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Conserved domains on  [gi|1394607336|gb|AWP27719|]
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ABC transporter substrate-binding protein [Paenibacillus sp. Cedars]

Protein Classification

type 2 periplasmic-binding domain-containing protein( domain architecture ID 229383)

type 2 periplasmic-binding protein (PBP2) is typically comprised of two globular subdomains connected by a flexible hinge; it binds its ligand in the cleft between these domains in a manner resembling a Venus flytrap; similar to the ligand-binding domains found in solute binding proteins that serve as initial receptors in the transport, signal transduction and channel gating

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Periplasmic_Binding_Protein_Type_2 super family cl21456
Type 2 periplasmic binding fold superfamily; This evolutionary model and hierarchy represent ...
 61-519 3.28e-114

Type 2 periplasmic binding fold superfamily; This evolutionary model and hierarchy represent the ligand-binding domains found in solute binding proteins that serve as initial receptors in the transport, signal transduction and channel gating. The PBP2 proteins share the same architecture as periplasmic binding proteins type 1 (PBP1), but have a different topology. They 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. The origin of PBP module can be traced across the distant phyla, including eukaryotes, archebacteria, and prokaryotes. The majority of PBP2 proteins are involved in the uptake of a variety of soluble substrates such as phosphate, sulfate, polysaccharides, lysine/arginine/ornithine, and histidine. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis. Besides transport proteins, the family includes ionotropic glutamate receptors and unorthodox sensor proteins involved in signal transduction. The substrate binding domain of the LysR transcriptional regulators and the oligopeptide-like transport systems also contain the type 2 periplasmic binding fold and thus they are significantly homologous to that of the PBP2; however, these two families are grouped into a separate hierarchy of the PBP2 superfamily due to the large number of protein sequences.


The actual alignment was detected with superfamily member cd13583:

Pssm-ID: 473866 [Multi-domain]  Cd Length: 478  Bit Score: 346.27  E-value: 3.28e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  61 KKTFTMLTESHASWPYDKEWLIWDLIEEYTNATVDVE-VPAGTIGETLSLTIAGGDLPDLMYMPNYALANRYGSEGALAN 139
Cdd:cd13583     1 PLTLSMMYRDHPNYPVKDDWLIWKEIEEKTNVKFKRTpIPSSDYETKRSLLIASGDAPDIIPVLYPGEENEFVASGALLP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 140 ILDYVDLMPNFKKWMEQYPEQTQMALA--ADGSMYIFPNEGFGQTNRMVWLYREDIFSKHGLKSPANYDELYDVLKQLKE 217
Cdd:cd13583    81 ISDYLDYMPNYKKYVEKWGLGKELATGrqSDGKYYSLPGLHEDPGVQYSFLYRKDIFEKAGIKIPTTWDEFYAALKKLKE 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 218 LYPDSYPLSFRGGFQRLLN-MAVNFDTS-----NKLYYNFESKEWKYGPIEDNFKLLVEYLNKFYKEGFIPPDFLTMDAK 291
Cdd:cd13583   161 KYPDSYPYSDRWNSNALLLiAAPAFGTTagwgfSNYTYDPDTDKFVYGATTDEYKDMLQYFNKLYAEGLLDPESFTQTDD 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 292 AWQDMMSTNRSF-MSMDYIGRIDFFNVPLRADNPEFNLANMAPPAGKlGGKQLNPHLhyVQSGMTVASTSNQIEDV---M 367
Cdd:cd13583   241 QAKAKFLNGKSFvITTNPQTVDELQRNLRAADGGNYEVVSITPPAGP-AGKAINGSR--LENGFMISSKAKDSKNFealL 317

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 368 RYMDFFYSEEGRIAASWGKEGVTFTTENGKKKMLPEFVDVSDLRKKTGLAT--------NGTYAWIDYDAHLSLSSQ--E 437
Cdd:cd13583   318 QFLDWLYSDEGQELATWGVEGETYTKEGDGKVYLADSNTPALNPSGTKLLQkdfgfsdgVFTDGGGTSGKLSEMTPEeaE 397

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 438 LQAAYGEAEKYdSPMQPMPALTHEELETNTTISDSITKRMEQSIANFILGELSLDQWDQYVKQIEDLGLQQLIDIHTTAH 517
Cdd:cd13583   398 FNDTMLENRKP-VPPIPPPPMTEEELEQLSLLETPLKDFVDEMTAKFITGKRSMDEWDAFVAEVKKLGLDQLLDIYNDAY 476


                  ..
gi 1394607336 518 QR 519
Cdd:cd13583   477 KR 478
 
Name Accession Description Interval E-value
PBP2_AlgQ_like_4 cd13583
Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 ...
 61-519 3.28e-114

Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 periplasmic binding fold; This subgroup includes uncharacterized periplasmic-binding proteins that are closely related to high molecular weight (HMW) alginate bining proteins (AlgQ1 and AlgQ2) found in gram-negative soil bacteria. The HMW alginate uptake system is composed of a novel pit formed on the cell surface and a pit-dependent ATP-binding cassette (ABC) transporter in the inner membrane. The transportation of HMW alginate from the pit to the ABC transporter is mediated by periplasmic HMW alginate-binding proteins (AlgQ1 and AlgQ2). Alginate is an anionic polysaccharide that is made up of alpha-L-mannuronate and its 5'-epimer, alpha-L-guluronate. Alginate is present in the cell walls of brown seaweeds, where it forms a viscous gum by binding water. Alginate is also produced by two bacteria genera Pseudomonas and Azotobacter. AlgQ1 and AlgQ2 belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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. However, unlike other bacterial periplasmic-binding proteins that deliver small solutes to ABC transporters, AlgQ1/2 can bind a macromolecule and may have specificity for either sugar or a certain type of polysaccharide.


Pssm-ID: 270301 [Multi-domain]  Cd Length: 478  Bit Score: 346.27  E-value: 3.28e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  61 KKTFTMLTESHASWPYDKEWLIWDLIEEYTNATVDVE-VPAGTIGETLSLTIAGGDLPDLMYMPNYALANRYGSEGALAN 139
Cdd:cd13583     1 PLTLSMMYRDHPNYPVKDDWLIWKEIEEKTNVKFKRTpIPSSDYETKRSLLIASGDAPDIIPVLYPGEENEFVASGALLP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 140 ILDYVDLMPNFKKWMEQYPEQTQMALA--ADGSMYIFPNEGFGQTNRMVWLYREDIFSKHGLKSPANYDELYDVLKQLKE 217
Cdd:cd13583    81 ISDYLDYMPNYKKYVEKWGLGKELATGrqSDGKYYSLPGLHEDPGVQYSFLYRKDIFEKAGIKIPTTWDEFYAALKKLKE 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 218 LYPDSYPLSFRGGFQRLLN-MAVNFDTS-----NKLYYNFESKEWKYGPIEDNFKLLVEYLNKFYKEGFIPPDFLTMDAK 291
Cdd:cd13583   161 KYPDSYPYSDRWNSNALLLiAAPAFGTTagwgfSNYTYDPDTDKFVYGATTDEYKDMLQYFNKLYAEGLLDPESFTQTDD 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 292 AWQDMMSTNRSF-MSMDYIGRIDFFNVPLRADNPEFNLANMAPPAGKlGGKQLNPHLhyVQSGMTVASTSNQIEDV---M 367
Cdd:cd13583   241 QAKAKFLNGKSFvITTNPQTVDELQRNLRAADGGNYEVVSITPPAGP-AGKAINGSR--LENGFMISSKAKDSKNFealL 317

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 368 RYMDFFYSEEGRIAASWGKEGVTFTTENGKKKMLPEFVDVSDLRKKTGLAT--------NGTYAWIDYDAHLSLSSQ--E 437
Cdd:cd13583   318 QFLDWLYSDEGQELATWGVEGETYTKEGDGKVYLADSNTPALNPSGTKLLQkdfgfsdgVFTDGGGTSGKLSEMTPEeaE 397

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 438 LQAAYGEAEKYdSPMQPMPALTHEELETNTTISDSITKRMEQSIANFILGELSLDQWDQYVKQIEDLGLQQLIDIHTTAH 517
Cdd:cd13583   398 FNDTMLENRKP-VPPIPPPPMTEEELEQLSLLETPLKDFVDEMTAKFITGKRSMDEWDAFVAEVKKLGLDQLLDIYNDAY 476


                  ..
gi 1394607336 518 QR 519
Cdd:cd13583   477 KR 478
UgpB COG1653
ABC-type glycerol-3-phosphate transport system, periplasmic component [Carbohydrate transport ...
 1-378 8.43e-33

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


Pssm-ID: 441259 [Multi-domain]  Cd Length: 363  Bit Score: 128.62  E-value: 8.43e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336   1 MRKPLSLLVVFMFMMsiVAACSSSNEPTTGNvvspadtdsknkpgetaqpaqggvfkfDEKKTFTMLTEShaswPYDKEW 80
Cdd:COG1653     1 MRRLALALAAALALA--LAACGGGGSGAAAA---------------------------AGKVTLTVWHTG----GGEAAA 47

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  81 LIwDLIEEYTNATVDVEV-----PAGTIGETLSLTIAGGDLPDLMYMPNYALANrYGSEGALANILDYVDlmpNFKKWME 155
Cdd:COG1653    48 LE-ALIKEFEAEHPGIKVevesvPYDDYRTKLLTALAAGNAPDVVQVDSGWLAE-FAAAGALVPLDDLLD---DDGLDKD 122

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 156 QYPEQTQMALAADGSMYIFPnegFGQTNRMVWlYREDIFSKHGLKSPANYDELYDVLKQLKELyPDSYPLSFRGGFQRLL 235
Cdd:COG1653   123 DFLPGALDAGTYDGKLYGVP---FNTDTLGLY-YNKDLFEKAGLDPPKTWDELLAAAKKLKAK-DGVYGFALGGKDGAAW 197

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 236 NMAVN------FDTSNKLYYNfeSKEWKYGpiednfkllVEYLNKFYKEGFIPPDFLTMDAKAWQDMMSTNRSFMSMDYI 309
Cdd:COG1653   198 LDLLLsaggdlYDEDGKPAFD--SPEAVEA---------LEFLKDLVKDGYVPPGALGTDWDDARAAFASGKAAMMINGS 266

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1394607336 310 GRIDFFnvplRADNPEFNLANMAPPAGKLGGKQLNPhlhYVQSGMTVASTSNQIEDVMRYMDFFYSEEG 378
Cdd:COG1653   267 WALGAL----KDAAPDFDVGVAPLPGGPGGKKPASV---LGGSGLAIPKGSKNPEAAWKFLKFLTSPEA 328
SBP_bac_1 pfam01547
Bacterial extracellular solute-binding protein; This family also includes the bacterial ...
 87-380 6.99e-13

Bacterial extracellular solute-binding protein; This family also includes the bacterial extracellular solute-binding protein family POTD/POTF.


Pssm-ID: 460248 [Multi-domain]  Cd Length: 294  Bit Score: 69.37  E-value: 6.99e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  87 EEYTNATVDVE-VPAGTIGETLSLTIAGGDLP-DLMYMPNYALAnRYGSEGALANILDYVDlmpnfKKWMEQYPEQTQMA 164
Cdd:pfam01547  19 KEHPGIKVEVEsVGSGSLAQKLTTAIAAGDGPaDVFASDNDWIA-ELAKAGLLLPLDDYVA-----NYLVLGVPKLYGVP 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 165 LAADGSMYIfpnegfgqtnrmvwlYREDIFSKHGLKSPANYDELYDVLKQLKELYPDSYPLsfrGGFQRLLNMAVNFDTS 244
Cdd:pfam01547  93 LAAETLGLI---------------YNKDLFKKAGLDPPKTWDELLEAAKKLKEKGKSPGGA---GGGDASGTLGYFTLAL 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 245 NKLYYNFESKEWKYGPIEDNFKLLVEYLNKFY-----KEGFIPPDFLTMDAKAWQDMMSTNRSFMSMDYIGRIDFFNVPL 319
Cdd:pfam01547 155 LASLGGPLFDKDGGGLDNPEAVDAITYYVDLYakvllLKKLKNPGVAGADGREALALFEQGKAAMGIVGPWAALAANKVK 234

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1394607336 320 RADNPEFNLANMAPPAGKLGGKQLNPHLHYVQsGMTVASTSNQIEDVMRYMDFFYSEEGRI 380
Cdd:pfam01547 235 LKVAFAAPAPDPKGDVGYAPLPAGKGGKGGGY-GLAIPKGSKNKEAAKKFLDFLTSPEAQA 294
 
Name Accession Description Interval E-value
PBP2_AlgQ_like_4 cd13583
Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 ...
 61-519 3.28e-114

Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 periplasmic binding fold; This subgroup includes uncharacterized periplasmic-binding proteins that are closely related to high molecular weight (HMW) alginate bining proteins (AlgQ1 and AlgQ2) found in gram-negative soil bacteria. The HMW alginate uptake system is composed of a novel pit formed on the cell surface and a pit-dependent ATP-binding cassette (ABC) transporter in the inner membrane. The transportation of HMW alginate from the pit to the ABC transporter is mediated by periplasmic HMW alginate-binding proteins (AlgQ1 and AlgQ2). Alginate is an anionic polysaccharide that is made up of alpha-L-mannuronate and its 5'-epimer, alpha-L-guluronate. Alginate is present in the cell walls of brown seaweeds, where it forms a viscous gum by binding water. Alginate is also produced by two bacteria genera Pseudomonas and Azotobacter. AlgQ1 and AlgQ2 belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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. However, unlike other bacterial periplasmic-binding proteins that deliver small solutes to ABC transporters, AlgQ1/2 can bind a macromolecule and may have specificity for either sugar or a certain type of polysaccharide.


Pssm-ID: 270301 [Multi-domain]  Cd Length: 478  Bit Score: 346.27  E-value: 3.28e-114
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  61 KKTFTMLTESHASWPYDKEWLIWDLIEEYTNATVDVE-VPAGTIGETLSLTIAGGDLPDLMYMPNYALANRYGSEGALAN 139
Cdd:cd13583     1 PLTLSMMYRDHPNYPVKDDWLIWKEIEEKTNVKFKRTpIPSSDYETKRSLLIASGDAPDIIPVLYPGEENEFVASGALLP 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 140 ILDYVDLMPNFKKWMEQYPEQTQMALA--ADGSMYIFPNEGFGQTNRMVWLYREDIFSKHGLKSPANYDELYDVLKQLKE 217
Cdd:cd13583    81 ISDYLDYMPNYKKYVEKWGLGKELATGrqSDGKYYSLPGLHEDPGVQYSFLYRKDIFEKAGIKIPTTWDEFYAALKKLKE 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 218 LYPDSYPLSFRGGFQRLLN-MAVNFDTS-----NKLYYNFESKEWKYGPIEDNFKLLVEYLNKFYKEGFIPPDFLTMDAK 291
Cdd:cd13583   161 KYPDSYPYSDRWNSNALLLiAAPAFGTTagwgfSNYTYDPDTDKFVYGATTDEYKDMLQYFNKLYAEGLLDPESFTQTDD 240

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 292 AWQDMMSTNRSF-MSMDYIGRIDFFNVPLRADNPEFNLANMAPPAGKlGGKQLNPHLhyVQSGMTVASTSNQIEDV---M 367
Cdd:cd13583   241 QAKAKFLNGKSFvITTNPQTVDELQRNLRAADGGNYEVVSITPPAGP-AGKAINGSR--LENGFMISSKAKDSKNFealL 317

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 368 RYMDFFYSEEGRIAASWGKEGVTFTTENGKKKMLPEFVDVSDLRKKTGLAT--------NGTYAWIDYDAHLSLSSQ--E 437
Cdd:cd13583   318 QFLDWLYSDEGQELATWGVEGETYTKEGDGKVYLADSNTPALNPSGTKLLQkdfgfsdgVFTDGGGTSGKLSEMTPEeaE 397

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 438 LQAAYGEAEKYdSPMQPMPALTHEELETNTTISDSITKRMEQSIANFILGELSLDQWDQYVKQIEDLGLQQLIDIHTTAH 517
Cdd:cd13583   398 FNDTMLENRKP-VPPIPPPPMTEEELEQLSLLETPLKDFVDEMTAKFITGKRSMDEWDAFVAEVKKLGLDQLLDIYNDAY 476


                  ..
gi 1394607336 518 QR 519
Cdd:cd13583   477 KR 478
PBP2_AlgQ1_2 cd13584
Periplasmic-binding component of alginate-specific ABC uptake system; contains the type 2 ...
 73-519 3.17e-67

Periplasmic-binding component of alginate-specific ABC uptake system; contains the type 2 periplasmic binding fold; This group represents the periplasmic-binding component of high molecular weight (HMW) alginate uptake system found in gram-negative soil bacteria such as Sphingomonas sp. A1. The HMW alginate uptake system is composed of a novel pit formed on the cell surface and a pit-dependent ATP-binding cassette (ABC) transporter in the inner membrane. The transportation of HMW alginate from the pit to the ABC transporter is mediated by periplasmic HMW alginate-binding proteins (AlgQ1 and AlgQ2). Alginate is an anionic polysaccharide that includes alpha-L-mannuronate and its 5'-epimer, alpha-L-guluronate. Alginate is present in the cell walls of brown seaweeds, where it forms a viscous gum by binding water. Alginate is also produced by two bacteria genera Pseudomonas and Azotobacter. AlgQ1 and AlgQ2 belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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. However, unlike other bacterial periplasmic-binding proteins that deliver small solutes to ABC transporters, AlgQ1/2 can bind a macromolecule and may have specificity for either sugar or a certain type of polysaccharide.


Pssm-ID: 270302 [Multi-domain]  Cd Length: 481  Bit Score: 224.62  E-value: 3.17e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  73 SWPYDKEWLIWDLIEEYTNATVD-VEVPAGT-IGETLSLTIAGGDLPDLMYMPN---YALANRYGSEGALANILDYVDL- 146
Cdd:cd13584    13 KWPNDNDLPVYKEMERKTNVKLNfVANPVAQnSQEQFNLMMASGQLPDIIGGDWlkdKGGFEKYGEDGAFLPLNDLIDQy 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 147 MPNFKKWMEQYPEQTQMALAADGSMYIFP--NEGFGQTNRMVWLYREDIFSKHGLKSPANYDELYDVLKQLKELYP---- 220
Cdd:cd13584    93 APNLKKFLDEHPDVKKAITTDDGNIYGFPylPDGDVAKEARGYFIRKDWLDKLGLKTPSTIDEWYTVLKAFKERDPngng 172

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 221 --DSYPLSFRGGFQRLLNMAVNFDTSNKLYYnFESKEWKYGPIEDNFKLLVEYLNKFYKEGFIPPDFLTMDAKAWQDMMS 298
Cdd:cd13584   173 kaDEVPLILTKPGYDETGRLINAWGAYMDFY-QENGKVKYGPLEPGFKDFLKTMNQWYKEGLIDPDFFTRKAKAREQNIM 251

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 299 TNRSF-MSMDYIGRIDFFNVPLRADNPEFNLANMAPPAGKLGGKQLNPH--LHYVQSGMTVASTSNQIEDVMRYMDFFYS 375
Cdd:cd13584   252 NGNIGgFTHDWFASTGTFNLALLKNVPDFKLVAVPPPVLNKGQTPYEEDsrQIAKGDGAAITASNKNPVLAIKWLDYAYS 331

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 376 EEGRIAASWGKEGVTFTTENGKkkmlPEFVD---------VSDLRKKTGLATNGTYaWIDYDAHLSLSSQELQAAYG--E 444
Cdd:cd13584   332 EEGRLLSNFGVEGESYTIKNGK----PVFTDdvlkdpqplVNALSLYYGAQIPGGF-WQDYEYEEQWTTPEALESKDiyA 406

                         410       420       430       440       450       460       470
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1394607336 445 AEKYDSPMQPMpALTHEELETNTTISDSITKRMEQSIANFILG-ELSLDQWDQYVKQIEDLGLQQLIDIHTTAHQR 519
Cdd:cd13584   407 KNKYVMPLPPV-TLTEEERSIYDSIMTDIDTYVNEMGQKWIMGkEDADDNWDEYQKKLKSLGLYEALEIQQAAYDR 481
PBP2_AlgQ_like cd13521
Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 ...
 63-519 1.68e-59

Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 periplasmic binding fold; This family represents the periplasmic-binding component of high molecular weight (HMW) alginate uptake system found in gram-negative soil bacteria and related proteins. The HMW alginate uptake system is composed of a novel pit formed on the cell surface and a pit-dependent ATP-binding cassette (ABC) transporter in the inner membrane. In Sphingomonas sp. A1, the transportation of HMW alginate from the pit to the ABC transporter is mediated by periplasmic HMW alginate-binding proteins AlgQ1 and AlgQ2. Alginate is an anionic polysaccharide that is made up of alpha-L-mannuronate and its 5'-epimer, alpha-L-guluronate. Alginate is present in the cell walls of brown seaweeds, where it forms a viscous gum by binding water. Alginate is also produced by two bacteria genera Pseudomonas and Azotobacter. AlgQ1 and AlgQ2 belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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. However, unlike other bacterial periplasmic-binding proteins that deliver small solutes to ABC transporters, AlgQ1/2 can bind a macromolecule and may have specificity for either sugar or a certain type of polysaccharide.


Pssm-ID: 270239 [Multi-domain]  Cd Length: 483  Bit Score: 204.23  E-value: 1.68e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  63 TFTMLTESHASWPYDKEWLIWDLIEEYTNATVD-VEVPAGTIGETLSLTIAGGDLPDLMYMPNYA-LANRYGSEGALANI 140
Cdd:cd13521     3 TLSVLMAFNDNWVDDENWPVAKEIEKLTNVKLEiVAVTAATSQQKLNLMLASGDLPDIVGADYLKdKFIAYGMEGAFLPL 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 141 LDYVDLMPNFKKWMEQYPEQTQMALAADGSMYIFPNE-GFGQTNRMVWLyREDIFSKHGLKSPANYDELYDVLKQLKELY 219
Cdd:cd13521    83 SKYIDQYPNLKAFFKQHPDVLRASTASDGKIYLIPYEpPKDVPNQGYFI-RKDWLDKLNLKTPKTLDELYNVLKAFKEKD 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 220 PDSYPLSFR---------GGFQRLLNMAVNFDTSNKLYYNFESKEWKYGPI--EDNFKLLVEYLNKFYKEGFIPPDFLTM 288
Cdd:cd13521   162 PNGNGKADEipfidrdplYGAFRLINSWGARSAGGSTDSDWYEDNGKFKHPfaSEEYKDGMKYMNKLYTEGLIDKESFTQ 241

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 289 DAKAWQDMMSTNRSF-MSMDYIGRIDFFNVPLRADNPEFNLANMaPPAGKLGGKQLNPHLHYVQ-SGMTVASTSNQIEDV 366
Cdd:cd13521   242 KDDQAEQKFSNGKLGgFTHNWFASDNLFTAQLGKEKPMYILLPI-APAGNVKGRREEDSPGYTGpDGVAISKKAKNPVAA 320

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 367 MRYMDFFYSEEGRIAASWGKEGVTFTTENGKKKMLPEFVDVSDLRKKtGLATNGTY--AWIDYDAHLSLSSQELQAAYGE 444
Cdd:cd13521   321 LKFFDWLASEEGRELANFGIEGVHYNKDNGKKRTKDPVKKSDQPGDN-QLYDLPAFikGGFWNEYTYPRPQWGVLTGDSA 399

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 445 -------AEKYDSPMQPMPA-LTHEELETNTTISDSITKRMEQSIANFILGELSLD-QWDQYVKQIEDLGLQQLIDIHTT 515
Cdd:cd13521   400 rlpidmyIKPKYSPPKPEGAnLTIEEREQVSIDNTELKDIMMEMTQKWIMGTKEKDeEWDAYQEQLKSAGLYQVTEEVQK 479


                  ....
gi 1394607336 516 AHQR 519
Cdd:cd13521   480 AYDR 483
PBP2_AlgQ_like_2 cd13581
Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 ...
 61-519 8.28e-57

Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 periplasmic binding fold; This subgroup includes uncharacterized periplasmic-binding proteins that are closely related to high molecular weight (HMW) alginate bining proteins (AlgQ1 and AlgQ2) found in gram-negative soil bacteria. The HMW alginate uptake system is composed of a novel pit formed on the cell surface and a pit-dependent ATP-binding cassette (ABC) transporter in the inner membrane. The transportation of HMW alginate from the pit to the ABC transporter is mediated by periplasmic HMW alginate-binding proteins (AlgQ1 and AlgQ2). Alginate is an anionic polysaccharide that is made up of alpha-L-mannuronate and its 5'-epimer, alpha-L-guluronate. Alginate is present in the cell walls of brown seaweeds, where it forms a viscous gum by binding water. Alginate is also produced by two bacteria genera Pseudomonas and Azotobacter. AlgQ1 and AlgQ2 belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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. However, unlike other bacterial periplasmic-binding proteins that deliver small solutes to ABC transporters, AlgQ1/2 can bind a macromolecule and may have specificity for either sugar or a certain type of polysaccharide.


Pssm-ID: 270299 [Multi-domain]  Cd Length: 490  Bit Score: 197.16  E-value: 8.28e-57
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  61 KKTFTMLTESHASWPYDKEWLIWDLIEEYTNATVDVE-VPAGTIGETLSLTIAGGDLPDLMYMPNY--ALANRYGSEGAL 137
Cdd:cd13581     1 KVTLTIFVRKSPLVEDYNENLFFKRLEEKTGIKIEWEtVPEDAWAEKKNLMLASGDLPDAFLGAGAsdADLMTYGKQGLF 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 138 ANILDYVD-LMPNFKKWMEQYPEQTQMALAADGSMYIFP--NEGFGQT--NRMV----WLyredifSKHGLKSPANYDEL 208
Cdd:cd13581    81 LPLEDLIDkYAPNLKALFDENPDIKAAITAPDGHIYALPsvNECYHCSygQRMWinkkWL------DKLGLEMPTTTDEL 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 209 YDVLKQLKELYP------DSYPLSFRGG------FQRLLN-MAVNFDTSNKLYYNFESKEWKYGPIEDNFKLLVEYLNKF 275
Cdd:cd13581   155 YEVLKAFKEQDPngngkaDEIPLSFSGLnggtddPAFLLNsFGINDGGYGGYGFVVKDGKVIYTATDPEYKEALAYLNKL 234

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 276 YKEGFIPPDFLTMDAKAWQD--MMSTNRSFmSMDYIGRIDFFNVPLradNPEFNLanMAPPAGKLGGK---QLNPhLHYV 350
Cdd:cd13581   235 YKEGLIDPEAFTQDYDQLAAkgKASTAKVG-VFFGWDPGLFFGEER---YEQYVP--LPPLKGPNGDQlawVGNS-SGYG 307

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 351 QSGMTVASTSNQIEDVMRYMDFFYSEEGRIAASWGKEGVTFT-TENGKKKMLPE-----FVDVSDLRKKTGLATNGTYA- 423
Cdd:cd13581   308 RGGFVITSKNKNPEAAIRWADFLYSPEGSLQANFGPEGEDWEkNPDGEYGVDGPpaaykILEPSEGEQNVAWADGGPGAi 387

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 424 ----WIDYDAHLSLSSQELQAaYGEAEKYDSPMQPM----PALTHEELETNTTISDSITKRMEQSIANFILGELSLDQWD 495
Cdd:cd13581   388 pdeyRLKQVTDEDMDEAEARL-DEAKKYYEPYAPPDnsppPALLDEEAEKISTIQTDINNYIEQKRAKFITGGGDDKEWD 466

                         490       500
                  ....*....|....*....|....
gi 1394607336 496 QYVKQIEDLGLQQLIDIHTTAHQR 519
Cdd:cd13581   467 AYVKQLEKMGLDEYLEIYQKAYDR 490
PBP2_AlgQ_like_1 cd13580
Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 ...
 82-511 2.42e-46

Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 periplasmic binding fold; This subgroup includes uncharacterized periplasmic-binding proteins that are closely related to high molecular weight (HMW) alginate bining proteins (AlgQ1 and AlgQ2) found in gram-negative soil bacteria. The HMW alginate uptake system is composed of a novel pit formed on the cell surface and a pit-dependent ATP-binding cassette (ABC) transporter in the inner membrane. The transportation of HMW alginate from the pit to the ABC transporter is mediated by periplasmic HMW alginate-binding proteins (AlgQ1 and AlgQ2). Alginate is an anionic polysaccharide that is made up of alpha-L-mannuronate and its 5'-epimer, alpha-L-guluronate. Alginate is present in the cell walls of brown seaweeds, where it forms a viscous gum by binding water. Alginate is also produced by two bacteria genera Pseudomonas and Azotobacter. AlgQ1 and AlgQ2 belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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. However, unlike other bacterial periplasmic-binding proteins that deliver small solutes to ABC transporters, AlgQ1/2 can bind a macromolecule and may have specificity for either sugar or a certain type of polysaccharide.


Pssm-ID: 270298 [Multi-domain]  Cd Length: 471  Bit Score: 168.27  E-value: 2.42e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  82 IWDLIEEYTNATVDVE-VPAGTIGETLSLTIAGGDLPDLMYMPNYALANRYGSEGALANILDY-VDLMPNFKKWMEQYPE 159
Cdd:cd13580    24 YTKYLEEKTNIDVKVKwVPDSSYDEKLNLALASGDLPDIVVVNDPQLSITLVKQGALWDLTDYlDKYYPNLKKIIEQEGW 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 160 qtqMALAADGSMYIFPnEGFGQTNRMVWLYREDIFSKHGLKSPANYDELYDVLKQLKELYPD--------SYPLSFRGGF 231
Cdd:cd13580   104 ---DSASVDGKIYGIP-RKRPLIGRNGLWIRKDWLDKLGLEVPKTLDELYEVAKAFTEKDPDgngkkdtyGLTDTKDLIG 179

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 232 QRLLNMAVNFDTSNKLYYNFESKEWKYGPIEDNFKLLVEYLNKFYKEGFIPPDFLTMDAKAWQDMMSTNRSFMSMDYIGR 311
Cdd:cd13580   180 SGFTGLFGAFGAPPNNWWKDEDGKLVPGSIQPEMKEALKFLKKLYKEGLIDPEFAVNDGTKANEKFISGKAGIFVGNWWD 259

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 312 IDFFNVPLRADNPEFNLANMAPPAGKlGGKQLNPHLHYVQSGMTVASTSNQIEDVMRYMDFFYSEEGRIAASWGKEGVTF 391
Cdd:cd13580   260 PAWPQASLKKNDPDAEWVAVPIPSGP-DGKYGVWAESGVNGFFVIPKKSKKPEAILKLLDFLSDPEVQKLLDYGIEGVHY 338

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 392 TTENGKKKMLPEfVDVSDLRKKTGLATNGTYAWIDY-----------DAHLSLSSQELQAAYGEAEKYDSPMqPMPALTH 460
Cdd:cd13580   339 TVKDGGPVNIIP-PDKQEVGDATLDYFQGSLALEKYkltnngerksdAKKEALDERVVNANDEENENIAVGP-PTETLVS 416

                         410       420       430       440       450
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1394607336 461 EELETNTTisdsITKRMEQSIANFILGELSLDQWDQYVKQIEDLGLQQLID 511
Cdd:cd13580   417 PTEKYGAT----LDKLEDDAFTKIIMGQIPLDEFDKFVEEWKKSGGDEITK 463
UgpB COG1653
ABC-type glycerol-3-phosphate transport system, periplasmic component [Carbohydrate transport ...
 1-378 8.43e-33

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


Pssm-ID: 441259 [Multi-domain]  Cd Length: 363  Bit Score: 128.62  E-value: 8.43e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336   1 MRKPLSLLVVFMFMMsiVAACSSSNEPTTGNvvspadtdsknkpgetaqpaqggvfkfDEKKTFTMLTEShaswPYDKEW 80
Cdd:COG1653     1 MRRLALALAAALALA--LAACGGGGSGAAAA---------------------------AGKVTLTVWHTG----GGEAAA 47

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  81 LIwDLIEEYTNATVDVEV-----PAGTIGETLSLTIAGGDLPDLMYMPNYALANrYGSEGALANILDYVDlmpNFKKWME 155
Cdd:COG1653    48 LE-ALIKEFEAEHPGIKVevesvPYDDYRTKLLTALAAGNAPDVVQVDSGWLAE-FAAAGALVPLDDLLD---DDGLDKD 122

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 156 QYPEQTQMALAADGSMYIFPnegFGQTNRMVWlYREDIFSKHGLKSPANYDELYDVLKQLKELyPDSYPLSFRGGFQRLL 235
Cdd:COG1653   123 DFLPGALDAGTYDGKLYGVP---FNTDTLGLY-YNKDLFEKAGLDPPKTWDELLAAAKKLKAK-DGVYGFALGGKDGAAW 197

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 236 NMAVN------FDTSNKLYYNfeSKEWKYGpiednfkllVEYLNKFYKEGFIPPDFLTMDAKAWQDMMSTNRSFMSMDYI 309
Cdd:COG1653   198 LDLLLsaggdlYDEDGKPAFD--SPEAVEA---------LEFLKDLVKDGYVPPGALGTDWDDARAAFASGKAAMMINGS 266

                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1394607336 310 GRIDFFnvplRADNPEFNLANMAPPAGKLGGKQLNPhlhYVQSGMTVASTSNQIEDVMRYMDFFYSEEG 378
Cdd:COG1653   267 WALGAL----KDAAPDFDVGVAPLPGGPGGKKPASV---LGGSGLAIPKGSKNPEAAWKFLKFLTSPEA 328
PBP2_AlgQ_like_3 cd13582
Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 ...
 62-515 1.17e-23

Periplasmic-binding component of alginate-specific ABC uptake system-like; contains the type 2 periplasmic binding fold; This subgroup includes uncharacterized periplasmic-binding proteins that are closely related to high molecular weight (HMW) alginate bining proteins (AlgQ1 and AlgQ2) found in gram-negative soil bacteria. The HMW alginate uptake system is composed of a novel pit formed on the cell surface and a pit-dependent ATP-binding cassette (ABC) transporter in the inner membrane. The transportation of HMW alginate from the pit to the ABC transporter is mediated by periplasmic HMW alginate-binding proteins (AlgQ1 and AlgQ2). Alginate is an anionic polysaccharide that is made up of alpha-L-mannuronate and its 5'-epimer, alpha-L-guluronate. Alginate is present in the cell walls of brown seaweeds, where it forms a viscous gum by binding water. Alginate is also produced by two bacteria genera Pseudomonas and Azotobacter. AlgQ1 and AlgQ2 belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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. However, unlike other bacterial periplasmic-binding proteins that deliver small solutes to ABC transporters, AlgQ1/2 can bind a macromolecule and may have specificity for either sugar or a certain type of polysaccharide.


Pssm-ID: 270300 [Multi-domain]  Cd Length: 504  Bit Score: 103.94  E-value: 1.17e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  62 KTFTMLteSHASWPYDKEWL--IWDLIEEYTNATVDVEVPAGTIGETLSLTIAGGDLPDLMYMPNYalANRYGSEGALAN 139
Cdd:cd13582     2 ITFTFF--SADSNATPDDFKtpVAKKITELTGVTLEIEYLVGGEKQKIGLMIASGDLPDLIYAKGD--TDKLIEAGALVP 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 140 ILDYVD-LMPNFKKWMEQYPEqtQMALAADGSMYIFPNEGFGQTNRMV----WLyREDIFSKHGLKSPANYDELYDVLKQ 214
Cdd:cd13582    78 LDDLIEkYGPNIKKWYGDYLL--KKLRSEDGHIYYLPNYRVEDAPWYPnggfWL-QHDVLKELGYPKIKTLDDYENLIKD 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 215 LKELYP-----DSYPLSFRGGFQRLL----NMAVNFDTSNKLYYNFESKEWKY-----GPIEdnfKLLVEYLNKFYKEGF 280
Cdd:cd13582   155 YKKKYPtingqPTIGFTALTDDWRFLisvtNPAFLAGYPNDGEVYVDPKTLKAkfhytRPYY---KEYYKWLNELWNEGL 231

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 281 IPPDFLTMDAKAWQDMMSTNRSFMSMDYigRIDFFN--VPLRADNPEFNLANMAPPAGKLGGKQLNPHLhYVQSGMTVAS 358
Cdd:cd13582   232 LDKESFTQKYDQYLAKIASGRVLGFYDA--GWDIGNaiTALKAKGKDERLYAYYPVAVGVDDKDYNYGD-PGYLGGDGIA 308

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 359 TSNQIED---VMRYMDFFYSEEGRIAASWGKEGVTFTTENGKKKMLPEFVDV----SDLRKKTGLA--------TNGTYA 423
Cdd:cd13582   309 ITKSCKDperAFKFLDWLASEEAQKLINWGIEGVDYDVDDGKRVYLTEEMAAknkdPDYTKKTGIGkywyfpprKGGKFS 388

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 424 W---------IDYDAHLSLSSQELQAAYGEAEKYD--SPMQPMPALTHEELETNTTISDSI----TKR---MEQSIANFI 485
Cdd:cd13582   389 DgtgnsptpdPEEEYIYTAVEKKVKAAYKAELWKDmfPPFEEFPVKPYGYAWPIGIPDESIaiinQKAsdiTRKYIPKAI 468

                         490       500       510
                  ....*....|....*....|....*....|..
gi 1394607336 486 LGELS--LDQWDQYVKQIEDLGLQQLIDIHTT 515
Cdd:cd13582   469 MAKPDdfDSIWDEYLKDLEKAGYKKLEEYYTK 500
PBP2_TMBP_like cd13585
The periplasmic-binding component of ABC transport systems specific for trehalose/maltose and ...
 63-449 1.83e-22

The periplasmic-binding component of ABC transport systems specific for trehalose/maltose and similar oligosaccharides; possess type 2 periplasmic binding fold; This family includes the periplasmic trehalose/maltose-binding component of an ABC transport system and related proteins from archaea and bacteria. Members of this group belong to the type 2 periplasmic-binding fold superfamily. PBP2 is 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270303 [Multi-domain]  Cd Length: 383  Bit Score: 99.02  E-value: 1.83e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  63 TFTMLTeshASWPYDKEWLIwDLIEEYTNATVDVEV-----PAGTIGETLSLTIAGGDLPDLMYMPNYALANrYGSEGAL 137
Cdd:cd13585     1 TLTFWD---WGQPAETAALK-KLIDAFEKENPGVKVevvpvPYDDYWTKLTTAAAAGTAPDVFYVDGPWVPE-FASNGAL 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 138 ANILDYVDLMPNFKKWMEQYPEQTQMalaaDGSMYIFPnegFGQTNRMVWlYREDIFSKHG--LKSPANYDELYDVLKQL 215
Cdd:cd13585    76 LDLDDYIEKDGLDDDFPPGLLDAGTY----DGKLYGLP---FDADTLVLF-YNKDLFDKAGpgPKPPWTWDELLEAAKKL 147

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 216 KELYPDSYPLSFRG---GFQRLLNMAVNFD----TSNKLYYNFESKEWKYGpiednfkllVEYLNKFYKEGfIPPDFLTM 288
Cdd:cd13585   148 TDKKGGQYGFALRGgsgGQTQWYPFLWSNGgdllDEDDGKATLNSPEAVEA---------LQFYVDLYKDG-VAPSSATT 217

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 289 DAKAWQDMMSTNRSFMSMDYIGRIDFFnvplRADNPEFNLANMAPPAGKLGGkqlnPHLHYVQSGMTVASTSNQIEDVMR 368
Cdd:cd13585   218 GGDEAVDLFASGKVAMMIDGPWALGTL----KDSKVKFKWGVAPLPAGPGGK----RASVLGGWGLAISKNSKHPEAAWK 289

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 369 YMDFFYSEEGRIAASWGKEGVTFTTENGKKKMLPEFVDVSDLRKKTGLA-TNGTYAWIDYDAHLSLSSQELQAAYGEAEK 447
Cdd:cd13585   290 FIKFLTSKENQLKLGGAAGPAALAAAAASAAAPDAKPALALAAAADALAaAVPPPVPPPWPEVYPILSEALQEALLGALG 369


                  ..
gi 1394607336 448 YD 449
Cdd:cd13585   370 KS 371
PBP2_MalE cd14747
Maltose-binding protein MalE; possesses type 2 periplasmic binding fold; This group includes ...
 87-381 1.62e-15

Maltose-binding protein MalE; possesses type 2 periplasmic binding fold; This group includes the periplasmic maltose-binding component of an ABC transport system from the phytopathogen Xanthomonas citri and its related bacterial proteins. Members of this group belong to the type 2 periplasmic-binding fold superfamily. PBP2 proteins are 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270450 [Multi-domain]  Cd Length: 386  Bit Score: 78.12  E-value: 1.62e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  87 EEYTNATVDVEV-PAGTIGETLSLTIAGGDLPDLMYMPNYALANrYGSEGALANILDYV---DLMPNFKKWMEQypeqtq 162
Cdd:cd14747    25 KENPGIEVKVQVlPWGDAHTKITTAAASGDGPDVVQLGNTWVAE-FAAMGALEDLTPYLedlGGDKDLFPGLVD------ 97

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 163 mALAADGSMYIFPneGFGQTNRMVwlYREDIFSKHG-LKSPANYDELYDVLKQLKELYPDSYPLSFRGGF--QRLLNMAV 239
Cdd:cd14747    98 -TGTVDGKYYGVP--WYADTRALF--YRTDLLKKAGgDEAPKTWDELEAAAKKIKADGPDVSGFAIPGKNdvWHNALPFV 172

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 240 -----NFDTSNKLYYNFESKEWKYGpiednfkllVEYLNKFYKEGFIPPDFLTMDAKAWQDMMStNRSFMSMD---YIGR 311
Cdd:cd14747   173 wgaggDLATKDKWKATLDSPEAVAG---------LEFYTSLYQKGLSPKSTLENSADVEQAFAN-GKVAMIISgpwEIGA 242

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1394607336 312 IDFfnvplRADNPEFNLANMAPPAGK-------LGGkqlnphlhyvqSGMTVASTSNQIEDVMRYMDFFYSEEGRIA 381
Cdd:cd14747   243 IRE-----AGPDLAGKWGVAPLPGGPgggspsfAGG-----------SNLAVFKGSKNKDLAWKFIEFLSSPENQAA 303
SBP_bac_1 pfam01547
Bacterial extracellular solute-binding protein; This family also includes the bacterial ...
 87-380 6.99e-13

Bacterial extracellular solute-binding protein; This family also includes the bacterial extracellular solute-binding protein family POTD/POTF.


Pssm-ID: 460248 [Multi-domain]  Cd Length: 294  Bit Score: 69.37  E-value: 6.99e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  87 EEYTNATVDVE-VPAGTIGETLSLTIAGGDLP-DLMYMPNYALAnRYGSEGALANILDYVDlmpnfKKWMEQYPEQTQMA 164
Cdd:pfam01547  19 KEHPGIKVEVEsVGSGSLAQKLTTAIAAGDGPaDVFASDNDWIA-ELAKAGLLLPLDDYVA-----NYLVLGVPKLYGVP 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 165 LAADGSMYIfpnegfgqtnrmvwlYREDIFSKHGLKSPANYDELYDVLKQLKELYPDSYPLsfrGGFQRLLNMAVNFDTS 244
Cdd:pfam01547  93 LAAETLGLI---------------YNKDLFKKAGLDPPKTWDELLEAAKKLKEKGKSPGGA---GGGDASGTLGYFTLAL 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 245 NKLYYNFESKEWKYGPIEDNFKLLVEYLNKFY-----KEGFIPPDFLTMDAKAWQDMMSTNRSFMSMDYIGRIDFFNVPL 319
Cdd:pfam01547 155 LASLGGPLFDKDGGGLDNPEAVDAITYYVDLYakvllLKKLKNPGVAGADGREALALFEQGKAAMGIVGPWAALAANKVK 234

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1394607336 320 RADNPEFNLANMAPPAGKLGGKQLNPHLHYVQsGMTVASTSNQIEDVMRYMDFFYSEEGRI 380
Cdd:pfam01547 235 LKVAFAAPAPDPKGDVGYAPLPAGKGGKGGGY-GLAIPKGSKNKEAAKKFLDFLTSPEAQA 294
PBP2_XBP1_like cd14749
The periplasmic-binding component of ABC transport systems specific for xylo-oligosaccharides; ...
 74-453 6.10e-07

The periplasmic-binding component of ABC transport systems specific for xylo-oligosaccharides; possesses type 2 periplasmic binding fold; This group represents the periplasmic component of an ABC transport system XBP1 that shows preference for xylo-oligosaccharides in the order of xylotriose > xylobiose > xylotetraose. Members of this group belong to the type 2 periplasmic-binding fold superfamily. PBP2 proteins are 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270452 [Multi-domain]  Cd Length: 388  Bit Score: 51.61  E-value: 6.10e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  74 WPYDKEWLIW--DLIEEYTNATVDVEV-----PAGTIGETLSLTIAGGDLPDLMYMPNYALANRYGSEGALANILDYVDl 146
Cdd:cd14749     7 YFTGDTKKKYmdELIADFEKENPNIKVkvvvfPYDNYKTKLKTAVAAGEGPDVFNLWPGGWLAEFVKAGLLLPLTDYLD- 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 147 mpNFKKWMEQYPEQTQMAlAADGSMYIFPNEgfgqTNRMVWLYREDIFSKHG-LKSPANYDELYDVLKQLKELYPDSYPL 225
Cdd:cd14749    86 --PNGVDKRFLPGLADAV-TFNGKVYGIPFA----ARALALFYNKDLFEEAGgVKPPKTWDELIEAAKKDKFKAKGQTGF 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 226 SFRGGFQRL---LNMAVNFDTSnKLYYNFESKEWKYGpiEDNFKLLVEYLNKFYKEGFIPPDF--LTMDAkAWQDMMStN 300
Cdd:cd14749   159 GLLLGAQGGhwyFQYLVRQAGG-GPLSDDGSGKATFN--DPAFVQALQKLQDLVKAGAFQEGFegIDYDD-AGQAFAQ-G 233

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 301 RSFMSMDYIGRIDFFNVPLRADNPEFnlanmAPPAGKLGGKQlnPHLHYVQS-GMTVASTSNQIEDVMRYMDFFYSEEGR 379
Cdd:cd14749   234 KAAMNIGGSWDLGAIKAGEPGGKIGV-----FPFPTVGKGAQ--TSTIGGSDwAIAISANGKKKEAAVKFLKYLTSPEVM 306

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 380 iAASWGKEGVTFTTENGKKKMLPEFVDVSDLRKKtGLATNGTYAWIDY------DAHLsLSSQELQAAYGEAEKYDSPMQ 453
Cdd:cd14749   307 -KQYLEDVGLLPAKEVVAKDEDPDPVAILGPFAD-VLNAAGSTPFLDEywpaaaQVHK-DAVQKLLTGKIDPEQVVKQAQ 383
PBP2_UgpB cd14748
The periplasmic-binding component of ABC transport system specific for sn-glycerol-3-phosphate; ...
 84-216 7.60e-07

The periplasmic-binding component of ABC transport system specific for sn-glycerol-3-phosphate; possesses type 2 periplasmic binding fold; This group includes the periplasmic component of an ABC transport system specific for sn-glycerol-3-phosphate (G3P) and closely related proteins from archaea and bacteria. Under phophate starvation conditions, Escherichia coli can utilize G3P as phosphate source when exclusively imported by an ATP-binding cassette (ABC) transporter composed of the periplasmic binding protein, UgpB, the transmembrane subunits, UgpA and UgpE, and a homodimer of the nucleotide binding subunit, UgpC. Members of this group belong to the type 2 periplasmic-binding fold superfamily. PBP2 proteins are 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270451 [Multi-domain]  Cd Length: 385  Bit Score: 51.52  E-value: 7.60e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  84 DLIEEY--TNATVDVE---VPAGTIGETLSLT-IAGGDLPDLMYMPNYALANrYGSEGALANILDYVDLMpnfKKWMEQY 157
Cdd:cd14748    18 ELVDEFnkSHPDIKVKavyQGSYDDTLTKLLAaLAAGTAPDVAQVDASWVAQ-LADSGALEPLDDYIDKD---GVDDDDF 93

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1394607336 158 PEQTQMALAADGSMYIFPnegFGQTNRMVWlYREDIFSKHGL---KSPANYDELYDVLKQLK 216
Cdd:cd14748    94 YPAALDAGTYDGKLYGLP---FDTSTPVLY-YNKDLFEEAGLdpeKPPKTWDELEEAAKKLK 151
PBP2_TMBP cd14750
The periplasmic-binding component of ABC transport systems specific for trehalose/maltose; ...
 80-230 1.77e-04

The periplasmic-binding component of ABC transport systems specific for trehalose/maltose; possesses type 2 periplasmic binding fold; This group represents the periplasmic trehalose/maltose-binding component of an ABC transport system and related proteins from archaea and bacteria. Members of this group belong to the type 2 periplasmic-binding fold superfamily. PBP2 proteins are 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea. After binding their specific ligand with high affinity, they can interact with a cognate membrane transport complex comprised of two integral membrane domains and two cytoplasmically located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270453 [Multi-domain]  Cd Length: 385  Bit Score: 43.82  E-value: 1.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336  80 WLIWDLIEEYTNATVDVEV-----PAGTiGETLSL----TIAGGDLPDLMYMPNYALAnrygsEGALANILdyVDLMPNF 150
Cdd:cd14750    14 ELLKKAIAAFEKKHPDIKVeieelPASS-DDQRQQlvtaLAAGSSAPDVLGLDVIWIP-----EFAEAGWL--LPLTEYL 85

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1394607336 151 KKWM-EQYPEQTQMALAADGSMYIFPnegfGQTN-RMVWlYREDIFSKHGLKSPANYDELYDVLKQLKELYPDSYPLSFR 228
Cdd:cd14750    86 KEEEdDDFLPATVEANTYDGKLYALP----WFTDaGLLY-YRKDLLEKYGPEPPKTWDELLEAAKKRKAGEPGIWGYVFQ 160


                  ..
gi 1394607336 229 GG 230
Cdd:cd14750   161 GK 162
 
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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