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Conserved domains on  [gi|2569490766|ref|WP_306790023|]
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efflux RND transporter periplasmic adaptor subunit [Methylomonas fluvii]

Protein Classification

efflux RND transporter periplasmic adaptor subunit( domain architecture ID 11436533)

efflux RND (resistance-nodulation-division) transporter periplasmic adaptor subunit, similar to Bacillus subtilis YknX, which is part of an unusual four-component transporter with a role in protection against sporulation-delaying-protein-induced killing

CATH:  2.40.50.100|2.40.420.20|2.40.30.170|1.10.287.470
Gene Ontology:  GO:0016020|GO:0055085|GO:0022857|GO:0042802
PubMed:  32073314
TCDB:  2.A.6

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
AcrA COG0845
Multidrug efflux pump subunit AcrA (membrane-fusion protein) [Cell wall/membrane/envelope ...
 2-164 6.79e-47

Multidrug efflux pump subunit AcrA (membrane-fusion protein) [Cell wall/membrane/envelope biogenesis, Defense mechanisms];


:

Pssm-ID: 440606 [Multi-domain]  Cd Length: 324  Bit Score: 155.10  E-value: 6.79e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766   2 VSDLKHLTVLMEVFEVNIGKIKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINV 81
Cdd:COG0845   162 IADLDPLEVEFDVPESDLARLKVGQPVTVTLDAGPGKTFEGKVTFIDPAVDPATRTVRVRAELPNPDGLLRPGMFVRVRI 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  82 ESTTDDKAFVIPLTAVFTEGDADYVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLRAEEEVETEST 161
Cdd:COG0845   242 VLGERENALLVPASAVVRDGGGAYVFVVDADGKVERRPVTLGRRDGDQVEVLSGLKAGDRVVVSGLQRLRDGAKVRVVEA 321


                  ...
gi 2569490766 162 HQP 164
Cdd:COG0845   322 AAP 324
 
Name Accession Description Interval E-value
AcrA COG0845
Multidrug efflux pump subunit AcrA (membrane-fusion protein) [Cell wall/membrane/envelope ...
 2-164 6.79e-47

Multidrug efflux pump subunit AcrA (membrane-fusion protein) [Cell wall/membrane/envelope biogenesis, Defense mechanisms];


Pssm-ID: 440606 [Multi-domain]  Cd Length: 324  Bit Score: 155.10  E-value: 6.79e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766   2 VSDLKHLTVLMEVFEVNIGKIKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINV 81
Cdd:COG0845   162 IADLDPLEVEFDVPESDLARLKVGQPVTVTLDAGPGKTFEGKVTFIDPAVDPATRTVRVRAELPNPDGLLRPGMFVRVRI 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  82 ESTTDDKAFVIPLTAVFTEGDADYVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLRAEEEVETEST 161
Cdd:COG0845   242 VLGERENALLVPASAVVRDGGGAYVFVVDADGKVERRPVTLGRRDGDQVEVLSGLKAGDRVVVSGLQRLRDGAKVRVVEA 321


                  ...
gi 2569490766 162 HQP 164
Cdd:COG0845   322 AAP 324
RND_mfp TIGR01730
RND family efflux transporter, MFP subunit; This model represents the MFP (membrane fusion ...
 22-156 1.38e-30

RND family efflux transporter, MFP subunit; This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane. [Transport and binding proteins, Unknown substrate]


Pssm-ID: 273776 [Multi-domain]  Cd Length: 322  Bit Score: 112.41  E-value: 1.38e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  22 IKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINVESTTDDKAFVIPLTAVFTEG 101
Cdd:TIGR01730 185 LRRGQTLTVELDALPGEEFKGKLRFIDPRVDSGTGTVRVRATFPNPDGRLLPGMFGRVTISLKVRSSAIVVPTQAVIEDL 264

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2569490766 102 DADYVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLRAEEEV 156
Cdd:TIGR01730 265 NGKYVYVVKNDGKVSKRPVEVGLRNGGYVEIESGLKAGDQIVTAGVVKLRDGAKV 319
HlyD_D23 pfam16576
Barrel-sandwich domain of CusB or HlyD membrane-fusion; HlyD_D23 is the combined domains 2 and ...
 2-77 2.32e-27

Barrel-sandwich domain of CusB or HlyD membrane-fusion; HlyD_D23 is the combined domains 2 and 3 of the membrane-fusion proteins CusB and HlyD, which forms a barrel-sandwich. CusB and HlyD proteins are membrane fusion proteins of the CusCFBA copper efflux system in E.coli and related bacteria. The whole molecule hinges between D2 and D3. Efflux systems of this resistance-nodulation-division group - RND - have been developed to excrete poisonous metal ions, and in E.coli the only one that deals with silver and copper is the CusA transporter. The transporter CusA works in conjunction with a periplasmic component that is a membrane fusion protein, eg CusB, and an outer-membrane channel component CusC in a CusABC complex driven by import of protons.


Pssm-ID: 435440 [Multi-domain]  Cd Length: 214  Bit Score: 101.43  E-value: 2.32e-27
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2569490766   2 VSDLKHLTVLMEVFEVNIGKIKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYA 77
Cdd:pfam16576 139 IADLSTVWVEADVPEQDLALVKVGQPAEVTLPALPGKTFEGKVDYIYPTLDPKTRTVRVRIELPNPDGRLKPGMFA 214
PRK09783 PRK09783
copper/silver efflux system membrane fusion protein CusB; Provisional
 22-153 3.03e-18

copper/silver efflux system membrane fusion protein CusB; Provisional


Pssm-ID: 236625 [Multi-domain]  Cd Length: 409  Bit Score: 80.30  E-value: 3.03e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  22 IKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINVEsTTDDKAFVIPLTAVFTEG 101
Cdd:PRK09783  260 VKDASQFTLTVPARPDKTFTIRKWTLLPSVDAATRTLQLRLEVDNADEALKPGMNAWLQLN-TASEPMLLIPSQALIDTG 338

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569490766 102 DADYVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLRAE 153
Cdd:PRK09783  339 SEQRVITVDADGRFVPKRVAVFQESQGVTAIRSGLAEGEKVVSSGLFLIDSE 390
 
Name Accession Description Interval E-value
AcrA COG0845
Multidrug efflux pump subunit AcrA (membrane-fusion protein) [Cell wall/membrane/envelope ...
 2-164 6.79e-47

Multidrug efflux pump subunit AcrA (membrane-fusion protein) [Cell wall/membrane/envelope biogenesis, Defense mechanisms];


Pssm-ID: 440606 [Multi-domain]  Cd Length: 324  Bit Score: 155.10  E-value: 6.79e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766   2 VSDLKHLTVLMEVFEVNIGKIKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINV 81
Cdd:COG0845   162 IADLDPLEVEFDVPESDLARLKVGQPVTVTLDAGPGKTFEGKVTFIDPAVDPATRTVRVRAELPNPDGLLRPGMFVRVRI 241

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  82 ESTTDDKAFVIPLTAVFTEGDADYVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLRAEEEVETEST 161
Cdd:COG0845   242 VLGERENALLVPASAVVRDGGGAYVFVVDADGKVERRPVTLGRRDGDQVEVLSGLKAGDRVVVSGLQRLRDGAKVRVVEA 321


                  ...
gi 2569490766 162 HQP 164
Cdd:COG0845   322 AAP 324
RND_mfp TIGR01730
RND family efflux transporter, MFP subunit; This model represents the MFP (membrane fusion ...
 22-156 1.38e-30

RND family efflux transporter, MFP subunit; This model represents the MFP (membrane fusion protein) component of the RND family of transporters. RND refers to Resistance, Nodulation, and cell Division. It is, in part, a subfamily of pfam00529 (Pfam release 7.5) but hits substantial numbers of proteins missed by that model. The related HlyD secretion protein, for which pfam00529 is named, is outside the scope of this model. Attributed functions imply outward transport. These functions include nodulation, acriflavin resistance, heavy metal efflux, and multidrug resistance proteins. Most members of this family are found in Gram-negative bacteria. The proposed function of MFP proteins is to bring the inner and outer membranes together and enable transport to the outside of the outer membrane. Note, however, that a few members of this family are found in Gram-positive bacteria, where there is no outer membrane. [Transport and binding proteins, Unknown substrate]


Pssm-ID: 273776 [Multi-domain]  Cd Length: 322  Bit Score: 112.41  E-value: 1.38e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  22 IKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINVESTTDDKAFVIPLTAVFTEG 101
Cdd:TIGR01730 185 LRRGQTLTVELDALPGEEFKGKLRFIDPRVDSGTGTVRVRATFPNPDGRLLPGMFGRVTISLKVRSSAIVVPTQAVIEDL 264

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2569490766 102 DADYVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLRAEEEV 156
Cdd:TIGR01730 265 NGKYVYVVKNDGKVSKRPVEVGLRNGGYVEIESGLKAGDQIVTAGVVKLRDGAKV 319
HlyD_D23 pfam16576
Barrel-sandwich domain of CusB or HlyD membrane-fusion; HlyD_D23 is the combined domains 2 and ...
 2-77 2.32e-27

Barrel-sandwich domain of CusB or HlyD membrane-fusion; HlyD_D23 is the combined domains 2 and 3 of the membrane-fusion proteins CusB and HlyD, which forms a barrel-sandwich. CusB and HlyD proteins are membrane fusion proteins of the CusCFBA copper efflux system in E.coli and related bacteria. The whole molecule hinges between D2 and D3. Efflux systems of this resistance-nodulation-division group - RND - have been developed to excrete poisonous metal ions, and in E.coli the only one that deals with silver and copper is the CusA transporter. The transporter CusA works in conjunction with a periplasmic component that is a membrane fusion protein, eg CusB, and an outer-membrane channel component CusC in a CusABC complex driven by import of protons.


Pssm-ID: 435440 [Multi-domain]  Cd Length: 214  Bit Score: 101.43  E-value: 2.32e-27
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2569490766   2 VSDLKHLTVLMEVFEVNIGKIKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYA 77
Cdd:pfam16576 139 IADLSTVWVEADVPEQDLALVKVGQPAEVTLPALPGKTFEGKVDYIYPTLDPKTRTVRVRIELPNPDGRLKPGMFA 214
PRK09783 PRK09783
copper/silver efflux system membrane fusion protein CusB; Provisional
 22-153 3.03e-18

copper/silver efflux system membrane fusion protein CusB; Provisional


Pssm-ID: 236625 [Multi-domain]  Cd Length: 409  Bit Score: 80.30  E-value: 3.03e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  22 IKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINVEsTTDDKAFVIPLTAVFTEG 101
Cdd:PRK09783  260 VKDASQFTLTVPARPDKTFTIRKWTLLPSVDAATRTLQLRLEVDNADEALKPGMNAWLQLN-TASEPMLLIPSQALIDTG 338

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 2569490766 102 DADYVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLRAE 153
Cdd:PRK09783  339 SEQRVITVDADGRFVPKRVAVFQESQGVTAIRSGLAEGEKVVSSGLFLIDSE 390
PRK11556 PRK11556
MdtA/MuxA family multidrug efflux RND transporter periplasmic adaptor subunit;
51-146 6.90e-13

MdtA/MuxA family multidrug efflux RND transporter periplasmic adaptor subunit;


Pssm-ID: 183194 [Multi-domain]  Cd Length: 415  Bit Score: 65.20  E-value: 6.90e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  51 LDETTRTVQVRCKLDNSDGRLMPGMYATINVESTTDDKAFVIPLTAVFTEGDADYVFIALDDNRYRQRRVDIGLRLKDRA 130
Cdd:PRK11556  283 IDATTGTIKLKARFNNQDDALFPNQFVNARMLVDTLQNAVVIPTAALQMGNEGHFVWVLNDENKVSKHLVTPGIQDSQKV 362

                          90
                  ....*....|....*.
gi 2569490766 131 VVTQGLDANEQLVTEG 146
Cdd:PRK11556  363 VISAGLSAGDRVVTDG 378
EmrA COG1566
Multidrug resistance efflux pump EmrA [Defense mechanisms];
2-82 8.44e-12

Multidrug resistance efflux pump EmrA [Defense mechanisms];


Pssm-ID: 441174 [Multi-domain]  Cd Length: 331  Bit Score: 61.60  E-value: 8.44e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766   2 VSDLKHLTVLMEVFEVNIGKIKLGQQVAVSVPAYPGETFPATVQYIGQVLDETT----------RTVQVRCKLDNSDG-R 70
Cdd:COG1566   238 IVPLDDLWVEAYVPETDLGRVKPGQPVEVRVDAYPDRVFEGKVTSISPGAGFTSppknatgnvvQRYPVRIRLDNPDPeP 317

                          90
                  ....*....|..
gi 2569490766  71 LMPGMYATINVE 82
Cdd:COG1566   318 LRPGMSATVEID 329
PRK09859 PRK09859
multidrug transporter subunit MdtE;
16-151 8.18e-10

multidrug transporter subunit MdtE;


Pssm-ID: 137559 [Multi-domain]  Cd Length: 385  Bit Score: 56.26  E-value: 8.18e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  16 EVNIGKIKLGQ-QVAVSVPAYPGETFP--ATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINVESTTDDKAFVI 92
Cdd:PRK09859  225 EVASGQIKQVQgSTPVQLNLENGKRYSqtGTLKFSDPTVDETTGSVTLRAIFPNPNGDLLPGMYVTALVDEGSRQNVLLV 304

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  93 PLTAVFTEGDADYVFIALD-DNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLR 151
Cdd:PRK09859  305 PQEGVTHNAQGKATALILDkDDVVQLREIEASKAIGDQWVVTSGLQAGDRVIVSGLQRIR 364
PRK15030 PRK15030
multidrug efflux RND transporter periplasmic adaptor subunit AcrA;
27-159 2.74e-09

multidrug efflux RND transporter periplasmic adaptor subunit AcrA;


Pssm-ID: 184990 [Multi-domain]  Cd Length: 397  Bit Score: 54.72  E-value: 2.74e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  27 QVAVSVPAYPGETFP--ATVQYIGQVLDETTRTVQVRCKLDNSDGRLMPGMYATINVESTTDDKAFVIPLTAV--FTEGD 102
Cdd:PRK15030  241 KAKVSLITSDGIKFPqdGTLEFSDVTVDQTTGSITLRAIFPNPDHTLLPGMFVRARLEEGLNPNAILVPQQGVtrTPRGD 320

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2569490766 103 ADyVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVTEGALMLRAEEEVETE 159
Cdd:PRK15030  321 AT-VLVVGADDKVETRPIVASQAIGDKWLVTEGLKAGDRVVISGLQKVRPGVQVKAQ 376
HlyD_3 pfam13437
HlyD family secretion protein; This is a family of largely bacterial haemolysin translocator ...
 2-74 1.21e-06

HlyD family secretion protein; This is a family of largely bacterial haemolysin translocator HlyD proteins.


Pssm-ID: 433206 [Multi-domain]  Cd Length: 104  Bit Score: 44.66  E-value: 1.21e-06
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2569490766   2 VSDLKHLTVLMEVFEVNIGKIKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTVQVRCKLDNSDG--RLMPG 74
Cdd:pfam13437  30 IVPPDRLLVEAFVPAADLGSLKKGQKVTLKLDPGSDYTLEGKVVRISPTVDPDTGVIPVRVSIENPKTpiPLLPG 104
PRK11578 PRK11578
macrolide transporter subunit MacA; Provisional
 2-144 4.74e-06

macrolide transporter subunit MacA; Provisional


Pssm-ID: 183211 [Multi-domain]  Cd Length: 370  Bit Score: 45.15  E-value: 4.74e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766   2 VSDLKHLTVLMEVFEVNIGKIKLGQQVAVSVPAYPGETFPATVQYIGQVLDETTRTV--QVRCKLDNSDGRLMPGMYATI 79
Cdd:PRK11578  217 LADMSTMLVKAQVSEADVIHLKPGQKAWFTVLGDPLTRYEGVLKDILPTPEKVNDAIfyYARFEVPNPNGLLRLDMTAQV 296

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2569490766  80 NVESTTDDKAFVIPLTAVFTE-GDADYVFIALDDNRYRQRRVDIGLRLKDRAVVTQGLDANEQLVT 144
Cdd:PRK11578  297 HIQLTDVKNVLTIPLSALGDPvGDNRYKVKLLRNGETREREVTIGARNDTDVEIVKGLEAGDEVII 362
PRK09578 PRK09578
MexX/AxyX family multidrug efflux RND transporter periplasmic adaptor subunit;
52-157 2.47e-05

MexX/AxyX family multidrug efflux RND transporter periplasmic adaptor subunit;


Pssm-ID: 169982 [Multi-domain]  Cd Length: 385  Bit Score: 43.24  E-value: 2.47e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2569490766  52 DETTRTVQVRCKLDNSDGRLMPGMYATINVESTTDDKAFVIPLTAVFTEGDADYVFIALDDNRYRQRRVDIGlRLKDRA- 130
Cdd:PRK09578  267 DPTTDTVAMRALFPNPERELLPGAYVRIALDRAVNPRAILVPRDALLRTADSASVKVVGQNGKVRDVEVEAD-QMSGRDw 345

                          90       100
                  ....*....|....*....|....*..
gi 2569490766 131 VVTQGLDANEQLVTEGALMLRAEEEVE 157
Cdd:PRK09578  346 IVTRGLAGGERVIVDNAAQFAPGTAVK 372
 
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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