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Conserved domains on  [gi|1941936422|ref|WP_197119710|]
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ABC transporter substrate-binding protein [Pseudoalteromonas sp. SWYJ118]

Protein Classification

substrate-binding periplasmic protein( domain architecture ID 11435556)

substrate-binding periplasmic protein similar to ABC transporter substrate-binding proteins, which function as the initial receptor in the ABC transport of a variety of substrates including amino acids and peptides, and to the periplasmic sensor domain of the histidine kinase receptors (HisK), which are elements of the two-component signal transduction systems commonly found in bacteria and lower eukaryotes

PubMed:  15313245

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
HisJ COG0834
ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino ...
32-241 4.52e-19

ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino acid transport and metabolism, Signal transduction mechanisms];


:

Pssm-ID: 440596 [Multi-domain]  Cd Length: 223  Bit Score: 82.72  E-value: 4.52e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  32 VSASGSHYPY-YTNDPEKP-GVLPEIIEKALDDANIAASHIDLPTKRITKYLQDEiiDFDVISLEWLPKDERNDSrYVFS 109
Cdd:COG0834     3 VGVDPDYPPFsFRDEDGKLvGFDVDLARAIAKRLGLKVEFVPVPWDRLIPALQSG--KVDLIIAGMTITPEREKQ-VDFS 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 110 EPLIYATEMIVTlPQNARNWQSADSLKGKYIGTVLGYYY---FNDN--TFERVDFPSEKELMTALSRNRVEAALVGKLTA 184
Cdd:COG0834    80 DPYYTSGQVLLV-RKDNSGIKSLADLKGKTVGVQAGTTYeeyLKKLgpNAEIVEFDSYAEALQALASGRVDAVVTDEPVA 158
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 185 LYWAKQLG-INIAF-GAQHSHGFLRIrLLSK-HKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:COG0834   159 AYLLAKNPgDDLKIvGEPLSGEPYGI-AVRKgDPELLEAVNKALAALKADGTLDKILEKW 217
 
Name Accession Description Interval E-value
HisJ COG0834
ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino ...
32-241 4.52e-19

ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino acid transport and metabolism, Signal transduction mechanisms];


Pssm-ID: 440596 [Multi-domain]  Cd Length: 223  Bit Score: 82.72  E-value: 4.52e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  32 VSASGSHYPY-YTNDPEKP-GVLPEIIEKALDDANIAASHIDLPTKRITKYLQDEiiDFDVISLEWLPKDERNDSrYVFS 109
Cdd:COG0834     3 VGVDPDYPPFsFRDEDGKLvGFDVDLARAIAKRLGLKVEFVPVPWDRLIPALQSG--KVDLIIAGMTITPEREKQ-VDFS 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 110 EPLIYATEMIVTlPQNARNWQSADSLKGKYIGTVLGYYY---FNDN--TFERVDFPSEKELMTALSRNRVEAALVGKLTA 184
Cdd:COG0834    80 DPYYTSGQVLLV-RKDNSGIKSLADLKGKTVGVQAGTTYeeyLKKLgpNAEIVEFDSYAEALQALASGRVDAVVTDEPVA 158
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 185 LYWAKQLG-INIAF-GAQHSHGFLRIrLLSK-HKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:COG0834   159 AYLLAKNPgDDLKIvGEPLSGEPYGI-AVRKgDPELLEAVNKALAALKADGTLDKILEKW 217
SBP_bac_3 pfam00497
Bacterial extracellular solute-binding proteins, family 3; This is a sensor domain found in ...
88-242 1.52e-15

Bacterial extracellular solute-binding proteins, family 3; This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. This domain recognizes Nicotinate, quidalnate, pyridine-2,5-dicarboxylate and salicylate (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 425719 [Multi-domain]  Cd Length: 221  Bit Score: 73.09  E-value: 1.52e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  88 FDVISLEWLPKDERnDSRYVFSEPLIYATEMIVTLPQNA-RNWQSADSLKGKYIGTVLGYYYFNDNTFER------VDFP 160
Cdd:pfam00497  59 VDLIIAGMTITPER-AKQVDFSDPYYYSGQVILVRKKDSsKSIKSLADLKGKTVGVQKGSTAEELLKNLKlpgaeiVEYD 137
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 161 SEKELMTALSRNRVEAALVGKLTALYWAKQLGIN--IAFGAQHSHGFLRIRLLSKHKGLLPQINLAIKNLHAQGYIKSIE 238
Cdd:pfam00497 138 DDAEALQALANGRVDAVVADSPVAAYLIKKNPGLnlVVVGEPLSPEPYGIAVRKGDPELLAAVNKALAELKADGTLAKIY 217

                  ....
gi 1941936422 239 DKYM 242
Cdd:pfam00497 218 EKWF 221
PBP2_YxeM cd13709
Substrate binding domain of an ABC transporter YxeMNO; the type 2 periplasmic binding protein ...
32-241 2.45e-11

Substrate binding domain of an ABC transporter YxeMNO; the type 2 periplasmic binding protein fold; This group contains cystine-binding domain (YxeM) of a periplasmic receptor-dependent ATP-binding cassette transporter and its closely related proteins. Cystine is an oxidized dimeric form of cysteine that is required for optimal bacterial growth. In Bacillus subtilis, three ABC transporters, TcyJKLMN (YtmJKLMN), TcyABC (YckKJI), and YxeMNO are involved in uptake of cystine. Likewise, three uptake systems were identified in Salmonella enterica serovar Typhimurium, while in Escherichia coli, two transport systems seem to be involved in cystine uptake. Moreover, L-cystine limitation was shown to prevent virulence of Neisseria gonorrhoeae; thus, its L-cystine solute receptor (Ngo0372) may be suited as target for an antimicrobial vaccine. The cystine receptor belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270427 [Multi-domain]  Cd Length: 227  Bit Score: 61.60  E-value: 2.45e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  32 VSASGSHYPY-YTNDPEKPGVLPEIIEKALDDANIAASHIDLPTKRITKYLQDEIIDfdVISLEWLPKDERNDSrYVFSE 110
Cdd:cd13709     5 VGSSGSSYPFtFKENGKLKGFEVDVWNAIGKRTGYKVEFVTADFSGLFGMLDSGKVD--TIANQITITPERQEK-YDFSE 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 111 PLIYATEMIVTLPQNaRNWQSADSLKGKYIGTVLGYYY-------FNDNTFERVDFPSEKELMTALSRNRVEAALVGKLT 183
Cdd:cd13709    82 PYVYDGAQIVVKKDN-NSIKSLEDLKGKTVAVNLGSNYekilkavDKDNKITIKTYDDDEGALQDVALGRVDAYVNDRVS 160
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1941936422 184 ALYWAKQ--LGINIAFG----AQHSHGFLRIrllSKHKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd13709   161 LLAKIKKrgLPLKLAGEplveEEIAFPFVKN---EKGKKLLEKVNKALEEMRKDGTLKKISEKW 221
PRK11260 PRK11260
cystine ABC transporter substrate-binding protein;
72-241 3.60e-08

cystine ABC transporter substrate-binding protein;


Pssm-ID: 183061 [Multi-domain]  Cd Length: 266  Bit Score: 52.80  E-value: 3.60e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  72 LPTKRItkylqDEIIDFDVISlewlpkDERNDsRYVFSEPLIYATEMIVTLPQNARNWQSADSLKGKYIGTVLGYYY--- 148
Cdd:PRK11260   96 LDSKRI-----DVVINQVTIS------DERKK-KYDFSTPYTVSGIQALVKKGNEGTIKTAADLKGKKVGVGLGTNYeqw 163
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 149 FNDN-------TFErvDFPSEKElmtALSRNRVEAALVGKLTALYWAKQLGINI-----AFGAQHSHGFLRirllskhKG 216
Cdd:PRK11260  164 LRQNvqgvdvrTYD--DDPTKYQ---DLRVGRIDAILVDRLAALDLVKKTNDTLavageAFSRQESGVALR-------KG 231
                         170       180
                  ....*....|....*....|....*...
gi 1941936422 217 ---LLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:PRK11260  232 npdLLKAVNQAIAEMQKDGTLKALSEKW 259
 
Name Accession Description Interval E-value
HisJ COG0834
ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino ...
32-241 4.52e-19

ABC-type amino acid transport/signal transduction system, periplasmic component/domain [Amino acid transport and metabolism, Signal transduction mechanisms];


Pssm-ID: 440596 [Multi-domain]  Cd Length: 223  Bit Score: 82.72  E-value: 4.52e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  32 VSASGSHYPY-YTNDPEKP-GVLPEIIEKALDDANIAASHIDLPTKRITKYLQDEiiDFDVISLEWLPKDERNDSrYVFS 109
Cdd:COG0834     3 VGVDPDYPPFsFRDEDGKLvGFDVDLARAIAKRLGLKVEFVPVPWDRLIPALQSG--KVDLIIAGMTITPEREKQ-VDFS 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 110 EPLIYATEMIVTlPQNARNWQSADSLKGKYIGTVLGYYY---FNDN--TFERVDFPSEKELMTALSRNRVEAALVGKLTA 184
Cdd:COG0834    80 DPYYTSGQVLLV-RKDNSGIKSLADLKGKTVGVQAGTTYeeyLKKLgpNAEIVEFDSYAEALQALASGRVDAVVTDEPVA 158
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 185 LYWAKQLG-INIAF-GAQHSHGFLRIrLLSK-HKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:COG0834   159 AYLLAKNPgDDLKIvGEPLSGEPYGI-AVRKgDPELLEAVNKALAALKADGTLDKILEKW 217
SBP_bac_3 pfam00497
Bacterial extracellular solute-binding proteins, family 3; This is a sensor domain found in ...
88-242 1.52e-15

Bacterial extracellular solute-binding proteins, family 3; This is a sensor domain found in solute-binding protein family 3 members from Gram-positive bacteria, Gram-negative bacteria and archaea. It can also be found in the N-terminal of the membrane-bound lytic murein transglycosylase F (MltF) protein. This domain recognizes Nicotinate, quidalnate, pyridine-2,5-dicarboxylate and salicylate (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).


Pssm-ID: 425719 [Multi-domain]  Cd Length: 221  Bit Score: 73.09  E-value: 1.52e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  88 FDVISLEWLPKDERnDSRYVFSEPLIYATEMIVTLPQNA-RNWQSADSLKGKYIGTVLGYYYFNDNTFER------VDFP 160
Cdd:pfam00497  59 VDLIIAGMTITPER-AKQVDFSDPYYYSGQVILVRKKDSsKSIKSLADLKGKTVGVQKGSTAEELLKNLKlpgaeiVEYD 137
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 161 SEKELMTALSRNRVEAALVGKLTALYWAKQLGIN--IAFGAQHSHGFLRIRLLSKHKGLLPQINLAIKNLHAQGYIKSIE 238
Cdd:pfam00497 138 DDAEALQALANGRVDAVVADSPVAAYLIKKNPGLnlVVVGEPLSPEPYGIAVRKGDPELLAAVNKALAELKADGTLAKIY 217

                  ....
gi 1941936422 239 DKYM 242
Cdd:pfam00497 218 EKWF 221
PBP2_YxeM cd13709
Substrate binding domain of an ABC transporter YxeMNO; the type 2 periplasmic binding protein ...
32-241 2.45e-11

Substrate binding domain of an ABC transporter YxeMNO; the type 2 periplasmic binding protein fold; This group contains cystine-binding domain (YxeM) of a periplasmic receptor-dependent ATP-binding cassette transporter and its closely related proteins. Cystine is an oxidized dimeric form of cysteine that is required for optimal bacterial growth. In Bacillus subtilis, three ABC transporters, TcyJKLMN (YtmJKLMN), TcyABC (YckKJI), and YxeMNO are involved in uptake of cystine. Likewise, three uptake systems were identified in Salmonella enterica serovar Typhimurium, while in Escherichia coli, two transport systems seem to be involved in cystine uptake. Moreover, L-cystine limitation was shown to prevent virulence of Neisseria gonorrhoeae; thus, its L-cystine solute receptor (Ngo0372) may be suited as target for an antimicrobial vaccine. The cystine receptor belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270427 [Multi-domain]  Cd Length: 227  Bit Score: 61.60  E-value: 2.45e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  32 VSASGSHYPY-YTNDPEKPGVLPEIIEKALDDANIAASHIDLPTKRITKYLQDEIIDfdVISLEWLPKDERNDSrYVFSE 110
Cdd:cd13709     5 VGSSGSSYPFtFKENGKLKGFEVDVWNAIGKRTGYKVEFVTADFSGLFGMLDSGKVD--TIANQITITPERQEK-YDFSE 81
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 111 PLIYATEMIVTLPQNaRNWQSADSLKGKYIGTVLGYYY-------FNDNTFERVDFPSEKELMTALSRNRVEAALVGKLT 183
Cdd:cd13709    82 PYVYDGAQIVVKKDN-NSIKSLEDLKGKTVAVNLGSNYekilkavDKDNKITIKTYDDDEGALQDVALGRVDAYVNDRVS 160
                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1941936422 184 ALYWAKQ--LGINIAFG----AQHSHGFLRIrllSKHKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd13709   161 LLAKIKKrgLPLKLAGEplveEEIAFPFVKN---EKGKKLLEKVNKALEEMRKDGTLKKISEKW 221
PBP2_peptides_like cd13530
Peptide-binding protein and related homologs; type 2 periplasmic binding protein fold; This ...
29-241 2.85e-11

Peptide-binding protein and related homologs; type 2 periplasmic binding protein fold; This domain is found in solute binding proteins that serve as initial receptors in the ABC transport, signal transduction and channel gating. The PBP2 proteins share the same architecture as periplasmic binding proteins type 1, 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 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. Besides transport proteins, the family includes ionotropic glutamate receptors and unorthodox sensor proteins involved in signal transduction.


Pssm-ID: 270248 [Multi-domain]  Cd Length: 217  Bit Score: 61.11  E-value: 2.85e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  29 KYNVSASGSHYPY-YTNDPEKP-GVLPEIIEKALDDANIAASHIDLPTkritkylqDEII------DFDVISLEWLPKDE 100
Cdd:cd13530     1 TLRVGTDADYPPFeYIDKNGKLvGFDVDLANAIAKRLGVKVEFVDTDF--------DGLIpalqsgKIDVAISGMTITPE 72
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 101 RNDSrYVFSEPLIYATEMIVTLPQNARNWQSADsLKGKYIGTVLG---YYYFNDN--TFERVDFPSEKELMTALSRNRVE 175
Cdd:cd13530    73 RAKV-VDFSDPYYYTGQVLVVKKDSKITKTVAD-LKGKKVGVQAGttgEDYAKKNlpNAEVVTYDNYPEALQALKAGRID 150
                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1941936422 176 AALVGKLTALYWAKQLGINIA----FGAQHSHGFLrirlLSKH-KGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd13530   151 AVITDAPVAKYYVKKNGPDLKvvgePLTPEPYGIA----VRKGnPELLDAINKALAELKADGTLDKLLEKW 217
PBP2_FliY cd13712
Substrate binding domain of an Escherichia coli ABC transporter; the type 2 periplasmic ...
88-241 1.09e-10

Substrate binding domain of an Escherichia coli ABC transporter; the type 2 periplasmic binding protein fold; This group contains cystine binding domain FliY and its related proteins. Cystine is an oxidized dimeric form of cysteine that is required for optimal bacterial growth. In Bacillus subtilis, three ABC transporters, TcyJKLMN (YtmJKLMN), TcyABC (YckKJI), and YxeMNO are involved in uptake of cystine. Likewise, three uptake systems were identified in Salmonella enterica serovar Typhimurium, while in Escherichia coli, two transport systems seem to be involved in cystine uptake. Moreover, L-cystine limitation was shown to prevent virulence of Neisseria gonorrhoeae; thus, its L-cystine solute receptor (Ngo0372) may be suited as target for an antimicrobial vaccine. The cystine receptor belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270430 [Multi-domain]  Cd Length: 219  Bit Score: 59.71  E-value: 1.09e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  88 FDVISLEWLPKDERNdSRYVFSEPLIYATEMIVTLPQNARNWQSADSLKGKYIGTVLGYYY-----FNDNTFERVDFPSE 162
Cdd:cd13712    60 YDVIINQVGITPERQ-KKFDFSQPYTYSGIQLIVRKNDTRTFKSLADLKGKKVGVGLGTNYeqwlkSNVPGIDVRTYPGD 138
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1941936422 163 KELMTALSRNRVEAALVGKLTALYWAKQLGINIAFGAQHSHGFLRIRLLSKHKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd13712   139 PEKLQDLAAGRIDAALNDRLAANYLVKTSLELPPTGGAFARQKSGIPFRKGNPKLKAAINKAIEDLRADGTLAKLSEKW 217
PBP2_Cystine_like cd13626
Substrate binding domain of cystine ABC transporters; the type 2 periplasmic binding protein ...
88-241 3.31e-10

Substrate binding domain of cystine ABC transporters; the type 2 periplasmic binding protein fold; Cystine-binding domain of periplasmic receptor-dependent ATP-binding cassette (ABC) transporters. Cystine is an oxidized dimeric form of cysteine that is required for optimal bacterial growth. In Bacillus subtilis, three ABC transporters, TcyJKLMN (YtmJKLMN), TcyABC (YckKJI), and YxeMNO are involved in uptake of cystine. Also, three uptake systems were identified in Salmonella enterica serovar Typhimurium, while in Escherichia coli, two transport systems seem to be involved in cystine uptake. Moreover, L-cystine limitation was shown to prevent virulence of Neisseria gonorrhoeae; thus, its L-cystine solute receptor (Ngo0372) may be suited as target for an antimicrobial vaccine. The cystine receptor belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270344 [Multi-domain]  Cd Length: 219  Bit Score: 58.10  E-value: 3.31e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  88 FDVISLEWLPKDERNDSrYVFSEPLIYATEMIVtLPQNARNWQSADSLKGKYIGTVLGYYYF-----NDNTFERVDFPSE 162
Cdd:cd13626    60 FDVIANQVTITPEREEK-YLFSDPYLVSGAQII-VKKDNTIIKSLEDLKGKVVGVSLGSNYEevardLANGAEVKAYGGA 137
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 163 KELMTALSRNRVEAALVGKLTALYWAKQLGINIAFGAQHSHG---FLRIRLLSKHkgLLPQINLAIKNLHAQGYIKSIED 239
Cdd:cd13626   138 NDALQDLANGRADATLNDRLAALYALKNSNLPLKIVGDIVSTakvGFAFRKDNPE--LRKKVNKALAEMKADGTLKKLSE 215

                  ..
gi 1941936422 240 KY 241
Cdd:cd13626   216 KW 217
PBP2_HisK cd13704
The periplasmic sensor domain of histidine kinase receptors; the type 2 periplasmic binding ...
99-242 4.46e-10

The periplasmic sensor domain of histidine kinase receptors; the type 2 periplasmic binding fold protein; This subfamily includes the periplasmic sensor domain of the histidine kinase receptors (HisK) which are elements of the two-component signal transduction systems commonly found in bacteria and lower eukaryotes. Typically, the two-component system consists of a membrane-spanning histidine kinase sensor and a cytoplasmic response regulator. The two-component systems serve as a stimulus-response coupling mechanism to enable microorganisms to sense and respond to changes in environmental conditions. Extracellular stimuli such as small molecule ligands and ions are detected by the N-terminal periplasmic sensing domain of the sensor kinase receptor, which regulate the catalytic activity of the cytoplasmic kinase domain and promote ATP-dependent autophosphorylation of a conserved histidine residue. The phosphate is then transferred to a conserved aspartate in the response regulator through a phospho-transfer mechanism, and the activity of the response regulator is in turn regulated. The sensor domain belongs to the type 2 periplasmic-binding fold protein (PBP2) superfamily, whose members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space through their function as an initial high-affinity binding component. PBP2 typically comprises of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap.


Pssm-ID: 270422 [Multi-domain]  Cd Length: 220  Bit Score: 57.98  E-value: 4.46e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  99 DERnDSRYVFSEPLIYATEMIVTLPQNARNwQSADSLKGKYIGTVLGYYYF-----NDNTFERVDFPSEKELMTALSRNR 173
Cdd:cd13704    72 EER-AKLFDFSDPYLEVSVSIFVRKGSSII-NSLEDLKGKKVAVQRGDIMHeylkeRGLGINLVLVDSPEEALRLLASGK 149
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1941936422 174 VEAALVGKLTALYWAKQLG------INIAFGAQHSHgflrIRLLSKHKGLLPQINLAIKNLHAQGYIKSIEDKYM 242
Cdd:cd13704   150 VDAAVVDRLVGLYLIKELGltnvkiVGPPLLPLKYC----FAVRKGNPELLAKLNEGLAILKASGEYDEIYEKWF 220
PBP2_BvgS_HisK_like cd01007
The type 2 periplasmic ligand-binding protein domain of the sensor-kinase BvgS and histidine ...
77-228 8.00e-09

The type 2 periplasmic ligand-binding protein domain of the sensor-kinase BvgS and histidine kinase receptors, and related proteins; This family comprises the periplasmic sensor domain of the two-component sensor-kinase systems, such as the sensor protein BvgS of Bordetella pertussis and histidine kinase receptors (HisK), and uncharacterized related proteins. Typically, the two-component system consists of a membrane spanning sensor-kinase and a cytoplasmic response regulator. It serves as a stimulus-response coupling mechanism to enable microorganisms to sense and respond to changes in environmental conditions. The N-terminal sensing domain of the sensor kinase detects extracellular signals, such as small molecule ligands and ions, which then modulate the catalytic activity of the cytoplasmic kinase domain through a phosphorylation cascade. The periplasmic sensor domain belongs to the type 2 periplasmic-binding fold protein (PBP2) superfamily, whose members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space as a primary receptor. PBP2 typically comprises 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. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270228 [Multi-domain]  Cd Length: 220  Bit Score: 54.08  E-value: 8.00e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  77 ITKYLQDEIidfDVISLewLPKDERNDSRYVFSEPLIYATEMIVTlPQNARNWQSADSLKGKYIGTVLGYYYFND----- 151
Cdd:cd01007    55 LEALKAGEI---DLLSS--VSKTPEREKYLLFTKPYLSSPLVIVT-RKDAPFINSLSDLAGKRVAVVKGYALEELlrery 128
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1941936422 152 NTFERVDFPSEKELMTALSRNRVEAALVGKLTALYWAKQLGI-NIAFGAQHSHGF-LRIRLLSKHKGLLPQINLAIKNL 228
Cdd:cd01007   129 PNINLVEVDSTEEALEAVASGEADAYIGNLAVASYLIQKYGLsNLKIAGLTDYPQdLSFAVRKDWPELLSILNKALASI 207
PRK11260 PRK11260
cystine ABC transporter substrate-binding protein;
72-241 3.60e-08

cystine ABC transporter substrate-binding protein;


Pssm-ID: 183061 [Multi-domain]  Cd Length: 266  Bit Score: 52.80  E-value: 3.60e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  72 LPTKRItkylqDEIIDFDVISlewlpkDERNDsRYVFSEPLIYATEMIVTLPQNARNWQSADSLKGKYIGTVLGYYY--- 148
Cdd:PRK11260   96 LDSKRI-----DVVINQVTIS------DERKK-KYDFSTPYTVSGIQALVKKGNEGTIKTAADLKGKKVGVGLGTNYeqw 163
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 149 FNDN-------TFErvDFPSEKElmtALSRNRVEAALVGKLTALYWAKQLGINI-----AFGAQHSHGFLRirllskhKG 216
Cdd:PRK11260  164 LRQNvqgvdvrTYD--DDPTKYQ---DLRVGRIDAILVDRLAALDLVKKTNDTLavageAFSRQESGVALR-------KG 231
                         170       180
                  ....*....|....*....|....*...
gi 1941936422 217 ---LLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:PRK11260  232 npdLLKAVNQAIAEMQKDGTLKALSEKW 259
PBP2_Ngo0372_TcyA cd13711
Substrate binding domain of ABC transporters involved in cystine import; the type 2 ...
88-241 1.45e-07

Substrate binding domain of ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold; This subgroup includes cystine-binding domain of periplasmic receptor-dependent ATP-binding cassette transporters from Neisseria gonorrhoeae and Bacillus subtilis and their related proteins. Cystine is an oxidized dimeric form of cysteine that is required for optimal bacterial growth. In Bacillus subtilis, three ABC transporters, TcyJKLMN (YtmJKLMN), TcyABC (YckKJI), and YxeMNO are involved in uptake of cystine. Likewise, three uptake systems were identified in Salmonella enterica serovar Typhimurium, while in Escherichia coli, two transport systems seem to be involved in cystine uptake. Moreover, L-cystine limitation was shown to prevent virulence of Neisseria gonorrhoeae; thus, its L-cystine solute receptor (Ngo0372) may be suited as target for an antimicrobial vaccine. The cystine receptor belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270429 [Multi-domain]  Cd Length: 222  Bit Score: 50.76  E-value: 1.45e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  88 FDVISLEWLPKDERNDsRYVFSEPLIYATEMIVTLPQNARnWQSADSLKGKYIGTVLGYYYFN---DNTFERVDFPSEKE 164
Cdd:cd13711    61 FDVVANQVGITDERKK-KYDFSTPYIYSRAVLIVRKDNSD-IKSFADLKGKKSAQSLTSNWGKiakKYGAQVVGVDGFAQ 138
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 165 LMTALSRNRVEAALVGKLTALYWAKQ---LGINIAFGAQH--SHGFLrirLLSKHKGLLPQINLAIKNLHAQGYIKSIED 239
Cdd:cd13711   139 AVELITQGRADATINDSLAFLDYKKQhpdAPVKIAAETDDasESAFL---VRKGNDELVAAINKALKELKADGTLKKISE 215

                  ..
gi 1941936422 240 KY 241
Cdd:cd13711   216 KY 217
PBP2_Cys_DEBP_like cd01000
Substrate-binding domain of cysteine- and aspartate/glutamate-binding proteins; the type 2 ...
65-241 8.81e-07

Substrate-binding domain of cysteine- and aspartate/glutamate-binding proteins; the type 2 periplasmic-binding protein fold; This family comprises of the periplasmic-binding protein component of ABC transporters specific for cysteine and carboxylic amino acids, as well as their closely related proteins. The cysteine and aspartate-glutamate binding domains belong to the type 2 periplasmic binding protein fold superfamily (PBP2), whose many members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space as a primary receptor. The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270221 [Multi-domain]  Cd Length: 228  Bit Score: 48.46  E-value: 8.81e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  65 IAASHIDLPTK----------RITkYLQDEIIDFDVISLEWLPkdERndSRYV-FSEPlIYATEMIVTLPQNARNwQSAD 133
Cdd:cd01000    41 LAKDLLGDPVKvkfvpvtsanRIP-ALQSGKVDLIIATMTITP--ER--AKEVdFSVP-YYADGQGLLVRKDSKI-KSLE 113
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 134 SLKGKYIGTVLGYYY---FNDN--TFERVDFPSEKELMTALSRNRVEAALVGKLTALYWAKQL--GINIAfGAQHSHGFL 206
Cdd:cd01000   114 DLKGKTILVLQGSTAeaaLRKAapEAQLLEFDDYAEAFQALESGRVDAMATDNSLLAGWAAENpdDYVIL-PKPFSQEPY 192
                         170       180       190
                  ....*....|....*....|....*....|....*
gi 1941936422 207 RIRLLSKHKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd01000   193 GIAVRKGDTELLKAVNATIAKLKADGELAEIYKKW 227
PBP2_Arg_3 cd13622
Substrate binding domain of an arginine 3rd transport system; the type 2 periplasmic binding ...
99-242 1.94e-06

Substrate binding domain of an arginine 3rd transport system; the type 2 periplasmic binding fold; This subgroup is similar to the HisJ-like family that comprises the periplasmic substrate-binding proteins, including the lysine-, arginine-, ornithine-binding protein (LAO) and the histidine-binding protein (HisJ), which serve as initial receptors for active transport. HisJ and LAO proteins belong to the type 2 periplasmic-binding fold protein (PBP2) superfamily, whose members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space as a primary receptor. PBP2 typically comprises 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. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270340 [Multi-domain]  Cd Length: 222  Bit Score: 47.30  E-value: 1.94e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  99 DERnDSRYVFSEPLIYATEMIVTLPQNARNWQSADsLKGKYIGTVLGYYY------FNDNTFERVDFPSEKELMTALSRN 172
Cdd:cd13622    73 PER-SKNFIFSLPYLLSYSQFLTNKDNNISSFLED-LKGKRIGILKGTIYkdyllqMFVINPKIIEYDRLVDLLEALNNN 150
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1941936422 173 RVEAALVGKLTALYWAKQLGINIA-FGAQHSHGF-LRIRLLSKHKGLLPQINLAIKNLHAQGYIKSIEDKYM 242
Cdd:cd13622   151 EIDAILLDNPIAKYWASNSSDKFKlIGKPIPIGNgLGIAVNKDNAALLTKINKALLEIENDGTYLKIYNKYF 222
PBP2_mlr5654_like cd13702
Substrate binding domain of ABC-type histidine/lysine/arginine/ornithine transporter-like; the ...
108-241 1.64e-05

Substrate binding domain of ABC-type histidine/lysine/arginine/ornithine transporter-like; the type 2 periplasmic-binding protein fold; This group includes uncharacterized periplasmic substrate-binding protein similar to HisJ and LAO proteins which serve as initial receptors in the ABC transport of histidine-, arginine, and lysine-arginine-ornithine amino acids. This group belongs to the type 2 periplasmic-binding fold protein (PBP2) superfamily, whose members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space as a primary receptor. PBP2 typically comprises 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. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270420 [Multi-domain]  Cd Length: 223  Bit Score: 44.62  E-value: 1.64e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 108 FSEPLiYATEMIVTLPQNAR-NWQSADSLKGKYIG----TVLGYY---YFNDNTFERvdFPSEKELMTALSRNRVEAALV 179
Cdd:cd13702    81 FTDPY-YTNPLVFVAPKDSTiTDVTPDDLKGKVIGaqrsTTAAKYleeNYPDAEVKL--YDTQEEAYLDLASGRLDAVLS 157
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 180 GKLTALYWAK--------QLGINIAFGAQhshgfLRIRLLSKHKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd13702   158 DKFPLLDWLKspagkcceLKGEPIADDDG-----IGIAVRKGDTELREKFNKALAAIRADGTYKKINAKY 222
PBP2_Peb1a_like cd13691
Substrate binding domain of an ABC aspartate/glutamate transporter; the type 2 ...
99-241 2.05e-05

Substrate binding domain of an ABC aspartate/glutamate transporter; the type 2 periplasmic-binding protein fold; This group includes periplasmic aspartate/glutamate binding domain Peb1a and its closely related protein. The Peb1a is an important virulence factor in the food-borne human pathogen Campylobacter jejuni, which has a major role in adherence and host colonization. The Peb1a domain belongs to the type 2 periplasmic binding protein fold superfamily (PBP2), whose many members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space as a primary receptor. The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270409 [Multi-domain]  Cd Length: 228  Bit Score: 44.37  E-value: 2.05e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  99 DERNDSrYVFSEPliYATEMIVTLPQNARNWQSADSLKGKYIGTVLG---------YYYFNDNTFERVDFPSEKELMTAL 169
Cdd:cd13691    81 PERKKS-YDFSTP--YYTDAIGVLVEKSSGIKSLADLKGKTVGVASGattkkaleaAAKKIGIGVSFVEYADYPEIKTAL 157
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1941936422 170 SRNRVEAALVGK-LTALYWAKQLGINIAFGAQHSHGflrIRLLSKHKGLLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd13691   158 DSGRVDAFSVDKsILAGYVDDSREFLDDEFAPQEYG---VATKKGSTDLSKYVDDAVKKWLADGTLEALIKKW 227
PBP2_Cystine_like_1 cd13713
Substrate binding domain of putative ABC transporters involved in cystine import; the type 2 ...
108-241 7.06e-05

Substrate binding domain of putative ABC transporters involved in cystine import; the type 2 periplasmic binding protein fold; This group contains uncharacterized periplasmic cystine-binding domain of ATP-binding cassette (ABC) transporters. Cystine is an oxidized dimeric form of cysteine that is required for optimal bacterial growth. In Bacillus subtilis, three ABC transporters, TcyJKLMN (YtmJKLMN), TcyABC (YckKJI), and YxeMNO are involved in uptake of cystine. Likewise, three uptake systems were identified in Salmonella enterica serovar Typhimurium, while in Escherichia coli, two transport systems seem to be involved in cystine uptake. Moreover, L-cystine limitation was shown to prevent virulence of Neisseria gonorrhoeae; thus, its L-cystine solute receptor (Ngo0372) may be suited as target for an antimicrobial vaccine. The cystine receptor belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270431 [Multi-domain]  Cd Length: 218  Bit Score: 42.66  E-value: 7.06e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 108 FSEPLIYATEMIVTLPQNARnwQSADSLKGKYIGTVLGYYYFND--NTFERVD---FPSEKELMTALSRNRVEAALVGKL 182
Cdd:cd13713    79 FSNPYYYSGAQIFVRKDSTI--TSLADLKGKKVGVVTGTTYEAYarKYLPGAEiktYDSDVLALQDLALGRLDAVITDRV 156
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1941936422 183 TALYWAKQLGINIAfgaqhshgfLRIRLLSK-------HKG---LLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd13713   157 TGLNAIKEGGLPIK---------IVGKPLYYepmaiaiRKGdpeLRAAVNKALAEMKADGTLEKISKKW 216
PBP2_Arg_Lys_His cd13624
Substrate binding domain of the arginine-, lysine-, histidine-binding protein ArtJ; the type 2 ...
99-242 1.12e-04

Substrate binding domain of the arginine-, lysine-, histidine-binding protein ArtJ; the type 2 periplasmic binding protein fold; This group includes the periplasmic substrate-binding protein ArtJ of the ATP-binding cassette (ABC) transport system from the thermophilic bacterium Geobacillus stearothermophilus, which is specific for arginine, lysine, and histidine. ArtJ belongs to the type 2 periplasmic-binding fold protein (PBP2) superfamily, whose members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space as a primary receptor. PBP2 typically comprises 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. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270342 [Multi-domain]  Cd Length: 219  Bit Score: 42.10  E-value: 1.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422  99 DERNDSrYVFSEPLIYATEMIVTlPQNARNWQSADSLKGKYIGTVLGYYyfNDNTFERVD-------FPSEKELMTALSR 171
Cdd:cd13624    71 EERKKS-VDFSDPYYEAGQAIVV-RKDSTIIKSLDDLKGKKVGVQIGTT--GAEAAEKILkgakvkrFDTIPLAFLELKN 146
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 172 NRVEAALVGKLTALYWAKQLG------INIAFGAQHsHGF-LRirllskhKG---LLPQINLAIKNLHAQGYIKSIEDKY 241
Cdd:cd13624   147 GGVDAVVNDNPVAAYYVKQNPdkklkiVGDPLTSEY-YGIaVR-------KGnkeLLDKINKALKKIKENGTYDKIYKKW 218

                  .
gi 1941936422 242 M 242
Cdd:cd13624   219 F 219
PBP2_Atu4678_like cd13696
The substrate binding domain of putative amino acid transporter; the type 2 periplasmic ...
108-192 8.53e-04

The substrate binding domain of putative amino acid transporter; the type 2 periplasmic binding protein fold; This group includes the periplamic-binding protein component of a putative amino acid ABC transporter from Agrobacterium tumefaciens and its related proteins. The putative Atu4678-like domain belongs to the type 2 periplasmic binding protein fold superfamily (PBP2), whose many members are involved in chemotaxis and uptake of nutrients and other small molecules from the extracellular space as a primary receptor. The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. 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 receptor cytoplasmically-located ATPase domains. This interaction triggers the ligand translocation across the cytoplasmic membrane energized by ATP hydrolysis.


Pssm-ID: 270414 [Multi-domain]  Cd Length: 227  Bit Score: 39.67  E-value: 8.53e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1941936422 108 FSEPLIyATEMIVTLPQNArNWQSADSLKGKYIGTVLGYY-------YFNDNTFERVDfpSEKELMTALSRNRVEAALVG 180
Cdd:cd13696    87 FSIPYV-VAGMVVLTRKDS-GIKSFDDLKGKTVGVVKGSTneaavraLLPDAKIQEYD--TSADAILALKQGQADAMVED 162
                          90
                  ....*....|..
gi 1941936422 181 KLTALYWAKQLG 192
Cdd:cd13696   163 NTVANYKASSGQ 174
 
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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