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Conserved domains on  [gi|446748265|ref|WP_000825521|]
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MULTISPECIES: dipeptide ABC transporter glycylmethionine-binding lipoprotein [Staphylococcus]

Protein Classification

PBP2_lipoprotein_GmpC domain-containing protein( domain architecture ID 10194439)

PBP2_lipoprotein_GmpC domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PBP2_lipoprotein_GmpC cd13596
The periplasmic substrate-binding domain of the membrane-associated lipoprotein-9 GmpC; ...
 25-255 3.49e-105

The periplasmic substrate-binding domain of the membrane-associated lipoprotein-9 GmpC; contains the type 2 periplasmic-binding protein fold; This group includes the membrane-associated lipoprotein-9 from Staphylococcus aureus that binds the dipeptide glycylmethionine (GlyMet). The lipoprotein-9 has both structural and sequential homology to the MetQ family of substrate-binding protein. The GlyMet binding protein 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.


:

Pssm-ID: 270314  Cd Length: 230  Bit Score: 305.06  E-value: 3.49e-105
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  25 KVTIGVASNDTKAWEKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHKgTKISALSTTVLA 104
Cdd:cd13596    1 TVKIGVTGEDTDIWDKIVEEAEEAGIKLELVNFSDYSQPNKALNDGDIDLNAFQHYAYLVQYNSKNN-ADLTAIGDTVIA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 105 PLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKDITSNPKHLKITAVDAQQTARALS 184
Cdd:cd13596   80 PMGIYSKKITSVDELPDGAKIAIPNDPSNLSRALFILQAAGLIKLKKDAGDFPTVNDITENPKNLEIVPVDADQVYRALN 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446748265 185 DVDIAVINNGVATKAGKDPKNDPIFLEKSNSDAVKPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE 255
Cdd:cd13596  160 DVDAAVINNTFALDAGLDPKKDAIFLEDPSSYGSKPYINLIAVREEDKDNPLYKKLVETYHDERVQKAVEE 230
 
Name Accession Description Interval E-value
PBP2_lipoprotein_GmpC cd13596
The periplasmic substrate-binding domain of the membrane-associated lipoprotein-9 GmpC; ...
 25-255 3.49e-105

The periplasmic substrate-binding domain of the membrane-associated lipoprotein-9 GmpC; contains the type 2 periplasmic-binding protein fold; This group includes the membrane-associated lipoprotein-9 from Staphylococcus aureus that binds the dipeptide glycylmethionine (GlyMet). The lipoprotein-9 has both structural and sequential homology to the MetQ family of substrate-binding protein. The GlyMet binding protein 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.


Pssm-ID: 270314  Cd Length: 230  Bit Score: 305.06  E-value: 3.49e-105
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  25 KVTIGVASNDTKAWEKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHKgTKISALSTTVLA 104
Cdd:cd13596    1 TVKIGVTGEDTDIWDKIVEEAEEAGIKLELVNFSDYSQPNKALNDGDIDLNAFQHYAYLVQYNSKNN-ADLTAIGDTVIA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 105 PLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKDITSNPKHLKITAVDAQQTARALS 184
Cdd:cd13596   80 PMGIYSKKITSVDELPDGAKIAIPNDPSNLSRALFILQAAGLIKLKKDAGDFPTVNDITENPKNLEIVPVDADQVYRALN 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446748265 185 DVDIAVINNGVATKAGKDPKNDPIFLEKSNSDAVKPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE 255
Cdd:cd13596  160 DVDAAVINNTFALDAGLDPKKDAIFLEDPSSYGSKPYINLIAVREEDKDNPLYKKLVETYHDERVQKAVEE 230
NlpA COG1464
ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion ...
 1-264 1.32e-104

ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism];


Pssm-ID: 441073 [Multi-domain]  Cd Length: 270  Bit Score: 305.11  E-value: 1.32e-104
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   1 MKRLIG--LVIVALVLLAACGGNN-------DKKVTIGV-ASNDTKAWEKVKELAKKDDIDVEIKHFSDYNLPNKALNDG 70
Cdd:COG1464    1 MKKLLAllLALALALALAACGSSSaaaaaadKKTIKVGAtPGPHAEILEVVKPELAKKGIDLEIVEFTDYVQPNEALADG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  71 DIDMNAFQHFAFLDQYKKAHkGTKISALSTTVLAPLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLK 150
Cdd:COG1464   81 EIDANYFQHIPYLDNFNKEN-GYDLVPVGKTHIEPMGLYSKKYKSLDELPDGATIAIPNDPTNQGRALLLLQKAGLIKLK 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 151 KDFGLAGTVKDITSNPKHLKITAVDAQQTARALSDVDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDK 230
Cdd:COG1464  160 DGVGLLATVKDITENPKNLKFVELDAAQLPRSLDDVDAAVINGNYALEAGLDPTKDALFLEDKDS----PYANIIVVRED 235

                        250       260       270
                 ....*....|....*....|....*....|....
gi 446748265 231 DLDNKTYAKIVELYHSKEAQKALQEDVKDGEKPV 264
Cdd:COG1464  236 DKDDPAIKKLVEAYQSDEVKKFIEEKYKGAVVPA 269
Lipoprotein_9 pfam03180
NlpA lipoprotein; This entry represents bacterial lipoproteins that belong to the NlpA family. ...
 26-264 4.19e-89

NlpA lipoprotein; This entry represents bacterial lipoproteins that belong to the NlpA family. It contains several antigenic members, that may be involved in bacterial virulence. This entry includes the D-methionine binding lipoprotein MetQ, which is the substrate-binding component of a D-methionine permease, a binding protein-dependent, ATP-driven transport system. Other members of this family, such as NlpA, have been identified as putative substrate-binding components of ABC transporters. NlpA, is an inner-membrane-anchored lipoprotein that has been shown to have a minor role in methionine import.


Pssm-ID: 427184  Cd Length: 236  Bit Score: 264.51  E-value: 4.19e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   26 VTIGVASNDTKAW-EKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHkGTKISALSTTVLA 104
Cdd:pfam03180   1 LKVGATPGPHAEIlEVAKPLLKKKGLDLEIVEFTDYVQPNTALADGEIDANYFQHLPYLDQFNKEK-GLDLVAVGNVHIE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  105 PLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKDITSNPKHLKITAVDAQQTARALS 184
Cdd:pfam03180  80 PMGLYSKKYKSLSELPDGATIAVPNDPSNEGRALLLLQKAGLIKLKDGKGLLATVKDITENPKNLKIKELEAAQLPRALD 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  185 DVDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQEDVKDGEKPV 264
Cdd:pfam03180 160 DVDAAVINTNYALEAGLNPKKDALFEEDKDS----PYVNIIVVREDDKDDEAVKKLVEAYQSEEVKKFIEKKYGGAVIPA 235
TIGR00363 TIGR00363
lipoprotein, YaeC family; This family of putative lipoproteins contains a consensus site for ...
 9-263 1.29e-53

lipoprotein, YaeC family; This family of putative lipoproteins contains a consensus site for lipoprotein signal sequence cleavage. Included in this family is the E. coli hypothetical protein yaeC. About half of the proteins between the noise and trusted cutoffs contain the consensus lipoprotein signature and may belong to this family. [Cell envelope, Other]


Pssm-ID: 129460  Cd Length: 258  Bit Score: 174.70  E-value: 1.29e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265    9 IVALVLLAACGGNND--KKVTIGVASNdtkAWEKVKELAKK-----DDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFA 81
Cdd:TIGR00363   1 LASALVLTGCKQDKKdpLHIKVGVISG---AEQQVAEVAAKvakekYGLDVELVEFNDYALPNEAVSKGDLDANAFQHKP 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   82 FLDQYKKAHkGTKISALSTTVLAPLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKD 161
Cdd:TIGR00363  78 YLDQDAKAK-GYKLVAVGNTFVYPLAGYSKKIKNVNELQDGAKVAVPNDPTNLGRALLLLQKQGLIKLKDGNGLLPTVLD 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  162 ITSNPKHLKITAVDAQQTARALSD--VDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDKDLDNKTYAK 239
Cdd:TIGR00363 157 IVENPKKLNITELETSQLPRALDDpkVDLAVINTTYAGQVGLNPQDDGVFVEDKDS----PYVNIIVSREDNKDAENVKD 232

                         250       260
                  ....*....|....*....|....
gi 446748265  240 IVELYHSKEAQKALQEDVKDGEKP 263
Cdd:TIGR00363 233 FIQSYQSEEVYQAAQKHFNGGAVK 256
PRK09861 PRK09861
lipoprotein NlpA;
3-263 1.85e-51

lipoprotein NlpA;


Pssm-ID: 182119  Cd Length: 272  Bit Score: 169.82  E-value: 1.85e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   3 RLIGLVIVALVLLAAC--GGNNDKKVTIGVASNdtkAWEKVKELAKK-----DDIDVEIKHFSDYNLPNKALNDGDIDMN 75
Cdd:PRK09861   9 RAGAALLLAGILLAGCdqSSSDAKHIKVGVING---AEQDVAEVAKKvakekYGLDVELVGFSGSLLPNDATNHGELDAN 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  76 AFQHFAFLDQYKKAHkGTKISALSTTVLAPLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGL 155
Cdd:PRK09861  86 VFQHRPFLEQDNQAH-GYKLVAVGNTFVFPMAGYSKKIKTVAQIKEGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGL 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 156 AGTVKDITSNPKHLKITAVDAQQTARALSD--VDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDKDLD 233
Cdd:PRK09861 165 LPTALDITDNPRHLQIMELEGAQLPRVLDDpkVDVAIISTTYIQQTGLSPVHDSVFIEDKNS----PYVNILVAREDNKN 240

                        250       260       270
                 ....*....|....*....|....*....|
gi 446748265 234 NKTYAKIVELYHSKEAQKALQEDVKDGEKP 263
Cdd:PRK09861 241 AENVKEFLQSYQSPEVAKAAETIFNGGAVP 270
 
Name Accession Description Interval E-value
PBP2_lipoprotein_GmpC cd13596
The periplasmic substrate-binding domain of the membrane-associated lipoprotein-9 GmpC; ...
 25-255 3.49e-105

The periplasmic substrate-binding domain of the membrane-associated lipoprotein-9 GmpC; contains the type 2 periplasmic-binding protein fold; This group includes the membrane-associated lipoprotein-9 from Staphylococcus aureus that binds the dipeptide glycylmethionine (GlyMet). The lipoprotein-9 has both structural and sequential homology to the MetQ family of substrate-binding protein. The GlyMet binding protein 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.


Pssm-ID: 270314  Cd Length: 230  Bit Score: 305.06  E-value: 3.49e-105
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  25 KVTIGVASNDTKAWEKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHKgTKISALSTTVLA 104
Cdd:cd13596    1 TVKIGVTGEDTDIWDKIVEEAEEAGIKLELVNFSDYSQPNKALNDGDIDLNAFQHYAYLVQYNSKNN-ADLTAIGDTVIA 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 105 PLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKDITSNPKHLKITAVDAQQTARALS 184
Cdd:cd13596   80 PMGIYSKKITSVDELPDGAKIAIPNDPSNLSRALFILQAAGLIKLKKDAGDFPTVNDITENPKNLEIVPVDADQVYRALN 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 446748265 185 DVDIAVINNGVATKAGKDPKNDPIFLEKSNSDAVKPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE 255
Cdd:cd13596  160 DVDAAVINNTFALDAGLDPKKDAIFLEDPSSYGSKPYINLIAVREEDKDNPLYKKLVETYHDERVQKAVEE 230
NlpA COG1464
ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion ...
 1-264 1.32e-104

ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism];


Pssm-ID: 441073 [Multi-domain]  Cd Length: 270  Bit Score: 305.11  E-value: 1.32e-104
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   1 MKRLIG--LVIVALVLLAACGGNN-------DKKVTIGV-ASNDTKAWEKVKELAKKDDIDVEIKHFSDYNLPNKALNDG 70
Cdd:COG1464    1 MKKLLAllLALALALALAACGSSSaaaaaadKKTIKVGAtPGPHAEILEVVKPELAKKGIDLEIVEFTDYVQPNEALADG 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  71 DIDMNAFQHFAFLDQYKKAHkGTKISALSTTVLAPLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLK 150
Cdd:COG1464   81 EIDANYFQHIPYLDNFNKEN-GYDLVPVGKTHIEPMGLYSKKYKSLDELPDGATIAIPNDPTNQGRALLLLQKAGLIKLK 159

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 151 KDFGLAGTVKDITSNPKHLKITAVDAQQTARALSDVDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDK 230
Cdd:COG1464  160 DGVGLLATVKDITENPKNLKFVELDAAQLPRSLDDVDAAVINGNYALEAGLDPTKDALFLEDKDS----PYANIIVVRED 235

                        250       260       270
                 ....*....|....*....|....*....|....
gi 446748265 231 DLDNKTYAKIVELYHSKEAQKALQEDVKDGEKPV 264
Cdd:COG1464  236 DKDDPAIKKLVEAYQSDEVKKFIEEKYKGAVVPA 269
PBP2_lipoprotein_MetQ_like cd13526
The periplasmic-binding component of ABC-type methionine uptake transporter system and its ...
 25-255 1.08e-91

The periplasmic-binding component of ABC-type methionine uptake transporter system and its related lipoproteins; the type 2 periplasmic-binding protein fold; This family represents the periplasmic substrate-binding domain of ATP-binding cassette (ABC) transporter involved in uptake of methionine (MetQ) and its related homologs. Members of the MetQ-like family include the 32-kilodalton lipoprotein (Tp32) from Treponema pallidum, the membrane-associated lipoprotein-9 GmpC from Staphylococcus aureus, and Toll-like receptor 2-activating lipoprotein IlpA from Vibrio vulnificus. They all function as a receptor for methionine. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.


Pssm-ID: 270244  Cd Length: 228  Bit Score: 270.72  E-value: 1.08e-91
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  25 KVTIGVASN-DTKAWEKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHkGTKISALSTTVL 103
Cdd:cd13526    1 KLKIGVTAGpSADVVEAAKKEAKKKGYELELVVFTDYVAPNEALNDGSIDANFFQHVPFLDQFNKER-NGDLVKVGKTVI 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 104 APLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKDITSNPKHLKITAVDAQQTARAL 183
Cdd:cd13526   80 APIGLYSKKYKSLDELPDGARIAIPNDPSNGARALLLLEDAGLIKLKDGVGLFATVLDITENPKNLEIVEVDAAQLPRSL 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446748265 184 SDVDIAVINNGVATKAGKDPKNDPIFLEKSNSdavKPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE 255
Cdd:cd13526  160 DDVDAAVINGNYAISAGLDPRKDAIFLEDSDA---SPYVNVLAVREDNKDDPWVKALVEAYQSEEVRKFLKE 228
Lipoprotein_9 pfam03180
NlpA lipoprotein; This entry represents bacterial lipoproteins that belong to the NlpA family. ...
 26-264 4.19e-89

NlpA lipoprotein; This entry represents bacterial lipoproteins that belong to the NlpA family. It contains several antigenic members, that may be involved in bacterial virulence. This entry includes the D-methionine binding lipoprotein MetQ, which is the substrate-binding component of a D-methionine permease, a binding protein-dependent, ATP-driven transport system. Other members of this family, such as NlpA, have been identified as putative substrate-binding components of ABC transporters. NlpA, is an inner-membrane-anchored lipoprotein that has been shown to have a minor role in methionine import.


Pssm-ID: 427184  Cd Length: 236  Bit Score: 264.51  E-value: 4.19e-89
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   26 VTIGVASNDTKAW-EKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHkGTKISALSTTVLA 104
Cdd:pfam03180   1 LKVGATPGPHAEIlEVAKPLLKKKGLDLEIVEFTDYVQPNTALADGEIDANYFQHLPYLDQFNKEK-GLDLVAVGNVHIE 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  105 PLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKDITSNPKHLKITAVDAQQTARALS 184
Cdd:pfam03180  80 PMGLYSKKYKSLSELPDGATIAVPNDPSNEGRALLLLQKAGLIKLKDGKGLLATVKDITENPKNLKIKELEAAQLPRALD 159

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  185 DVDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQEDVKDGEKPV 264
Cdd:pfam03180 160 DVDAAVINTNYALEAGLNPKKDALFEEDKDS----PYVNIIVVREDDKDDEAVKKLVEAYQSEEVKKFIEKKYGGAVIPA 235
PBP2_lipoprotein_IlpA_like cd13598
Toll-like receptor 2-activating lipoprotein IlpA from Vibrio vulnificus and similar ...
 25-255 4.33e-72

Toll-like receptor 2-activating lipoprotein IlpA from Vibrio vulnificus and similar lipoproteins; the type 2 periplasmic binding protein fold; This group includes the IlpA protein which has both structural and sequential homology to the MetQ family of substrate-binding protein, and thus 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.


Pssm-ID: 270316  Cd Length: 227  Bit Score: 221.07  E-value: 4.33e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  25 KVTIGVASN-DTKAWEKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHkGTKISALSTTVL 103
Cdd:cd13598    1 PIKVGVIRGpDAQIWEVVQKVAKEKGLDVELVTFNDYAQPNEALAAGDLDANAFQHKPYLDAQIKAR-GYKLVIVGNTFV 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 104 APLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKDITSNPKHLKITAVDAQQTARAL 183
Cdd:cd13598   80 YPIGLYSKKIKSLAELPNGATVAIPNDPSNEGRALLLLQKEGLIKLKDGVGLLATVRDIAENPKKLKIVELDAGQLPRAL 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446748265 184 SDVDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE 255
Cdd:cd13598  160 DDVDLAAINTDYASKAGLTPARDAIAQEDKRS----PYANVIAVREDDKDAPWVKTLVQAYQSEEVKAFALK 227
PBP2_lipoprotein_Tp32 cd13597
The substrate-binding domain of the 32-kilodalton lipoprotein (Tp32) from Treponema pallidum ...
 39-255 1.11e-64

The substrate-binding domain of the 32-kilodalton lipoprotein (Tp32) from Treponema pallidum binds L-methionine; the type 2 periplasmic-binding protein fold; This group includes the lipoprotein Tp32, a periplasmic component of a methionine uptake transporter system, and its closely related homologs. The Tp32 has both structural and sequential homology to the MetQ family of substrate-binding protein, and thus it 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. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.


Pssm-ID: 270315  Cd Length: 236  Bit Score: 202.51  E-value: 1.11e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  39 EKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHkGTKISALSTTVLAPLGIYSDKIKDVKK 118
Cdd:cd13597   16 EFIKPELKKQGIDLEIVEFTDYVQPNTALADGELDANYFQHVPYLESFNKEK-GYDLVAVAGVHLEPMGLYSKKYKSLED 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 119 VKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKDITSNPKHLKITAVDAQQTARALSDVDIAVINNGVATK 198
Cdd:cd13597   95 LPDGATIAIPNDPTNQGRALLLLEEAGLITLKDGAGLTATVKDIVKNPKNLKFKELEAAQLPRSLDDVDAAVINGNYALE 174

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 446748265 199 AGKDPKNDPIFLEKSNsdaVKPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE 255
Cdd:cd13597  175 AGLNPKKDALALEDKD---NSPYANILVVRKGNEDDPRIKKLAKALQSDEVKDFIEE 228
TIGR00363 TIGR00363
lipoprotein, YaeC family; This family of putative lipoproteins contains a consensus site for ...
 9-263 1.29e-53

lipoprotein, YaeC family; This family of putative lipoproteins contains a consensus site for lipoprotein signal sequence cleavage. Included in this family is the E. coli hypothetical protein yaeC. About half of the proteins between the noise and trusted cutoffs contain the consensus lipoprotein signature and may belong to this family. [Cell envelope, Other]


Pssm-ID: 129460  Cd Length: 258  Bit Score: 174.70  E-value: 1.29e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265    9 IVALVLLAACGGNND--KKVTIGVASNdtkAWEKVKELAKK-----DDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFA 81
Cdd:TIGR00363   1 LASALVLTGCKQDKKdpLHIKVGVISG---AEQQVAEVAAKvakekYGLDVELVEFNDYALPNEAVSKGDLDANAFQHKP 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   82 FLDQYKKAHkGTKISALSTTVLAPLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVKD 161
Cdd:TIGR00363  78 YLDQDAKAK-GYKLVAVGNTFVYPLAGYSKKIKNVNELQDGAKVAVPNDPTNLGRALLLLQKQGLIKLKDGNGLLPTVLD 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  162 ITSNPKHLKITAVDAQQTARALSD--VDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDKDLDNKTYAK 239
Cdd:TIGR00363 157 IVENPKKLNITELETSQLPRALDDpkVDLAVINTTYAGQVGLNPQDDGVFVEDKDS----PYVNIIVSREDNKDAENVKD 232

                         250       260
                  ....*....|....*....|....
gi 446748265  240 IVELYHSKEAQKALQEDVKDGEKP 263
Cdd:TIGR00363 233 FIQSYQSEEVYQAAQKHFNGGAVK 256
PRK09861 PRK09861
lipoprotein NlpA;
3-263 1.85e-51

lipoprotein NlpA;


Pssm-ID: 182119  Cd Length: 272  Bit Score: 169.82  E-value: 1.85e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   3 RLIGLVIVALVLLAAC--GGNNDKKVTIGVASNdtkAWEKVKELAKK-----DDIDVEIKHFSDYNLPNKALNDGDIDMN 75
Cdd:PRK09861   9 RAGAALLLAGILLAGCdqSSSDAKHIKVGVING---AEQDVAEVAKKvakekYGLDVELVGFSGSLLPNDATNHGELDAN 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  76 AFQHFAFLDQYKKAHkGTKISALSTTVLAPLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGL 155
Cdd:PRK09861  86 VFQHRPFLEQDNQAH-GYKLVAVGNTFVFPMAGYSKKIKTVAQIKEGATVAIPNDPTNLGRALLLLQKEKLITLKEGKGL 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 156 AGTVKDITSNPKHLKITAVDAQQTARALSD--VDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDKDLD 233
Cdd:PRK09861 165 LPTALDITDNPRHLQIMELEGAQLPRVLDDpkVDVAIISTTYIQQTGLSPVHDSVFIEDKNS----PYVNILVAREDNKN 240

                        250       260       270
                 ....*....|....*....|....*....|
gi 446748265 234 NKTYAKIVELYHSKEAQKALQEDVKDGEKP 263
Cdd:PRK09861 241 AENVKEFLQSYQSPEVAKAAETIFNGGAVP 270
metQ PRK11063
D-methionine ABC transporter substrate-binding protein MetQ;
5-260 9.71e-51

D-methionine ABC transporter substrate-binding protein MetQ;


Pssm-ID: 182939 [Multi-domain]  Cd Length: 271  Bit Score: 167.63  E-value: 9.71e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   5 IGLVIVALVLlAACGGN--NDKKVTIGV-ASNDTKAWEKVKELAK-KDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHF 80
Cdd:PRK11063  11 VGALIGTLAL-VGCGQDekDPNHIKVGViVGAEQQVAEVAQKVAKeKYGLDVELVTFNDYVLPNEALSKGDIDANAFQHK 89

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  81 AFLDQYKKaHKGTKISALSTTVLAPLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFGLAGTVK 160
Cdd:PRK11063  90 PYLDQQIK-DRGYKLVAVGNTFVYPIAGYSKKIKSLDELQDGSQVAVPNDPTNLGRSLLLLQKVGLIKLKDGVGLLPTVL 168

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 161 DITSNPKHLKITAVDAQQTARALSD--VDIAVINNGVATKAGKDPKNDPIFLEKSNSdavkPYINIVAVNDKDLDNKTYA 238
Cdd:PRK11063 169 DIVENPKNLKIVELEAPQLPRSLDDaqIALAVINTTYASQIGLTPAKDGIFVEDKDS----PYVNLIVAREDNKDAENVK 244

                        250       260
                 ....*....|....*....|..
gi 446748265 239 KIVELYHSKEAQKALQEDVKDG 260
Cdd:PRK11063 245 KFVQAYQSDEVYEAANKVFNGG 266
PBP2_lipoprotein_Gna1946 cd13599
The membrane-associated lipoprotein Gna1946 from Neisseria meningitidis; the type 2 ...
 25-255 1.34e-49

The membrane-associated lipoprotein Gna1946 from Neisseria meningitidis; the type 2 periplasmic binding protein fold; Gna1946 shares significant structural and sequence homology with the periplasmic substrate-binding domain of ATP-binding cassette (ABC) transporter involved in uptake of methionine (MetQ). The members of the MetQ-like family include the 32-kilodalton lipoprotein (Tp32) from Treponema pallidum, the membrane-associated lipoprotein-9 GmpC from Staphylococcus aureus, and Toll-like receptor 2-activating lipoprotein IlpA from Vibrio vulnificus. They all function as a receptor for methionine. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.


Pssm-ID: 270317  Cd Length: 228  Bit Score: 163.34  E-value: 1.34e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  25 KVTIGVASNDTKAW--EKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHkGTKISALSTTV 102
Cdd:cd13599    1 TIVIGFTPGPYGDMvkNGVAPYLEKKGYEVKLKEFTDYVQPNNALANGEIDANVFQHKPYLDAFNKEN-GLDLVGIVQVP 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 103 LAPLGIYSDKIKDVKKVKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFG-LAGTVKDITSNPKHLKITAVDAQQTAR 181
Cdd:cd13599   80 TPPMGLYSNKHKSLEEVKDGATVAIPNDPSNLARALVMLQDLGWITLKDNIDpLKASVNDIAENPKNIKIVELEAAQLPR 159

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446748265 182 ALSDVDIAVINNGVATKAGKDPKNdPIFLEKSNSdavkPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE 255
Cdd:cd13599  160 SLDDVDFAAIQGNFAISSGIKLTS-ALALEEMTD----PYVNVVAVKTADKDKQFAKDVTAAYNSDAFKAYIHA 228
PBP2_lipoprotein_like_1 cd13600
Putative periplasmic-binding component of ABC-type methionine uptake transporter system-like; ...
 39-255 1.94e-42

Putative periplasmic-binding component of ABC-type methionine uptake transporter system-like; the type 2 periplasmic binding protein fold; This subgroup shares significant sequence homology with the periplasmic substrate-binding domain of ATP-binding cassette (ABC) transporter involved in uptake of methionine (MetQ). The members of the MetQ-like family include the 32-kilodalton lipoprotein (Tp32) from Treponema pallidum, the membrane-associated lipoprotein-9 GmpC from Staphylococcus aureus, and Toll-like receptor 2-activating lipoprotein IlpA from Vibrio vulnificus. They all function as a receptor for methionine. This substrate-binding domain belongs to the type 2 periplasmic binding fold protein superfamily (PBP2). The PBP2 proteins are typically comprised of two globular subdomains connected by a flexible hinge and bind their ligand in the cleft between these domains in a manner resembling a Venus flytrap. The majority of PBP2 proteins function in the uptake of small soluble substrates in eubacteria and archaea.


Pssm-ID: 270318  Cd Length: 228  Bit Score: 145.17  E-value: 1.94e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  39 EKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQHFAFLDQYKKAHKGTKISALSTTVLApLGIYSDKIKDVKK 118
Cdd:cd13600   16 EYIAAELAPDGITIEPVQVSDYVQANRAVAAGEIDANFFQHQPFMEQFNEANGFELVAVQPIYHWA-FGFYSKKYKSVED 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 119 VKDGAKVVIPNDVSNQARALKLLEAAGLIKLKKDFG-LAGTVKDITSNPKHLKITAVDAQQTARALSDVDIAVINNGVAT 197
Cdd:cd13600   95 LPDGAKVAIPNDPANQARALLLLQRAGLITLKPGVDpTTATLADIVTNPKNLKFTEVDLLALPRALDDVDLAFGYPSYFD 174

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446748265 198 KAGKDPKNDPIFLEKsnsdAVKPYINIVAVNDKDLDNKTYAKIVELYHSKEAQKALQE 255
Cdd:cd13600  175 AAGLTPKDGILLEEP----DAKRFAIQLVAREDNKDSPKIKKLKEAFTDPRVRKFLET 228
TauA COG0715
ABC-type nitrate/sulfonate/bicarbonate transport system, periplasmic component [Inorganic ion ...
 7-273 9.16e-05

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


Pssm-ID: 440479 [Multi-domain]  Cd Length: 297  Bit Score: 43.07  E-value: 9.16e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   7 LVIVALVLLAACGGNND----KKVTIGVASNDTKA---WEKVKELAKKDDIDVEIKHFSDYNLPNKALNDGDIDMNAFQH 79
Cdd:COG0715    1 LAALAALALAACSAAAAaaekVTLRLGWLPNTDHAplyVAKEKGYFKKEGLDVELVEFAGGAAALEALAAGQADFGVAGA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265  80 FAFLDQYkkaHKGTKISALSTTVLA-PLGIYSDKIKDVKKVK--DGAKVVIPNDVSNQARALKLLEAAGLiklkkdfgla 156
Cdd:COG0715   81 PPALAAR---AKGAPVKAVAALSQSgGNALVVRKDSGIKSLAdlKGKKVAVPGGSTSHYLLRALLAKAGL---------- 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265 157 gtvkditsNPKHLKITAVDAQQTARALS--DVDIAVINNGVATKAGKDPKNDPIFlekSNSDAVKP-YINIVAVNDKDLD 233
Cdd:COG0715  148 --------DPKDVEIVNLPPPDAVAALLagQVDAAVVWEPFESQAEKKGGGRVLA---DSADLVPGyPGDVLVASEDFLE 216

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*.
gi 446748265 234 NK--TYAKIVELYhsKEAQKALQED----VKDGEKPVNLSKDEIKA 273
Cdd:COG0715  217 ENpeAVKAFLRAL--LKAWAWAAANpdeaAAILAKATGLDPEVLAA 260
MalE COG2182
Maltose-binding periplasmic protein MalE [Carbohydrate transport and metabolism];
1-71 4.73e-03

Maltose-binding periplasmic protein MalE [Carbohydrate transport and metabolism];


Pssm-ID: 441785 [Multi-domain]  Cd Length: 410  Bit Score: 38.01  E-value: 4.73e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446748265   1 MKR----LIGLVIVALVLLAACGGNND-----------KKVTIGVASNDTKAWEKV-KELAKKDDIDVEIKHFSDYNLPN 64
Cdd:COG2182    1 MKRrllaALALALALALALAACGSGSSssgsssaagagGTLTVWVDDDEAEALEEAaAAFEEEPGIKVKVVEVPWDDLRE 80


                 ....*..
gi 446748265  65 KALNDGD 71
Cdd:COG2182   81 KLTTAAP 87
 
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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