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Conserved domains on  [gi|491051038|ref|WP_004912689|]
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MULTISPECIES: C4-dicarboxylate TRAP transporter substrate-binding protein [Providencia]

Protein Classification

C4-dicarboxylate TRAP transporter substrate-binding protein( domain architecture ID 10194658)

C4-dicarboxylate TRAP transporter substrate-binding protein is a tripartite ATP-independent periplasmic (TRAP)-type transporter specific to C4-dicarboxylates such as succinate, malate and fumarate; electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane drive TRAP transporters, rather than ATP hydrolysis

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PBP2_TRAP_TM0322_like cd13669
Periplasmic component of TRAP-type C4-dicarboxylate transport system TM0322 from Thermotoga ...
36-329 3.90e-155

Periplasmic component of TRAP-type C4-dicarboxylate transport system TM0322 from Thermotoga maritima and similar proteins; the type 2 periplasmic binding protein fold; This subgroup includes the hyperthermophilic bacterium Thermotoga maritima TRAP-type C4-dicarboxylate transport system TM0322 and its closely related proteins. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


:

Pssm-ID: 270387 [Multi-domain]  Cd Length: 296  Bit Score: 436.61  E-value: 3.90e-155
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13669    1 VLKVSHVLTPGEPLDKGMLKWAENVEERTNGRIKIEVFPSSQLGSEKDVIEQARAGANVITVTDGARLGDYVPDIGILNG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKDWLYGSRHILANKMIQTPDDLKGLKIRVPNNKIQIKGLEAMGAT 195
Cdd:cd13669   81 PYLFDSYDELLKLTESPLFKEWEKELEKKGIKILSFNWIYGFRHLLTNKPVKTPADLKGLKIRVPGNPIWIETIEALGAT 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 196 PTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQF 275
Cdd:cd13669  161 PTPMPWSEVYTALQQGVIDGAENPLPTLYGGKLYEVAKYISLTGHILLISGLVVSAKWFDSLPEEYQKILVEEADKAGEY 240
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 491051038 276 LTDLVLQQEKEIIEKMKNEGVTVVEVDRALFKEKSKPFYNEFP--EWSANLYQQTQ 329
Cdd:cd13669  241 ASELTLEEEEEYLKKLKEEGVTVIEVDLEAFKKAAEPVYEKLGlwEWSPGLYDEIK 296
 
Name Accession Description Interval E-value
PBP2_TRAP_TM0322_like cd13669
Periplasmic component of TRAP-type C4-dicarboxylate transport system TM0322 from Thermotoga ...
36-329 3.90e-155

Periplasmic component of TRAP-type C4-dicarboxylate transport system TM0322 from Thermotoga maritima and similar proteins; the type 2 periplasmic binding protein fold; This subgroup includes the hyperthermophilic bacterium Thermotoga maritima TRAP-type C4-dicarboxylate transport system TM0322 and its closely related proteins. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270387 [Multi-domain]  Cd Length: 296  Bit Score: 436.61  E-value: 3.90e-155
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13669    1 VLKVSHVLTPGEPLDKGMLKWAENVEERTNGRIKIEVFPSSQLGSEKDVIEQARAGANVITVTDGARLGDYVPDIGILNG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKDWLYGSRHILANKMIQTPDDLKGLKIRVPNNKIQIKGLEAMGAT 195
Cdd:cd13669   81 PYLFDSYDELLKLTESPLFKEWEKELEKKGIKILSFNWIYGFRHLLTNKPVKTPADLKGLKIRVPGNPIWIETIEALGAT 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 196 PTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQF 275
Cdd:cd13669  161 PTPMPWSEVYTALQQGVIDGAENPLPTLYGGKLYEVAKYISLTGHILLISGLVVSAKWFDSLPEEYQKILVEEADKAGEY 240
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 491051038 276 LTDLVLQQEKEIIEKMKNEGVTVVEVDRALFKEKSKPFYNEFP--EWSANLYQQTQ 329
Cdd:cd13669  241 ASELTLEEEEEYLKKLKEEGVTVIEVDLEAFKKAAEPVYEKLGlwEWSPGLYDEIK 296
DctP COG1638
TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and ...
28-334 5.85e-94

TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism];


Pssm-ID: 441245 [Multi-domain]  Cd Length: 329  Bit Score: 282.50  E-value: 5.85e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  28 AAFADAKYKLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYV 107
Cdd:COG1638   19 AAAAAAAVTLKLAHVLPPGHPWGKAAEKFAEEVEERTGGRIKVEVFPGGQLGKEPEVLEAVRDGAVDMAAVSPGYLSGFV 98
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 108 PDYGIMFGPYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSkDWLYGSRHILANKM-IQTPDDLKGLKIRVPNNKIQI 186
Cdd:COG1638   99 PEFGVFDLPFLFRDYEHADKVLDGELGPELLEELEKKGLKVLG-WWDNGFRQLTTSKKpIRSPEDLKGLKIRVPGSPVLA 177
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 187 KGLEAMGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALV 266
Cdd:COG1638  178 AMFEALGANPVPMPFGEVYTALQTGVVDGQENPLSSIYSAKLYEVQKYLTLTNHAYSPFVLVMNKDFWDSLPPEQQAALL 257
                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 491051038 267 ESGNEAGQFLTDLVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKPFYNEF-PEWSANLYQQTQDIINK 334
Cdd:COG1638  258 EAAAEAAAYQRELARELEAEALAELKAAGVTVVELspeDRAAFREAAKPVYDEWaEEVGAELLDAIRAALAK 329
DctP pfam03480
Bacterial extracellular solute-binding protein, family 7; This family of proteins is involved ...
40-317 1.10e-75

Bacterial extracellular solute-binding protein, family 7; This family of proteins is involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes Swiss:P37735, a C4-dicarboxylate-binding protein and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component.


Pssm-ID: 427325 [Multi-domain]  Cd Length: 286  Bit Score: 234.06  E-value: 1.10e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038   40 AYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGPYLG 119
Cdd:pfam03480   2 GHVASPGSPKHKAAEKFAKLVEEKTNGKIKIEVYPNSQLGGDREVIEALKLGTVDIGAPSSAYFGGLVPEIGVFDLPFLF 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  120 LSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILAN-KMIQTPDDLKGLKIRVPNNKIQIKGLEAMGATPTP 198
Cdd:pfam03480  82 QDEEHLKKVLDGEVGEKLLKSLEKKGLKGLAF-WENGFRQFTNNkKPINSPEDLKGLKLRVPPSPVLGEVFKALGANPTP 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  199 LPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQFLTD 278
Cdd:pfam03480 161 MPFGEVYTALQTGVVDGQENPWSNIYSQKFYEVQKYLTLTNHGYLPYLVVVNKKTWDSLPEDYQAILEEAAKEATEYQRK 240
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|..
gi 491051038  279 LVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKPFYNEF 317
Cdd:pfam03480 241 LAEELNEEALQKLKEAGVEIIELtpeDLAAFREAMKPVYKEI 282
dctP TIGR00787
tripartite ATP-independent periplasmic transporter solute receptor, DctP family; TRAP-T ...
40-295 2.21e-61

tripartite ATP-independent periplasmic transporter solute receptor, DctP family; TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids]


Pssm-ID: 129869 [Multi-domain]  Cd Length: 257  Bit Score: 196.43  E-value: 2.21e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038   40 AYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGPYLG 119
Cdd:TIGR00787   2 GHNAARSSPKHKAAEKFAKLVNEKTNGEIKISVFPSSQLGSDRAMLEALQGGALDMTAPSSSKFGPLVPELAVFDLPFLF 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  120 LSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILANKM-IQTPDDLKGLKIRVPNNKIQIKGLEAMGATPTP 198
Cdd:TIGR00787  82 RDYNHVHKVLDGEVGKALKKSLEKKGLKGLAY-WDNGFRQFTSSKKpITKPEDLKGLKIRIPNSPMNEAQFKALGANPEP 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  199 LPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQFLTD 278
Cdd:TIGR00787 161 MAFSEVYTALQTGVVDGQENPLSNVYSSKFYEVQKYLSMTNHGYLGYLVVVNKAFWKSLPPDLQAVVKEAAKEAGEYQRK 240
                         250
                  ....*....|....*..
gi 491051038  279 LVLQQEKEIIEKMKNEG 295
Cdd:TIGR00787 241 LSAEDEQKLIEKFKKQG 257
TRAP_S1 NF037995
TRAP transporter substrate-binding protein DctP; Proteins of this family are members of the ...
38-308 4.12e-61

TRAP transporter substrate-binding protein DctP; Proteins of this family are members of the superfamily of Tripartite ATP-independent Periplasmic Transporter (TRAP-T). They transport hydrophobic substrates, usually lipoprotein.


Pssm-ID: 468304 [Multi-domain]  Cd Length: 271  Bit Score: 196.28  E-value: 4.12e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  38 KVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGPY 117
Cdd:NF037995   1 KIATLAPEGSPWMKELKKMAAEVEEITGGRVSFKFYPGGVLGGERDVIRKMRLGQLDGAALTSGGLAEVVPDAGVLSLPF 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 118 LGLSYKDIFKLnASPWYGSLEQQLDKKGLHVVSkdWL-YGSRHILANKMIQTPDDLKGLKI-RVPNNKIQIKGLEAMGAT 195
Cdd:NF037995  81 LFRNYAELDAV-LDALGPELEKGFEKKGFVALG--WSeVGFRYFFSKKPIRSPADLKGIKIwRTMGDPIHIAAFKALGAN 157
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 196 PTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQF 275
Cdd:NF037995 158 PVPLPIGEVLTALQTGVVDGAENPPLGAVALQWYEVAKYMTDLPHAPVPGGLVISKKAWNKLPPEYQAILRKAAAEAGEE 237
                        250       260       270
                 ....*....|....*....|....*....|...
gi 491051038 276 LTDLVLQQEKEIIEKMKNEGVTVVEVDRALFKE 308
Cdd:NF037995 238 LRALVREDNAEALAKMKKAGVTVIELTPEEKAE 270
 
Name Accession Description Interval E-value
PBP2_TRAP_TM0322_like cd13669
Periplasmic component of TRAP-type C4-dicarboxylate transport system TM0322 from Thermotoga ...
36-329 3.90e-155

Periplasmic component of TRAP-type C4-dicarboxylate transport system TM0322 from Thermotoga maritima and similar proteins; the type 2 periplasmic binding protein fold; This subgroup includes the hyperthermophilic bacterium Thermotoga maritima TRAP-type C4-dicarboxylate transport system TM0322 and its closely related proteins. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270387 [Multi-domain]  Cd Length: 296  Bit Score: 436.61  E-value: 3.90e-155
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13669    1 VLKVSHVLTPGEPLDKGMLKWAENVEERTNGRIKIEVFPSSQLGSEKDVIEQARAGANVITVTDGARLGDYVPDIGILNG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKDWLYGSRHILANKMIQTPDDLKGLKIRVPNNKIQIKGLEAMGAT 195
Cdd:cd13669   81 PYLFDSYDELLKLTESPLFKEWEKELEKKGIKILSFNWIYGFRHLLTNKPVKTPADLKGLKIRVPGNPIWIETIEALGAT 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 196 PTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQF 275
Cdd:cd13669  161 PTPMPWSEVYTALQQGVIDGAENPLPTLYGGKLYEVAKYISLTGHILLISGLVVSAKWFDSLPEEYQKILVEEADKAGEY 240
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 491051038 276 LTDLVLQQEKEIIEKMKNEGVTVVEVDRALFKEKSKPFYNEFP--EWSANLYQQTQ 329
Cdd:cd13669  241 ASELTLEEEEEYLKKLKEEGVTVIEVDLEAFKKAAEPVYEKLGlwEWSPGLYDEIK 296
DctP COG1638
TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and ...
28-334 5.85e-94

TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism];


Pssm-ID: 441245 [Multi-domain]  Cd Length: 329  Bit Score: 282.50  E-value: 5.85e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  28 AAFADAKYKLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYV 107
Cdd:COG1638   19 AAAAAAAVTLKLAHVLPPGHPWGKAAEKFAEEVEERTGGRIKVEVFPGGQLGKEPEVLEAVRDGAVDMAAVSPGYLSGFV 98
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 108 PDYGIMFGPYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSkDWLYGSRHILANKM-IQTPDDLKGLKIRVPNNKIQI 186
Cdd:COG1638   99 PEFGVFDLPFLFRDYEHADKVLDGELGPELLEELEKKGLKVLG-WWDNGFRQLTTSKKpIRSPEDLKGLKIRVPGSPVLA 177
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 187 KGLEAMGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALV 266
Cdd:COG1638  178 AMFEALGANPVPMPFGEVYTALQTGVVDGQENPLSSIYSAKLYEVQKYLTLTNHAYSPFVLVMNKDFWDSLPPEQQAALL 257
                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 491051038 267 ESGNEAGQFLTDLVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKPFYNEF-PEWSANLYQQTQDIINK 334
Cdd:COG1638  258 EAAAEAAAYQRELARELEAEALAELKAAGVTVVELspeDRAAFREAAKPVYDEWaEEVGAELLDAIRAALAK 329
PBP2_TRAP_Siap_TeaA_like cd13603
Substrate-binding domain of a sialic acid binding Tripartite ATP-independent Periplasmic ...
36-329 3.61e-93

Substrate-binding domain of a sialic acid binding Tripartite ATP-independent Periplasmic transport system (SiaP) and related proteins; the type 2 periplasmic-binding protein fold; This subfamily includes the periplasmic-binding component of TRAP transport systems such as SiaP (a sialic acid binding virulence factor), TeaA (an ectoine binding protein), and an uncharacterized TM0322 from hyperthermophilic bacterium Thermotoga maritima. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270321 [Multi-domain]  Cd Length: 297  Bit Score: 279.03  E-value: 3.61e-93
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13603    1 TLKLAHVAPEGSPYHKAAEKFAELVEEKSNGRIKVEIFPNGQLGGEREMLEGVQLGTIDMAVISTANLSNFVPEFGVLDL 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSkDWLYGSRHILANK-MIQTPDDLKGLKIRVPNNKIQIKGLEAMGA 194
Cdd:cd13603   81 PFLFRDYEHARKVLDGPLGKELLEKLEEKGLKVLG-YGENGFRQITNNKpPIKSPEDLKGLKIRVPPSPIYIATFKALGA 159
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 195 TPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQ 274
Cdd:cd13603  160 NPTPMAFGEVYTALQQGVVDGQENPLSTIYSSKFYEVQKYLTLTNHVYSPGLLLMNKKFWDSLPEELQKAILEAAKEAAD 239
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 491051038 275 FLTDLVLQQEKEIIEKMKNEGVTVVEVD-RALFKEKSKPFYNEF--PEWSANLYQQTQ 329
Cdd:cd13603  240 YQRELAAEAEEEALEELKEKGVTVTEPDdRAAFREAAAPVYDEFakKGGGKELIDAIQ 297
PBP2_TRAP_Siap cd13672
Substrate-binding domain of a sialic acid binding Tripartite ATP-independent Periplasmic ...
36-329 1.14e-87

Substrate-binding domain of a sialic acid binding Tripartite ATP-independent Periplasmic transport system (SiaP); the type 2 periplasmic-binding protein fold; This subfamily represents the periplasmic-binding component of TRAP transport system SiaP, a sialic acid binding virulence factor. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270390 [Multi-domain]  Cd Length: 295  Bit Score: 265.26  E-value: 1.14e-87
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13672    1 TLKFGHVAATSSPEYKAAEAFAEEVEEKSGGKITVQVYPSSQLGSERDMLEQLSSGSLDMTYAGSGFFGKFYPPASVFEA 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKK-GLHVVSkDWLYGSRHILANKMIQTPDDLKGLKIRVPNNKIQIKGLEAMGA 194
Cdd:cd13672   81 PYLFRDYDHMQKVLNSDLGAELFDKLDEKlGVRILG-SAYYGTRQVTSNKPINTPADMKGLKLRVPNAPSYLALAKALGA 159
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 195 TPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQ 274
Cdd:cd13672  160 NPTPMAFSEVYLALQQGAVDGQENPLPTIKAAKFYEVQKYLALTGHIVDDQLIVVSEDTWQKLTEEQQAIVTDAAEEAAE 239
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 491051038 275 FLTDLVLQQEKEIIEKMKNEGVTVVEVDRALFKEKSKPFYNEFP-EWSANLYQQTQ 329
Cdd:cd13672  240 YANKLVIDEEAELVEFFKEQGVTVTEPDLEAFREAAAPYYLEFLaEWGEGLYKRIQ 295
DctP pfam03480
Bacterial extracellular solute-binding protein, family 7; This family of proteins is involved ...
40-317 1.10e-75

Bacterial extracellular solute-binding protein, family 7; This family of proteins is involved in binding extracellular solutes for transport across the bacterial cytoplasmic membrane. This family includes Swiss:P37735, a C4-dicarboxylate-binding protein and the sialic acid-binding protein SiaP. The structure of the SiaP receptor has revealed an overall topology similar to ATP binding cassette ESR (extracytoplasmic solute receptors) proteins. Upon binding of sialic acid, SiaP undergoes domain closure about a hinge region and kinking of an alpha-helix hinge component.


Pssm-ID: 427325 [Multi-domain]  Cd Length: 286  Bit Score: 234.06  E-value: 1.10e-75
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038   40 AYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGPYLG 119
Cdd:pfam03480   2 GHVASPGSPKHKAAEKFAKLVEEKTNGKIKIEVYPNSQLGGDREVIEALKLGTVDIGAPSSAYFGGLVPEIGVFDLPFLF 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  120 LSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILAN-KMIQTPDDLKGLKIRVPNNKIQIKGLEAMGATPTP 198
Cdd:pfam03480  82 QDEEHLKKVLDGEVGEKLLKSLEKKGLKGLAF-WENGFRQFTNNkKPINSPEDLKGLKLRVPPSPVLGEVFKALGANPTP 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  199 LPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQFLTD 278
Cdd:pfam03480 161 MPFGEVYTALQTGVVDGQENPWSNIYSQKFYEVQKYLTLTNHGYLPYLVVVNKKTWDSLPEDYQAILEEAAKEATEYQRK 240
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|..
gi 491051038  279 LVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKPFYNEF 317
Cdd:pfam03480 241 LAEELNEEALQKLKEAGVEIIELtpeDLAAFREAMKPVYKEI 282
PBP2_TRAP_SBP_like_3 cd13671
Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic ...
37-319 1.43e-74

Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic transporter family; the type 2 periplasmic-binding protein fold; This subfamily includes uncharacterized periplasmic substrate-binding proteins similar to TRAP transport systems such as SiaP (a sialic acid binding virulence factor) and TeaA (an ectoine binding protein). TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270389 [Multi-domain]  Cd Length: 296  Bit Score: 231.67  E-value: 1.43e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  37 LKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGP 116
Cdd:cd13671    2 LKLADNQPEDHPTVIALKAFAELVKERTNGRITIEVYPNGQLGDEKETIEQVQNGAIDMARVSASPLENFVPEFGVFSLP 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 117 YLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVskdWLY--GSRHILANK-MIQTPDDLKGLKIRVPNNKIQIKGLEAMG 193
Cdd:cd13671   82 YLFRSVEHMYKVLDGEVGDELLDSLEDSGFVGL---GWYdaGARSFYTTKpPINTPADLKGLKIRVQESDVMIDMVEALG 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 194 ATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAG 273
Cdd:cd13671  159 ASPTPMPYGEVYTALQTGVIDGAENNEPSYYSSKHYEVAKYFSLTEHLRIPDVLVMSKATWDSLSPEDQEIIKEAAKESA 238
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*.
gi 491051038 274 QFLTDLVLQQEKEIIEKMKNEGVTVVEVDRALFKEKSKPFYNEFPE 319
Cdd:cd13671  239 EYQRELWAESEEEARAKAEEAGVEINEVDKAPFQEAVKPLYDEYLK 284
PBP2_TRAP_SBP_like_5 cd13675
Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic ...
36-319 1.08e-73

Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic transporter family; the type 2 periplasmic-binding protein fold; This subfamily includes uncharacterized periplasmic substrate-binding proteins similar to TRAP transport systems such as SiaP (a sialic acid binding virulence factor) and TeaA (an ectoine binding protein). TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270393 [Multi-domain]  Cd Length: 296  Bit Score: 229.45  E-value: 1.08e-73
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13675    1 VLKLAHALAEDSHYGLAAEAFAEEVEEKTNGRVKVEIFPNSQLGGERELIEGLQLGTVDMAVVSTGPLANFVPEFAVFDL 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILANKM-IQTPDDLKGLKIRVPNNKIQIKGLEAMGA 194
Cdd:cd13675   81 PFLFRDREHAYKVLDGEIGQELLAKLSDVGLKGLAW-WENGFRNLTNSKRpVNTPDDLKGLKIRTMENPIHIAAFRALGA 159
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 195 TPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQ 274
Cdd:cd13675  160 DPTPMAWTEVFTALQQGTIDGQENPITVIYSSKLYEVQKYLSLTGHVYSPAVLLMSPDVWDSLSDEQQAIIREAAKEAAE 239
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*.
gi 491051038 275 FLTDLVLQQEKEIIEKMKNEGVTVVEVD-RALFKEKSKPFYNEFPE 319
Cdd:cd13675  240 YERALVDEMEEEALETLKEEGMEVVEPDdKAAFREAVAPVYEKYED 285
PBP2_TRAP_DctP2_like cd13676
Substrate-binding component of Tripartite ATP-independent Periplasmic transporter DctP2 and ...
37-320 6.52e-68

Substrate-binding component of Tripartite ATP-independent Periplasmic transporter DctP2 and related proteins; the type 2 periplasmic-binding protein fold; This subgroup includes TRAP transporter DctP2 and its similar proteins. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270394 [Multi-domain]  Cd Length: 297  Bit Score: 214.78  E-value: 6.52e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  37 LKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGP 116
Cdd:cd13676    2 IKLAHVGPEDHPTHKAAKAFKEYVEEKTGGRVKVEIFPSGQLGGEREMLEGVQLGTIDMGVIGTGPLSGFVPKVGVFDLP 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 117 YLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILANKM-IQTPDDLKGLKIRVPNNKIQIKGLEAMGAT 195
Cdd:cd13676   82 FLFPSREAAYKVLDGELGQELAELMEKKGLKGLAY-WENGFRHFTNNKRpIKTPADMKGLKIRVMESPVQIATFKALGAS 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 196 PTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQF 275
Cdd:cd13676  161 PTPIAFGELYTALQQGVVDGQENPLALIVSSKFYEVQKYLSLTGHVYTPAVLIINKDTWNSLSDDQQKIIQEAAKEARDV 240
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|.
gi 491051038 276 LTDLVLQQEKEIIEKMKNEGVTVVEV-DRALFKEKSKPFYNEF-----PEW 320
Cdd:cd13676  241 QRELNAEKENEGLEKLKAKGMEINELtDKEAFREAVQPVYDKYedevgPEL 291
PBP2_TRAP_YiaO_like cd13679
Substrate-binding domain of 2,3-diketo-L-gulonate-binding Tripartite ATP-independent ...
36-317 1.58e-62

Substrate-binding domain of 2,3-diketo-L-gulonate-binding Tripartite ATP-independent Periplasmic transport system and related proteins; the type 2 periplasmic-binding protein fold; This subfamily includes the solute receptor protein YiaO of TRAP transport system. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270397 [Multi-domain]  Cd Length: 298  Bit Score: 200.90  E-value: 1.58e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13679    1 TIKFGHGLSESSPQGLGAKKFAELVEERSGGRIKVKVFPSAQLGNDTQMISALQGGTLEMTVVSTGPLVGFVKEFAVFDL 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILANKM-IQTPDDLKGLKIRVPNNKIQIKGLEAMGA 194
Cdd:cd13679   81 PFLFNSEEEADAVLDGPVGRKLLAKLEGKGLKGLAF-WENGFRHLTNSKRpVNTPEDLKGLKIRTMPNPVHIDTFKALGA 159
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 195 TPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQ 274
Cdd:cd13679  160 NPTPMPFSELYTALEQGAIDGQENPLSTIYSSKFYEVQKYLSLTNHVYSPLVLVASKKFWDSLSPEDQKLLQEAAAEAAL 239
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*.
gi 491051038 275 FLTDLVLQQEKEIIEKMKNEGVTVVEVD---RALFKEKSKPFYNEF 317
Cdd:cd13679  240 YQRELNREEEAKALAELKEKGMQVNELPdaeLAKFREAVKPVVDKY 285
dctP TIGR00787
tripartite ATP-independent periplasmic transporter solute receptor, DctP family; TRAP-T ...
40-295 2.21e-61

tripartite ATP-independent periplasmic transporter solute receptor, DctP family; TRAP-T (Tripartite ATP-independent Periplasmic Transporter) family proteins generally consist of three components, and these systems have so far been found in Gram-negative bacteria, Gram-postive bacteria and archaea. The best characterized example is the DctPQM system of Rhodobacter capsulatus, a C4 dicarboxylate (malate, fumarate, succinate) transporter. This model represents the DctP family, one of at least three major families of extracytoplasmic solute receptor for TRAP family transporters. Other are the SnoM family (see pfam03480) and TAXI (TRAP-associated extracytoplasmic immunogenic) family. [Transport and binding proteins, Carbohydrates, organic alcohols, and acids]


Pssm-ID: 129869 [Multi-domain]  Cd Length: 257  Bit Score: 196.43  E-value: 2.21e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038   40 AYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGPYLG 119
Cdd:TIGR00787   2 GHNAARSSPKHKAAEKFAKLVNEKTNGEIKISVFPSSQLGSDRAMLEALQGGALDMTAPSSSKFGPLVPELAVFDLPFLF 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  120 LSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILANKM-IQTPDDLKGLKIRVPNNKIQIKGLEAMGATPTP 198
Cdd:TIGR00787  82 RDYNHVHKVLDGEVGKALKKSLEKKGLKGLAY-WDNGFRQFTSSKKpITKPEDLKGLKIRIPNSPMNEAQFKALGANPEP 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  199 LPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQFLTD 278
Cdd:TIGR00787 161 MAFSEVYTALQTGVVDGQENPLSNVYSSKFYEVQKYLSMTNHGYLGYLVVVNKAFWKSLPPDLQAVVKEAAKEAGEYQRK 240
                         250
                  ....*....|....*..
gi 491051038  279 LVLQQEKEIIEKMKNEG 295
Cdd:TIGR00787 241 LSAEDEQKLIEKFKKQG 257
TRAP_S1 NF037995
TRAP transporter substrate-binding protein DctP; Proteins of this family are members of the ...
38-308 4.12e-61

TRAP transporter substrate-binding protein DctP; Proteins of this family are members of the superfamily of Tripartite ATP-independent Periplasmic Transporter (TRAP-T). They transport hydrophobic substrates, usually lipoprotein.


Pssm-ID: 468304 [Multi-domain]  Cd Length: 271  Bit Score: 196.28  E-value: 4.12e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  38 KVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGPY 117
Cdd:NF037995   1 KIATLAPEGSPWMKELKKMAAEVEEITGGRVSFKFYPGGVLGGERDVIRKMRLGQLDGAALTSGGLAEVVPDAGVLSLPF 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 118 LGLSYKDIFKLnASPWYGSLEQQLDKKGLHVVSkdWL-YGSRHILANKMIQTPDDLKGLKI-RVPNNKIQIKGLEAMGAT 195
Cdd:NF037995  81 LFRNYAELDAV-LDALGPELEKGFEKKGFVALG--WSeVGFRYFFSKKPIRSPADLKGIKIwRTMGDPIHIAAFKALGAN 157
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 196 PTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQF 275
Cdd:NF037995 158 PVPLPIGEVLTALQTGVVDGAENPPLGAVALQWYEVAKYMTDLPHAPVPGGLVISKKAWNKLPPEYQAILRKAAAEAGEE 237
                        250       260       270
                 ....*....|....*....|....*....|...
gi 491051038 276 LTDLVLQQEKEIIEKMKNEGVTVVEVDRALFKE 308
Cdd:NF037995 238 LRALVREDNAEALAKMKKAGVTVIELTPEEKAE 270
PBP2_TRAP_DctP10 cd13678
Substrate-binding component of Tripartite ATP-independent Periplasmic transporter DctP10; the ...
34-329 2.36e-60

Substrate-binding component of Tripartite ATP-independent Periplasmic transporter DctP10; the type 2 periplasmic-binding protein fold; This subgroup includes TRAP transporter DctP10 and its similar proteins. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270396 [Multi-domain]  Cd Length: 300  Bit Score: 195.20  E-value: 2.36e-60
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  34 KYKLKVayenNPGEPF--DLAIHEWAKKFNEKTNGEGELIPYPSSQL--GSKKDVIEQMKLGSPLITLADGAFFSDYVPD 109
Cdd:cd13678    1 ELKLSV----PDGENSywGQAAQKFAELVREKSNGRINIKVYPNGQLsgGDQTKAIEMLRNGSIDLAILSTINYSPFDPE 76
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 110 YGIMFGPYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILANKM-IQTPDDLKGLKIRVPNNKIQIKG 188
Cdd:cd13678   77 FNVFSLPFLFDDYDALDAYLNGEGGKELFEILEKKGVTPLGI-GENGFRQITNSKRpITTPEDLKGLKLRVPGSPLFIDF 155
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 189 LEAMGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVES 268
Cdd:cd13678  156 FRALGANPTAMNFSEVYTALQQGTVDGQENPVDVPNSAKFYEVQKYVTLWNYVADPWVFGMNSKVWESLSEEDQAIIREA 235
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 491051038 269 GNEAGQFLTDLVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKPFYNEF-PEWSANLYQQTQ 329
Cdd:cd13678  236 AVEAAQWQKANLAEEDGKILEELEKNGMEVNELtpeQIAAFKEASKPLYDKFkDLIGPDLFDAAE 300
PBP2_TRAP_SBP_like_1 cd13674
Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic ...
45-317 7.22e-48

Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic transporter family; the type 2 periplasmic-binding protein fold; This subfamily includes uncharacterized periplasmic substrate-binding proteins similar to TRAP transport systems such as SiaP (a sialic acid binding virulence factor) and TeaA (an ectoine binding protein). TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270392 [Multi-domain]  Cd Length: 299  Bit Score: 162.84  E-value: 7.22e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  45 PGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGPYLGLSYKD 124
Cdd:cd13674   10 ENTPKGLAANKFAELVEERSGGKVKVEVYPNSQLYGDIEELEALKLGDVQMIAPSLSKLSLYVPEFQVFDLPFLFKDMEA 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 125 IFKLNASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILANK-MIQTPDDLKGLKIRVPNNKIQIKGLEAMGATPTPLPLAE 203
Cdd:cd13674   90 VHRFTDGEVGDKLLRSLEEKGLVGLAF-WDNGFKQFTANKpLIRTPEDLKGLKFRIMGSDVLEAQFEALGATPVPLPFSE 168
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 204 VYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHveNVTN--LVMGSKTYAKLPENIQQALVESGNEAGQFLTDLVL 281
Cdd:cd13674  169 VYQALQTGVVDGQENTWSNIYSQKFYEVQKYLTVSNH--GYLGyaVITSEQFWDSLPPEDRKLLEDALKEATEYENELAA 246
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 491051038 282 QQEKEIIEKMKNEG-VTVVEV---DRALFKEKSKPFYNEF 317
Cdd:cd13674  247 ELNERDLERLKQAGnIKIVTLtpeERQAWREAMKPVYDEF 286
PBP2_TRAP_SBP_like_6 cd13677
Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic ...
37-317 7.49e-46

Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic transporter family; the type 2 periplasmic-binding protein fold; This subfamily includes uncharacterized periplasmic substrate-binding proteins similar to TRAP transport systems such as SiaP (a sialic acid binding virulence factor) and TeaA (an ectoine binding protein). TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270395 [Multi-domain]  Cd Length: 304  Bit Score: 157.84  E-value: 7.49e-46
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  37 LKVAYeNNPGEPFDLAIHEWAKKFN----EKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGI 112
Cdd:cd13677    2 IKLSH-LNPADSFDNPVHAAALVFKnlveSRSNGRVAVEIYPGGQLGSEKECMEQVQKGVIQSFIATVGGMASLYPPIQV 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 113 MFGPYLGLSYKDIFKLNASPWYGSLEQQLDKK-GLHVVSKDWLYGSRHILANK-MIQTPDDLKGLKIRVPNNKIQIKGLE 190
Cdd:cd13677   81 LDLPFAFPNDRVAYAVFDGPFGKALAKDILEKtGLRLLGVGDTGGFRNFTNSKrPIKTPADMKGLKIRTMPLPSQQALVK 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 191 AMGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGN 270
Cdd:cd13677  161 ALGASPTPIPWGELYTALQTGVVDGQMNPIPDIIFAKLDEVQKYLTLDNHLYSPYFWVMNGDFFNSLPEEEQRIVLDAAE 240
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 491051038 271 EAGQFLTDLVLQQEKEIIEKMKNEGVTVV---EVDRALFKEKSKPFYNEF 317
Cdd:cd13677  241 EAVVASRGRPKAQEDRGLEFLREKGGEVYtptPEEREAFREAAQPAYDWW 290
PBP2_TRAP_UehA_TeaA cd13668
Periplasmic substrate-binding component of osmoregulatory TRAP transporters TeaA and UehA; the ...
38-319 2.52e-45

Periplasmic substrate-binding component of osmoregulatory TRAP transporters TeaA and UehA; the type 2 periplasmic-binding protein fold; This subfamily includes the periplasmic-binding component of the ectoine-specific TRAP transporters TeaA from Halomonas elongata and UehA from Ruegeria pomeroyi. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270386 [Multi-domain]  Cd Length: 305  Bit Score: 156.66  E-value: 2.52e-45
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  38 KVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGPY 117
Cdd:cd13668    3 RFALEEIEGDVQDVYAQEFKEEIEEKSDGDVTVDIYPYGTLGDSEDIVEQTQNGAIQFVFTSPGFLGSLVPEAQVFSLPY 82
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 118 LgLS-----YKDIFKlNASPWYGSLEQQLDKKGLHVVSkdWLY-GSRHILANKMIQTPDDLKGLKIRVPNNKIQIKGLEA 191
Cdd:cd13668   83 L-LPddpevNAKVLN-ESKAINEMLAKAYEKQGLKLLA--MFPeGWMVWTANKPIRTPADFDGFKIRTMTSPLLVETYKA 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 192 MGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNE 271
Cdd:cd13668  159 YGADPTPLPYGEVYGGLQLGMIDGQENPIFAIEEMKFYEVQDYLTLAGHAPFVATVVANKDFYDSLPEEDQKMVREAADE 238
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|...
gi 491051038 272 AGQFLTDLVLQQEKEIIEKMKNEG--VTVVEVD---RALFKEKSKPFYNEFPE 319
Cdd:cd13668  239 AIDWAFEMQQELNDERLEKIKESSpdIEVIELTeeeREAFKERAKPVRDKYIE 291
PBP2_TRAP cd13527
Substrate-binding component of Tripartite ATP-independent Periplasmic transporters and ...
37-334 1.15e-42

Substrate-binding component of Tripartite ATP-independent Periplasmic transporters and related proteins; contains the type 2 periplasmic-binding protein fold; This family represents the TRAP Transporters that are specific to various ligands, including sialic acid (N-acetyl neuraminic acid), glutamate, ectoine, xylulose, C4-dicarboxylates such as succinate, malate and fumarate, and keto acids such as pyruvate and alpha-ketobutyrate. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. This family also includes some eukaryotic homologs that have not been functionally characterized. TRAP transporters are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270245 [Multi-domain]  Cd Length: 301  Bit Score: 149.49  E-value: 1.15e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  37 LKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGP 116
Cdd:cd13527    2 LRLAMNAPPSSYEYKAAEMFAKEVKEKSQGKLEIKVFSSSQLGDGRNMLKALKQGSVDIGFVLSAYFSGFDPEFALFALP 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 117 YLGLSYKDIFKL-NASPWYGSLEQQLDKK-GLHVVSKDWLYGSRhILANKMIQTPDDLKGLKIRVPNNKiQIKGLEAMGA 194
Cdd:cd13527   82 FVISSYNVIEKAwKAGETGDELNQELDKKlGIVLLSGAPNGPQQ-ITSNRAINSLADMKGLKLRVPGAA-NSRYAKLLGA 159
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 195 TPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQ 274
Cdd:cd13527  160 SPTSIPFSEVYLALQTGVVDGTENPLATVQSQKLWEVVKYYYDANHFIPTSLYLVNKRAYDSLPPEIQKLVRDAAENADA 239
                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 491051038 275 FLTDLVLQQEKEIIEKMKNEGVTVVEVDRAL---FKEKSKPFYnefPEWSANLYQQTQDIINK 334
Cdd:cd13527  240 EHTQLAVAKEKDLVTFFEKNGVEITPPDPELlqaMRAALKPYY---AEWVKQAGQKGEDALKA 299
PBP2_TRAP_SBP_like_4 cd13680
Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic ...
36-312 3.06e-41

Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic transporter family; the type 2 periplasmic-binding protein fold; This subfamily includes uncharacterized periplasmic substrate-binding proteins similar to TRAP transport systems such as SiaP (a sialic acid binding virulence factor) and TeaA (an ectoine binding protein). TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270398 [Multi-domain]  Cd Length: 300  Bit Score: 145.53  E-value: 3.06e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13680    1 TLRISHQFPGGHHRGKNVQAFAKEVEERSKGELKVQVYPSAQLYKDNEQPQAVASGALEMGVAPLAYWGGTVPEVNVFLM 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKDWLYGSRHILANKMIQTPDDLKGLKIRVpNNKIQIKGLEAMGAT 195
Cdd:cd13680   81 PFLFPSYEAARKALDSPFRKALDGAIEKKGVKVLAWADYGGAQFSSKKKPLVSPEDFKGLKIRG-YGKAFDEMLKALGAS 159
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 196 PTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQF 275
Cdd:cd13680  160 PVSMPGSEVYAALQTGTVDAAMTGSTAAVSRKLYEVAKYLTVTNASWFEFEVVVNSKWFDGLSEEQQAALTEAAAEAEKF 239
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 491051038 276 LTDLVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKP 312
Cdd:cd13680  240 LREAAKKIDADAAKVLEDAGMKVVVLtaeEIKAWQEAAAP 279
PBP2_TRAP_SBP_like_2 cd13673
Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic ...
37-302 1.77e-39

Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic transporter family; the type 2 periplasmic-binding protein fold; This subfamily includes uncharacterized periplasmic substrate-binding proteins similar to TRAP transport systems such as SiaP (a sialic acid binding virulence factor) and TeaA (an ectoine binding protein). TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270391 [Multi-domain]  Cd Length: 301  Bit Score: 141.24  E-value: 1.77e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  37 LKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSplITLADGAFFSDYVPDYGIMFGP 116
Cdd:cd13673    2 LKLAHVRPTGSPGDKALKKFAEEIEEATGGRVKVRVYPANQLGDYTEVFELVSRGD--VDMALQSPSSQYDKRLDITYLP 79
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 117 YLGLSYKDIFKL--NASPWYGSLEQQLDKKGLHVVSKdWLYGSRHILANKMIQ---TPDDLKGLKIRVPNNKIQIKGLEA 191
Cdd:cd13673   80 YLVSNWDEAKKVygPGGPLNDILDELLADLGLKLLGA-YPEGFGGIALNKKVEkpnNPDVAKGLKIRVPPMKVFKLLAEA 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 192 MGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNE 271
Cdd:cd13673  159 LGYNTTPIPWSEVFTALQTGVVDGVIGGGAEGAYESFRDVLKYYIPTNDHFETWFLIINKDWWNKLSAEDQKVIQTAADE 238
                        250       260       270
                 ....*....|....*....|....*....|.
gi 491051038 272 AGQFLTDLVLQQEKEIIEKMKNEGVTVVEVD 302
Cdd:cd13673  239 AEAERWAVAEAEDAAYLKKLRDAGIKVVELT 269
PBP2_TRAP_DctP_like_1 cd13666
Substrate-binding component of an uncharacterized TRAP-type C4-dicarboxylate transport system; ...
49-324 1.38e-33

Substrate-binding component of an uncharacterized TRAP-type C4-dicarboxylate transport system; the type 2 periplasmic-binding protein fold; This group includes a DctP subfamily of TRAP Transporters specific to C4-dicarboxylates such as succinate, malate and fumarate. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. This CD also included some eukaryotic homologs that have not been functionally characterized. TRAP transporters are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270384 [Multi-domain]  Cd Length: 303  Bit Score: 125.43  E-value: 1.38e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  49 FDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGsplitLADGAFF-SDYVPDY--GIMFGPYLGLSYKD- 124
Cdd:cd13666   15 VSAAYEAFAEEVEERTGGELTFEIFWGGALLKAGETLQGVRDG-----VADIGQVvPLYFPAElpLQNVLYELPFAGSDp 89
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 125 ------IFKLNASpwYGSLEQQLDKKGLHVVSKDWLYGSrHILANKMIQTPDDLKGLKIRVPNNkiQIKGLEAMGATPTP 198
Cdd:cd13666   90 laaaaaVTELYLT--CPECQAEFERNNQVYLGGYATDPY-VLLCTKPVESLEDLKGKKIRAAGA--WARWLEALGAVPVN 164
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 199 LPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAK-FLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQFLT 277
Cdd:cd13666  165 MPLTEVYEALQRGVLDCTIGSASALLAFKLYEVAPyVTLPGGGAVAGAALVMNKDTWNSLPEEVREALLEAAAEALAAYA 244
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*...
gi 491051038 278 DLVLQQEKEIIEKMKNEGVTVVEVDRALfKEKSKPFYNEFPE-WSANL 324
Cdd:cd13666  245 EAYEADDEAALEEAEAAGVEIVEPSAEL-RAALAAFLPDDAAaWAEEA 291
PBP2_TRAP_BpDctp6_7 cd13602
Substrate-binding domain of a pyroglutamic acid binding DctP subfamily of the tripartite ...
56-333 3.47e-32

Substrate-binding domain of a pyroglutamic acid binding DctP subfamily of the tripartite ATP-independent periplasmic transporters; contains the type 2 periplasmic binding protein fold; DctP6 and DctP7 groups of the TRAP transporters that involved in pyroglutamic acid transport. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270320 [Multi-domain]  Cd Length: 300  Bit Score: 121.57  E-value: 3.47e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  56 WAKKFNEKTNGEGELIPYPSSQLGSKK-DVIEQMKLGspLITLAD--GAFFSDYVPDYGIMFGPYLGLSYKDIFKLNASp 132
Cdd:cd13602   21 FAELVAEATGGKVKITVHPGGSLGLKGpEILRAVRDG--AVDIGDvlLSYLAGDDPLFEGDSLPFLATSYDEARKLYDA- 97
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 133 WYGSLEQQLDKKGLHVVSKdWLYGSRHILANKMIQTPDDLKGLKIRVpNNKIQIKGLEAMGATPTPLPLAEVYTALNLKI 212
Cdd:cd13602   98 ARPYLEKRLAERNAKLLYA-VPWPPQGLFSKKPITSLADLKGLKIRT-YDPTTAEFVEALGAAPVTLPFAEVVPALATGV 175
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 213 IDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQFLTDLVLQQEKEIIEKMK 292
Cdd:cd13602  176 IDCALTSTSSGVDGKWWEVTKHFYPINYGWPLNMVAVNLDAWNALSPDVQAALLEAAAELEDEGWALSAQETEEALACLR 255
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*
gi 491051038 293 NEGVTVVEVD----RALFKEKSKPFYnefPEWSANLYQQTQDIIN 333
Cdd:cd13602  256 GNGMTVVEPSpadlRQALKAAGEPVL---PEWLKRAGPECAAILN 297
PBP2_TRAP_DctP1_3_4_like cd13601
Periplasmic substrate-binding component of uncharacterized TRAP-type C4-dicarboxylate ...
37-311 9.49e-31

Periplasmic substrate-binding component of uncharacterized TRAP-type C4-dicarboxylate transporter subfamilies; the type 2 periplasmic-binding protein fold; This model includes uncharacterized DctP subfamilies of the TRAP Transporters. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270319 [Multi-domain]  Cd Length: 302  Bit Score: 117.81  E-value: 9.49e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  37 LKVAYENNPGEPF-DLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13601    2 LRVADSFPPQHPVsTEGTKPWMKRVEEATNGAVKFEHYPSGQLGKPKEQLDAVRSGVVDIGYIFPGYVSDKLPLNGVVQL 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 PYLGLSYKDIFKLNASPWYGSLEQQLDKKGLHVVSKDWLYGSRHILANKMIQTPDDLKGLKIRVP---NNKIqikgLEAM 192
Cdd:cd13601   82 PGLGTTSVEGSAALWKATGGLLQQEFEKNGVVPLFVHVLPPYQVLTKKPPVDSLADLKGLKLRSSggaLSLM----AESL 157
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 193 GATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVT-NLVMGSKTYAKLPENIQQALVESGNE 271
Cdd:cd13601  158 GAVPVSMPAPEVYEALSRGVVDGTLGPLASVISYKLAEVVKYVTTNGNFGSGSfSYVMNQDTWDALSDEQRKALDEASGE 237
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 491051038 272 AGQFLTDLVLQQEKEIIEKMKNEGVTVVEVDRALFKEKSK 311
Cdd:cd13601  238 AEAALAEALDAAVEELVAEAAAEGIEFVELSDEELAALEA 277
PBP2_TRAP_Tp0957_like cd13670
Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic ...
46-329 2.44e-30

Uncharacterized substrate-binding protein of the Tripartite ATP-independent Periplasmic transporter family; the type 2 periplasmic-binding protein fold; This subfamily includes the putative periplasmic substrate-binding protein Tp0957 from Treponema pallidum, which is similar to TRAP transport systems such as SiaP (a sialic acid binding virulence factor) and TeaA (an ectoine binding protein). TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270388 [Multi-domain]  Cd Length: 298  Bit Score: 116.53  E-value: 2.44e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  46 GEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGsPLitlaDGAFFS-----DYVPDYGIMFGPYLGL 120
Cdd:cd13670   11 GSPWVQELKKLAPEIEEATGGRVKLKIYPGGVMGDDEDVLRKMRIG-QL----QGAGLSggglsEICPEMAVLSLPFLFR 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 121 SYK--DIFKLNASPwygSLEQQLDKKGLHVVSkdWL-YGSRHILANKMIQTPDDLKGLKIRVP-NNKIQIKGLEAMGATP 196
Cdd:cd13670   86 SYDevDYVREKMRP---VFDELFEKKGFVLLA--WSdQGFDYIFSKKPVATLEDLKKQKIWTWeGGPVEEEALKALGASP 160
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 197 TPLPLAEVYTALNLKIIDGAENPiPVLY-GQKHHEAAKFLILTGHVENVTNLVMGSKTYAKLPENIQQALVESGNEAGQF 275
Cdd:cd13670  161 VPLPLPEVLTSLQTGLIDAVIAP-PLWAlALQWYTKVKYVNDLPIRYSPGAIVISKKAWNKLPAEYQEAVREARAKAFKR 239
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 491051038 276 LTDLVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKPFYNEF--PEWSANLYQQTQ 329
Cdd:cd13670  240 LNAKVREDNEKALAAMKKYGLKVVKLspeELEEWRKAARPVWEELagKLYSRELLDEIL 298
PBP2_TRAP_Dctp3_4 cd13665
Periplasmic substrate-binding component of TRAP-type C4-dicarboxylate transport system DctP3 ...
37-316 3.34e-27

Periplasmic substrate-binding component of TRAP-type C4-dicarboxylate transport system DctP3 and DctP4; the type 2 periplasmic-binding protein fold; This group includes uncharacterized DctP3 and DctP 4 subfamilies of TRAP Transporters specific to C4-dicarboxylates such as succinate, malate and fumarate. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. This CD also included some eukaryotic homologs that have not been functionally characterized. TRAP transporters are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270383 [Multi-domain]  Cd Length: 302  Bit Score: 108.44  E-value: 3.34e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  37 LKVAYENNPGEPFDLAIHE-WAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGsplitLADGAFFsdyVPDY----- 110
Cdd:cd13665    2 LRFSHFLPPTHPIVTGVLEpWAEEVEEASGGRVTVEIYPGGTLGKPPQQYDLVRDG-----VADIGWT---VPGYtpgrf 73
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 111 ---GIMFGPYLGLSykdifKLNAS----PWYGSLEQQLDKKGLHVVSKdWLYGSRHILANK-MIQTPDDLKGLKIRVPNn 182
Cdd:cd13665   74 pltEVVELPFLAPS-----AEAGSvalwEYEYEGALADEFKDVKVLAL-FTHGPGQLHTKKpVVRSLEDLKGLKIRVPG- 146
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 183 KIQIKGLEAMGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVT-NLVMGSKTYAKLPENI 261
Cdd:cd13665  147 GTAADILEALGATPVGMPAPDVYEALSKGVIDGALLPWEALKSFKLAEVTKYHTEPGGLYTTSfAVVMNKDKYDSLPDDL 226
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 491051038 262 QQALVE-SGNEAGQFLTDLVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKPFYNE 316
Cdd:cd13665  227 QAVIDEvSGEELSRLAGKAWDDADAAGREAARAAGVTIIELsdaEIARWDEALAPVIDA 285
PBP2_TRAP_DctP_like_2 cd13605
Substrate-binding component of uncharacterized Tripartite ATP-independent Periplasmic ...
37-319 5.55e-23

Substrate-binding component of uncharacterized Tripartite ATP-independent Periplasmic transporter; the type 2 periplasmic-binding protein fold; This family represents the TRAP Transporters that are specific to various ligands, including sialic acid (N-acetyl neuraminic acid), glutamate, ectoine, xylulose, C4-dicarboxylates such as succinate, malate and fumarate, and keto acids such as pyruvate and alpha-ketobutyrate. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. This CD also included some eukaryotic homologs that have not been functionally characterized. TRAP transporters are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270323 [Multi-domain]  Cd Length: 303  Bit Score: 96.67  E-value: 5.55e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  37 LKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFGP 116
Cdd:cd13605    2 LRISVENAPTHVQTRAMRRFAEDVEERSAGRLKVEVFPSAQLYKDKDVVRALAQGAVEMAVPGTWQLSRIDPEYGLFLLP 81
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 117 YLglsYKDIFKLNASPWYGSLEQQL-----DKKGLHVVSKDWLYGSRHILANKMIQTPDDLKGLKIRVPNNKIQIKGLEA 191
Cdd:cd13605   82 MF---FGATAMQTHRFAQGPLGDELltrieRKLRVQVLGRWRDGGGYVFFTDKAVDSPEDLAGLKIRVAGGAANVARLRA 158
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 192 MGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGS-KTYAKLPENIQQALVESGN 270
Cdd:cd13605  159 FGASPVSIPASDLPLALQQGTIDGILTTPETVASARLWESGIRFVFEDRQYFAQYVPVVSdRFWAKLPEEQRQVLRETWN 238
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|..
gi 491051038 271 EAGQFLTDLVLQQEKEIIEKMKNEGVTVVEVD---RALFKEKSKPFYNEFPE 319
Cdd:cd13605  239 EIIAQQRAHAAEAQAEAREQMRANGVTITVPPpaeLADWRERLLLLQPEVVR 290
PBP2_TRAP_DctP6_7 cd13683
Substrate-binding domain of Tripartite ATP-independent Periplasmic transporter DctP6 and DctP7; ...
36-322 1.43e-22

Substrate-binding domain of Tripartite ATP-independent Periplasmic transporter DctP6 and DctP7; type 2 periplasmic-binding protein fold; This subgroup includes TRAP-type mannitol/chloroaromatic compound transport system (Dctp6) and similar proteins. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process and a smaller membrane of unknown function. The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the PBP2 superfamily. The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270401 [Multi-domain]  Cd Length: 304  Bit Score: 95.83  E-value: 1.43e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSPLITLADGAFFSDYVPDYGIMFG 115
Cdd:cd13683    1 KWRFQTHLPKGTSEEDVIKEFADRVNEMSNGRLVIEVFHAGELVPTPEVLRAVQRGVVDMALIYGGYWAGQAPVAALEGG 80
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 116 -PYLGLSYKDIFKLNASP-WYGSLEQQLDKKGLHVVSkDWLYGSRHILANKMIQTPDDLKGLKIRVPNNkiQIKGLEAMG 193
Cdd:cd13683   81 lPGATRSAAEVNALFYEPgLADILREAYAEQGVHYLG-PAPVDPLYLVSKKPINSLDDLKGLKIRASGT--AAKFLQKLG 157
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 194 ATPTPLPLAEVYTALNLKIIDGAENPIPV-LYGQKHHEAAKFlILTGHVENVTN--LVMGSKTYAKLPENIQQALVESGN 270
Cdd:cd13683  158 ASPVSLPASELYTALQTGVIDGAIWGSWAeNYLMGLHEVTKY-FLYLHILGAQTgeLIVNMKAWESLPDDLKAIVETALD 236
                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 491051038 271 EAGQFLTDLVLQQEKEIIEKMKNEGVTVVEV---DRALFKEKSKPFYnefPEWSA 322
Cdd:cd13683  237 EASYDRAAHAVDWEWEAEAKMEAKGIELIQLpeeDVAILAEAASKVW---DEYAE 288
PBP2_TRAP_ketoacid_lactate_like cd13604
Substrate-binding domain of an alpha-keto acid binding Tripartite ATP-independent Periplasmic ...
36-300 6.77e-19

Substrate-binding domain of an alpha-keto acid binding Tripartite ATP-independent Periplasmic transporter and related proteins; the type 2 periplasmic-binding protein fold; This family constitutes TRAP transporters that bind to ketoacids such as pyruvate and alpha-ketobutyrate, xylulose, and other unknown ligands. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270322 [Multi-domain]  Cd Length: 306  Bit Score: 85.32  E-value: 6.77e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  36 KLKVAYENNPGEPFDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGsplitLADG-----AFFSDYVPDY 110
Cdd:cd13604    1 TLRMQTSWPALPGLGTGAEELAKRVEEMSGGRIKIEVFPAGSLVPAFETFDAVSNG-----TLDGghtwpAYWSGKDPAF 75
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 111 GIMFGPYLGLSYKDifkLNASPWYG---SLEQQL-DKKGLHVVSKdWLYGSRHILA-NKMIQTPDDLKGLKIRVPNNKIQ 185
Cdd:cd13604   76 ALFGAVPFGMDPLE---YLAWLYYGggkELLDELyAPFNVKPFPC-GNTGPEAGGWfKKEIKSVEDLKGLKIRAPGLGGE 151
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 186 IkgLEAMGATPTPLPLAEVYTALNLKIIDGAENPIPVL-YGQKHHEAAKFLILTGHVENVTN--LVMGSKTYAKLPENiQ 262
Cdd:cd13604  152 V--LARLGASPVNLPGGEIYTALERGAIDAAEFSGPANdLALGFHKVAKYYYYPGWHQPAPVleLIINKDVWEALPPD-L 228
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|.
gi 491051038 263 QALVESGNEA--GQFLTDLVLQQEKeIIEKMKNE-GVTVVE 300
Cdd:cd13604  229 QAIIEAACQAanLDMLAEAEAQNAK-ALKELRAKgGVEVIR 268
PBP2_TRAP_Dctp5_like cd13684
Substrate-binding component of Tripartite ATP-independent Periplasmic transporter DctP5 and ...
49-302 2.44e-18

Substrate-binding component of Tripartite ATP-independent Periplasmic transporter DctP5 and related proteins; the type 2 periplasmic-binding protein fold; This subgroup includes TRAP transporter DctP5 and its similar proteins. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270402 [Multi-domain]  Cd Length: 314  Bit Score: 83.91  E-value: 2.44e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  49 FDLAIHEWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGSplitlADGAFfsDYvPDYGI-------MFGPYLGLS 121
Cdd:cd13684   14 LQEFAERFAERVKQLTNGRLVIQVFPAGVLVPALEVFDAVKNGV-----AEAGH--SW-PGYWVgkdpafaLFASFPGGM 85
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 122 YKDIFKLNASPWYG-SLEQQL-DKKGLHVVskdwLYGSRH----ILANKMIQTPDDLKGLKIRVPNNKIQIkgLEAMGAT 195
Cdd:cd13684   86 NPEDYLLWLYEGGGkELYQELyGKFGLVYL----PCGIGPteifAHSNKPIKTLEDLKGLKLRTSGAWAEI--LRKLGAS 159
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 196 PTPLPLAEVYTALNLKIIDGAENPIP-VLYGQKHHEAAKFLILTG-H-VENVTNLVMGSKTYAKLPENiQQALVESGNEA 272
Cdd:cd13684  160 VVVLPGGEIYPALQRGVIDAAEFSTPsADYPLGFHEVAKYIMVPGvHqPASVFEVVINKKAWDALPPD-LKALVEAAAKL 238
                        250       260       270
                 ....*....|....*....|....*....|...
gi 491051038 273 GQFltDLVLQQEK---EIIEKMKNEGVTVVEVD 302
Cdd:cd13684  239 TTL--ESLARFEYqdiEAMEFFKKGGVEIVRLD 269
PBP2_TRAP_lactate cd13681
Substrate-binding component of a lactate binding Tripartite ATP-independent Periplasmic ...
55-316 8.01e-18

Substrate-binding component of a lactate binding Tripartite ATP-independent Periplasmic transporter and related proteins; the type 2 periplasmic-binding protein fold; This subgroup includes a lactate binding TRAP transporter and its similar proteins. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270399 [Multi-domain]  Cd Length: 311  Bit Score: 82.61  E-value: 8.01e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038  55 EWAKKFNEKTNGEGELIPYPSSQLGSKKDVIEQMKLGspliTLADGAFFSDY----VPDYGIMFGPYLGLSYKDIFKLna 130
Cdd:cd13681   20 RFCKRVKELTDGELEIEPFPAGAVVGTFEMFDAVRGG----VLDGMNTFTLYwagkMPATAFLSSYPMGLPEPDQWEA-- 93
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 131 spWYGSL------EQQLDKKGLHVVSKDwLYGSRHILANKMIQTPDDLKGLKIRVPNNKIQiKGLEAMGATPTPLPLAEV 204
Cdd:cd13681   94 --WFYSLgglqiaREAYAPQGLYYIGPV-QHGPNIIHSKVPLRSIEDFKGKKLRFPGGMIA-EVFAALGVATTLLPGGEV 169
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 205 YTALNLKIIDGAENPIP-VLYGQKHHEAAKFLILTGHVE-------NVTNLVMGSKTYAKLPENIQQALVESGNEAGQFL 276
Cdd:cd13681  170 YSALEKGVIDAADFVGPaVNYDLGFHQVAKYIIMGPPGTpgihqpvDLMDFVVNRNAWESLPAPYKAALAAAVREYSAAH 249
                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 491051038 277 TDLVLQQEKEIIEKMKNEGVTVV---EVDRALFKEKSKPFYNE 316
Cdd:cd13681  250 RAAIQKADGEAWPKYKAAGVEVIrlsPEDLAKFRAQAIPIWFK 292
FcbT1 COG4663
TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary ...
163-307 7.72e-16

TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport and catabolism];


Pssm-ID: 443700 [Multi-domain]  Cd Length: 356  Bit Score: 77.09  E-value: 7.72e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 163 NKMIQTPDDLKGLKIRVPnnkiqikGL-----EAMGATPTPLPLAEVYTALNLKIIDGAE--NPipvlYG-QK--HHEAA 232
Cdd:COG4663  163 RKEINSLDDLKGLKMRIP-------GLggevlAKLGAVPQQLPGGEIYPALERGTIDAAEwvGP----YDdEKlgFHKVA 231
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 233 KFLILTGHVE--NVTNLVMGSKTYAKLPENiQQALVESGNEAGQflTDLVLQQEK---EIIEKMKNEGVTVV----EVDR 303
Cdd:COG4663  232 KYYYYPGWHEpgTQLELLVNKKAWDALPKD-LQAIVEAAAAAAN--ADMLAEYDArnpAALKRLVAEGVKLRrfpdEVLD 308

                 ....
gi 491051038 304 ALFK 307
Cdd:COG4663  309 ALRK 312
PBP2_TRAP_alpha-ketoacid cd13682
Substrate-binding component of an alpha-keto acid binding Tripartite ATP-independent ...
163-322 8.27e-12

Substrate-binding component of an alpha-keto acid binding Tripartite ATP-independent Periplasmic transporter and related proteins; contains the type 2 periplasmic-binding protein fold; This subgroup includes TRAP transporters that bind to ketoacids such as pyruvate and alpha-ketobutyrate, xylulose, and other unknown ligands. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270400 [Multi-domain]  Cd Length: 323  Bit Score: 65.07  E-value: 8.27e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 163 NKMIQTPDDLKGLKIRVPNNKIQIkgLEAMGATPTPLPLAEVYTALNLKIIDGAENPIPvlY-GQK--HHEAAKFLILTG 239
Cdd:cd13682  130 RKEIKTVADLKGLKMRIPGFGGEV--MSRLGVVVQNLPGGEIYPALERGAIDAAEWVGP--YdDEKlgFNKVAPYYYYPG 205
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 240 HVENVTNL--VMGSKTYAKLPENIQQALVESGNEAGQFLTDLVLQQEKEIIEKMKNEGVTVV----EVDRALFK------ 307
Cdd:cd13682  206 WWEPGPELtfYVNKDAWNALPPEYQAILEAAAAEANLDMLARYDALNPPALQRLLAEGTQLRpfpdEIMDAAYKaadely 285
                        170
                 ....*....|....*....
gi 491051038 308 ---EKSKPFYNE-FPEWSA 322
Cdd:cd13682  286 aenSAKNPAFKKiYESWKA 304
PBP2_TRAP_DctP1 cd13667
Periplasmic substrate-binding component of an uncharacterized TRAP-type C4-dicarboxylate ...
100-292 1.19e-10

Periplasmic substrate-binding component of an uncharacterized TRAP-type C4-dicarboxylate transport system DctP1; contains the type 2 periplasmic-binding protein fold; This group includes an uncharacterized DctP1 subfamily of the TRAP Transporters. TRAP transporters are a large family of solute transporters ubiquitously found in bacteria and archaea. They are comprised of a periplasmic substrate-binding protein (SBP; often called the P subunit) and two unequally sized integral membrane components: a large transmembrane subunit involved in the translocation process (the M subunit) and a smaller membrane of unknown function (the Q subunit). The driving force of TRAP transporters is provided by electrochemical ion gradients (either protons or sodium ions) across the cytoplasmic membrane, rather than ATP hydrolysis. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270385 [Multi-domain]  Cd Length: 295  Bit Score: 61.59  E-value: 1.19e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 100 GAFFSDYVPDygimfGPYLGLSYKDIFKLNASPWYGSLEQQLDKKGlHVVSKDWLYG--SRHILANKMIQTPDDLKGLKI 177
Cdd:cd13667   65 GSFYAGLVPE-----ADALKLSNVTAAELRANGGFDLMNQIHQEKM-NVKYLARVDSgvPYHIYTNKEPSDKLDLTGKKL 138
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491051038 178 RVpnNKIQIKGLEAMGATPTPLPLAEVYTALNLKIIDGAENPIPVLYGQKHHEAAKFLILTGHVENVTNLVMGSKTYAKL 257
Cdd:cd13667  139 RS--SPVYRAFFEALGAQPVSTPPGEVYTALERGVVDGYGWPIIGIFDLGWQEFTKYRVEPGFYQTDVSVIMNLDKWNSL 216
                        170       180       190
                 ....*....|....*....|....*....|....*
gi 491051038 258 PEniqqalvesgnEAGQFLTDLVLQQEKEIIEKMK 292
Cdd:cd13667  217 SP-----------EAQAILQDAAIEAEGQSAGWAK 240
 
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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