71 LFDLREENEELKKELLELESRLQELEQL-------EAENARLRELLN 110
 
Name Accession Description Interval E-value
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
268-442 8.69e-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: 8.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  268 LDKLAKENQDIRLLQAQLQAQKEELQSLLhqpkgLEEENARLREALQQGKTSHQALESELQQLRARLQGLEANcVRGVDG 347
Cdd:COG4913   264 YAAARERLAELEYLRAALRLWFAQRRLEL-----LEAELEELRAELARLEAELERLEARLDALREELDELEAQ-IRGNGG 337

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  348 vclnwggspqggkatteqghkgqepdtsllEQHKQLEAEAKALRQELQKQWQLLGsvhrNLQRGLQDAGQGAPAHA-GLA 426
Cdd:COG4913   338 ------------------------------DRLEQLEREIERLERELEERERRRA----RLEALLAALGLPLPASAeEFA 383

                         170
                  ....*....|....*.
gi 564337224  427 ELGHMLAQTLQGLESQ 442
Cdd:COG4913   384 ALRAEAAALLEALEEE 399
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 249-340 1.39e-04

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 44.75  E-value: 1.39e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224 249 LQASVPPDSVPSLQSMGLLLDKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQA----LE 324
Cdd:COG4942  126 LSPEDFLDAVRRLQYLKYLAPARREQAEELRADLAELAALRAELEAERAELEALLAELEEERAALEALKAERQKllarLE 205

                         90
                 ....*....|....*.
gi 564337224 325 SELQQLRARLQGLEAN 340
Cdd:COG4942  206 KELAELAAELAELQQE 221
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 270-340 1.96e-04

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 44.37  E-value: 1.96e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 564337224 270 KLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQALESELQQLRARLQGLEAN 340
Cdd:COG4942   28 ELEQLQQEIAELEKELAALKKEEKALLKQLAALERRIAALARRIRALEQELAALEAELAELEKEIAELRAE 98
SH3_and_anchor TIGR04211
SH3 domain protein; Members of this protein family have a signal peptide, a strongly conserved ...
 279-402 4.20e-04

SH3 domain protein; Members of this protein family have a signal peptide, a strongly conserved SH3 domain, a variable region, and then a C-terminal hydrophobic transmembrane alpha helix region.


Pssm-ID: 275056 [Multi-domain]  Cd Length: 198  Bit Score: 41.92  E-value: 4.20e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  279 RLLQAQLQAQKEELQSllhQPKGLEEENARLREALQQGKTSHQALESELQQLRARLQGLEAncvrgvdgvclnwggSPQG 358
Cdd:TIGR04211  65 RERLPELQQELAELQE---ELAELQEQLAELRQENQELKQQLSTLEAELEELQKELERIKQ---------------ISAN 126

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 564337224  359 GKATTEQGHKGQEPDTSLLEQHKQLEAEAKALRQELQKQWQLLG 402
Cdd:TIGR04211 127 AIELDEENRELREELAELKQENEALEAENERLQENEQRRWFLYG 170
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 472-592 6.59e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 42.96  E-value: 6.59e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  472 REKWRGGQRDQKAEHWKLKKEESGQDRKKS-WRDEGREftgHWKENRPRAEESGSRKDSKRQDPKVH------------- 537
Cdd:TIGR01642   1 RDEEPDREREKSRGRDRDRSSERPRRRSRDrSRFRDRH---RRSRERSYREDSRPRDRRRYDSRSPRslryssvrrsrdr 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 564337224  538 -PRKSGNSHSGERQKHSwGKDNSPDSVSWEELLRRKY--RPPQGCSGVADCARQEGLA 592
Cdd:TIGR01642  78 pRRRSRSVRSIEQHRRR-LRDRSPSNQWRKDDKKRSLwdIKPPGYELVTADQAKASQV 134
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
268-397 7.49e-04

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 42.98  E-value: 7.49e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  268 LDKLAKENQDIRLLQAQLQAQKEELQSllhqpkgLEEENARLREALQQGKTSHQALESELQQLRARLQGLEANCVRGvdg 347
Cdd:COG4913   677 LERLDASSDDLAALEEQLEELEAELEE-------LEEELDELKGEIGRLEKELEQAEEELDELQDRLEAAEDLARLE--- 746

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 564337224  348 vcLNWGGSPQGGKATTEQghKGQEPDTSLLEQHKQLEAEAKALRQELQKQ 397
Cdd:COG4913   747 --LRALLEERFAAALGDA--VERELRENLEERIDALRARLNRAEEELERA 792
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 266-442 1.00e-03

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 42.62  E-value: 1.00e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224 266 LLLDKLAKENQDIRLLQAQLQAQKEELQSllhqpkgLEEENARLREALQQGKTSHQALESELQQLRARLQGLEAncvrgv 345
Cdd:COG1196  229 LLLLKLRELEAELEELEAELEELEAELEE-------LEAELAELEAELEELRLELEELELELEEAQAEEYELLA------ 295

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224 346 dgvclnwggspqgGKATTEQGHKgqepdtSLLEQHKQLEAEAKALRQELQKQWQLLGSVHRNLQRGLQDAGQGAPAHAGL 425
Cdd:COG1196  296 -------------ELARLEQDIA------RLEERRRELEERLEELEEELAELEEELEELEEELEELEEELEEAEEELEEA 356

                        170
                 ....*....|....*..
gi 564337224 426 AELGHMLAQTLQGLESQ 442
Cdd:COG1196  357 EAELAEAEEALLEAEAE 373
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 243-529 1.08e-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: 42.35  E-value: 1.08e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   243 QDEVEQLQASVPPDSVPSLQS-MGLLLDKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQ 321
Cdd:TIGR02168  219 KAELRELELALLVLRLEELREeLEELQEELKEAEEELEELTAELQELEEKLEELRLEVSELEEEIEELQKELYALANEIS 298

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   322 ALESELQQLRARLQGLEANCVRgVDGVCLNWGGSPQGGKATTEQGHKGQEPDTSLLEQHKQLEAEAKALRQELQKQWQLL 401
Cdd:TIGR02168  299 RLEQQKQILRERLANLERQLEE-LEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEEL 377

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   402 GSVHRNLQRGLQDAGQGAPAHAglAELGHMLAQtLQGLESQGINTGRSSNDSEAWHQKKPRFQHPREWSGREkwrggqrd 481
Cdd:TIGR02168  378 EEQLETLRSKVAQLELQIASLN--NEIERLEAR-LERLEDRRERLQQEIEELLKKLEEAELKELQAELEELE-------- 446

                          250       260       270       280
                   ....*....|....*....|....*....|....*....|....*...
gi 564337224   482 qKAEHWKLKKEESGQDRKKSWRDEGREFTGHWKENRPRAEESGSRKDS 529
Cdd:TIGR02168  447 -EELEELQEELERLEEALEELREELEEAEQALDAAERELAQLQARLDS 493
YhaN COG4717
Uncharacterized conserved protein YhaN, contains AAA domain [Function unknown];
242-338 1.16e-03

Uncharacterized conserved protein YhaN, contains AAA domain [Function unknown];


Pssm-ID: 443752 [Multi-domain]  Cd Length: 641  Bit Score: 42.06  E-value: 1.16e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224 242 RQDEVEQLQASVPPDSVPSLQSMGLLLDKLAKENQDIRLLQAQLQAQKEELQSLL--HQPKGLEEENARLREALQQGKTS 319
Cdd:COG4717  368 LEQEIAALLAEAGVEDEEELRAALEQAEEYQELKEELEELEEQLEELLGELEELLeaLDEEELEEELEELEEELEELEEE 447

                         90
                 ....*....|....*....
gi 564337224 320 HQALESELQQLRARLQGLE 338
Cdd:COG4717  448 LEELREELAELEAELEQLE 466
EnvC COG4942
Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, ...
 269-340 1.68e-03

Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443969 [Multi-domain]  Cd Length: 377  Bit Score: 41.29  E-value: 1.68e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 564337224 269 DKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQALESELQQLRARLQGLEAN 340
Cdd:COG4942   20 DAAAEAEAELEQLQQEIAELEKELAALKKEEKALLKQLAALERRIAALARRIRALEQELAALEAELAELEKE 91
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 270-442 1.72e-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: 41.97  E-value: 1.72e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   270 KLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQALESELQQLRARLQGLEANcvrgVDGVC 349
Cdd:TIGR02168  678 EIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQLEER----IAQLS 753

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   350 LNWGGSPQGGKATTEQGHKGQEPDTSLLEQHKQLEAEAKALRQELQKQWQLLGSVHRNLQRGLQDAGQGAPAHAGLAELG 429
Cdd:TIGR02168  754 KELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRI 833

                          170
                   ....*....|...
gi 564337224   430 HMLAQTLQGLESQ 442
Cdd:TIGR02168  834 AATERRLEDLEEQ 846
Smc COG1196
Chromosome segregation ATPase Smc [Cell cycle control, cell division, chromosome partitioning]; ...
 269-442 2.62e-03

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


Pssm-ID: 440809 [Multi-domain]  Cd Length: 983  Bit Score: 41.08  E-value: 2.62e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224 269 DKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQALESELQQLRARLQGLEAncvrgvdgv 348
Cdd:COG1196  274 LELEELELELEEAQAEEYELLAELARLEQDIARLEERRRELEERLEELEEELAELEEELEELEEELEELEE--------- 344

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224 349 clnwggspQGGKATTEQGHKGQEpdtslLEQHKQLEAEAKALRQELQKQWQllgsvhRNLQRGLQDAGQGAPAHAGLAEL 428
Cdd:COG1196  345 --------ELEEAEEELEEAEAE-----LAEAEEALLEAEAELAEAEEELE------ELAEELLEALRAAAELAAQLEEL 405

                        170
                 ....*....|....
gi 564337224 429 GHMLAQTLQGLESQ 442
Cdd:COG1196  406 EEAEEALLERLERL 419
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 244-339 3.84e-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: 40.81  E-value: 3.84e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   244 DEVEQLQasvppDSVPSLQSMGLLLDKlAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQAL 323
Cdd:TIGR02168  407 ARLERLE-----DRRERLQQEIEELLK-KLEEAELKELQAELEELEEELEELQEELERLEEALEELREELEEAEQALDAA 480

                           90
                   ....*....|....*.
gi 564337224   324 ESELQQLRARLQGLEA 339
Cdd:TIGR02168  481 ERELAQLQARLDSLER 496
YhaN COG4717
Uncharacterized conserved protein YhaN, contains AAA domain [Function unknown];
227-407 4.21e-03

Uncharacterized conserved protein YhaN, contains AAA domain [Function unknown];


Pssm-ID: 443752 [Multi-domain]  Cd Length: 641  Bit Score: 40.52  E-value: 4.21e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224 227 LQVFPETELVQTVGNRQDEVEQLQASVPPDSVPSLQSMGLLLDKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEEN 306
Cdd:COG4717   39 LLAFIRAMLLERLEKEADELFKPQGRKPELNLKELKELEEELKEAEEKEEEYAELQEELEELEEELEELEAELEELREEL 118

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224 307 ARLREALQqgktsHQALESELQQLRARLQGLEANcvrgvdgvclnwggspqggkatTEQGHKGQEPDTSLLEQHKQLEAE 386
Cdd:COG4717  119 EKLEKLLQ-----LLPLYQELEALEAELAELPER----------------------LEELEERLEELRELEEELEELEAE 171

                        170       180
                 ....*....|....*....|.
gi 564337224 387 AKALRQELQKQWQLLGSVHRN 407
Cdd:COG4717  172 LAELQEELEELLEQLSLATEE 192
COG4372 COG4372
Uncharacterized protein, contains DUF3084 domain [Function unknown];
269-340 4.33e-03

Uncharacterized protein, contains DUF3084 domain [Function unknown];


Pssm-ID: 443500 [Multi-domain]  Cd Length: 370  Bit Score: 39.89  E-value: 4.33e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 564337224 269 DKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQALESELQQLRARLQGLEAN 340
Cdd:COG4372  101 EELESLQEEAEELQEELEELQKERQDLEQQRKQLEAQIAELQSEIAEREEELKELEEQLESLQEELAALEQE 172
MreC COG1792
Cell shape-determining protein MreC [Cell cycle control, cell division, chromosome ...
 268-314 4.41e-03

Cell shape-determining protein MreC [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton];


Pssm-ID: 441397  Cd Length: 282  Bit Score: 39.86  E-value: 4.41e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 564337224 268 LDKLAKENQDIRLLQAQLQAQKEELQSLlhqpkglEEENARLREALQ 314
Cdd:COG1792   70 LFNLREENERLKEENAELRAELQRLEEL-------EAENARLRELLD 109
ZapB pfam06005
Cell division protein ZapB; ZapB is a non-essential, abundant cell division factor that is ...
 260-335 5.30e-03

Cell division protein ZapB; ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation.


Pssm-ID: 428718 [Multi-domain]  Cd Length: 71  Bit Score: 36.09  E-value: 5.30e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 564337224  260 SLQSMGLLLDKLAKENQDIRLLQAQLQAQKEELQSLlhqpkglEEENARLREALQQGKTSHQALESELQQLRARLQ 335
Cdd:pfam06005   2 SLELLEQLETKIQAAVDTIALLQMENEELKEENEEL-------KEEANELEEENQQLKQERNQWQERIRGLLGKLD 70
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
267-395 5.30e-03

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 40.28  E-value: 5.30e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  267 LLDKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLE-EENARLREALQQGKTSHQALESELQQLRARLQGLEANCVRGV 345
Cdd:COG4913   300 LRAELARLEAELERLEARLDALREELDELEAQIRGNGgDRLEQLEREIERLERELEERERRRARLEALLAALGLPLPASA 379

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 564337224  346 DGVCLNWGGSPQGGKATTEQGHKGQEPDTSLLEQHKQLEAEAKALRQELQ 395
Cdd:COG4913   380 EEFAALRAEAAALLEALEEELEALEEALAEAEAALRDLRRELRELEAEIA 429
ADIP pfam11559
Afadin- and alpha -actinin-Binding; This family is found in mammals where it is localized at ...
 267-334 6.08e-03

Afadin- and alpha -actinin-Binding; This family is found in mammals where it is localized at cell-cell adherens junctions, and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins localized at Cell-Cell Adherens Junctions.


Pssm-ID: 463295 [Multi-domain]  Cd Length: 151  Bit Score: 38.07  E-value: 6.08e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 564337224  267 LLDKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSH----QALESELQQLRARL 334
Cdd:pfam11559  78 LKTQLEDLERELALLQAKERQLEKKLKTLEQKLKNEKEELQRLKNALQQIKTQFahevKKRDREIEKLKERL 149
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
242-411 6.34e-03

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


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 39.90  E-value: 6.34e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  242 RQDEVEQLQASVPPDSvpSLQSMGLLLDKLAKENQDIRLLQAQLQAQKEELQSllhqpkgLEEENARLREALQQ-GKTSH 320
Cdd:COG4913   270 RLAELEYLRAALRLWF--AQRRLELLEAELEELRAELARLEAELERLEARLDA-------LREELDELEAQIRGnGGDRL 340

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224  321 QALESELQQLRARLQGLEANCVR---GVDGVCLNWGGSPQGGKATTEQGHKGQEPDTSLLEQHKQLEAEAKALRQELQKQ 397
Cdd:COG4913   341 EQLEREIERLERELEERERRRARleaLLAALGLPLPASAEEFAALRAEAAALLEALEEELEALEEALAEAEAALRDLRRE 420

                         170
                  ....*....|....
gi 564337224  398 WQLLGSVHRNLQRG 411
Cdd:COG4913   421 LRELEAEIASLERR 434
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 242-442 6.55e-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: 40.04  E-value: 6.55e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   242 RQDEVEQLQASVPPDSVPSLQSMGLLLDKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLREALQQGKTSHQ 321
Cdd:TIGR02168  720 ELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELK 799

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   322 ALESELQQLRARLQGLEANCVRGVDGVclnwggspqggKATTEQGHKGQEPDTSLLEQHKQLEAEAKALRQELQKQWQLL 401
Cdd:TIGR02168  800 ALREALDELRAELTLLNEEAANLRERL-----------ESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELI 868

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|.
gi 564337224   402 GSVHRNLQRGLQDAGQGAPAHAGLAELGHMLAQTLQGLESQ 442
Cdd:TIGR02168  869 EELESELEALLNERASLEEALALLRSELEELSEELRELESK 909
SMC_prok_B TIGR02168
chromosome segregation protein SMC, common bacterial type; SMC (structural maintenance of ...
 223-445 7.14e-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: 40.04  E-value: 7.14e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   223 EEAELQVFPETELVQTVGNRQDEVEQLQASVPPDSVPSLQSMGLLLDKLAKEN-------QDIRLLQAQLQAQKEELQSL 295
Cdd:TIGR02168  722 EELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEeelaeaeAEIEELEAQIEQLKEELKAL 801

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564337224   296 LHQPKGLEEENARLREALQQGKTSHQALESELQQLRARLQGLEANCVRgvdgvclnwgGSPQGGKATTEQGHKGQEPDTS 375
Cdd:TIGR02168  802 REALDELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEE----------LSEDIESLAAEIEELEELIEEL 871

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 564337224   376 L--LEQHKQLEAEAKALRQELQKQWQLLGSVHRNLQRGLQDAGQgapahaGLAELGHMLAQ---TLQGLESQGIN 445
Cdd:TIGR02168  872 EseLEALLNERASLEEALALLRSELEELSEELRELESKRSELRR------ELEELREKLAQlelRLEGLEVRIDN 940
GumC COG3206
Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];
264-335 7.81e-03

Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442439 [Multi-domain]  Cd Length: 687  Bit Score: 39.61  E-value: 7.81e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 564337224 264 MGLLLDKLAKENQDIRLLQAQLQAQKEELQSLLHQPKGLEEENARLRE--ALQQGKTSHQALESELQQLRARLQ 335
Cdd:COG3206  214 AKLLLQQLSELESQLAEARAELAEAEARLAALRAQLGSGPDALPELLQspVIQQLRAQLAELEAELAELSARYT 287
PRK13922 PRK13922
rod shape-determining protein MreC; Provisional
 268-314 7.84e-03

rod shape-determining protein MreC; Provisional


Pssm-ID: 237560  Cd Length: 276  Bit Score: 38.81  E-value: 7.84e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 564337224 268 LDKLAKENQDIRLLQAQLQAQKEELQSLlhqpkglEEENARLREALQ 314
Cdd:PRK13922  71 LFDLREENEELKKELLELESRLQELEQL-------EAENARLRELLN 110
 
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