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Conserved domains on  [gi|1151113234|ref|WP_078085526|]
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energy transducer TonB [Microbulbifer mangrovi]

Protein Classification

energy transducer TonB( domain architecture ID 13469656)

energy transducer TonB interacts with outer membrane receptor proteins that carry out high-affinity binding and energy dependent uptake into the periplasmic space of specific substrates such as cobalamin, and various iron compounds (such as iron dicitrate, enterochelin, aerobactin, etc.)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TonB_C pfam03544
Gram-negative bacterial TonB protein C-terminal; The TonB_C domain is the well-characterized ...
 130-214 1.63e-22

Gram-negative bacterial TonB protein C-terminal; The TonB_C domain is the well-characterized C-terminal region of the TonB receptor molecule. This protein is bound to an inner membrane-bound protein ExbB via a globular domain and has a flexible middle region that is likely to help in positioning the C-terminal domain into the iron-transporter barrel in the outer membrane. TonB_C interacts with the N-terminal TonB box of the outer membrane transporter that binds the Fe3+-siderophore complex. The barrel of the transporter, consisting of 22 beta-sheets and an inside plug, binds the iron complex in the barrel entrance.


:

Pssm-ID: 427361 [Multi-domain]  Cd Length: 79  Bit Score: 86.95  E-value: 1.63e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1151113234 130 PAPRYPRRALARGIEGHVVVEFTITPSGSVKNPRVVGgytaaGEPTDVFNREALNAVERFKYRPTISDGQPVERHnVRNR 209
Cdd:pfam03544   1 PEPVYPEEARRRGIEGTVVVEFLIDPDGNVTNVRVVK-----SSGYSILDEAALEAVKKWRFKPAPKNGQPVTVE-ITVP 74


                  ....*
gi 1151113234 210 ITFRL 214
Cdd:pfam03544  75 IRFKL 79
PRK10819 super family cl35954
transport protein TonB; Provisional
 52-195 2.03e-12

transport protein TonB; Provisional


The actual alignment was detected with superfamily member PRK10819:

Pssm-ID: 236768 [Multi-domain]  Cd Length: 246  Bit Score: 64.32  E-value: 2.03e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1151113234  52 PEELPPKVASIHLPKLVPsveqsQPILKPQDPPPVMEPTKIEQSVEPGD--IPLGFEPPAPTQRKFDPS---------LV 120
Cdd:PRK10819   82 PEPPKEAPVVIPKPEPKP-----KPKPKPKPKPVKKVEEQPKREVKPVEprPASPFENTAPARPTSSTAtaaaskpvtSV 156

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1151113234 121 SADPLPIYKPAPRYPRRALARGIEGHVVVEFTITPSGSVKNPRVVGgytaaGEPTDVFNREALNAVERFKYRPTI 195
Cdd:PRK10819  157 SSGPRALSRNQPQYPARAQALRIEGQVKVKFDVDEDGRVDNVRILS-----AEPRNMFEREVKQAMRKWRYEAGK 226
 
Name Accession Description Interval E-value
TonB_C pfam03544
Gram-negative bacterial TonB protein C-terminal; The TonB_C domain is the well-characterized ...
 130-214 1.63e-22

Gram-negative bacterial TonB protein C-terminal; The TonB_C domain is the well-characterized C-terminal region of the TonB receptor molecule. This protein is bound to an inner membrane-bound protein ExbB via a globular domain and has a flexible middle region that is likely to help in positioning the C-terminal domain into the iron-transporter barrel in the outer membrane. TonB_C interacts with the N-terminal TonB box of the outer membrane transporter that binds the Fe3+-siderophore complex. The barrel of the transporter, consisting of 22 beta-sheets and an inside plug, binds the iron complex in the barrel entrance.


Pssm-ID: 427361 [Multi-domain]  Cd Length: 79  Bit Score: 86.95  E-value: 1.63e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1151113234 130 PAPRYPRRALARGIEGHVVVEFTITPSGSVKNPRVVGgytaaGEPTDVFNREALNAVERFKYRPTISDGQPVERHnVRNR 209
Cdd:pfam03544   1 PEPVYPEEARRRGIEGTVVVEFLIDPDGNVTNVRVVK-----SSGYSILDEAALEAVKKWRFKPAPKNGQPVTVE-ITVP 74


                  ....*
gi 1151113234 210 ITFRL 214
Cdd:pfam03544  75 IRFKL 79
TonB COG0810
Periplasmic protein TonB, links inner and outer membranes [Cell wall/membrane/envelope ...
 135-207 2.26e-17

Periplasmic protein TonB, links inner and outer membranes [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 440572 [Multi-domain]  Cd Length: 70  Bit Score: 73.39  E-value: 2.26e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1151113234 135 PRRALARGIEGHVVVEFTITPSGSVKNPRVVggytaAGEPTDVFNREALNAVERFKYRPTISDGQPVERHNVR 207
Cdd:COG0810     1 PEEARRRGIEGTVTVRFTIDADGRVTDVEVV-----KSSGHPLLDEAALRAVRRWRFKPAKQNGKPVRVKTVP 68
tonB_Cterm TIGR01352
TonB family C-terminal domain; This model represents the C-terminal of TonB and is homologs. ...
 136-214 5.88e-13

TonB family C-terminal domain; This model represents the C-terminal of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to help span the periplasm. [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273570 [Multi-domain]  Cd Length: 74  Bit Score: 61.55  E-value: 5.88e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1151113234 136 RRALARGIEGHVVVEFTITPSGSVKNPRVVGgytaaGEPTDVFNREALNAVERFKYRPTISDGQPVeRHNVRNRITFRL 214
Cdd:TIGR01352   1 ARARRRGIEGTVVVRFTVDPSGRVTSVSVLK-----SSGDRALDRAALEAVRKARFEPPPPPGGVV-AASVTIPVRFKL 73
PRK10819 PRK10819
transport protein TonB; Provisional
 52-195 2.03e-12

transport protein TonB; Provisional


Pssm-ID: 236768 [Multi-domain]  Cd Length: 246  Bit Score: 64.32  E-value: 2.03e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1151113234  52 PEELPPKVASIHLPKLVPsveqsQPILKPQDPPPVMEPTKIEQSVEPGD--IPLGFEPPAPTQRKFDPS---------LV 120
Cdd:PRK10819   82 PEPPKEAPVVIPKPEPKP-----KPKPKPKPKPVKKVEEQPKREVKPVEprPASPFENTAPARPTSSTAtaaaskpvtSV 156

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1151113234 121 SADPLPIYKPAPRYPRRALARGIEGHVVVEFTITPSGSVKNPRVVGgytaaGEPTDVFNREALNAVERFKYRPTI 195
Cdd:PRK10819  157 SSGPRALSRNQPQYPARAQALRIEGQVKVKFDVDEDGRVDNVRILS-----AEPRNMFEREVKQAMRKWRYEAGK 226
myxo_SS_tail NF033768
AgmX/PglI C-terminal domain; The AgmX/PglI C-terminal domain described by this HMM ...
 136-165 1.16e-04

AgmX/PglI C-terminal domain; The AgmX/PglI C-terminal domain described by this HMM (myxo_SS_tail) occurs as the C-terminal domain in multiple proteins per genome for a number of species capable of surface gliding motility, e.g. 12 in Myxococcus xanthus. Member proteins include the adventurous gliding motility proteins AgmX (GltJ) and PglI in M. xanthus. The domain is about 92 amino acids long, and features a pair of Cys residues about 45 amino acids apart in almost all cases.


Pssm-ID: 468180  Cd Length: 92  Bit Score: 39.86  E-value: 1.16e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1151113234 136 RRALAR--GIEGHVVVEFTITPSGSVKNPRVV 165
Cdd:NF033768   22 ERELKRnpSLAGKVVVEFTIGPSGRVSSVKVV 53
 
Name Accession Description Interval E-value
TonB_C pfam03544
Gram-negative bacterial TonB protein C-terminal; The TonB_C domain is the well-characterized ...
 130-214 1.63e-22

Gram-negative bacterial TonB protein C-terminal; The TonB_C domain is the well-characterized C-terminal region of the TonB receptor molecule. This protein is bound to an inner membrane-bound protein ExbB via a globular domain and has a flexible middle region that is likely to help in positioning the C-terminal domain into the iron-transporter barrel in the outer membrane. TonB_C interacts with the N-terminal TonB box of the outer membrane transporter that binds the Fe3+-siderophore complex. The barrel of the transporter, consisting of 22 beta-sheets and an inside plug, binds the iron complex in the barrel entrance.


Pssm-ID: 427361 [Multi-domain]  Cd Length: 79  Bit Score: 86.95  E-value: 1.63e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1151113234 130 PAPRYPRRALARGIEGHVVVEFTITPSGSVKNPRVVGgytaaGEPTDVFNREALNAVERFKYRPTISDGQPVERHnVRNR 209
Cdd:pfam03544   1 PEPVYPEEARRRGIEGTVVVEFLIDPDGNVTNVRVVK-----SSGYSILDEAALEAVKKWRFKPAPKNGQPVTVE-ITVP 74


                  ....*
gi 1151113234 210 ITFRL 214
Cdd:pfam03544  75 IRFKL 79
TonB COG0810
Periplasmic protein TonB, links inner and outer membranes [Cell wall/membrane/envelope ...
 135-207 2.26e-17

Periplasmic protein TonB, links inner and outer membranes [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 440572 [Multi-domain]  Cd Length: 70  Bit Score: 73.39  E-value: 2.26e-17
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1151113234 135 PRRALARGIEGHVVVEFTITPSGSVKNPRVVggytaAGEPTDVFNREALNAVERFKYRPTISDGQPVERHNVR 207
Cdd:COG0810     1 PEEARRRGIEGTVTVRFTIDADGRVTDVEVV-----KSSGHPLLDEAALRAVRRWRFKPAKQNGKPVRVKTVP 68
tonB_Cterm TIGR01352
TonB family C-terminal domain; This model represents the C-terminal of TonB and is homologs. ...
 136-214 5.88e-13

TonB family C-terminal domain; This model represents the C-terminal of TonB and is homologs. TonB is an energy-transducer for TonB-dependent receptors of Gram-negative bacteria. Most members are designated as TonB or TonB-related proteins, but a few represent the paralogous TolA protein. Several bacteria have up to four TonB paralogs. In nearly every case, a proline-rich repetive region is found N-terminal to this domain; these low-complexity regions are highly divergent and cannot readily be aligned. The region is suggested to help span the periplasm. [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 273570 [Multi-domain]  Cd Length: 74  Bit Score: 61.55  E-value: 5.88e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1151113234 136 RRALARGIEGHVVVEFTITPSGSVKNPRVVGgytaaGEPTDVFNREALNAVERFKYRPTISDGQPVeRHNVRNRITFRL 214
Cdd:TIGR01352   1 ARARRRGIEGTVVVRFTVDPSGRVTSVSVLK-----SSGDRALDRAALEAVRKARFEPPPPPGGVV-AASVTIPVRFKL 73
PRK10819 PRK10819
transport protein TonB; Provisional
 52-195 2.03e-12

transport protein TonB; Provisional


Pssm-ID: 236768 [Multi-domain]  Cd Length: 246  Bit Score: 64.32  E-value: 2.03e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1151113234  52 PEELPPKVASIHLPKLVPsveqsQPILKPQDPPPVMEPTKIEQSVEPGD--IPLGFEPPAPTQRKFDPS---------LV 120
Cdd:PRK10819   82 PEPPKEAPVVIPKPEPKP-----KPKPKPKPKPVKKVEEQPKREVKPVEprPASPFENTAPARPTSSTAtaaaskpvtSV 156

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1151113234 121 SADPLPIYKPAPRYPRRALARGIEGHVVVEFTITPSGSVKNPRVVGgytaaGEPTDVFNREALNAVERFKYRPTI 195
Cdd:PRK10819  157 SSGPRALSRNQPQYPARAQALRIEGQVKVKFDVDEDGRVDNVRILS-----AEPRNMFEREVKQAMRKWRYEAGK 226
myxo_SS_tail NF033768
AgmX/PglI C-terminal domain; The AgmX/PglI C-terminal domain described by this HMM ...
 136-165 1.16e-04

AgmX/PglI C-terminal domain; The AgmX/PglI C-terminal domain described by this HMM (myxo_SS_tail) occurs as the C-terminal domain in multiple proteins per genome for a number of species capable of surface gliding motility, e.g. 12 in Myxococcus xanthus. Member proteins include the adventurous gliding motility proteins AgmX (GltJ) and PglI in M. xanthus. The domain is about 92 amino acids long, and features a pair of Cys residues about 45 amino acids apart in almost all cases.


Pssm-ID: 468180  Cd Length: 92  Bit Score: 39.86  E-value: 1.16e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1151113234 136 RRALAR--GIEGHVVVEFTITPSGSVKNPRVV 165
Cdd:NF033768   22 ERELKRnpSLAGKVVVEFTIGPSGRVSSVKVV 53
PHA03247 PHA03247
large tegument protein UL36; Provisional
 49-156 4.21e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 38.00  E-value: 4.21e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1151113234   49 RAPPEELPPKVA--------SIHLPKLVPSVE-QSQPILKPQDPPPVMEPTKIEQSVEPGDIPLGFEPPAPTQRKFDPSL 119
Cdd:PHA03247  2865 RPPSRSPAAKPAaparppvrRLARPAVSRSTEsFALPPDQPERPPQPQAPPPPQPQPQPPPPPQPQPPPPPPPRPQPPLA 2944

                           90       100       110
                   ....*....|....*....|....*....|....*..
gi 1151113234  120 VSADPLPIYKPAPRYPRRALARGIEGHVVVEFTITPS 156
Cdd:PHA03247  2945 PTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRVPQ 2981
PRK06482 PRK06482
SDR family oxidoreductase;
94-142 5.53e-03

SDR family oxidoreductase;


Pssm-ID: 235813 [Multi-domain]  Cd Length: 276  Bit Score: 37.02  E-value: 5.53e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1151113234  94 QSVEPGDIPLGFEPPAPTQRKFDPSLVSADPLPIYKPAP-RYPRRALARG 142
Cdd:PRK06482  164 QEVAPFGIEFTIVEPGPARTNFGAGLDRGAPLDAYDDTPvGDLRRALADG 213
 
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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