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Conserved domains on  [gi|2096254502|ref|WP_223209127|]
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ABC transporter permease subunit [Limosilactobacillus fermentum]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HisM super family cl43263
ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; ...
 2-126 1.87e-30

ABC-type amino acid transport system, permease component [Amino acid transport and metabolism];


The actual alignment was detected with superfamily member COG0765:

Pssm-ID: 440528 [Multi-domain]  Cd Length: 218  Bit Score: 108.24  E-value: 1.87e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   2 GLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYN 81
Cdd:COG0765    94 ALTLNSAAYLAEIVRAGIQSVPKGQWEAARALGLSRWQTMRRIILPQALRIILPPLGNEFISLLKDTSLVSVIGVPELTR 173

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2096254502  82 DASNLSNQTNgiYQLQIFIILALIYWAFVLLIEWGFRTIAHRYQK 126
Cdd:COG0765   174 AAQQIASRTF--RPFEVYLVAALIYLVLTLPLSLLARRLERRLAR 216
 
Name Accession Description Interval E-value
HisM COG0765
ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; ...
 2-126 1.87e-30

ABC-type amino acid transport system, permease component [Amino acid transport and metabolism];


Pssm-ID: 440528 [Multi-domain]  Cd Length: 218  Bit Score: 108.24  E-value: 1.87e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   2 GLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYN 81
Cdd:COG0765    94 ALTLNSAAYLAEIVRAGIQSVPKGQWEAARALGLSRWQTMRRIILPQALRIILPPLGNEFISLLKDTSLVSVIGVPELTR 173

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2096254502  82 DASNLSNQTNgiYQLQIFIILALIYWAFVLLIEWGFRTIAHRYQK 126
Cdd:COG0765   174 AAQQIASRTF--RPFEVYLVAALIYLVLTLPLSLLARRLERRLAR 216
PRK15100 PRK15100
cystine ABC transporter permease;
1-107 3.93e-16

cystine ABC transporter permease;


Pssm-ID: 185055 [Multi-domain]  Cd Length: 220  Bit Score: 71.32  E-value: 3.93e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   1 MGLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMY 80
Cdd:PRK15100   93 IGLSLNTAAYAAETLRAAISSIDKGQWEAAASIGMTRWQTLRRAILPQAARTALPPLSNSFISLVKDTSLAATIQVPELF 172

                          90       100
                  ....*....|....*....|....*..
gi 2096254502  81 NDASNLSNQTNGIYQLqiFIILALIYW 107
Cdd:PRK15100  173 RQAQLITSRTLEVFTM--YLAASLIYW 197
TM_PBP2 cd06261
Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding ...
 3-113 5.35e-08

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: 48.81  E-value: 5.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   3 LTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYND 82
Cdd:cd06261    80 ALLLIAPFARLIRRAALESIPKDLVEAARALGASPWQIFRRIILPLALPPILTGLVLAFARALGEFALVSFLGGGEAPGP 159

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2096254502  83 asNLSNQTNGIYQLQIFIILALIYWAFVLLI 113
Cdd:cd06261   160 --GTGLLLIFAILFPGDLGVAAAVALILLLL 188
BPD_transp_1 pfam00528
Binding-protein-dependent transport system inner membrane component; The alignments cover the ...
 1-123 9.64e-07

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: 45.37  E-value: 9.64e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   1 MGLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLY-DM 79
Cdd:pfam00528  57 ILALLGWAGYARLIRRAALRSLPSDLVEAARALGASRWQIFRKIILPNALPPILTGLALAFGGALGGAVLLEFLGSWpGL 136

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2096254502  80 YNDASNLSNQTNGIYQLQIFIILALIYWAFVLLIEWGFRTIAHR 123
Cdd:pfam00528 137 GLLLIEAILGYDYPEIQGPVLAAALILLLLNLLVDILQRLLDPR 180
 
Name Accession Description Interval E-value
HisM COG0765
ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; ...
 2-126 1.87e-30

ABC-type amino acid transport system, permease component [Amino acid transport and metabolism];


Pssm-ID: 440528 [Multi-domain]  Cd Length: 218  Bit Score: 108.24  E-value: 1.87e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   2 GLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYN 81
Cdd:COG0765    94 ALTLNSAAYLAEIVRAGIQSVPKGQWEAARALGLSRWQTMRRIILPQALRIILPPLGNEFISLLKDTSLVSVIGVPELTR 173

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2096254502  82 DASNLSNQTNgiYQLQIFIILALIYWAFVLLIEWGFRTIAHRYQK 126
Cdd:COG0765   174 AAQQIASRTF--RPFEVYLVAALIYLVLTLPLSLLARRLERRLAR 216
ArtM COG4160
ABC-type arginine/histidine transport system, permease component [Amino acid transport and ...
 8-124 1.87e-21

ABC-type arginine/histidine transport system, permease component [Amino acid transport and metabolism];


Pssm-ID: 443325 [Multi-domain]  Cd Length: 229  Bit Score: 85.15  E-value: 1.87e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   8 SAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYNDASNLS 87
Cdd:COG4160   107 AAYTAEIFRGAIRAVPKGEIEAARALGMSRWQTFRRIILPSALRRALPAYSNEVILMLKATALASTITVMDLTGVARRIY 186

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2096254502  88 NQTngiYQ-LQIFIILALIYWAFVLLIEWGFRTIAHRY 124
Cdd:COG4160   187 SRT---YDpFEPFLIAALIYLVITFLLTRLFRLLERRL 221
PRK15100 PRK15100
cystine ABC transporter permease;
1-107 3.93e-16

cystine ABC transporter permease;


Pssm-ID: 185055 [Multi-domain]  Cd Length: 220  Bit Score: 71.32  E-value: 3.93e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   1 MGLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMY 80
Cdd:PRK15100   93 IGLSLNTAAYAAETLRAAISSIDKGQWEAAASIGMTRWQTLRRAILPQAARTALPPLSNSFISLVKDTSLAATIQVPELF 172

                          90       100
                  ....*....|....*....|....*..
gi 2096254502  81 NDASNLSNQTNGIYQLqiFIILALIYW 107
Cdd:PRK15100  173 RQAQLITSRTLEVFTM--YLAASLIYW 197
PRK11123 PRK11123
arginine ABC transporter permease ArtQ;
3-123 2.98e-12

arginine ABC transporter permease ArtQ;


Pssm-ID: 182979 [Multi-domain]  Cd Length: 238  Bit Score: 61.23  E-value: 2.98e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   3 LTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYND 82
Cdd:PRK11123  111 LSLLYAAYASQTLRGALKAVPVGQWESGQALGLSKSAIFFRLVMPQMWRHALPGLGNQWLVLLKDTALVSLISVNDLMLQ 190

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2096254502  83 ASNLSNQTNGIYQLqiFIILALIYWAFVLLIEWGFRTIAHR 123
Cdd:PRK11123  191 TKSIATRTQEPFTW--YIIAAAIYLVITLISQYILKRIELR 229
PRK15135 PRK15135
histidine ABC transporter permease HisQ;
7-112 3.33e-11

histidine ABC transporter permease HisQ;


Pssm-ID: 185089 [Multi-domain]  Cd Length: 228  Bit Score: 58.27  E-value: 3.33e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   7 WSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYNdASNL 86
Cdd:PRK15135  104 YGAYFTETFRGAFMAVPKGHIEAATAFGFTRGQVFRRIMFPAMMRYALPGIGNNWQVILKATALVSLLGLEDVVK-ATQL 182

                          90       100
                  ....*....|....*....|....*..
gi 2096254502  87 SNQtnGIYQLQIFIILA-LIYWAFVLL 112
Cdd:PRK15135  183 AGK--STWEPFYFAIVCgVIYLVFTTV 207
BatB COG4597
ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; ...
 2-113 1.41e-09

ABC-type amino acid transport system, permease component [Amino acid transport and metabolism];


Pssm-ID: 443651 [Multi-domain]  Cd Length: 397  Bit Score: 54.38  E-value: 1.41e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   2 GLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYN 81
Cdd:COG4597   271 ALSLYTAAFIAEIVRAGIQAVSKGQTEAARALGLRPGQTLRLVVLPQALRVIIPPLTSQYLNLTKNSSLAVAIGYPDLVS 350

                          90       100       110
                  ....*....|....*....|....*....|....
gi 2096254502  82 DASNLS-NQTNgiyQ-LQIFIILALIYWAFVLLI 113
Cdd:COG4597   351 VFAGTTlNQTG---QaIEIIAITMAVYLTISLLI 381
TM_PBP2 cd06261
Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding ...
 3-113 5.35e-08

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: 48.81  E-value: 5.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   3 LTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYND 82
Cdd:cd06261    80 ALLLIAPFARLIRRAALESIPKDLVEAARALGASPWQIFRRIILPLALPPILTGLVLAFARALGEFALVSFLGGGEAPGP 159

                          90       100       110
                  ....*....|....*....|....*....|.
gi 2096254502  83 asNLSNQTNGIYQLQIFIILALIYWAFVLLI 113
Cdd:cd06261   160 --GTGLLLIFAILFPGDLGVAAAVALILLLL 188
PRK15107 PRK15107
glutamate/aspartate ABC transporter permease GltK;
8-111 2.10e-07

glutamate/aspartate ABC transporter permease GltK;


Pssm-ID: 185062 [Multi-domain]  Cd Length: 224  Bit Score: 47.52  E-value: 2.10e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   8 SAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYNDASNLS 87
Cdd:PRK15107  109 AAYYSEIIRAGIQSISRGQSSAALALGMTHWQSMKLIILPQAFRAMVPLLLTQGIVLFQDTSLVYVLSLADFFRTASTIG 188

                          90       100
                  ....*....|....*....|....
gi 2096254502  88 NQTNGiyQLQIFIILALIYWAFVL 111
Cdd:PRK15107  189 ERDGT--QVEMILFAGFVYFVISL 210
PRK15069 PRK15069
histidine ABC transporter permease HisM;
1-129 3.49e-07

histidine ABC transporter permease HisM;


Pssm-ID: 185029 [Multi-domain]  Cd Length: 234  Bit Score: 46.97  E-value: 3.49e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   1 MGLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMY 80
Cdd:PRK15069  107 LAFTLNTCAYTTEIFAGAIRSVPHGEIEAARAYGMSTFKLYRRIILPSALRRALPAYSNEVILMLHATTLAFTATVPDIL 186

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2096254502  81 NDASNLSNQTngiYQ-LQIFIILALIYWAFVLLIEWGFRTIAHRYQKVLG 129
Cdd:PRK15069  187 KIARDINSAT---YQpFQAFGIAAVLYLIISFVLISLFRRAERRWLAHLK 233
BPD_transp_1 pfam00528
Binding-protein-dependent transport system inner membrane component; The alignments cover the ...
 1-123 9.64e-07

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: 45.37  E-value: 9.64e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   1 MGLTVGWSAYLAEAFRSAYLAVDQGQLEAALAVGITPRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLY-DM 79
Cdd:pfam00528  57 ILALLGWAGYARLIRRAALRSLPSDLVEAARALGASRWQIFRKIILPNALPPILTGLALAFGGALGGAVLLEFLGSWpGL 136

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2096254502  80 YNDASNLSNQTNGIYQLQIFIILALIYWAFVLLIEWGFRTIAHR 123
Cdd:pfam00528 137 GLLLIEAILGYDYPEIQGPVLAAALILLLLNLLVDILQRLLDPR 180
artM PRK11122
arginine ABC transporter permease ArtM;
8-123 3.72e-06

arginine ABC transporter permease ArtM;


Pssm-ID: 182978 [Multi-domain]  Cd Length: 222  Bit Score: 44.18  E-value: 3.72e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2096254502   8 SAYLAEAFRSAYLAVDQGQLEAALAVGITpRRAFFRIIVPQAALIALSNIENLFIGLVKGTSLVYVLGLYDMYNDASNLS 87
Cdd:PRK11122  103 AAYSTQLFYGAVRAIPEGQWQSCAALGMS-KKQTLRILLPYAFKRALSSYSNEVVLVFKSTSLAYTITLMDVMGYSQLLY 181

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 2096254502  88 NQTngiYQLQIFIILALIYWAFVLLIEWGFRTIAHR 123
Cdd:PRK11122  182 GRT---YDVMVFGAAGIIYLVVNGLLTLLMRLIERK 214
 
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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