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Conserved domains on  [gi|1316028689|gb|AUH25173|]
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LacF, partial [Xanthomonas alfalfae]

Protein Classification

carbohydrate ABC transporter permease( domain architecture ID 10003067)

carbohydrate 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 carbohydrate substrates including trehalose, lactose, arabinose, and maltodextrin

Gene Ontology:  GO:0042626|GO:0140359|GO:0008643|GO:0055085
PubMed:  25750732|24638992|30626703
TCDB:  3.A.1.1.-

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
UgpA COG1175
ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism];
1-134 1.90e-49

ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism];


:

Pssm-ID: 440788 [Multi-domain]  Cd Length: 298  Bit Score: 159.53  E-value: 1.90e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689   1 SIGVSLGAALLLNAKaSRFKALFRTALFAPVVTTLVAVAVIWRYLFHIKYGLVNFGLSHLGIAPIDWLGDPRWAMPTIML 80
Cdd:COG1175    92 QLVLGLLLALLLNRK-LRGRGFFRTLFFLPWVISPVVVALIWKWLFNPDYGLLNALLGALGLEPINWLGDPSLALPAVII 170

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1316028689  81 FAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:COG1175   171 VTVWKGTGFNMLIFLAGLQSIPRELYEAARIDGASPWQRFRRITLPLLRPTILF 224
 
Name Accession Description Interval E-value
UgpA COG1175
ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism];
1-134 1.90e-49

ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism];


Pssm-ID: 440788 [Multi-domain]  Cd Length: 298  Bit Score: 159.53  E-value: 1.90e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689   1 SIGVSLGAALLLNAKaSRFKALFRTALFAPVVTTLVAVAVIWRYLFHIKYGLVNFGLSHLGIAPIDWLGDPRWAMPTIML 80
Cdd:COG1175    92 QLVLGLLLALLLNRK-LRGRGFFRTLFFLPWVISPVVVALIWKWLFNPDYGLLNALLGALGLEPINWLGDPSLALPAVII 170

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1316028689  81 FAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:COG1175   171 VTVWKGTGFNMLIFLAGLQSIPRELYEAARIDGASPWQRFRRITLPLLRPTILF 224
malF PRK10999
maltose ABC transporter permease MalF;
9-133 2.28e-17

maltose ABC transporter permease MalF;


Pssm-ID: 236816 [Multi-domain]  Cd Length: 520  Bit Score: 76.92  E-value: 2.28e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689   9 ALLLNAKASRFKALFRTALFAPVVTTLVAVAVIWRYLFHIKYGLVNFGLSHL-GIAPiDWLGDPRWAMPTIMLFAVWKNF 87
Cdd:PRK10999  309 ACLVQWEALKGKAVYRVLLILPYAVPSFISILIFKGLFNQSFGEINMMLSALfGIKP-AWFSDPTLAKTMILIVNTWLGY 387

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1316028689  88 GYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLM 133
Cdd:PRK10999  388 PYMMILCMGLLKAIPDDLYEASAMDGAGPFQNFFKITLPLLIKPLT 433
BPD_transp_1 pfam00528
Binding-protein-dependent transport system inner membrane component; The alignments cover the ...
 62-133 7.57e-09

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: 51.15  E-value: 7.57e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1316028689  62 IAPIDWLGDPRWAMPTIMLFAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLM 133
Cdd:pfam00528  39 LVVIAILSILGHGILPAIILALLGWAGYARLIRRAALRSLPSDLVEAARALGASRWQIFRKIILPNALPPIL 110
TM_PBP2 cd06261
Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding ...
 66-134 5.58e-07

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: 46.50  E-value: 5.58e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1316028689  66 DWLGDPRWAMPTIMLFAVWKnFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:cd06261    65 GWGILPGLGLPALILALLLI-APFARLIRRAALESIPKDLVEAARALGASPWQIFRRIILPLALPPILT 132
PhnU2 TIGR03262
putative 2-aminoethylphosphonate ABC transporter, permease protein; [Transport and binding ...
 67-126 1.81e-05

putative 2-aminoethylphosphonate ABC transporter, permease protein; [Transport and binding proteins, Amino acids, peptides and amines]


Pssm-ID: 274495 [Multi-domain]  Cd Length: 546  Bit Score: 42.75  E-value: 1.81e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1316028689  67 WLGD-PRWAMPTIMLFAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLP 126
Cdd:TIGR03262 124 LLGGfSIYGFWGIVIGEVFYTFPHALMILVTALSLADGRLYEAARAMGASPWRTFFTVTLP 184
 
Name Accession Description Interval E-value
UgpA COG1175
ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism];
1-134 1.90e-49

ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism];


Pssm-ID: 440788 [Multi-domain]  Cd Length: 298  Bit Score: 159.53  E-value: 1.90e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689   1 SIGVSLGAALLLNAKaSRFKALFRTALFAPVVTTLVAVAVIWRYLFHIKYGLVNFGLSHLGIAPIDWLGDPRWAMPTIML 80
Cdd:COG1175    92 QLVLGLLLALLLNRK-LRGRGFFRTLFFLPWVISPVVVALIWKWLFNPDYGLLNALLGALGLEPINWLGDPSLALPAVII 170

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1316028689  81 FAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:COG1175   171 VTVWKGTGFNMLIFLAGLQSIPRELYEAARIDGASPWQRFRRITLPLLRPTILF 224
LplB COG4209
ABC-type polysaccharide transport system, permease component [Carbohydrate transport and ...
 9-134 1.27e-31

ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism];


Pssm-ID: 443357 [Multi-domain]  Cd Length: 316  Bit Score: 114.03  E-value: 1.27e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689   9 ALLLNA-KASRFKALFRTALFAPVVTTLVAVAVIWRYLFHIKYGLVNFGLSHLGIAPIDWLGDPRWAMPTIMLFAVWKNF 87
Cdd:COG4209   110 ALLLNElRSKRFKKTVQTISYLPHFLSWVVVAGIVYQFLSPDTGLVNQLLRALGGEPINFLTEPKYFRPIYVFSGIWKEA 189

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1316028689  88 GYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:COG4209   190 GWGSIIYLAAITGIDPELYEAAAIDGAGRWQQIWHITLPGIRPTIVI 236
malF PRK10999
maltose ABC transporter permease MalF;
9-133 2.28e-17

maltose ABC transporter permease MalF;


Pssm-ID: 236816 [Multi-domain]  Cd Length: 520  Bit Score: 76.92  E-value: 2.28e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689   9 ALLLNAKASRFKALFRTALFAPVVTTLVAVAVIWRYLFHIKYGLVNFGLSHL-GIAPiDWLGDPRWAMPTIMLFAVWKNF 87
Cdd:PRK10999  309 ACLVQWEALKGKAVYRVLLILPYAVPSFISILIFKGLFNQSFGEINMMLSALfGIKP-AWFSDPTLAKTMILIVNTWLGY 387

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 1316028689  88 GYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLM 133
Cdd:PRK10999  388 PYMMILCMGLLKAIPDDLYEASAMDGAGPFQNFFKITLPLLIKPLT 433
PRK10561 PRK10561
sn-glycerol-3-phosphate ABC transporter permease UgpA;
18-131 6.07e-14

sn-glycerol-3-phosphate ABC transporter permease UgpA;


Pssm-ID: 182550 [Multi-domain]  Cd Length: 280  Bit Score: 66.39  E-value: 6.07e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689  18 RFKALFRTALFAPVVTTLVAVAVIWRYLFHIKYGLVNFGLSHLGIapiDW--LGDPRWAMPTIMLFAVWKNFGYNMVIFL 95
Cdd:PRK10561   87 RGSRFYQTLMLLPYAVAPAVAAVLWIFLFNPGRGLITHFLAEFGY---DWnhAQNSGQAMFLVVFASVWKQISYNFLFFF 163

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1316028689  96 AGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPV 131
Cdd:PRK10561  164 AALQSIPRSLVEAAAIDGAGPIRRFFKLALPLIAPV 199
FbpB COG1178
ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism];
1-133 3.01e-09

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


Pssm-ID: 440791 [Multi-domain]  Cd Length: 538  Bit Score: 53.63  E-value: 3.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689   1 SIGVSLGAALLLNAKASRFKALFRTALFAPVVTTLVAVAVIWRYLFHiKYGLVNFGL-SHLGIAPIDWLGdprwaMPTIM 79
Cdd:COG1178    70 SLLLGVPLAWLLARTDFPGRRLLRWLLLLPLALPPYVVALAWIALFG-PNGLLNTLLrALFGLEPPDIYG-----LGGII 143

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1316028689  80 LFAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLM 133
Cdd:COG1178   144 LVLVLFNYPYVYLLLRAALRSIDASLEEAARSLGASPWRAFRRVTLPLLRPAIA 197
BPD_transp_1 pfam00528
Binding-protein-dependent transport system inner membrane component; The alignments cover the ...
 62-133 7.57e-09

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: 51.15  E-value: 7.57e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1316028689  62 IAPIDWLGDPRWAMPTIMLFAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLM 133
Cdd:pfam00528  39 LVVIAILSILGHGILPAIILALLGWAGYARLIRRAALRSLPSDLVEAARALGASRWQIFRKIILPNALPPIL 110
UgpE COG0395
ABC-type glycerol-3-phosphate transport system, permease component [Carbohydrate transport and ...
 99-134 9.92e-08

ABC-type glycerol-3-phosphate transport system, permease component [Carbohydrate transport and metabolism];


Pssm-ID: 440164 [Multi-domain]  Cd Length: 282  Bit Score: 48.94  E-value: 9.92e-08
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1316028689  99 QAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:COG0395   168 RSIPRELEEAARIDGASEFRIFWRIVLPLSKPALAT 203
MalG COG3833
ABC-type maltose transport system, permease component MalG [Carbohydrate transport and ...
 101-134 1.94e-07

ABC-type maltose transport system, permease component MalG [Carbohydrate transport and metabolism];


Pssm-ID: 443045 [Multi-domain]  Cd Length: 282  Bit Score: 48.22  E-value: 1.94e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1316028689 101 IPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:COG3833   169 IPKELDEAAKIDGASHFQIFFRIILPLAKPILAV 202
TM_PBP2 cd06261
Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding ...
 66-134 5.58e-07

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: 46.50  E-value: 5.58e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1316028689  66 DWLGDPRWAMPTIMLFAVWKnFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:cd06261    65 GWGILPGLGLPALILALLLI-APFARLIRRAALESIPKDLVEAARALGASPWQIFRRIILPLALPPILT 132
PotC COG1177
ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport ...
 91-130 4.76e-06

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


Pssm-ID: 440790 [Multi-domain]  Cd Length: 262  Bit Score: 43.95  E-value: 4.76e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 1316028689  91 MVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGP 130
Cdd:COG1177   147 VLVVLARLQGFDPSLEEAARDLGASPWQTFRRVTLPLIAP 186
PhnU2 TIGR03262
putative 2-aminoethylphosphonate ABC transporter, permease protein; [Transport and binding ...
 67-126 1.81e-05

putative 2-aminoethylphosphonate ABC transporter, permease protein; [Transport and binding proteins, Amino acids, peptides and amines]


Pssm-ID: 274495 [Multi-domain]  Cd Length: 546  Bit Score: 42.75  E-value: 1.81e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1316028689  67 WLGD-PRWAMPTIMLFAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLP 126
Cdd:TIGR03262 124 LLGGfSIYGFWGIVIGEVFYTFPHALMILVTALSLADGRLYEAARAMGASPWRTFFTVTLP 184
CysU COG0555
ABC-type sulfate transport system, permease component [Inorganic ion transport and metabolism]; ...
 96-133 7.34e-05

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


Pssm-ID: 440321 [Multi-domain]  Cd Length: 268  Bit Score: 40.89  E-value: 7.34e-05
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1316028689  96 AGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLM 133
Cdd:COG0555   157 PVLEELDPELEEAAATLGASRWQTFRRVILPLLLPALL 194
PotB COG1176
ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport ...
 51-130 8.48e-05

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


Pssm-ID: 440789 [Multi-domain]  Cd Length: 287  Bit Score: 40.52  E-value: 8.48e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1316028689  51 GLVNFGLSHLGI--APIDWLGDPrwamPTIMLFAVWKNFGYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPML 128
Cdd:COG1176   132 GLLNSLLLALGLidEPLRLLYTE----FAVVIGLVYVYLPFMVLPLYAALEKIDPSLLEAARDLGASPWQTFRRVILPLS 207


                  ..
gi 1316028689 129 GP 130
Cdd:COG1176   208 LP 209
FbpB COG1178
ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism];
96-134 4.99e-04

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


Pssm-ID: 440791 [Multi-domain]  Cd Length: 538  Bit Score: 38.60  E-value: 4.99e-04
                          10        20        30
                  ....*....|....*....|....*....|....*....
gi 1316028689  96 AGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:COG1178   432 AALAQIDPSLEEAARSLGASPLRTLRRVTLPLLRPGLLA 470
malG PRK10998
maltose ABC transporter permease MalG;
99-134 1.90e-03

maltose ABC transporter permease MalG;


Pssm-ID: 182891  Cd Length: 296  Bit Score: 36.61  E-value: 1.90e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1316028689  99 QAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:PRK10998  182 ETIDSSLEEAAALDGATPWQAFRLVLLPLSVPILAV 217
TauC COG0600
ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion ...
 77-134 4.15e-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: 35.51  E-value: 4.15e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1316028689  77 TIMLFAVWknfgYNMVIFLAGLQAIPQDLYEAARIDGASRWKQFLHITLPMLGPVLMV 134
Cdd:COG0600   131 VIFLGAFF----PILLNTAAGVRSVDPELLELARSLGASRWQILRKVVLPAALPYIFT 184
modB PRK09421
molybdate ABC transporter permease subunit;
98-130 6.02e-03

molybdate ABC transporter permease subunit;


Pssm-ID: 181841  Cd Length: 229  Bit Score: 35.28  E-value: 6.02e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1316028689  98 LQAIPQDLYEAARIDGASRWKQFLHITLPMLGP 130
Cdd:PRK09421  115 LEAVDRKLEQAARTLGASPWRVFFTITLPLTLP 147
 
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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