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Conserved domains on  [gi|2316063240|ref|WP_263059677|]
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ABC transporter substrate-binding protein [Pectobacterium sp. F1-1]

Protein Classification

ABC transporter substrate-binding protein( domain architecture ID 11431285)

ABC transporter substrate-binding protein functions as the initial receptor in the ABC transport of one of a variety of substrates, including ions such as bicarbonate and nitrate; belongs to the type 2 periplasmic binding protein (PBP2) family

CATH:  3.40.190.10
Gene Ontology:  GO:0140359|GO:0042626|GO:0055052
TCDB:  3.A.1

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
TauA COG0715
ABC-type nitrate/sulfonate/bicarbonate transport system, periplasmic component [Inorganic ion ...
1-305 4.60e-28

ABC-type nitrate/sulfonate/bicarbonate transport system, periplasmic component [Inorganic ion transport and metabolism];


:

Pssm-ID: 440479 [Multi-domain]  Cd Length: 297  Bit Score: 110.48  E-value: 4.60e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240   1 MIGLTLTAFGASAEG----SISIAQQFGIGYLILDVVRDQNLIEKHGkqqgldIKVDWRTLSGATAMNEALLSGALDVAS 76
Cdd:COG0715     4 LAALALAACSAAAAAaekvTLRLGWLPNTDHAPLYVAKEKGYFKKEG------LDVELVEFAGGAAALEALAAGQADFGV 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  77 AGVPPMLTVwdRTQGrQNVKAIASLGSMPNY--LLSNNPAVKTIRDLSDKdRIAVPAAGVGfqsrtlQIETAKLYGAGDF 154
Cdd:COG0715    78 AGAPPALAA--RAKG-APVKAVAALSQSGGNalVVRKDSGIKSLADLKGK-KVAVPGGSTS------HYLLRALLAKAGL 147
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 155 KRFDKISISLPHPDASAALIAGgsEINAHFSSPPFQYQALEHANVHKILSSYDVLGGQATfNVLYTTQKFHDENPKTYRA 234
Cdd:COG0715   148 DPKDVEIVNLPPPDAVAALLAG--QVDAAVVWEPFESQAEKKGGGRVLADSADLVPGYPG-DVLVASEDFLEENPEAVKA 224
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2316063240 235 FYEALKEASQIIKADKAAAAETYirVEKSKLDPELVKRIVADP----EIDFTITPERTYVYAEKLQQLGVLKNKA 305
Cdd:COG0715   225 FLRALLKAWAWAAANPDEAAAIL--AKATGLDPEVLAAALEGDlrldPPLGAPDPARLQRVADFLVELGLLPKDV 297
 
Name Accession Description Interval E-value
TauA COG0715
ABC-type nitrate/sulfonate/bicarbonate transport system, periplasmic component [Inorganic ion ...
1-305 4.60e-28

ABC-type nitrate/sulfonate/bicarbonate transport system, periplasmic component [Inorganic ion transport and metabolism];


Pssm-ID: 440479 [Multi-domain]  Cd Length: 297  Bit Score: 110.48  E-value: 4.60e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240   1 MIGLTLTAFGASAEG----SISIAQQFGIGYLILDVVRDQNLIEKHGkqqgldIKVDWRTLSGATAMNEALLSGALDVAS 76
Cdd:COG0715     4 LAALALAACSAAAAAaekvTLRLGWLPNTDHAPLYVAKEKGYFKKEG------LDVELVEFAGGAAALEALAAGQADFGV 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  77 AGVPPMLTVwdRTQGrQNVKAIASLGSMPNY--LLSNNPAVKTIRDLSDKdRIAVPAAGVGfqsrtlQIETAKLYGAGDF 154
Cdd:COG0715    78 AGAPPALAA--RAKG-APVKAVAALSQSGGNalVVRKDSGIKSLADLKGK-KVAVPGGSTS------HYLLRALLAKAGL 147
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 155 KRFDKISISLPHPDASAALIAGgsEINAHFSSPPFQYQALEHANVHKILSSYDVLGGQATfNVLYTTQKFHDENPKTYRA 234
Cdd:COG0715   148 DPKDVEIVNLPPPDAVAALLAG--QVDAAVVWEPFESQAEKKGGGRVLADSADLVPGYPG-DVLVASEDFLEENPEAVKA 224
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2316063240 235 FYEALKEASQIIKADKAAAAETYirVEKSKLDPELVKRIVADP----EIDFTITPERTYVYAEKLQQLGVLKNKA 305
Cdd:COG0715   225 FLRALLKAWAWAAANPDEAAAIL--AKATGLDPEVLAAALEGDlrldPPLGAPDPARLQRVADFLVELGLLPKDV 297
PBP2_NrtA_SsuA_CpmA_like cd01008
Substrate binding domain of ABC-type nitrate/sulfonate/bicarbonate transporters, a member of ...
17-242 2.92e-20

Substrate binding domain of ABC-type nitrate/sulfonate/bicarbonate transporters, a member of the type 2 periplasmic binding fold superfamily; This family represents the periplasmic binding proteins involved in nitrate, alkanesulfonate, and bicarbonate transport. These domains are found in eubacterial perisplamic-binding proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates. Other closest homologs involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB) are also included in this family. After binding their ligand with high affinity, they 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. These binding proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270229 [Multi-domain]  Cd Length: 212  Bit Score: 86.96  E-value: 2.92e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  17 ISIAQQFGIGYLILDVVRDQNLIEKHGkqQGldIKVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVwdrTQGRQNVK 96
Cdd:cd01008     2 VRIGYQAGPLAGPLIVAKEKGLFEKEK--EG--IDVEWVEFTSGPPALEALAAGSLDFGTGGDTPALLA---AAGGVPVV 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  97 AIASLGSMPNY---LLSNNPAVKTIRDLSDKdRIAVPAAGVGFQSRTLQIETAKLyGAGDFKrfdkiSISLPHPDASAAL 173
Cdd:cd01008    75 LIAALSRSPNGngiVVRKDSGITSLADLKGK-KIAVTKGTTGHFLLLKALAKAGL-SVDDVE-----LVNLGPADAAAAL 147
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2316063240 174 iAGGSeINAHFSSPPFQYQALEHANVHKILSSYDvlGGQATFNVLYTTQKFHDENPKTYRAFYEALKEA 242
Cdd:cd01008   148 -ASGD-VDAWVTWEPFLSLAEKGGDARIIVDGGG--LPYTDPSVLVARRDFVEENPEAVKALLKALVEA 212
SsuA_fam TIGR01728
ABC transporter, substrate-binding protein, aliphatic sulfonates family; Members of this ...
23-318 1.32e-11

ABC transporter, substrate-binding protein, aliphatic sulfonates family; Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins. [Transport and binding proteins, Other]


Pssm-ID: 130789 [Multi-domain]  Cd Length: 288  Bit Score: 63.92  E-value: 1.32e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  23 FGIGYLILDVVRDQNLIEKHGKQqgldIKVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVWDRTQGRQNVkAIASLG 102
Cdd:TIGR01728   6 QKNGHSALALAKEKGLLEKELGK----TKVEWVEFPAGPPALEALGAGSLDFGYIGPGPALFAYAAGADIKAV-GLVSDN 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 103 SMPNYLLSNNPAVKTIRDLSDKdRIAVPAAGVG--FQSRTLqietaklyGAGDFKRFDKISISLPHPDASAALIAGgsEI 180
Cdd:TIGR01728  81 KATAIVVIKGSPIRTVADLKGK-RIAVPKGGSGhdLLLRAL--------LKAGLSGDDVTILYLGPSDARAAFAAG--QV 149
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 181 NAHFSSPPFQYQALEHANVHKILSSYDV-LGGQATFNVlyTTQKFHDENPKTYRAFYEALKEASQIIKADKAAAAETYIR 259
Cdd:TIGR01728 150 DAWAIWEPWGSALVEEGGARVLANGEGIgLPGQPGFLV--VRREFAEAHPEQVQRVLKVLVKARKWAEENPEESAKILAK 227
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2316063240 260 VekSKLDPELVKRIVAD--PEIDFTITPErtyvYAEKLQ-------QLGVLKnKATSWKDYFFAEIYE 318
Cdd:TIGR01728 228 E--LGLSQAVVEETVLNrrFLRVEVISDA----VVDALQamadffyAAGLLK-KKPDLKDAVDRSFLK 288
NMT1_2 pfam13379
NMT1-like family; This family is closely related to the pfam09084 family.
58-244 2.75e-04

NMT1-like family; This family is closely related to the pfam09084 family.


Pssm-ID: 463863  Cd Length: 254  Bit Score: 41.94  E-value: 2.75e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  58 SGATAMnEALLSGALDvASAGVPPMLTVWDRTQGRQNVKAI--ASLGSMPNYL-LSNNPAVKTIRDL--------SDKDR 126
Cdd:pfam13379  44 SWAETR-DALVAGELD-AAHVLTPMPYLITLGIGGAKVPMIvlASLNLNGQAItLANKYADKGVRDAaalkdlvgAYKAS 121
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 127 IAVPAAGVGFQSRTLQIETAKLYGAGDFKRFDKISIS-LPHPDASAALIAGgsEINAHFSSPPFQYQALEHANVHKILSS 205
Cdd:pfam13379 122 GKPFKFAVTFPGSTHDLWLRYWLAAGGLDPDADVKLVvVPPPQMVANLRAG--NIDGFCVGEPWNARAVAEGIGVTAATT 199
                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 2316063240 206 YDVLGGQATfNVLYTTQKFHDENPKTYRAFYEALKEASQ 244
Cdd:pfam13379 200 GELWKDHPE-KVLGVRADWVDKNPNAARALVKALIEATR 237
 
Name Accession Description Interval E-value
TauA COG0715
ABC-type nitrate/sulfonate/bicarbonate transport system, periplasmic component [Inorganic ion ...
1-305 4.60e-28

ABC-type nitrate/sulfonate/bicarbonate transport system, periplasmic component [Inorganic ion transport and metabolism];


Pssm-ID: 440479 [Multi-domain]  Cd Length: 297  Bit Score: 110.48  E-value: 4.60e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240   1 MIGLTLTAFGASAEG----SISIAQQFGIGYLILDVVRDQNLIEKHGkqqgldIKVDWRTLSGATAMNEALLSGALDVAS 76
Cdd:COG0715     4 LAALALAACSAAAAAaekvTLRLGWLPNTDHAPLYVAKEKGYFKKEG------LDVELVEFAGGAAALEALAAGQADFGV 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  77 AGVPPMLTVwdRTQGrQNVKAIASLGSMPNY--LLSNNPAVKTIRDLSDKdRIAVPAAGVGfqsrtlQIETAKLYGAGDF 154
Cdd:COG0715    78 AGAPPALAA--RAKG-APVKAVAALSQSGGNalVVRKDSGIKSLADLKGK-KVAVPGGSTS------HYLLRALLAKAGL 147
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 155 KRFDKISISLPHPDASAALIAGgsEINAHFSSPPFQYQALEHANVHKILSSYDVLGGQATfNVLYTTQKFHDENPKTYRA 234
Cdd:COG0715   148 DPKDVEIVNLPPPDAVAALLAG--QVDAAVVWEPFESQAEKKGGGRVLADSADLVPGYPG-DVLVASEDFLEENPEAVKA 224
                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2316063240 235 FYEALKEASQIIKADKAAAAETYirVEKSKLDPELVKRIVADP----EIDFTITPERTYVYAEKLQQLGVLKNKA 305
Cdd:COG0715   225 FLRALLKAWAWAAANPDEAAAIL--AKATGLDPEVLAAALEGDlrldPPLGAPDPARLQRVADFLVELGLLPKDV 297
PBP2_NrtA_SsuA_CpmA_like cd01008
Substrate binding domain of ABC-type nitrate/sulfonate/bicarbonate transporters, a member of ...
17-242 2.92e-20

Substrate binding domain of ABC-type nitrate/sulfonate/bicarbonate transporters, a member of the type 2 periplasmic binding fold superfamily; This family represents the periplasmic binding proteins involved in nitrate, alkanesulfonate, and bicarbonate transport. These domains are found in eubacterial perisplamic-binding proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates. Other closest homologs involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB) are also included in this family. After binding their ligand with high affinity, they 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. These binding proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270229 [Multi-domain]  Cd Length: 212  Bit Score: 86.96  E-value: 2.92e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  17 ISIAQQFGIGYLILDVVRDQNLIEKHGkqQGldIKVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVwdrTQGRQNVK 96
Cdd:cd01008     2 VRIGYQAGPLAGPLIVAKEKGLFEKEK--EG--IDVEWVEFTSGPPALEALAAGSLDFGTGGDTPALLA---AAGGVPVV 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  97 AIASLGSMPNY---LLSNNPAVKTIRDLSDKdRIAVPAAGVGFQSRTLQIETAKLyGAGDFKrfdkiSISLPHPDASAAL 173
Cdd:cd01008    75 LIAALSRSPNGngiVVRKDSGITSLADLKGK-KIAVTKGTTGHFLLLKALAKAGL-SVDDVE-----LVNLGPADAAAAL 147
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2316063240 174 iAGGSeINAHFSSPPFQYQALEHANVHKILSSYDvlGGQATFNVLYTTQKFHDENPKTYRAFYEALKEA 242
Cdd:cd01008   148 -ASGD-VDAWVTWEPFLSLAEKGGDARIIVDGGG--LPYTDPSVLVARRDFVEENPEAVKALLKALVEA 212
PBP2_NrtA_CpmA_like cd13553
Substrate binding domain of ABC-type nitrate/bicarbonate transporters, a member of the type 2 ...
25-242 5.81e-14

Substrate binding domain of ABC-type nitrate/bicarbonate transporters, a member of the type 2 periplasmic binding fold superfamily; This subfamily includes nitrate (NrtA) and bicarbonate (CmpA) receptors. These domains are found in eubacterial perisplamic-binding proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding their ligand with high affinity, they 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. These binding proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270271 [Multi-domain]  Cd Length: 212  Bit Score: 69.53  E-value: 5.81e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  25 IGYLILD------VVRDQNLIEKHGkqqgldIKVDWRTLSGATAMNEALLSGALDVASAGVP-PMLTvwdrTQGRQ-NVK 96
Cdd:cd13553     4 IGYLPITdhapllVAKEKGFFEKEG------LDVELVKFPSWADLRDALAAGELDAAHVLAPmPAAA----TYGKGaPIK 73
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  97 AIASLGSMPNYL-LSNNPAVKTIRDLSDKdRIAVPAAGvGFQSRTLQIETAKlygAG-DFKRfDKISISLPHPDASAALI 174
Cdd:cd13553    74 VVAGLHRNGSAIvVSKDSGIKSVADLKGK-TIAVPFPG-STHDVLLRYWLAA---AGlDPGK-DVEIVVLPPPDMVAALA 147
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2316063240 175 AGgsEINAHFSSPPFQYQALEHANVHKILSSYDVLGGQATfNVLYTTQKFHDENPKTYRAFYEALKEA 242
Cdd:cd13553   148 AG--QIDAYCVGEPWNARAVAEGVGRVLADSGDIWPGHPC-CVLVVREDFLEENPEAVQALLKALVEA 212
PBP2_sulfate_ester_like cd13555
Sulfate ester binding protein-like, the type 2 periplasmic binding protein fold; This ...
26-243 3.54e-12

Sulfate ester binding protein-like, the type 2 periplasmic binding protein fold; This subfamily includes the periplasmic component of putative ABC-type sulfonate transport system similar to SsuA. These domains are found in eubacterial SsuA proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding the ligand, SsuA interacts 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. The SsuA proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270273  Cd Length: 268  Bit Score: 65.43  E-value: 3.54e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  26 GYLILDVVRDQNLIEKHGKQQGldIKVDWRTLSGA-TAMNEALLSGALDVASAG-VPPMLtvwdrtqGRQN---VKAIAS 100
Cdd:cd13555    17 GSGILGVAHEKGWLEEEFAKDG--IKVEWVFFKGAgPAVNEAFANGQIDFAVYGdLPAII-------GRAAgldTKLLLS 87
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 101 LGSMPNYLL--SNNPAVKTIRDLSDKdRIAVpaagvgFQSRTLQIETAKLYGAGDFKRFDKISISLPHPDASAALIAGgs 178
Cdd:cd13555    88 SGSGNNAYLvvPPDSTIKSVKDLKGK-KVAV------QKGTAWQLTFLRILAKNGLSEKDFKIVNLDAQDAQAALASG-- 158
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2316063240 179 EINAHFSSPPFqyQALEHANVHKILSSYDVLGGQATFN-VLYTTQKFHDENPKTYRAFYEALKEAS 243
Cdd:cd13555   159 DVDAAFTGYEA--LKLEDQGAGKIIWSTKDKPEDWTTQsGVWARTDFIKENPDVVQRIVTALVKAA 222
TauA COG4521
ABC-type taurine transport system, periplasmic component [Inorganic ion transport and ...
2-246 3.86e-12

ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism];


Pssm-ID: 443595 [Multi-domain]  Cd Length: 332  Bit Score: 66.05  E-value: 3.86e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240   2 IGLTLTAFGASAeGSISIAQQFGIGYL----ILDVVRDQNLIEKHgkqqgLDIKVDWRTLSGATAMNEALLSGALDVASA 77
Cdd:COG4521    10 AALALAGCALAA-AAAAAAKEVTIGYQtipnPELVAKADGALEKA-----LGAKVNWRKFDSGADVITALASGDVDIGSI 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  78 GVPPMLTVWDRTQGRQNVKAIASLGSMPNYLLSNNPAVKTIRDLSDKdRIAVPaagvgFQSRT-----LQIETAKLYGAg 152
Cdd:COG4521    84 GSSPFAAALSRGLPIEVIWIADVIGDAEALVVRNGSGITSPKDLKGK-KIAVP-----FGSTShysllAALKHAGIDPS- 156
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 153 dfkrfdKISI-SLPHPDASAALIAGgsEINAHFSSPPFQYQALEHANVhkILSSYDVLG-GQATFNVLYTTQKFHDENPK 230
Cdd:COG4521   157 ------DVTIlNMQPPEIAAAWQRG--DIDAAYVWDPALSELKKSGKV--LITSAELAKwGAPTFDVWVVRKDFAEENPD 226
                         250
                  ....*....|....*.
gi 2316063240 231 TYRAFYEALKEASQII 246
Cdd:COG4521   227 FVAAFLKVLADAVADY 242
SsuA_fam TIGR01728
ABC transporter, substrate-binding protein, aliphatic sulfonates family; Members of this ...
23-318 1.32e-11

ABC transporter, substrate-binding protein, aliphatic sulfonates family; Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins. [Transport and binding proteins, Other]


Pssm-ID: 130789 [Multi-domain]  Cd Length: 288  Bit Score: 63.92  E-value: 1.32e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  23 FGIGYLILDVVRDQNLIEKHGKQqgldIKVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVWDRTQGRQNVkAIASLG 102
Cdd:TIGR01728   6 QKNGHSALALAKEKGLLEKELGK----TKVEWVEFPAGPPALEALGAGSLDFGYIGPGPALFAYAAGADIKAV-GLVSDN 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 103 SMPNYLLSNNPAVKTIRDLSDKdRIAVPAAGVG--FQSRTLqietaklyGAGDFKRFDKISISLPHPDASAALIAGgsEI 180
Cdd:TIGR01728  81 KATAIVVIKGSPIRTVADLKGK-RIAVPKGGSGhdLLLRAL--------LKAGLSGDDVTILYLGPSDARAAFAAG--QV 149
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 181 NAHFSSPPFQYQALEHANVHKILSSYDV-LGGQATFNVlyTTQKFHDENPKTYRAFYEALKEASQIIKADKAAAAETYIR 259
Cdd:TIGR01728 150 DAWAIWEPWGSALVEEGGARVLANGEGIgLPGQPGFLV--VRREFAEAHPEQVQRVLKVLVKARKWAEENPEESAKILAK 227
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2316063240 260 VekSKLDPELVKRIVAD--PEIDFTITPErtyvYAEKLQ-------QLGVLKnKATSWKDYFFAEIYE 318
Cdd:TIGR01728 228 E--LGLSQAVVEETVLNrrFLRVEVISDA----VVDALQamadffyAAGLLK-KKPDLKDAVDRSFLK 288
PBP2_SsuA_like_6 cd13563
Putative substrate binding domain of sulfonate binding protein-like, a member of the type 2 ...
25-242 1.57e-09

Putative substrate binding domain of sulfonate binding protein-like, a member of the type 2 periplasmic binding protein fold; This subfamily includes the periplasmic component of putative ABC-type sulfonate transport system similar to SsuA. These domains are found in eubacterial SsuA proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding the ligand, SsuA interacts 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. The SsuA proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270281 [Multi-domain]  Cd Length: 208  Bit Score: 56.86  E-value: 1.57e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  25 IGYLILDVVRDQNLIEKHGkqqgldIKVDWRTLSGATAMNEALLSGALDVASagvppmlTVWDRT-----QGRqNVKAIA 99
Cdd:cd13563    10 PGYGPWYLADEKGFFKKEG------LDVELVWFESYSDSMAALASGQIDAAA-------TTLDDAlamaaKGV-PVKIVL 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 100 SL-GSMPNYLLSNNPAVKTIRDLSDKdRIAVPAAGVG--FQSRTLqiETAKLygagdfkRFDKISI-SLPHPDASAALIA 175
Cdd:cd13563    76 VLdNSNGADGIVAKPGIKSIADLKGK-TVAVEEGSVShfLLLNAL--EKAGL-------TEKDVKIvNMTAGDAGAAFIA 145
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2316063240 176 GgsEINAHFSSPPFQYQALEHANVHKILSSYDVLGgqATFNVLYTTQKFHDENPKTYRAFYEALKEA 242
Cdd:cd13563   146 G--QVDAAVTWEPWLSNALKRGKGKVLVSSADTPG--LIPDVLVVREDFIKKNPEAVKAVVKAWFDA 208
PBP2_ThiY_THI5_like_1 cd13652
Putative substrate binding domain of an ABC-type transporter similar to ThiY/THI5; the type 2 ...
44-242 2.15e-09

Putative substrate binding domain of an ABC-type transporter similar to ThiY/THI5; the type 2 periplasmic binding protein fold; This subfamily is phylogenetically similar to ThiY, which is the periplasmic N-formyl-4-amino-5-(aminomethyl)-2-methylpyrimidine (FAMP) binding component of the ABC transport system (ThiXYZ). FAMP is imported into cell by the transporter, where it is then incorporated into the thiamin biosynthetic pathway. The closest structural homologs of ThiY are THI5, which is responsible for the synthesis of 4-amino-5-(hydroxymethyl)-2-methylpyrimidine phosphate (HMP-P) in the thiamin biosynthetic pathway of eukaryotes, and periplasmic binding proteins involved in alkanesulfonate/nitrate and bicarbonate transport. After binding the ligand, they 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. The ThiY/THI5 proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270370 [Multi-domain]  Cd Length: 217  Bit Score: 56.63  E-value: 2.15e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  44 KQQGLDIKVdwRTLSGATAMNEALLSGALDVASAGVPPMLTVwDRTQGrQNVKAIA-SLGSMPNY-----LLSNNPAVKT 117
Cdd:cd13652    27 KEEGLDVEI--TRFASGAEILAALASGQVDVAGSSPGASLLG-ALARG-ADLKIVAeGLGTTPGYgpfaiVVRADSGITS 102
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 118 IRDLSDKdRIAVPAAGVgfQSRTLQIETAKLYGAgdfkRFDKISI-SLPHPDASAALIAGgsEINAHFSSPPFQYQALEH 196
Cdd:cd13652   103 PADLVGK-KIAVSTLTN--ILEYTTNAYLKKNGL----DPDKVEFvEVAFPQMVPALENG--NVDAAVLAEPFLSRARSS 173
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*.
gi 2316063240 197 ANvhKILSSYDVLGGQATFNVLYTTQKFHDENPKTYRAFYEALKEA 242
Cdd:cd13652   174 GA--KVVASDYADPDPHSQATMVFSADFARENPEVVKKFLRAYLEA 217
PBP2_taurine cd13560
Taurine-binding periplasmic protein; the type 2 periplasmic binding protein fold; This ...
25-242 5.10e-09

Taurine-binding periplasmic protein; the type 2 periplasmic binding protein fold; This subfamily includes the periplasmic component of putative ABC-type sulfonate transport system similar to SsuA. These domains are found in eubacterial SsuA proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding the ligand, SsuA interacts 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. The SsuA proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270278 [Multi-domain]  Cd Length: 218  Bit Score: 55.39  E-value: 5.10e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  25 IGYLIL----DVVRDQNLIEKHgkqqgLDIKVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVwdrTQGRQNVKAI-- 98
Cdd:cd13560     4 IGYQTVpnpqLVAKADGLLEKA-----LGVKVNWRKFDSGADVNAAMASGSIDIGLLGSPPAAVA---IAAGLPIEVIwi 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  99 -ASLGSMPNYLLSNNPAVKTIRDLSDKdRIAVPAAGVGFQSRTLQIETAKLyGAGDFKRFDkisisLPHPDASAALIAGg 177
Cdd:cd13560    76 aDVIGDAEALVVRKGSGIKSLKDLAGK-KVAVPFGSTAHYSLLAALKHAGV-DPGKVKILD-----MQPPEIVAAWQRG- 147
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2316063240 178 sEINAHFSSPPFQYQALEHANVhkILSSYDV-LGGQATFNVLYTTQKFHDENPKTYRAFYEALKEA 242
Cdd:cd13560   148 -DIDAAYVWEPALSQLKKNGKV--LLSSKDLaKKGILTFDVWVVRKDFAEKYPDVVAAFLKALGDA 210
PBP2_SsuA_like_3 cd13559
Putative substrate binding domain of sulfonate binding protein-like, the type 2 periplasmic ...
32-271 7.23e-08

Putative substrate binding domain of sulfonate binding protein-like, the type 2 periplasmic binding protein fold; This subfamily includes the periplasmic component of putative ABC-type sulfonate transport system similar to SsuA. These domains are found in eubacterial SsuA proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding the ligand, SsuA interacts 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. The SsuA proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270277  Cd Length: 258  Bit Score: 52.81  E-value: 7.23e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  32 VVRDQNLIEKH----GKQQGLDIKVDWRTL-SGATAMNEaLLSGALDVASAGVPPMLTVWDRTQGRQNVKA--IASLGSM 104
Cdd:cd13559    19 LIRELGLLEKYlpelGKYKDVEYEIEWQDFtSGAPLTNE-MVAGKLDIGAMGDFPGLLNGVKFQTSAGYRSvfIAFLGGS 97
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 105 PN-----YLLSNNPAVKTIRDLSDKDrIAVP--AAGVGFQSRTLQietaklygAGDFKRFDKISISLPHPD-ASAALIAG 176
Cdd:cd13559    98 PDgsgnaIVVPKDSPVNSLDDLKGKT-VSVPfgSSAHGMLLRALD--------RAGLNPDTDVTIINQAPEvGGSALQAN 168
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 177 gsEINAHFSSPPFQyQALEHANVHKILssYDvlGGQA---TFNVLYTTQKFHDENPKTYRAFYEALKEASQIIKADKAAA 253
Cdd:cd13559   169 --KIDAHADFVPFP-ELFPHRGIARKL--YD--GSQTkvpTFHGIVVDRDFAEKHPEVVVAYLRALIEAHRLIREEPEAY 241
                         250
                  ....*....|....*...
gi 2316063240 254 AETYIRVekSKLDPELVK 271
Cdd:cd13559   242 SELIEKV--TGIEAEVVY 257
PBP2_SsuA cd13557
Substrate binding domain of sulfonate binding protein, a member of the type 2 periplasmic ...
22-244 8.62e-08

Substrate binding domain of sulfonate binding protein, a member of the type 2 periplasmic binding fold superfamily; This subfamily includes the sulfonate binding domains SsuA found in eubacterial SsuA proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding the ligand, SsuA interacts 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. The SsuA proteins belong to the PBPII superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270275  Cd Length: 275  Bit Score: 52.68  E-value: 8.62e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  22 QFGIGY---LILDVVRDQNLIEKHGKQQGldIKVDWRTLSGATAMNEALLSGALDVASAGV-PPMLTvwdrTQGRQNVKA 97
Cdd:cd13557     1 TLRIGYqkgGTLVLLKARGELEKRLKPLG--VKVTWSEFPAGPQLLEALNVGSIDFGSTGDtPPIFA----QAAGAPLVY 74
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  98 IASLGSMPN---YLLSNNPAVKTIRDLSDKdRIAVpaaGVGFQSRTLQI---ETAKLygagdfkRFDKI-SISLPHPDAS 170
Cdd:cd13557    75 VAVEPPTPKgeaILVPKDSPIKTVADLKGK-KIAF---QKGSSAHYLLVkalEKAGL-------TLDDIePVYLSPADAR 143
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2316063240 171 AALIAGgsEINAHFSSPPFqYQALEHANVHKILSSYDVLGGQATFnvLYTTQKFHDENPKTYRAFYEALKEASQ 244
Cdd:cd13557   144 AAFEQG--QVDAWAIWDPY-LAAAELTGGARVLADGEGLVNNRSF--YLAARDFAKDNPEAIQIVLEELNKAGE 212
PBP2_SsuA_like_5 cd13562
Putative substrate binding domain of sulfonate binding protein-like, the type 2 periplasmic ...
17-242 8.78e-08

Putative substrate binding domain of sulfonate binding protein-like, the type 2 periplasmic binding protein fold; This subfamily includes sulfonate binding domains found in eubacterial SsuA proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding the ligand, SsuA interacts 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. The SsuA proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270280 [Multi-domain]  Cd Length: 215  Bit Score: 51.73  E-value: 8.78e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  17 ISIAQQFGIGYLILDVVRDQNLIEKHGKQQGLDIKVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVWDRTQGRQNVk 96
Cdd:cd13562     2 IRIGFQPIPPYAPILVAKQKGWLEEELKKAGADVGVKWSQFSAGPPVNEAFAAGELDVGLLGDTPAIIGRAAGQDTRIV- 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  97 AIASLGSMPNYLL-SNNPAVKTIRDLSDKdRIAVPAAGVGFQSRTLQIETAKLygagdfkRFDKIS-ISLPHPDASAALI 174
Cdd:cd13562    81 GLASTGPKALALVvRKDSAIKSVKDLKGK-KVATTKGSYVHHLLVLVLQEAGL-------TIDDVEfINMQQADMNTALT 152
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2316063240 175 AGgsEINAHFSSPPFQYQALEHANVHKIlssYDVLGGQATFNVLYTTQKFHDENPKTYRAFYEALKEA 242
Cdd:cd13562   153 NG--DIDAAVIWEPLITKLLSDGVVRVL---RDGTGIKDGLNVIVARGPLIEQNPEVVKALLKAYQRG 215
PBP2_ThiY_THI5_like cd13564
Substrate binding domain of ABC-type transporter for thiamin biosynthetic pathway ...
44-242 1.84e-07

Substrate binding domain of ABC-type transporter for thiamin biosynthetic pathway intermediates and similar proteins; the type 2 periplasmic binding protein fold; ThiY is the periplasmic N-formyl-4-amino-5-(aminomethyl)-2-methylpyrimidine (FAMP) binding component of the ABC transport system (ThiXYZ). FAMP is imported into cell by the transporter, where it is then incorporated into the thiamin biosynthetic pathway. The closest structural homologs of ThiY are THI5, which is responsible for the synthesis of 4-amino-5-(hydroxymethyl)-2-methylpyrimidine phosphate (HMP-P) in the thiamin biosynthetic pathway of eukaryotes, and periplasmic binding proteins involved in alkanesulfonate/nitrate and bicarbonate transport. After binding the ligand, they 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. The ThiY/THI5 proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270282 [Multi-domain]  Cd Length: 214  Bit Score: 50.96  E-value: 1.84e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  44 KQQGLDikVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVwdRTQGrQNVKAIASLGSMP--NYLLSNNPAVKTIRDL 121
Cdd:cd13564    27 KEEGLD--VEITTPTGGSDIVQLVASGQFDFGLSAVTHTLVA--QSKG-VPVKAVASAIRKPfsGVTVLKDSPIKSPADL 101
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 122 SDKdRIAVPAAGvgfQSRTLQIETAKLYGAGDFkrfDKIS-ISLPHPDASAALIAGgsEINAHFSSPPfQYQALEHANVH 200
Cdd:cd13564   102 KGK-KVGYNGLK---NINETAVRASVRKAGGDP---EDVKfVEVGFDQMPAALDSG--QIDAAQGTEP-ALATLKSQGGD 171
                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 2316063240 201 -KILSSYDVLGGQATFNVLYTTQKFHDENPKTYRAFYEALKEA 242
Cdd:cd13564   172 iIASPLVDVAPGDLTVAMLITNTAYVQQNPEVVKAFQAAIAKA 214
PBP2_SsuA_like_2 cd13558
Putative substrate binding domain of sulfonate binding protein, the type 2 periplasmic binding ...
36-177 2.01e-06

Putative substrate binding domain of sulfonate binding protein, the type 2 periplasmic binding protein fold; This subfamily includes the periplasmic component of putative ABC-type sulfonate transport system similar to SsuA. These domains are found in eubacterial SsuA proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding the ligand, SsuA interacts 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. The SsuA proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270276  Cd Length: 267  Bit Score: 48.43  E-value: 2.01e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  36 QNLIEKHGKQQGLDIKVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVwdrTQGRQNVKAIASLGSMPN---YLLSNN 112
Cdd:cd13558    12 RALLEAAGELDGLPYKIEWAEFQGGAPLLEALRAGALDIGGAGDTPPLFA---AAAGAPIKIVAALRGDVNgqaLLVPKD 88
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2316063240 113 PAVKTIRDLSDKdRIAVPAAGVGFQSRTLQIETAKLygagdfkRFDKISIS-LPHPDASAALIAGG 177
Cdd:cd13558    89 SPIRSVADLKGK-RVAYVRGSISHYLLLKALEKAGL-------SPSDVELVfLTPADALAAFASGQ 146
PBP2_SsuA_like_1 cd13556
Substrate binding domain of putative sulfonate binding protein, a member of the type 2 ...
32-285 1.97e-05

Substrate binding domain of putative sulfonate binding protein, a member of the type 2 periplasmic binding fold superfamily; This subfamily includes the periplasmic component of putative ABC-type sulfonate transport system similar to SsuA. These domains are found in eubacterial SsuA proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates, while other closest homologs are involved in thiamine (vitamin B1) biosynthetic pathway and desulfurization (DszB). After binding the ligand, SsuA interacts 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. The SsuA proteins belong to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270274  Cd Length: 265  Bit Score: 45.15  E-value: 1.97e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  32 VVRDQNLIEKHGKQQGldIKVDWRTLSGATAMNEALLSGALDVAS-AGVPPMLTvwdRTQGRQnVKAI--ASLGSMPNYL 108
Cdd:cd13556    15 VLKKFGWLEKEFQKDG--VKVTWVLSQGSNKALEFLNSGSVDFGStAGLAALLA---KANGNP-IKTVyvYSRPEWTALV 88
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 109 LSNNPAVKTIRDLSDKdRIAVpAAGVGFQSRTLQietaKLYGAGDFKRfDKISISLPHPDASAALIAGgsEINAHFSSPP 188
Cdd:cd13556    89 VRKDSPIRSVADLKGK-KVAV-TKGTDPYIFLLR----ALNTAGLSKN-DIEIVNLQHADGRTALEKG--DVDAWAGLDP 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 189 FQYQALEHANVHKILSSYDVlggqATFNVLYTTQKFHDENPKTYRAFYEALKEASQIIKADKAAAAETYIrvEKSKLDPE 268
Cdd:cd13556   160 FMAQTELENGSRLFYRNPDF----NTYGVLNVREDFAKRHPDAVRRVLKVYEKARKWAITHPDELAQILA--SESKLSLA 233
                         250
                  ....*....|....*..
gi 2316063240 269 LVKRIVAdpEIDFTITP 285
Cdd:cd13556   234 VAKLQLS--RTDFSQPI 248
PBP2_DszB cd13554
Substrate binding domain of 2'-hydroxybiphenyl-2-sulfinate desulfinase, a member of the type 2 ...
50-243 1.77e-04

Substrate binding domain of 2'-hydroxybiphenyl-2-sulfinate desulfinase, a member of the type 2 periplasmic binding fold superfamily; This subfamily includes DszB, which converts 2'-hydroxybiphenyl-2-sulfinate to 2-hydroxybiphenyl and sulfinate at the rate-limiting step of the microbial dibenzothiophene desulfurization pathway. The overall fold of DszB is highly similar to those of periplasmic substrate-binding proteins that serve as initial receptors in the ABC transport of bicarbonate, nitrate, taurine, or a wide range of aliphatic sulfonates. After binding their ligand with high affinity, they 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. The DszB protein belongs to the PBP2 superfamily of periplasmic binding proteins that differ in size and ligand specificity, but have similar tertiary structures consisting of two globular subdomains connected by a flexible hinge. They have been shown to bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270272 [Multi-domain]  Cd Length: 246  Bit Score: 42.50  E-value: 1.77e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  50 IKVDWR--TLSGATAMNEALLSGALDVASAGVPPMLTVWDRTQGRQNVKAIASL-GSMPNYLLSNNPAVKTIRDLSDKdR 126
Cdd:cd13554    28 IDLEVVagTPTGTVDFTYDQGIPADVVFSGAIPPLLAEGLRAPGRTRLIGITPLdLGRQGLFVRADSPITSAADLEGK-R 106
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 127 IAVPAAGVGFQSRTLQIETAKLYGAGDFkrfDKISISLPHPDASAALIAGgsEINAHFSSPPFQYQALEHANVHKiLSSY 206
Cdd:cd13554   107 IGMSAGAIRGSWLARALLHNLEIGGLDV---EIVPIDSPGRGQAAALDSG--DIDALASWLPWATTLQATGGARP-LVDL 180
                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 2316063240 207 DVLGGQATFNVLYTTQKFHDENPKTYRAFYEALKEAS 243
Cdd:cd13554   181 GLVEGNSYYSTWTVRSDFIEQNPEAVKALVEALVRAG 217
NMT1_2 pfam13379
NMT1-like family; This family is closely related to the pfam09084 family.
58-244 2.75e-04

NMT1-like family; This family is closely related to the pfam09084 family.


Pssm-ID: 463863  Cd Length: 254  Bit Score: 41.94  E-value: 2.75e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  58 SGATAMnEALLSGALDvASAGVPPMLTVWDRTQGRQNVKAI--ASLGSMPNYL-LSNNPAVKTIRDL--------SDKDR 126
Cdd:pfam13379  44 SWAETR-DALVAGELD-AAHVLTPMPYLITLGIGGAKVPMIvlASLNLNGQAItLANKYADKGVRDAaalkdlvgAYKAS 121
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240 127 IAVPAAGVGFQSRTLQIETAKLYGAGDFKRFDKISIS-LPHPDASAALIAGgsEINAHFSSPPFQYQALEHANVHKILSS 205
Cdd:pfam13379 122 GKPFKFAVTFPGSTHDLWLRYWLAAGGLDPDADVKLVvVPPPQMVANLRAG--NIDGFCVGEPWNARAVAEGIGVTAATT 199
                         170       180       190
                  ....*....|....*....|....*....|....*....
gi 2316063240 206 YDVLGGQATfNVLYTTQKFHDENPKTYRAFYEALKEASQ 244
Cdd:pfam13379 200 GELWKDHPE-KVLGVRADWVDKNPNAARALVKALIEATR 237
Periplasmic_Binding_Protein_Type_2 cd00648
Type 2 periplasmic binding fold superfamily; This evolutionary model and hierarchy represent ...
50-177 3.10e-03

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.


Pssm-ID: 270214 [Multi-domain]  Cd Length: 196  Bit Score: 38.32  E-value: 3.10e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2316063240  50 IKVDWRTLSGATAMNEALLSGALDVASAGVPPMLTVWDRTQGRQNVKAIASLGSMPNYLLSNNPAVKTIRDL---SDKDR 126
Cdd:cd00648    29 IKVELVPGSSIGTLIEALAAGDADVAVGPIAPALEAAADKLAPGGLYIVPELYVGGYVLVVRKGSSIKGLLAvadLDGKR 108
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2316063240 127 IAVPAAGVGFQSRtlqieTAKLYGAGDFKRFDKISISLPHPDASAALIAGG 177
Cdd:cd00648   109 VGVGDPGSTAVRQ-----ARLALGAYGLKKKDPEVVPVPGTSGALAAVANG 154
 
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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