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Conserved domains on  [gi|55670445|pdb|1VKR|A]
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Chain A, mannitol-specific PTS system enzyme IIABC components

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK15083 super family cl36468
PTS system mannitol-specific transporter subunit IICBA; Provisional
 2-125 2.72e-80

PTS system mannitol-specific transporter subunit IICBA; Provisional


The actual alignment was detected with superfamily member PRK15083:

Pssm-ID: 237905 [Multi-domain]  Cd Length: 639  Bit Score: 247.66  E-value: 2.72e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A         2 SAGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKIQDAGLSQISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQ 81
Cdd:PRK15083 367 AAGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKVQDAGLSQISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQ 446

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
1VKR_A        82 HISLTNFLDSGLYTSLTERLVAAQRHTENEVKVKDSLKDSFDDS 125
Cdd:PRK15083 447 HISLTNFLDSGLYTSLTERLVAAQRHTENEEKVKDSLKDSFEDS 490
 
Name Accession Description Interval E-value
PRK15083 PRK15083
PTS system mannitol-specific transporter subunit IICBA; Provisional
 2-125 2.72e-80

PTS system mannitol-specific transporter subunit IICBA; Provisional


Pssm-ID: 237905 [Multi-domain]  Cd Length: 639  Bit Score: 247.66  E-value: 2.72e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A         2 SAGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKIQDAGLSQISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQ 81
Cdd:PRK15083 367 AAGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKVQDAGLSQISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQ 446

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
1VKR_A        82 HISLTNFLDSGLYTSLTERLVAAQRHTENEVKVKDSLKDSFDDS 125
Cdd:PRK15083 447 HISLTNFLDSGLYTSLTERLVAAQRHTENEEKVKDSLKDSFEDS 490
MtlA COG2213
Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and ...
 3-108 4.19e-54

Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism];


Pssm-ID: 441815 [Multi-domain]  Cd Length: 479  Bit Score: 175.77  E-value: 4.19e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A        3 AGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKIQDAGLSqISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQH 82
Cdd:COG2213 375 AAVGAADASNVKKIVFACDAGMGSSAMGASVLRKKVKKAGLD-IEVTNTAINNLPDDADLVITHKDLTERAKQKAPNAQH 453

                        90       100
                ....*....|....*....|....*.
1VKR_A       83 ISLTNFLDSGLYTSLTERLVAAQRHT 108
Cdd:COG2213 454 ISVDNFLNSPKYDELVEKLKKQNDDS 479
PTS_IIB_mannitol cd05567
PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate: ...
 14-101 1.06e-40

PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIA, IIB, and IIC domains are expressed from the mtlA gene as a single protein, also known as the mannitol PTS permease, the mtl transporter, or MtlA. MtlA is only functional as a dimer with the dimer contacts occuring between the IIC domains. MtlA takes up exogenous mannitol releasing the phosphate ester into the cytoplasm in preparation for oxidation to fructose-6-phosphate by the NAD-dependent mannitol-P dehydrogenase (MtlD). 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 mannitol, chitobiose/lichenan, ascorbate, lactose, galactitol, fructose, and a sensory system with similarity to the bacterial bgl system.


Pssm-ID: 99909 [Multi-domain]  Cd Length: 87  Bit Score: 130.38  E-value: 1.06e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A       14 RKIIVACDAGMGSSAMGAGVLRKKIQDAGLSqISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQHISLTNFLDSGL 93
Cdd:cd05567   1 KKIVFACDAGMGSSAMGASVLRKKLKKAGLE-IPVTNSAIDELPSDADLVVTHASLTDRAKKKAPQAQHLSVDNFLNTPE 79


                ....*...
1VKR_A       94 YTSLTERL 101
Cdd:cd05567  80 YDELIERL 87
PTS_IIB pfam02302
PTS system, Lactose/Cellobiose specific IIB subunit; The bacterial phosphoenolpyruvate: sugar ...
 15-90 1.59e-09

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: 51.18  E-value: 1.59e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A         15 KIIVACDAGMGSSAMGAGVLRKKIQDAGLSQISVTNSA----INNLPPDVDLVITHRDLTERAMRQVP--QAQHISLTNF 88
Cdd:pfam02302   1 KILTACGAGMATSLMAAEALEKAAKELGIVEAQGAAGVneltAEDIADDADVVILAPDVAVEDLARFAgkPVYVIPVKDA 80


                  ..
1VKR_A         89 LD 90
Cdd:pfam02302  81 LG 82
 
Name Accession Description Interval E-value
PRK15083 PRK15083
PTS system mannitol-specific transporter subunit IICBA; Provisional
 2-125 2.72e-80

PTS system mannitol-specific transporter subunit IICBA; Provisional


Pssm-ID: 237905 [Multi-domain]  Cd Length: 639  Bit Score: 247.66  E-value: 2.72e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A         2 SAGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKIQDAGLSQISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQ 81
Cdd:PRK15083 367 AAGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKVQDAGLSQISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQ 446

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....
1VKR_A        82 HISLTNFLDSGLYTSLTERLVAAQRHTENEVKVKDSLKDSFDDS 125
Cdd:PRK15083 447 HISLTNFLDSGLYTSLTERLVAAQRHTENEEKVKDSLKDSFEDS 490
MtlA COG2213
Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and ...
 3-108 4.19e-54

Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism];


Pssm-ID: 441815 [Multi-domain]  Cd Length: 479  Bit Score: 175.77  E-value: 4.19e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A        3 AGDVTNDLSHVRKIIVACDAGMGSSAMGAGVLRKKIQDAGLSqISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQH 82
Cdd:COG2213 375 AAVGAADASNVKKIVFACDAGMGSSAMGASVLRKKVKKAGLD-IEVTNTAINNLPDDADLVITHKDLTERAKQKAPNAQH 453

                        90       100
                ....*....|....*....|....*.
1VKR_A       83 ISLTNFLDSGLYTSLTERLVAAQRHT 108
Cdd:COG2213 454 ISVDNFLNSPKYDELVEKLKKQNDDS 479
PTS_IIB_mannitol cd05567
PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate: ...
 14-101 1.06e-40

PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIA, IIB, and IIC domains are expressed from the mtlA gene as a single protein, also known as the mannitol PTS permease, the mtl transporter, or MtlA. MtlA is only functional as a dimer with the dimer contacts occuring between the IIC domains. MtlA takes up exogenous mannitol releasing the phosphate ester into the cytoplasm in preparation for oxidation to fructose-6-phosphate by the NAD-dependent mannitol-P dehydrogenase (MtlD). 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 mannitol, chitobiose/lichenan, ascorbate, lactose, galactitol, fructose, and a sensory system with similarity to the bacterial bgl system.


Pssm-ID: 99909 [Multi-domain]  Cd Length: 87  Bit Score: 130.38  E-value: 1.06e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A       14 RKIIVACDAGMGSSAMGAGVLRKKIQDAGLSqISVTNSAINNLPPDVDLVITHRDLTERAMRQVPQAQHISLTNFLDSGL 93
Cdd:cd05567   1 KKIVFACDAGMGSSAMGASVLRKKLKKAGLE-IPVTNSAIDELPSDADLVVTHASLTDRAKKKAPQAQHLSVDNFLNTPE 79


                ....*...
1VKR_A       94 YTSLTERL 101
Cdd:cd05567  80 YDELIERL 87
PTS_IIB pfam02302
PTS system, Lactose/Cellobiose specific IIB subunit; The bacterial phosphoenolpyruvate: sugar ...
 15-90 1.59e-09

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: 51.18  E-value: 1.59e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A         15 KIIVACDAGMGSSAMGAGVLRKKIQDAGLSQISVTNSA----INNLPPDVDLVITHRDLTERAMRQVP--QAQHISLTNF 88
Cdd:pfam02302   1 KILTACGAGMATSLMAAEALEKAAKELGIVEAQGAAGVneltAEDIADDADVVILAPDVAVEDLARFAgkPVYVIPVKDA 80


                  ..
1VKR_A         89 LD 90
Cdd:pfam02302  81 LG 82
PTS_IIB cd00133
PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the ...
 15-72 1.72e-09

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: 50.72  E-value: 1.72e-09
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A       15 KIIVACDAGMGSSAMGAGVLRKKIQDAGLsQISVTNSAINNL--PPDVDLVITHRDLTER 72
Cdd:cd00133   1 KILVVCGSGIGSSSMLAEKLEKAAKELGI-EVKVEAQGLSEVidLADADLIISTVPLAAR 59
SgaB COG3414
Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and ...
 15-90 3.60e-06

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


Pssm-ID: 442640  Cd Length: 94  Bit Score: 42.08  E-value: 3.60e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A       15 KIIVACDAGMGSSAMgagvLRKKIQDA----GLsQISVTNSAINNLPP---DVDLVITHRDLTERAmrQVPQAQHISLTN 87
Cdd:COG3414   3 KILVVCGSGLGTSTM----LKMKIEKVlkelGI-DAEVEHCDVSSAKSkadDADLIVTTTDLAEEL--GIPVINVIPLLN 75


                ...
1VKR_A       88 FLD 90
Cdd:COG3414  76 GID 78
PTS_IIB_ascorbate cd05563
PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific ...
 15-90 1.93e-04

PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a transmembrane channel IIC subunit. Subunits IIA, IIB, and IIC are encoded by the sgaA, sgaB, and sgaT genes of the E. coli sgaTBA operon. In some bacteria, the IIB (SgaB) domain is fused C-terminal to the IIA (SgaT) 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 ascorbate, chitobiose/lichenan, lactose, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.


Pssm-ID: 99905  Cd Length: 86  Bit Score: 37.51  E-value: 1.93e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
1VKR_A       15 KIIVACDAGMGSSAMgagvLRKKIQDA----GLsQISVTNSAINNLPPD-VDLVITHRDLTERAmrQVPQAQHISLTNFL 89
Cdd:cd05563   1 KILAVCGSGLGSSLM----LKMNVEKVlkelGI-EAEVEHTDLGSAKASsADIIVTSKDLASLL--ADGGAKVIGLKNIM 73


                .
1VKR_A       90 D 90
Cdd:cd05563  74 D 74
PTS_IIB_galactitol cd05566
PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific ...
 15-65 3.48e-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: 34.44  E-value: 3.48e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
1VKR_A       15 KIIVACDAGMGSSAMGAGVLRKKIQDAGL----SQISVTnsAINNLPPDVDLVIT 65
Cdd:cd05566   2 KILVACGTGVATSTVVASKVKELLKENGIdvkvEQCKIA--EVPSLLDDADLIVS 54
 
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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