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Conserved domains on  [gi|154849|gb|AAB59096|]
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unknown [Transposon Tn10]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PRK15121 super family cl33090
MDR efflux pump AcrAB transcriptional activator RobA;
27-132 5.88e-53

MDR efflux pump AcrAB transcriptional activator RobA;


The actual alignment was detected with superfamily member PRK15121:

Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 168.65  E-value: 5.88e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     27 TTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFD 106
Cdd:PRK15121   4 AGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFD 83
                         90       100
                 ....*....|....*....|....*.
gi 154849    107 SQQSFTRRFKYIFKVTPSYYRRNKLW 132
Cdd:PRK15121  84 SQQTFTRAFKKQFAQTPALYRRSPEW 109
 
Name Accession Description Interval E-value
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
27-132 5.88e-53

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 168.65  E-value: 5.88e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     27 TTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFD 106
Cdd:PRK15121   4 AGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFD 83
                         90       100
                 ....*....|....*....|....*.
gi 154849    107 SQQSFTRRFKYIFKVTPSYYRRNKLW 132
Cdd:PRK15121  84 SQQTFTRAFKKQFAQTPALYRRSPEW 109
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
47-127 2.42e-29

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 101.86  E-value: 2.42e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849       47 LDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFDSQQSFTRRFKYIFKVTPSYY 126
Cdd:smart00342   4 LEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEY 83

                   .
gi 154849      127 R 127
Cdd:smart00342  84 R 84
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
17-129 9.19e-23

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 9.19e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849    17 QLEYDDRQFHTTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTI 96
Cdd:COG2207 141 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSI 220
                        90       100       110
                ....*....|....*....|....*....|...
gi 154849    97 LEIALKYQFDSQQSFTRRFKYIFKVTPSYYRRN 129
Cdd:COG2207 221 SEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
HTH_18 pfam12833
Helix-turn-helix domain;
50-129 3.80e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 78.40  E-value: 3.80e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849      50 VANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVEL-RLTKKTILEIALKYQFDSQQSFTRRFKYIFKVTPSYYRR 128
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80

                  .
gi 154849     129 N 129
Cdd:pfam12833  81 R 81
 
Name Accession Description Interval E-value
PRK15121 PRK15121
MDR efflux pump AcrAB transcriptional activator RobA;
27-132 5.88e-53

MDR efflux pump AcrAB transcriptional activator RobA;


Pssm-ID: 185076 [Multi-domain]  Cd Length: 289  Bit Score: 168.65  E-value: 5.88e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     27 TTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFD 106
Cdd:PRK15121   4 AGIIRDLLIWLEGHLDQPLSLDNVAAKAGYSKWHLQRMFKDVTGHAIGAYIRARRLSKAAVALRLTSRPILDIALQYRFD 83
                         90       100
                 ....*....|....*....|....*.
gi 154849    107 SQQSFTRRFKYIFKVTPSYYRRNKLW 132
Cdd:PRK15121  84 SQQTFTRAFKKQFAQTPALYRRSPEW 109
PRK10219 PRK10219
superoxide response transcriptional regulator SoxS;
26-127 1.90e-33

superoxide response transcriptional regulator SoxS;


Pssm-ID: 182314 [Multi-domain]  Cd Length: 107  Bit Score: 113.10  E-value: 1.90e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     26 HTTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQF 105
Cdd:PRK10219   3 HQKIIQTLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGY 82
                         90       100
                 ....*....|....*....|..
gi 154849    106 DSQQSFTRRFKYIFKVTPSYYR 127
Cdd:PRK10219  83 VSQQTFSRVFRRQFDRTPSDYR 104
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
47-127 2.42e-29

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 101.86  E-value: 2.42e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849       47 LDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFDSQQSFTRRFKYIFKVTPSYY 126
Cdd:smart00342   4 LEDLAEALGVSPRHLQRLFKKETGTTPKQYLRDRRLERARRLLRDTDLSVTEIALRVGFSSQSYFSRAFKKLFGVTPSEY 83

                   .
gi 154849      127 R 127
Cdd:smart00342  84 R 84
PRK11511 PRK11511
MDR efflux pump AcrAB transcriptional activator MarA;
23-127 2.01e-27

MDR efflux pump AcrAB transcriptional activator MarA;


Pssm-ID: 236920 [Multi-domain]  Cd Length: 127  Bit Score: 98.64  E-value: 2.01e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     23 RQFHTTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALK 102
Cdd:PRK11511   4 RNTDAITIHSILDWIEDNLESPLSLEKVSERSGYSKWHLQRMFKKETGHSLGQYIRSRKMTEIAQKLKESNEPILYLAER 83
                         90       100
                 ....*....|....*....|....*
gi 154849    103 YQFDSQQSFTRRFKYIFKVTPSYYR 127
Cdd:PRK11511  84 YGFESQQTLTRTFKNYFDVPPHKYR 108
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
17-129 9.19e-23

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 89.84  E-value: 9.19e-23
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849    17 QLEYDDRQFHTTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTI 96
Cdd:COG2207 141 LLLLLLLLLLLLLLLLLLLLLLLLLLLLLTLEELARELGLSPRTLSRLFKEETGTSPKQYLRELRLERAKRLLAETDLSI 220
                        90       100       110
                ....*....|....*....|....*....|...
gi 154849    97 LEIALKYQFDSQQSFTRRFKYIFKVTPSYYRRN 129
Cdd:COG2207 221 SEIAYELGFSSQSHFSRAFKKRFGVTPSEYRKR 253
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
23-128 1.09e-21

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 87.91  E-value: 1.09e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849    23 RQFHTTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALK 102
Cdd:COG4977 205 LGHRDPRLARAQAWMEANLEEPLSVDELARRAGMSPRTLERRFRAATGTTPARYLQRLRLERARRLLETTDLSIEEIAAA 284
                        90       100
                ....*....|....*....|....*.
gi 154849   103 YQFDSQQSFTRRFKYIFKVTPSYYRR 128
Cdd:COG4977 285 CGFGSASHFRRAFRRRFGVSPSAYRR 310
HTH_18 pfam12833
Helix-turn-helix domain;
50-129 3.80e-20

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 78.40  E-value: 3.80e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849      50 VANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVEL-RLTKKTILEIALKYQFDSQQSFTRRFKYIFKVTPSYYRR 128
Cdd:pfam12833   1 LAAALGMSPRTLSRLFKRELGLSPKEYLRRLRLERARRLLlEDTGLSVAEIALALGFSDASHFSRAFRRLFGLTPSEYRR 80

                  .
gi 154849     129 N 129
Cdd:pfam12833  81 R 81
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
26-128 5.45e-19

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 80.87  E-value: 5.45e-19
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849    26 HTTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRlTKKTILEIALKYQF 105
Cdd:COG2169  82 RADLVARACRLIEAGAEDRPSLEDLAARLGLSPRHLRRLFKAHTGVTPKAYARARRLLRARQLLQ-TGLSVTDAAYAAGF 160
                        90       100
                ....*....|....*....|...
gi 154849   106 DSQQSFTRRFKYIFKVTPSYYRR 128
Cdd:COG2169 161 GSLSRFYEAFKKLLGMTPSAYRR 183
PRK10371 PRK10371
transcriptional regulator MelR;
30-128 7.03e-12

transcriptional regulator MelR;


Pssm-ID: 182416 [Multi-domain]  Cd Length: 302  Bit Score: 60.99  E-value: 7.03e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     30 IKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFDSQQ 109
Cdd:PRK10371 193 VSQMLGFIAENYDQALTINDVAEHVKLNANYAMGIFQRVMQLTMKQYITAMRINHVRALLSDTDKSILDIALTAGFRSSS 272
                         90
                 ....*....|....*....
gi 154849    110 SFTRRFKYIFKVTPSYYRR 128
Cdd:PRK10371 273 RFYSTFGKYVGMSPQQYRK 291
ftrA PRK09393
transcriptional activator FtrA; Provisional
36-129 5.01e-10

transcriptional activator FtrA; Provisional


Pssm-ID: 181818 [Multi-domain]  Cd Length: 322  Bit Score: 55.74  E-value: 5.01e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     36 WIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFDSQQSFTRRF 115
Cdd:PRK09393 226 WMRAHLAEPHTVASLAARAAMSPRTFLRRFEAATGMTPAEWLLRERLARARDLLESSALSIDQIAERAGFGSEESLRHHF 305
                         90
                 ....*....|....
gi 154849    116 KYIFKVTPSYYRRN 129
Cdd:PRK09393 306 RRRAATSPAAYRKR 319
PRK09685 PRK09685
DNA-binding transcriptional activator FeaR; Provisional
22-128 3.37e-09

DNA-binding transcriptional activator FeaR; Provisional


Pssm-ID: 236612 [Multi-domain]  Cd Length: 302  Bit Score: 53.50  E-value: 3.37e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     22 DRQFHTtvikdVLLWIEHNLDQ-SLLLDDVANKAGYTKWYFQRLFKKvTGVTLASYIRARRLTKAAVELR--LTKKTILE 98
Cdd:PRK09685 196 ERQFQK-----VVALIDQSIQEeILRPEWIAGELGISVRSLYRLFAE-QGLVVAQYIRNRRLDRCADDLRpaADDEKITS 269
                         90       100       110
                 ....*....|....*....|....*....|
gi 154849     99 IALKYQFDSQQSFTRRFKYIFKVTPSYYRR 128
Cdd:PRK09685 270 IAYKWGFSDSSHFSTAFKQRFGVSPGEYRR 299
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
37-78 2.14e-06

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 41.76  E-value: 2.14e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 154849      37 IEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIR 78
Cdd:pfam00165   1 LRENLSTNLTIADIADELGFSRSYFSRLFKKYTGVTPSQYRH 42
PRK13501 PRK13501
HTH-type transcriptional activator RhaR;
61-128 4.87e-06

HTH-type transcriptional activator RhaR;


Pssm-ID: 184092 [Multi-domain]  Cd Length: 290  Bit Score: 44.51  E-value: 4.87e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 154849     61 FQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFDSQQSFTRRFKYIFKVTPSYYRR 128
Cdd:PRK13501 209 LKQLFRQQTGMSISHYLRQIRLCHAKCLLRGSEHRISDIAARCGFEDSNYFSAVFTREAGMTPRDYRQ 276
PRK15435 PRK15435
bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;
42-128 2.88e-05

bifunctional DNA-binding transcriptional regulator/O6-methylguanine-DNA methyltransferase Ada;


Pssm-ID: 185333 [Multi-domain]  Cd Length: 353  Bit Score: 42.09  E-value: 2.88e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     42 DQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASY---IRARRLTKAavelrLTK-KTILEIALKYQFDSQQSFTRRFKY 117
Cdd:PRK15435  97 ETPVTLEALADQVAMSPFHLHRLFKATTGMTPKAWqqaWRARRLREA-----LAKgESVTTSILNAGFPDSSSYYRKADE 171
                         90
                 ....*....|.
gi 154849    118 IFKVTPSYYRR 128
Cdd:PRK15435 172 TLGMTAKQFRH 182
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
92-128 1.09e-04

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 37.52  E-value: 1.09e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 154849      92 TKKTILEIALKYQFdSQQSFTRRFKYIFKVTPSYYRR 128
Cdd:pfam00165   7 TNLTIADIADELGF-SRSYFSRLFKKYTGVTPSQYRH 42
PRK13502 PRK13502
HTH-type transcriptional activator RhaR;
26-127 2.25e-04

HTH-type transcriptional activator RhaR;


Pssm-ID: 184093 [Multi-domain]  Cd Length: 282  Bit Score: 39.65  E-value: 2.25e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     26 HTTVIKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQF 105
Cdd:PRK13502 174 RETLLDKLITALANSLECPFALDAFCQQEQCSERVLRQQFRAQTGMTINQYLRQVRICHAQYLLQHSPLMISEISMQCGF 253
                         90       100
                 ....*....|....*....|..
gi 154849    106 DSQQSFTRRFKYIFKVTPSYYR 127
Cdd:PRK13502 254 EDSNYFSVVFTRETGMTPSQWR 275
PRK10572 PRK10572
arabinose operon transcriptional regulator AraC;
30-128 8.76e-04

arabinose operon transcriptional regulator AraC;


Pssm-ID: 236717 [Multi-domain]  Cd Length: 290  Bit Score: 37.65  E-value: 8.76e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     30 IKDVLLWIEHNLDQSLLLDDVANKAGYTKWYFQRLFKKVTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFDSQQ 109
Cdd:PRK10572 185 VREACQYISDHLASEFDIESVAQHVCLSPSRLAHLFRQQLGISVLRWREDQRISRAKLLLQTTRMPIATIGRNVGYDDQL 264
                         90
                 ....*....|....*....
gi 154849    110 SFTRRFKYIFKVTPSYYRR 128
Cdd:PRK10572 265 YFSRVFKKCTGASPSEFRA 283
PRK15185 PRK15185
transcriptional regulator HilD; Provisional
47-126 2.40e-03

transcriptional regulator HilD; Provisional


Pssm-ID: 185107 [Multi-domain]  Cd Length: 309  Bit Score: 36.51  E-value: 2.40e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 154849     47 LDDVANKAGYTKWYFQRLFKKvTGVTLASYIRARRLTKAAVELRLTKKTILEIALKYQFDSQQSFTRRFKYIFKVTPSYY 126
Cdd:PRK15185 225 LTDVADHIFMSTSTLKRKLAE-EGTSFSDIYLSARMNQAAKLLRIGNHNVNAVALKCGYDSTSYFIQCFKKYFKTTPSTF 303
 
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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