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Conserved domains on  [gi|2593605653|ref|WP_316317913|]
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ABC transporter permease subunit, partial [Clavibacter michiganensis]

Protein Classification

ABC transporter permease( domain architecture ID 10003065)

ABC transporter permease is the transmembrane (TM) subunit of a periplasmic binding protein (PBP)-dependent ATP-binding cassette (ABC) transporter responsible for the translocation across the membrane of one or more from a variety of substrates including gylcine betaine, choline, and carnitine

Gene Ontology:  GO:0140359|GO:0042626|GO:0055085|GO:0016020
PubMed:  25750732|24638992|31571164|27273632|26517919|18535149|17723295
TCDB:  3.A.1

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
OpuBB COG1174
ABC-type proline/glycine betaine transport system, permease component [Amino acid transport ...
 40-179 1.32e-30

ABC-type proline/glycine betaine transport system, permease component [Amino acid transport and metabolism];


:

Pssm-ID: 440787 [Multi-domain]  Cd Length: 212  Bit Score: 110.53  E-value: 1.32e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  40 ANRYTRARGLLLTAGGLLYTIPSIALILVVPGLIGtslLDPRNIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGY 119
Cdd:COG1174    45 ITRRRRLAGLVLGVANILQTIPSLALLALLIPLLG---IGPAPAIIALVLYALLPILRNTYTGLRSVDPAVVEAARGMGM 121

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653 120 AGWARFWRVELPLAGPVLLAGLRVVSVSTVSMVTVGSLIGVQSLGTMILSGYRRSFFTEI 179
Cdd:COG1174   122 TPWQRLWRVELPLALPVILAGIRTAAVQNIGTATLAALIGAGGLGDLIFDGLQLNNTALI 181
 
Name Accession Description Interval E-value
OpuBB COG1174
ABC-type proline/glycine betaine transport system, permease component [Amino acid transport ...
 40-179 1.32e-30

ABC-type proline/glycine betaine transport system, permease component [Amino acid transport and metabolism];


Pssm-ID: 440787 [Multi-domain]  Cd Length: 212  Bit Score: 110.53  E-value: 1.32e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  40 ANRYTRARGLLLTAGGLLYTIPSIALILVVPGLIGtslLDPRNIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGY 119
Cdd:COG1174    45 ITRRRRLAGLVLGVANILQTIPSLALLALLIPLLG---IGPAPAIIALVLYALLPILRNTYTGLRSVDPAVVEAARGMGM 121

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653 120 AGWARFWRVELPLAGPVLLAGLRVVSVSTVSMVTVGSLIGVQSLGTMILSGYRRSFFTEI 179
Cdd:COG1174   122 TPWQRLWRVELPLALPVILAGIRTAAVQNIGTATLAALIGAGGLGDLIFDGLQLNNTALI 181
BPD_transp_1 pfam00528
Binding-protein-dependent transport system inner membrane component; The alignments cover the ...
 58-179 8.20e-06

Binding-protein-dependent transport system inner membrane component; The alignments cover the most conserved region of the proteins, which is thought to be located in a cytoplasmic loop between two transmembrane domains. The members of this family have a variable number of transmembrane helices.


Pssm-ID: 334128 [Multi-domain]  Cd Length: 183  Bit Score: 44.21  E-value: 8.20e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  58 YTIPS--IALILVVPGLIGTSLLDPRNIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGP 135
Cdd:pfam00528  28 QALPSfvLAILLVVIAILSILGHGILPAIILALLGWAGYARLIRRAALRSLPSDLVEAARALGASRWQIFRKIILPNALP 107

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2593605653 136 VLLAGLRVVSVSTVSMVTVGSLIGVQS-LGTMILSGYRRSFFTEI 179
Cdd:pfam00528 108 PILTGLALAFGGALGGAVLLEFLGSWPgLGLLLIEAILGYDYPEI 152
PRK10952 PRK10952
proline/glycine betaine ABC transporter permease ProW;
84-173 1.35e-04

proline/glycine betaine ABC transporter permease ProW;


Pssm-ID: 236805  Cd Length: 355  Bit Score: 41.23  E-value: 1.35e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  84 VIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLAGLRVVSVSTVSMVTVGSLIGVQSL 163
Cdd:PRK10952  212 VVVTIIFALPPIVRLTILGINQVPADLIEASRSFGASPRQMLFKVQLPLAMPTIMAGVNQTLMLALSMVVIASMIAVGGL 291

                          90
                  ....*....|
gi 2593605653 164 GTMILSGYRR 173
Cdd:PRK10952  292 GQMVLRGIGR 301
TM_PBP2 cd06261
Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding ...
 60-142 7.61e-03

Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others.


Pssm-ID: 119394 [Multi-domain]  Cd Length: 190  Bit Score: 35.72  E-value: 7.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  60 IPSIALILVVPGLIGTSLLDPRNIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLA 139
Cdd:cd06261    53 GLLLVLLFGVLLGWGILPGLGLPALILALLLIAPFARLIRRAALESIPKDLVEAARALGASPWQIFRRIILPLALPPILT 132


                  ...
gi 2593605653 140 GLR 142
Cdd:cd06261   133 GLV 135
 
Name Accession Description Interval E-value
OpuBB COG1174
ABC-type proline/glycine betaine transport system, permease component [Amino acid transport ...
 40-179 1.32e-30

ABC-type proline/glycine betaine transport system, permease component [Amino acid transport and metabolism];


Pssm-ID: 440787 [Multi-domain]  Cd Length: 212  Bit Score: 110.53  E-value: 1.32e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  40 ANRYTRARGLLLTAGGLLYTIPSIALILVVPGLIGtslLDPRNIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGY 119
Cdd:COG1174    45 ITRRRRLAGLVLGVANILQTIPSLALLALLIPLLG---IGPAPAIIALVLYALLPILRNTYTGLRSVDPAVVEAARGMGM 121

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653 120 AGWARFWRVELPLAGPVLLAGLRVVSVSTVSMVTVGSLIGVQSLGTMILSGYRRSFFTEI 179
Cdd:COG1174   122 TPWQRLWRVELPLALPVILAGIRTAAVQNIGTATLAALIGAGGLGDLIFDGLQLNNTALI 181
ModB COG4149
ABC-type molybdate transport system, permease component ModB [Inorganic ion transport and ...
 83-141 4.91e-08

ABC-type molybdate transport system, permease component ModB [Inorganic ion transport and metabolism]; ABC-type molybdate transport system, permease component ModB is part of the Pathway/BioSystem: Molybdopterin biosynthesis


Pssm-ID: 443320 [Multi-domain]  Cd Length: 223  Bit Score: 50.82  E-value: 4.91e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2593605653  83 IVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLAGL 141
Cdd:COG4149    93 AVLASVVVSLPLMVQPLRAAFEAVDPRLEEAARTLGASPWRVFFRVTLPLAKPGILAGA 151
FbpB COG1178
ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism];
83-141 1.63e-06

ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism];


Pssm-ID: 440791 [Multi-domain]  Cd Length: 538  Bit Score: 47.08  E-value: 1.63e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2593605653  83 IVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLAGL 141
Cdd:COG1178   142 IILVLVLFNYPYVYLLLRAALRSIDASLEEAARSLGASPWRAFRRVTLPLLRPAIAAGA 200
BPD_transp_1 pfam00528
Binding-protein-dependent transport system inner membrane component; The alignments cover the ...
 58-179 8.20e-06

Binding-protein-dependent transport system inner membrane component; The alignments cover the most conserved region of the proteins, which is thought to be located in a cytoplasmic loop between two transmembrane domains. The members of this family have a variable number of transmembrane helices.


Pssm-ID: 334128 [Multi-domain]  Cd Length: 183  Bit Score: 44.21  E-value: 8.20e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  58 YTIPS--IALILVVPGLIGTSLLDPRNIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGP 135
Cdd:pfam00528  28 QALPSfvLAILLVVIAILSILGHGILPAIILALLGWAGYARLIRRAALRSLPSDLVEAARALGASRWQIFRKIILPNALP 107

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2593605653 136 VLLAGLRVVSVSTVSMVTVGSLIGVQS-LGTMILSGYRRSFFTEI 179
Cdd:pfam00528 108 PILTGLALAFGGALGGAVLLEFLGSWPgLGLLLIEAILGYDYPEI 152
CysU COG0555
ABC-type sulfate transport system, permease component [Inorganic ion transport and metabolism]; ...
 83-141 4.34e-05

ABC-type sulfate transport system, permease component [Inorganic ion transport and metabolism];


Pssm-ID: 440321 [Multi-domain]  Cd Length: 268  Bit Score: 42.43  E-value: 4.34e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2593605653  83 IVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLAGL 141
Cdd:COG0555   139 IVLAQTFVSLPFVVRTVQPVLEELDPELEEAAATLGASRWQTFRRVILPLLLPALLTGF 197
FbpB COG1178
ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism];
67-141 7.93e-05

ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism];


Pssm-ID: 440791 [Multi-domain]  Cd Length: 538  Bit Score: 42.07  E-value: 7.93e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2593605653  67 LVVPGLIGTSLLdprnIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLAGL 141
Cdd:COG1178   402 PLPLLLYGTLAI----LVLAYVVRFLPFALRSLEAALAQIDPSLEEAARSLGASPLRTLRRVTLPLLRPGLLAAA 472
PRK10952 PRK10952
proline/glycine betaine ABC transporter permease ProW;
84-173 1.35e-04

proline/glycine betaine ABC transporter permease ProW;


Pssm-ID: 236805  Cd Length: 355  Bit Score: 41.23  E-value: 1.35e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  84 VIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLAGLRVVSVSTVSMVTVGSLIGVQSL 163
Cdd:PRK10952  212 VVVTIIFALPPIVRLTILGINQVPADLIEASRSFGASPRQMLFKVQLPLAMPTIMAGVNQTLMLALSMVVIASMIAVGGL 291

                          90
                  ....*....|
gi 2593605653 164 GTMILSGYRR 173
Cdd:PRK10952  292 GQMVLRGIGR 301
TauC COG0600
ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion ...
 58-173 1.36e-03

ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism];


Pssm-ID: 440365 [Multi-domain]  Cd Length: 254  Bit Score: 38.21  E-value: 1.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  58 YTIPSIALILVVPGLIGTSLLdPRNIVIALTVYAValMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVL 137
Cdd:COG0600   106 RPIPPLALAPLLILWFGIGEA-SKIFVIFLGAFFP--ILLNTAAGVRSVDPELLELARSLGASRWQILRKVVLPAALPYI 182

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2593605653 138 LAGLRVVSVSTVSMVTVGSLIGVQS-LGTMILSGYRR 173
Cdd:COG0600   183 FTGLRIALGLAWIGLVVAELLGASSgLGYLILDARQL 219
COG4986 COG4986
ABC-type anion transport system, duplicated permease component [Inorganic ion transport and ...
 103-138 1.69e-03

ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism];


Pssm-ID: 444010 [Multi-domain]  Cd Length: 576  Bit Score: 38.29  E-value: 1.69e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 2593605653 103 LASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLL 138
Cdd:COG4986   156 LRTVPRDLDEAARIFRLSGWQRFWRLELPFAMPGLV 191
PotC COG1177
ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport ...
 62-140 2.26e-03

ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism];


Pssm-ID: 440790 [Multi-domain]  Cd Length: 262  Bit Score: 37.40  E-value: 2.26e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2593605653  62 SIALILVVPGLIGTSLLdprnIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLAG 140
Cdd:COG1177   117 ALLLLFSALGLSGGLWG----LILAHVVFTLPFVVLVVLARLQGFDPSLEEAARDLGASPWQTFRRVTLPLIAPGILAG 191
TM_PBP2 cd06261
Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding ...
 60-142 7.61e-03

Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others.


Pssm-ID: 119394 [Multi-domain]  Cd Length: 190  Bit Score: 35.72  E-value: 7.61e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2593605653  60 IPSIALILVVPGLIGTSLLDPRNIVIALTVYAVALMVRITTDALASVPGDVKQSATAMGYAGWARFWRVELPLAGPVLLA 139
Cdd:cd06261    53 GLLLVLLFGVLLGWGILPGLGLPALILALLLIAPFARLIRRAALESIPKDLVEAARALGASPWQIFRRIILPLALPPILT 132


                  ...
gi 2593605653 140 GLR 142
Cdd:cd06261   133 GLV 135
 
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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