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Conserved domains on  [gi|489821516|ref|WP_003725315|]
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MULTISPECIES: PTS sugar transporter subunit IIB [Listeria]

Protein Classification

PTS sugar transporter subunit IIB( domain architecture ID 10144914)

subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS)

CATH:  3.40.50.2300
EC:  2.7.1.-
Gene Ontology:  GO:0008643|GO:0009401|GO:0008982
PubMed:  8246840|2197982|11361063

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PTS_IIB_chitobiose_lichenan cd05564
PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N, ...
 3-97 3.62e-42

PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.


:

Pssm-ID: 99906  Cd Length: 96  Bit Score: 133.01  E-value: 3.62e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   3 KILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELV-QGRIPVIVIDMK 81
Cdd:cd05564    1 KILLVCSAGMSTSILVKKMKKAAEKRGIDAEIEAVPESELEEYIDDADVVLLGPQVRYMLDEVKKKAaEYGIPVAVIDMM 80

                         90
                 ....*....|....*.
gi 489821516  82 DYGMLNGKAVLEKAFA 97
Cdd:cd05564   81 DYGMMNGEKVLKQALK 96
 
Name Accession Description Interval E-value
PTS_IIB_chitobiose_lichenan cd05564
PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N, ...
 3-97 3.62e-42

PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.


Pssm-ID: 99906  Cd Length: 96  Bit Score: 133.01  E-value: 3.62e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   3 KILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELV-QGRIPVIVIDMK 81
Cdd:cd05564    1 KILLVCSAGMSTSILVKKMKKAAEKRGIDAEIEAVPESELEEYIDDADVVLLGPQVRYMLDEVKKKAaEYGIPVAVIDMM 80

                         90
                 ....*....|....*.
gi 489821516  82 DYGMLNGKAVLEKAFA 97
Cdd:cd05564   81 DYGMMNGEKVLKQALK 96
CelA COG1440
Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and ...
 2-100 4.52e-40

Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism];


Pssm-ID: 441049  Cd Length: 100  Bit Score: 127.95  E-value: 4.52e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   2 KKILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELVQGR-IPVIVIDM 80
Cdd:COG1440    1 KKILLVCAAGMSTSLLVKKMKKAAKERGIDVEIEAVSAGELEDVIDDYDVVLLGPQVRYMLDEIKKIADEKgIPVAVIDM 80

                         90       100
                 ....*....|....*....|
gi 489821516  81 KDYGMLNGKAVLEKAFAEIG 100
Cdd:COG1440   81 QDYGMMDGEKVLDQALELLK 100
pts-lac TIGR00853
PTS system, lactose/cellobiose family IIB component; Bacterial PTS transporters transport and ...
 2-92 2.23e-25

PTS system, lactose/cellobiose family IIB component; Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids, Signal transduction, PTS]


Pssm-ID: 273300  Cd Length: 95  Bit Score: 90.53  E-value: 2.23e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516    2 KKILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELVQGR-IPVIVIDM 80
Cdd:TIGR00853   4 TNILLLCAAGMSTSLLVNKMNKAAEEYGVPVKIAAGSYGAAGEKLDDADVVLLAPQVAYMLPDLKKETDKKgIPVEVING 83

                          90
                  ....*....|..
gi 489821516   81 KDYGMLNGKAVL 92
Cdd:TIGR00853  84 AQYGKLTGAGVL 95
PRK10499 PRK10499
PTS sugar transporter subunit IIB;
2-99 3.22e-19

PTS sugar transporter subunit IIB;


Pssm-ID: 182499  Cd Length: 106  Bit Score: 75.34  E-value: 3.22e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   2 KKILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELVQGRiPVIVIDMK 81
Cdd:PRK10499   4 KHIYLFCSAGMSTSLLVSKMRAQAEKYEVPVIIEAFPETLAGEKGQNADVVLLGPQIAYMLPEIQRLLPNK-PVEVIDSL 82

                         90
                 ....*....|....*...
gi 489821516  82 DYGMLNGKAVLEKAFAEI 99
Cdd:PRK10499  83 LYGKVDGLGVLKAAVAAI 100
PTS_IIB pfam02302
PTS system, Lactose/Cellobiose specific IIB subunit; The bacterial phosphoenolpyruvate: sugar ...
 3-94 2.35e-13

PTS system, Lactose/Cellobiose specific IIB subunit; The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This family also contains the fructose specific IIB subunit.


Pssm-ID: 396744  Cd Length: 92  Bit Score: 60.04  E-value: 2.35e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516    3 KILLVCAAGMSTSLLV-TKMKAHATSIGE-EIEIEALP-VSEASSVVDKMDIVMLGPQVRYQkpqvDELVQGRIPVIVID 79
Cdd:pfam02302   1 KILTACGAGMATSLMAaEALEKAAKELGIvEAQGAAGVnELTAEDIADDADVVILAPDVAVE----DLARFAGKPVYVIP 76

                          90
                  ....*....|....*.
gi 489821516   80 MKD-YGMLNGKAVLEK 94
Cdd:pfam02302  77 VKDaLGMKDAEEVLEK 92
 
Name Accession Description Interval E-value
PTS_IIB_chitobiose_lichenan cd05564
PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N, ...
 3-97 3.62e-42

PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.


Pssm-ID: 99906  Cd Length: 96  Bit Score: 133.01  E-value: 3.62e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   3 KILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELV-QGRIPVIVIDMK 81
Cdd:cd05564    1 KILLVCSAGMSTSILVKKMKKAAEKRGIDAEIEAVPESELEEYIDDADVVLLGPQVRYMLDEVKKKAaEYGIPVAVIDMM 80

                         90
                 ....*....|....*.
gi 489821516  82 DYGMLNGKAVLEKAFA 97
Cdd:cd05564   81 DYGMMNGEKVLKQALK 96
CelA COG1440
Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and ...
 2-100 4.52e-40

Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism];


Pssm-ID: 441049  Cd Length: 100  Bit Score: 127.95  E-value: 4.52e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   2 KKILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELVQGR-IPVIVIDM 80
Cdd:COG1440    1 KKILLVCAAGMSTSLLVKKMKKAAKERGIDVEIEAVSAGELEDVIDDYDVVLLGPQVRYMLDEIKKIADEKgIPVAVIDM 80

                         90       100
                 ....*....|....*....|
gi 489821516  81 KDYGMLNGKAVLEKAFAEIG 100
Cdd:COG1440   81 QDYGMMDGEKVLDQALELLK 100
pts-lac TIGR00853
PTS system, lactose/cellobiose family IIB component; Bacterial PTS transporters transport and ...
 2-92 2.23e-25

PTS system, lactose/cellobiose family IIB component; Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids, Signal transduction, PTS]


Pssm-ID: 273300  Cd Length: 95  Bit Score: 90.53  E-value: 2.23e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516    2 KKILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELVQGR-IPVIVIDM 80
Cdd:TIGR00853   4 TNILLLCAAGMSTSLLVNKMNKAAEEYGVPVKIAAGSYGAAGEKLDDADVVLLAPQVAYMLPDLKKETDKKgIPVEVING 83

                          90
                  ....*....|..
gi 489821516   81 KDYGMLNGKAVL 92
Cdd:TIGR00853  84 AQYGKLTGAGVL 95
PRK10499 PRK10499
PTS sugar transporter subunit IIB;
2-99 3.22e-19

PTS sugar transporter subunit IIB;


Pssm-ID: 182499  Cd Length: 106  Bit Score: 75.34  E-value: 3.22e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   2 KKILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVRYQKPQVDELVQGRiPVIVIDMK 81
Cdd:PRK10499   4 KHIYLFCSAGMSTSLLVSKMRAQAEKYEVPVIIEAFPETLAGEKGQNADVVLLGPQIAYMLPEIQRLLPNK-PVEVIDSL 82

                         90
                 ....*....|....*...
gi 489821516  82 DYGMLNGKAVLEKAFAEI 99
Cdd:PRK10499  83 LYGKVDGLGVLKAAVAAI 100
PTS_IIB pfam02302
PTS system, Lactose/Cellobiose specific IIB subunit; The bacterial phosphoenolpyruvate: sugar ...
 3-94 2.35e-13

PTS system, Lactose/Cellobiose specific IIB subunit; The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. The lactose/cellobiose-specific family are one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes. The fold of IIB cellobiose shows similar structure to mammalian tyrosine phosphatases. This family also contains the fructose specific IIB subunit.


Pssm-ID: 396744  Cd Length: 92  Bit Score: 60.04  E-value: 2.35e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516    3 KILLVCAAGMSTSLLV-TKMKAHATSIGE-EIEIEALP-VSEASSVVDKMDIVMLGPQVRYQkpqvDELVQGRIPVIVID 79
Cdd:pfam02302   1 KILTACGAGMATSLMAaEALEKAAKELGIvEAQGAAGVnELTAEDIADDADVVILAPDVAVE----DLARFAGKPVYVIP 76

                          90
                  ....*....|....*.
gi 489821516   80 MKD-YGMLNGKAVLEK 94
Cdd:pfam02302  77 VKDaLGMKDAEEVLEK 92
PTS_IIB cd00133
PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the ...
 3-95 2.54e-10

PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include chitobiose/lichenan, ascorbate, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system. The PTS is found only in bacteria, where it catalyzes the transport and phosphorylation of numerous monosaccharides, disaccharides, polyols, amino sugars, and other sugar derivatives. The four proteins (domains) forming the PTS phosphorylation cascade (EI, HPr, EIIA, and EIIB), can phosphorylate or interact with numerous non-PTS proteins thereby regulating their activity.


Pssm-ID: 99904  Cd Length: 84  Bit Score: 51.87  E-value: 2.54e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   3 KILLVCAAGMSTS-LLVTKMKAHATSIGEEIEIEALPVSEASSvVDKMDIVMLGPQVRYQKPQvdelvqgrIPVIVIDMK 81
Cdd:cd00133    1 KILVVCGSGIGSSsMLAEKLEKAAKELGIEVKVEAQGLSEVID-LADADLIISTVPLAARFLG--------KPVIVVSPL 71

                         90
                 ....*....|....
gi 489821516  82 DyGMLNGKAVLEKA 95
Cdd:cd00133   72 L-NEKDGEKILEKL 84
celB PRK09590
PTS cellobiose transporter subunit IIB;
1-59 2.36e-08

PTS cellobiose transporter subunit IIB;


Pssm-ID: 181974  Cd Length: 104  Bit Score: 47.47  E-value: 2.36e-08
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489821516   1 MKKILLVCAAGMSTSLLVTKMKAHATSIGEEIEIEALPVSEASSVV--DKMDIVMLGPQVR 59
Cdd:PRK09590   1 MKKALIICAAGMSSSMMAKKTTEYLKEQGKDIEVDAITATEGEKAIaaAEYDLYLVSPQTK 61
SgaB COG3414
Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and ...
 1-79 1.05e-06

Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism];


Pssm-ID: 442640  Cd Length: 94  Bit Score: 42.85  E-value: 1.05e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489821516   1 MKKILLVCAAGMSTSLLVT-KMKAHATSIGEEIEIEALPVSEASSVVDKMDIVMLGPQVryqkpqVDELVQGRIPVIVID 79
Cdd:COG3414    1 MKKILVVCGSGLGTSTMLKmKIEKVLKELGIDAEVEHCDVSSAKSKADDADLIVTTTDL------AEELGIPVINVIPLL 74
PTS_IIB_galactitol cd05566
PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific ...
 2-53 6.62e-03

PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.


Pssm-ID: 99908  Cd Length: 89  Bit Score: 32.89  E-value: 6.62e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 489821516   2 KKILLVCAAGMSTSLLVT-KMKAHATSIGEEIEIEALPVSEASSVVDKMDIVM 53
Cdd:cd05566    1 KKILVACGTGVATSTVVAsKVKELLKENGIDVKVEQCKIAEVPSLLDDADLIV 53
 
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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