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Conserved domains on  [gi|1861233997|ref|WP_176072481|]
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ABC transporter permease [Clostridioides difficile]

Protein Classification

ABC transporter permease( domain architecture ID 10578810)

ABC transporter permease is the transmembrane subunit found in a periplasmic binding protein (PBP)-dependent ABC transport system, which may be involved in the transport of one or more from a variety of substrates including sugars, ions, amino acids, and peptides, among others

Gene Ontology:  GO:0140359|GO:0042626|GO:0043190|GO:0016020
PubMed:  25750732|24638992|18535149|17723295
TCDB:  3.A.1

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ABC2_membrane_4 pfam12730
ABC-2 family transporter protein; This family is related to the ABC-2 membrane transporter ...
 7-178 3.22e-28

ABC-2 family transporter protein; This family is related to the ABC-2 membrane transporter family pfam01061.


:

Pssm-ID: 403819  Cd Length: 179  Bit Score: 105.75  E-value: 3.22e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997   7 IISCEFSKLKRLKFILISILGACLFPIPATIL---IAKDNLPFEQLFKLVVN-FGYFLLLPIVLSIVASQLFFIERDNDV 82
Cdd:pfam12730   1 LIKTEFLKLKRSKIVWIIFLAALLFPFLALLYfnyLGKTGIDPAEYYSWSVFgFTLLLLLPIILGIIASYLFFREYDNDT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997  83 LKNLATVPVPKGKLALAKLAVLLFISLFYSVAGLGATI----IGGFIVGIVEGVTVKLGMSIAFGIMFFVTALPVVVlIV 158
Cdd:pfam12730  81 LKNLLTIPVSRRKLLFAKLIVLLLLSVLFMLVTFLITVlfglLSGFVGFSWGLILYLLKKCLEIGLLVFFAVLPIIA-LA 159

                         170       180
                  ....*....|....*....|
gi 1861233997 159 YFNRSYIFSIILSFVYAIFN 178
Cdd:pfam12730 160 LLFKGYVLPVILTLVYTFAG 179
 
Name Accession Description Interval E-value
ABC2_membrane_4 pfam12730
ABC-2 family transporter protein; This family is related to the ABC-2 membrane transporter ...
 7-178 3.22e-28

ABC-2 family transporter protein; This family is related to the ABC-2 membrane transporter family pfam01061.


Pssm-ID: 403819  Cd Length: 179  Bit Score: 105.75  E-value: 3.22e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997   7 IISCEFSKLKRLKFILISILGACLFPIPATIL---IAKDNLPFEQLFKLVVN-FGYFLLLPIVLSIVASQLFFIERDNDV 82
Cdd:pfam12730   1 LIKTEFLKLKRSKIVWIIFLAALLFPFLALLYfnyLGKTGIDPAEYYSWSVFgFTLLLLLPIILGIIASYLFFREYDNDT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997  83 LKNLATVPVPKGKLALAKLAVLLFISLFYSVAGLGATI----IGGFIVGIVEGVTVKLGMSIAFGIMFFVTALPVVVlIV 158
Cdd:pfam12730  81 LKNLLTIPVSRRKLLFAKLIVLLLLSVLFMLVTFLITVlfglLSGFVGFSWGLILYLLKKCLEIGLLVFFAVLPIIA-LA 159

                         170       180
                  ....*....|....*....|
gi 1861233997 159 YFNRSYIFSIILSFVYAIFN 178
Cdd:pfam12730 160 LLFKGYVLPVILTLVYTFAG 179
EfiE COG4200
Predicted lantabiotic-exporting membrane pepmease, EfiE/EfiG/ABC2 family [Defense mechanisms];
4-182 7.82e-08

Predicted lantabiotic-exporting membrane pepmease, EfiE/EfiG/ABC2 family [Defense mechanisms];


Pssm-ID: 443354 [Multi-domain]  Cd Length: 250  Bit Score: 51.88  E-value: 7.82e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997   4 LLDIISCEFSKLKRLKFILISILGACLFPI---------PATILIAKDNLPFEQLFKLVVNFGYFLLLPIVLSIVASQLF 74
Cdd:COG4200     2 MLRLLRAELLKLKRSLIWLLVLLLPLLSALlglfnyllnYEILQPYNDGDGWLSLWTQSFLFWSFFFLPLLIALLASLLA 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997  75 FIERDNDVLKNLATVPVPKGKLALAKLAVLLFISLFYSVAGLGATIIGGFIVGIVEGVTvkLGMSIAFGIMFFVTALPVV 154
Cdd:COG4200    82 RLEHKNGNWKQLLTLPVSRAKLYLAKLLVVALLLLLSQLLFFVLYLLSGLLLGLSGSIP--WGELLKWLLLGWLASLPLI 159

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1861233997 155 VLIVYFN---RSYIFSIILSFVYAIFNFSIS 182
Cdd:COG4200   160 ALQLWLSlrfRSFAAPVGIGIVGTIAGLLAS 190
ABC-2_lan_permease-like cd21809
lantibiotic immunity ABC transporter permease (also called ABC-2 transporter permease) subunit ...
 10-156 7.52e-04

lantibiotic immunity ABC transporter permease (also called ABC-2 transporter permease) subunit and similar proteins; This subfamily contains lantibiotic ABC transporter permease subunits which are highly hydrophobic, integral membrane proteins, and part of the bacitracin ABC transport system that confers resistance to the Gram-positive bacteria in which this system operates, particularly to type-A lantibiotics. Lantibiotics are small peptides, produced by Gram-positive bacteria, which are ribosomally-synthesized as pre-peptides and act by disrupting membrane integrity. Genes encoding the lantibiotic ABC transporter subunits are highly organized in operons containing all the genes required for maturation, transport, immunity, and synthesis. For example, in Lactococcus lactis, the lantibiotic nisin is active against other Gram-positive bacteria via various modes of actions; however, its self-protection against the pore-forming nisin is mediated by the ABC transporter composed of NisF, NisE and NisG; the NisG permease subunit transports nisin to the surface and expels it from the membrane. This family includes mostly uncharacterized transport permease subunits that transport lantibiotics to the surface and expel them from the membrane.


Pssm-ID: 409634  Cd Length: 235  Bit Score: 39.87  E-value: 7.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997  10 CEFSKLKRLKFILISILGACLFPIPATIL------IAKDNLPFEQLFKLVVNFGYFLLLPIVLSIVASQLFFIERDNDVL 83
Cdd:cd21809     1 AEWLKLKRSKIWLLVLLAPLLAVLLGLLNflrnkdILVKDNPWWSLLTQVVLFYGLLFLPLLIGILASLVCRIEHKNNGW 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1861233997  84 KNLATVPVPKGKLALAKLAVLLFISLFYSVAGLGATIIGGFIVGIVEgvTVKLGMSIAFGIMFFVTALPVVVL 156
Cdd:cd21809    81 KQLLALPVSRTQIYLAKFLVVLLLLALTQLLFLGAIILGGLLLGFGG--PIPWLLILKSVLLGWIASLPLIAL 151
 
Name Accession Description Interval E-value
ABC2_membrane_4 pfam12730
ABC-2 family transporter protein; This family is related to the ABC-2 membrane transporter ...
 7-178 3.22e-28

ABC-2 family transporter protein; This family is related to the ABC-2 membrane transporter family pfam01061.


Pssm-ID: 403819  Cd Length: 179  Bit Score: 105.75  E-value: 3.22e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997   7 IISCEFSKLKRLKFILISILGACLFPIPATIL---IAKDNLPFEQLFKLVVN-FGYFLLLPIVLSIVASQLFFIERDNDV 82
Cdd:pfam12730   1 LIKTEFLKLKRSKIVWIIFLAALLFPFLALLYfnyLGKTGIDPAEYYSWSVFgFTLLLLLPIILGIIASYLFFREYDNDT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997  83 LKNLATVPVPKGKLALAKLAVLLFISLFYSVAGLGATI----IGGFIVGIVEGVTVKLGMSIAFGIMFFVTALPVVVlIV 158
Cdd:pfam12730  81 LKNLLTIPVSRRKLLFAKLIVLLLLSVLFMLVTFLITVlfglLSGFVGFSWGLILYLLKKCLEIGLLVFFAVLPIIA-LA 159

                         170       180
                  ....*....|....*....|
gi 1861233997 159 YFNRSYIFSIILSFVYAIFN 178
Cdd:pfam12730 160 LLFKGYVLPVILTLVYTFAG 179
EfiE COG4200
Predicted lantabiotic-exporting membrane pepmease, EfiE/EfiG/ABC2 family [Defense mechanisms];
4-182 7.82e-08

Predicted lantabiotic-exporting membrane pepmease, EfiE/EfiG/ABC2 family [Defense mechanisms];


Pssm-ID: 443354 [Multi-domain]  Cd Length: 250  Bit Score: 51.88  E-value: 7.82e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997   4 LLDIISCEFSKLKRLKFILISILGACLFPI---------PATILIAKDNLPFEQLFKLVVNFGYFLLLPIVLSIVASQLF 74
Cdd:COG4200     2 MLRLLRAELLKLKRSLIWLLVLLLPLLSALlglfnyllnYEILQPYNDGDGWLSLWTQSFLFWSFFFLPLLIALLASLLA 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997  75 FIERDNDVLKNLATVPVPKGKLALAKLAVLLFISLFYSVAGLGATIIGGFIVGIVEGVTvkLGMSIAFGIMFFVTALPVV 154
Cdd:COG4200    82 RLEHKNGNWKQLLTLPVSRAKLYLAKLLVVALLLLLSQLLFFVLYLLSGLLLGLSGSIP--WGELLKWLLLGWLASLPLI 159

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1861233997 155 VLIVYFN---RSYIFSIILSFVYAIFNFSIS 182
Cdd:COG4200   160 ALQLWLSlrfRSFAAPVGIGIVGTIAGLLAS 190
ABC-2_lan_permease-like cd21809
lantibiotic immunity ABC transporter permease (also called ABC-2 transporter permease) subunit ...
 10-156 7.52e-04

lantibiotic immunity ABC transporter permease (also called ABC-2 transporter permease) subunit and similar proteins; This subfamily contains lantibiotic ABC transporter permease subunits which are highly hydrophobic, integral membrane proteins, and part of the bacitracin ABC transport system that confers resistance to the Gram-positive bacteria in which this system operates, particularly to type-A lantibiotics. Lantibiotics are small peptides, produced by Gram-positive bacteria, which are ribosomally-synthesized as pre-peptides and act by disrupting membrane integrity. Genes encoding the lantibiotic ABC transporter subunits are highly organized in operons containing all the genes required for maturation, transport, immunity, and synthesis. For example, in Lactococcus lactis, the lantibiotic nisin is active against other Gram-positive bacteria via various modes of actions; however, its self-protection against the pore-forming nisin is mediated by the ABC transporter composed of NisF, NisE and NisG; the NisG permease subunit transports nisin to the surface and expels it from the membrane. This family includes mostly uncharacterized transport permease subunits that transport lantibiotics to the surface and expel them from the membrane.


Pssm-ID: 409634  Cd Length: 235  Bit Score: 39.87  E-value: 7.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861233997  10 CEFSKLKRLKFILISILGACLFPIPATIL------IAKDNLPFEQLFKLVVNFGYFLLLPIVLSIVASQLFFIERDNDVL 83
Cdd:cd21809     1 AEWLKLKRSKIWLLVLLAPLLAVLLGLLNflrnkdILVKDNPWWSLLTQVVLFYGLLFLPLLIGILASLVCRIEHKNNGW 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1861233997  84 KNLATVPVPKGKLALAKLAVLLFISLFYSVAGLGATIIGGFIVGIVEgvTVKLGMSIAFGIMFFVTALPVVVL 156
Cdd:cd21809    81 KQLLALPVSRTQIYLAKFLVVLLLLALTQLLFLGAIILGGLLLGFGG--PIPWLLILKSVLLGWIASLPLIAL 151
 
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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