NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|564727951|gb|ETD27929|]
View 

hypothetical protein HMPREF2087_00853 [Helicobacter canis NCTC 12740]

Protein Classification

ABC transporter permease( domain architecture ID 11468042)

ABC transporter permease is the transmembrane subunit (TM) found in periplasmic binding protein (PBP)-dependent ATP-binding cassette (ABC) transporters which generally bind type 2 PBPs; similar to microcin C transport system permease protein YejE

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
YejE super family cl34743
ABC-type microcin C transport system, permease component YejE [Secondary metabolites ...
 14-343 3.89e-137

ABC-type microcin C transport system, permease component YejE [Secondary metabolites biosynthesis, transport and catabolism];


The actual alignment was detected with superfamily member COG4239:

Pssm-ID: 443381 [Multi-domain]  Cd Length: 342  Bit Score: 393.36  E-value: 3.89e-137
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  14 LWKNRWKIFATNSRARISLYLFATLCALALLAPLLANHKPLLIYYDGHFYFPLWQSYPESTFGGDFYTEPDYNDPYVKEL 93
Cdd:COG4239    7 LNRRRWRRFKANRRGYWSLWIFLVLFVLSLFAELIANDKPLLVSYDGELYFPVLKDYPETTFGGDFETEADYRDPFVQEL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  94 LR-DSFVLRAPIPYSYDTIVLDLHTPAPTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQG 172
Cdd:COG4239   87 IEaKGWALWPPIPYSYDTINYDLPSPAPSPPSAENWLGTDDQGRDVLARLIYGFRISVLFGLALTVISSVIGVAAGAVQG 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 173 YYGGLIDLIGQRGIEVYASIPLLFLLIILSSFITPSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDM 252
Cdd:COG4239  167 YFGGRVDLLFQRFIEIWSSMPELYLLIILSSIFQPSFWLLLGILLLFGWMGLVGVVRAEFLRARNLEYVRAARALGVSDR 246

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 253 RIVFAHILPNACIATIAYVPFLMVGSIGTLVTLDFLGFGMPVGSASLGELLEQGKNNLASPHLALSGFSAVALLLSLLCF 332
Cdd:COG4239  247 RIMFRHILPNAMVATLTFLPFILSGAITTLTSLDFLGFGLPPGSPSLGELLAQGKNNLQAPWLGLSAFVVLALMLSLLVF 326

                        330
                 ....*....|.
gi 564727951 333 IGEGVRDALNP 343
Cdd:COG4239  327 IGEAVRDAFDP 337
 
Name Accession Description Interval E-value
YejE COG4239
ABC-type microcin C transport system, permease component YejE [Secondary metabolites ...
 14-343 3.89e-137

ABC-type microcin C transport system, permease component YejE [Secondary metabolites biosynthesis, transport and catabolism];


Pssm-ID: 443381 [Multi-domain]  Cd Length: 342  Bit Score: 393.36  E-value: 3.89e-137
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  14 LWKNRWKIFATNSRARISLYLFATLCALALLAPLLANHKPLLIYYDGHFYFPLWQSYPESTFGGDFYTEPDYNDPYVKEL 93
Cdd:COG4239    7 LNRRRWRRFKANRRGYWSLWIFLVLFVLSLFAELIANDKPLLVSYDGELYFPVLKDYPETTFGGDFETEADYRDPFVQEL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  94 LR-DSFVLRAPIPYSYDTIVLDLHTPAPTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQG 172
Cdd:COG4239   87 IEaKGWALWPPIPYSYDTINYDLPSPAPSPPSAENWLGTDDQGRDVLARLIYGFRISVLFGLALTVISSVIGVAAGAVQG 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 173 YYGGLIDLIGQRGIEVYASIPLLFLLIILSSFITPSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDM 252
Cdd:COG4239  167 YFGGRVDLLFQRFIEIWSSMPELYLLIILSSIFQPSFWLLLGILLLFGWMGLVGVVRAEFLRARNLEYVRAARALGVSDR 246

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 253 RIVFAHILPNACIATIAYVPFLMVGSIGTLVTLDFLGFGMPVGSASLGELLEQGKNNLASPHLALSGFSAVALLLSLLCF 332
Cdd:COG4239  247 RIMFRHILPNAMVATLTFLPFILSGAITTLTSLDFLGFGLPPGSPSLGELLAQGKNNLQAPWLGLSAFVVLALMLSLLVF 326

                        330
                 ....*....|.
gi 564727951 333 IGEGVRDALNP 343
Cdd:COG4239  327 IGEAVRDAFDP 337
PRK15021 PRK15021
microcin C ABC transporter permease; Provisional
 18-344 3.88e-103

microcin C ABC transporter permease; Provisional


Pssm-ID: 184982 [Multi-domain]  Cd Length: 341  Bit Score: 306.91  E-value: 3.88e-103
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  18 RWKIFATNSRARISLYLFATLCALALLAPLLANHKPLLIYYDGHFYFPLWQSYPESTFGGDFYTEPDYNDPYVKELLRD- 96
Cdd:PRK15021  11 RWARFRHNRRGYWSLWIFLVLFGLSLCSELIANDKPLLVRYDGSWYFPLLKNYSESDFGGPLASQADYQDPWLKQRLENn 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  97 SFVLRAPIPYSYDTIVLDLHTPAPTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGG 176
Cdd:PRK15021  91 GWVLWAPIRFGATSINFATDKPFPSPPSRQNWLGTDANGGDVLARILYGTRISVLFGLMLTLCSSVMGVLAGALQGYYGG 170

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 177 LIDLIGQRGIEVYASIPLLFLLIILSSFITPSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVF 256
Cdd:PRK15021 171 KVDLWGQRFIEVWSGMPTLFLIILLSSVVQPNFWWLLAITVLFGWMSLVGVVRAEFLRTRNFDYIRAAQALGVSDRSIIL 250

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 257 AHILPNACIATIAYVPFLMVGSIGTLVTLDFLGFGMPVGSASLGELLEQGKNNLASPHLALSGFSAVALLLSLLCFIGEG 336
Cdd:PRK15021 251 RHMLPNAMVATLTFLPFILCSSITTLTSLDFLGFGLPLGSPSLGELLLQGKNNLQAPWLGITAFLSVAILLSLLIFIGEA 330


                 ....*...
gi 564727951 337 VRDALNPS 344
Cdd:PRK15021 331 VRDAFDPN 338
nickel_nikC TIGR02790
nickel ABC transporter, permease subunit NikC; This family consists of the NikC family of ...
 100-341 1.09e-20

nickel ABC transporter, permease subunit NikC; This family consists of the NikC family of nickel ABC transporter permeases. Operons that contain this protein also contain a homologous permease subunit NikB. Nickel is used in cells as part of urease or certain hydrogenases or superoxide dismutases. [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 131837 [Multi-domain]  Cd Length: 258  Bit Score: 89.75  E-value: 1.09e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  100 LRAPIPYSYDTIVLDLHTPApTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGGLID 179
Cdd:TIGR02790  16 IFAPWIAPHDPLAQNLPMRL-LGPSMEYWLGTDHLGRCIFSRLIFGARVSLGSALLVLGLVLTIGLLIGGLAGYIGGRVD 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  180 LIGQRGIEVYASIPLLFLLIILSSFITPSFWWILgIVLAFS-WIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVFAH 258
Cdd:TIGR02790  95 EAIMRVCDVFLSFPTIILSLAIVGILGPGLENVI-IAIVLVhWAWYARMVRGMVVSLKQREFVLAARTSGASHWQIIRRH 173

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  259 ILPNaCIATIAYVPFLMVGSIGTLV-TLDFLGFGMPVGSASLGELLEQGKNNLAS-PHLALsgFSAVALLLSLLCF--IG 334
Cdd:TIGR02790 174 ILPN-ILSPIIVLATLDIGHVILHIaGLSFLGLGIQPPTPEWGAMLSEAKQYIWTqPLLMI--YPGLAILISVMAFnlLG 250


                  ....*..
gi 564727951  335 EGVRDAL 341
Cdd:TIGR02790 251 DALRDHL 257
BPD_transp_1 pfam00528
Binding-protein-dependent transport system inner membrane component; The alignments cover the ...
 208-345 4.79e-12

Binding-protein-dependent transport system inner membrane component; The alignments cover the most conserved region of the proteins, which is thought to be located in a cytoplasmic loop between two transmembrane domains. The members of this family have a variable number of transmembrane helices.


Pssm-ID: 334128 [Multi-domain]  Cd Length: 183  Bit Score: 63.86  E-value: 4.79e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  208 SFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVFAHILPNACIATIAYVPFLMVGSIGTLVTLDF 287
Cdd:pfam00528  50 HGILPAIILALLGWAGYARLIRRAALRSLPSDLVEAARALGASRWQIFRKIILPNALPPILTGLALAFGGALGGAVLLEF 129

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 564727951  288 LGFGMPVGSASLGELLEQGKNNLASPHLALSGFSAVAlllsllCFIGEGVRDALNPSV 345
Cdd:pfam00528 130 LGSWPGLGLLLIEAILGYDYPEIQGPVLAAALILLLL------NLLVDILQRLLDPRV 181
TM_PBP2 cd06261
Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding ...
 207-291 1.56e-10

Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others.


Pssm-ID: 119394 [Multi-domain]  Cd Length: 190  Bit Score: 59.60  E-value: 1.56e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 207 PSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVFAHILPNACIATIAYVPFLMVGSIGTLVTLD 286
Cdd:cd06261   70 PGLGLPALILALLLIAPFARLIRRAALESIPKDLVEAARALGASPWQIFRRIILPLALPPILTGLVLAFARALGEFALVS 149


                 ....*
gi 564727951 287 FLGFG 291
Cdd:cd06261  150 FLGGG 154
 
Name Accession Description Interval E-value
YejE COG4239
ABC-type microcin C transport system, permease component YejE [Secondary metabolites ...
 14-343 3.89e-137

ABC-type microcin C transport system, permease component YejE [Secondary metabolites biosynthesis, transport and catabolism];


Pssm-ID: 443381 [Multi-domain]  Cd Length: 342  Bit Score: 393.36  E-value: 3.89e-137
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  14 LWKNRWKIFATNSRARISLYLFATLCALALLAPLLANHKPLLIYYDGHFYFPLWQSYPESTFGGDFYTEPDYNDPYVKEL 93
Cdd:COG4239    7 LNRRRWRRFKANRRGYWSLWIFLVLFVLSLFAELIANDKPLLVSYDGELYFPVLKDYPETTFGGDFETEADYRDPFVQEL 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  94 LR-DSFVLRAPIPYSYDTIVLDLHTPAPTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQG 172
Cdd:COG4239   87 IEaKGWALWPPIPYSYDTINYDLPSPAPSPPSAENWLGTDDQGRDVLARLIYGFRISVLFGLALTVISSVIGVAAGAVQG 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 173 YYGGLIDLIGQRGIEVYASIPLLFLLIILSSFITPSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDM 252
Cdd:COG4239  167 YFGGRVDLLFQRFIEIWSSMPELYLLIILSSIFQPSFWLLLGILLLFGWMGLVGVVRAEFLRARNLEYVRAARALGVSDR 246

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 253 RIVFAHILPNACIATIAYVPFLMVGSIGTLVTLDFLGFGMPVGSASLGELLEQGKNNLASPHLALSGFSAVALLLSLLCF 332
Cdd:COG4239  247 RIMFRHILPNAMVATLTFLPFILSGAITTLTSLDFLGFGLPPGSPSLGELLAQGKNNLQAPWLGLSAFVVLALMLSLLVF 326

                        330
                 ....*....|.
gi 564727951 333 IGEGVRDALNP 343
Cdd:COG4239  327 IGEAVRDAFDP 337
PRK15021 PRK15021
microcin C ABC transporter permease; Provisional
 18-344 3.88e-103

microcin C ABC transporter permease; Provisional


Pssm-ID: 184982 [Multi-domain]  Cd Length: 341  Bit Score: 306.91  E-value: 3.88e-103
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  18 RWKIFATNSRARISLYLFATLCALALLAPLLANHKPLLIYYDGHFYFPLWQSYPESTFGGDFYTEPDYNDPYVKELLRD- 96
Cdd:PRK15021  11 RWARFRHNRRGYWSLWIFLVLFGLSLCSELIANDKPLLVRYDGSWYFPLLKNYSESDFGGPLASQADYQDPWLKQRLENn 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  97 SFVLRAPIPYSYDTIVLDLHTPAPTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGG 176
Cdd:PRK15021  91 GWVLWAPIRFGATSINFATDKPFPSPPSRQNWLGTDANGGDVLARILYGTRISVLFGLMLTLCSSVMGVLAGALQGYYGG 170

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 177 LIDLIGQRGIEVYASIPLLFLLIILSSFITPSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVF 256
Cdd:PRK15021 171 KVDLWGQRFIEVWSGMPTLFLIILLSSVVQPNFWWLLAITVLFGWMSLVGVVRAEFLRTRNFDYIRAAQALGVSDRSIIL 250

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 257 AHILPNACIATIAYVPFLMVGSIGTLVTLDFLGFGMPVGSASLGELLEQGKNNLASPHLALSGFSAVALLLSLLCFIGEG 336
Cdd:PRK15021 251 RHMLPNAMVATLTFLPFILCSSITTLTSLDFLGFGLPLGSPSLGELLLQGKNNLQAPWLGITAFLSVAILLSLLIFIGEA 330


                 ....*...
gi 564727951 337 VRDALNPS 344
Cdd:PRK15021 331 VRDAFDPN 338
DppC COG1173
ABC-type dipeptide/oligopeptide/nickel transport system, permease component [Amino acid ...
 98-342 5.81e-42

ABC-type dipeptide/oligopeptide/nickel transport system, permease component [Amino acid transport and metabolism, Inorganic ion transport and metabolism];


Pssm-ID: 440786 [Multi-domain]  Cd Length: 275  Bit Score: 147.18  E-value: 5.81e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  98 FVLRAPIPYSYDTIVLDLhTPAPTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGGL 177
Cdd:COG1173   31 LALFAPLLAPYDPTAQDL-AARLQPPSAAHWLGTDQLGRDVLSRLLYGARISLLVGLLAVLIALVIGVLLGLLAGYFGGW 109

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 178 IDLIGQRGIEV-YASipllflliilssfitPSF-------------WWILGIVLAFSWIPLSA-IVRAEFLKVRESVYVK 242
Cdd:COG1173  110 VDAVLMRLVDVlLAF---------------PSLllaialvavlgpgLLNVILALGLTGWPGYArLVRAQVLSLREREYVE 174

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 243 AARALGASDMRIVFAHILPNACIATIAYVPFLMVGSIGTLVTLDFLGFGMPVGSASLGELLEQGKNNLAS-PHLALsgFS 321
Cdd:COG1173  175 AARALGASPLRIIFRHILPNVLPPLIVQATLGIASAILAEAGLSFLGLGVQPPTPSWGTMLSEGRNYLLTaPWLAL--FP 252

                        250       260
                 ....*....|....*....|...
gi 564727951 322 AVALLLSLLCF--IGEGVRDALN 342
Cdd:COG1173  253 GLAIVLTVLAFnlLGDGLRDALD 275
nickel_nikC TIGR02790
nickel ABC transporter, permease subunit NikC; This family consists of the NikC family of ...
 100-341 1.09e-20

nickel ABC transporter, permease subunit NikC; This family consists of the NikC family of nickel ABC transporter permeases. Operons that contain this protein also contain a homologous permease subunit NikB. Nickel is used in cells as part of urease or certain hydrogenases or superoxide dismutases. [Transport and binding proteins, Cations and iron carrying compounds]


Pssm-ID: 131837 [Multi-domain]  Cd Length: 258  Bit Score: 89.75  E-value: 1.09e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  100 LRAPIPYSYDTIVLDLHTPApTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGGLID 179
Cdd:TIGR02790  16 IFAPWIAPHDPLAQNLPMRL-LGPSMEYWLGTDHLGRCIFSRLIFGARVSLGSALLVLGLVLTIGLLIGGLAGYIGGRVD 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  180 LIGQRGIEVYASIPLLFLLIILSSFITPSFWWILgIVLAFS-WIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVFAH 258
Cdd:TIGR02790  95 EAIMRVCDVFLSFPTIILSLAIVGILGPGLENVI-IAIVLVhWAWYARMVRGMVVSLKQREFVLAARTSGASHWQIIRRH 173

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  259 ILPNaCIATIAYVPFLMVGSIGTLV-TLDFLGFGMPVGSASLGELLEQGKNNLAS-PHLALsgFSAVALLLSLLCF--IG 334
Cdd:TIGR02790 174 ILPN-ILSPIIVLATLDIGHVILHIaGLSFLGLGIQPPTPEWGAMLSEAKQYIWTqPLLMI--YPGLAILISVMAFnlLG 250


                  ....*..
gi 564727951  335 EGVRDAL 341
Cdd:TIGR02790 251 DALRDHL 257
PRK15406 PRK15406
oligopeptide ABC transporter permease OppC; Provisional
 98-343 1.30e-18

oligopeptide ABC transporter permease OppC; Provisional


Pssm-ID: 185304 [Multi-domain]  Cd Length: 302  Bit Score: 84.89  E-value: 1.30e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  98 FVLRAPI--PYSYDTIVLDLHTPAPTPpSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYG 175
Cdd:PRK15406  52 FVILAPMlsQFAYDDTDWGMMSSAPDM-ESGHYFGTDSSGRDLLVRVAIGGRISLMVGVAAALVAVVVGTLYGSLSGYLG 130

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 176 GLIDLIGQRGIEVYASIPLLFLLIILSSFITPSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDMRIV 255
Cdd:PRK15406 131 GKVDSVMMRLLEILNSFPFMFFVILLVTFFGQNILLIFVAIGMVSWLDMARIVRGQTLSLKRKEFIEAAQVGGVSTRGIV 210

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 256 FAHILPNACIATIAYVPFLMVGSIGTLVTLDFLGFGMPVGSASLGELLEQGKNNL-ASPHLALsgFSAVALLLSLLC--F 332
Cdd:PRK15406 211 LRHIVPNVLGVVVVYASLLVPSMILFESFLSFLGLGTQEPLSSWGALLSDGANSMeVSPWLLL--FPAGFLVVTLFCfnF 288

                        250
                 ....*....|.
gi 564727951 333 IGEGVRDALNP 343
Cdd:PRK15406 289 IGDGLRDALDP 299
PRK09881 PRK09881
D,D-dipeptide ABC transporter permease;
99-343 2.53e-18

D,D-dipeptide ABC transporter permease;


Pssm-ID: 182131 [Multi-domain]  Cd Length: 296  Bit Score: 84.10  E-value: 2.53e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  99 VLRAPIPYSYDTIVLDLhTPAPTPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGGLI 178
Cdd:PRK09881  47 MIFSPWLATHDPNAIDL-TARLLPPSAAHWFGTDEVGRDLFSRVLVGSQQSILAGLVVVAIAGMIGSLLGCLSGVLGGRA 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 179 DLIGQRGIEVYASIPLLFLLIILSSFITPSFWWILgIVLAFSWIPLSA-IVRAEFLKVRESVYVKAARALGASDMRIVFA 257
Cdd:PRK09881 126 DAIIMRIMDIMLSIPSLVLTMALAAALGPSLFNAM-LAIAIVRIPFYVrLARGQALVVRQYTYVQAAKTFGASRWHLISW 204

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 258 HILPNACIATIAYVPFLMVGSIGTLVTLDFLGFGMPVGSASLGELLEQGKNNL-------ASPHLALSgFSAVALLlsll 330
Cdd:PRK09881 205 HILRNSLPPLIVQASLDIGSAILMAATLGFIGLGAQQPSAEWGAMVANGRNYVldqwwycAFPGAAIL-LTAVGFN---- 279

                        250
                 ....*....|...
gi 564727951 331 cFIGEGVRDALNP 343
Cdd:PRK09881 280 -LFGDGIRDLLDP 291
PRK15082 PRK15082
glutathione ABC transporter permease GsiD; Provisional
 121-345 1.44e-16

glutathione ABC transporter permease GsiD; Provisional


Pssm-ID: 185040 [Multi-domain]  Cd Length: 301  Bit Score: 79.00  E-value: 1.44e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 121 TPPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGGLIDLIGQRGIEVYASIPLLFLLII 200
Cdd:PRK15082  74 AGPSLQHWFGVDSLGRDIFSRILVGARISLAAGFFSVAIGAAIGTVLGLLAGYYEGWWDRIIMRICDVLFAFPGILLAIA 153

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 201 LSSFITPSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVFAHILPNACIATIAYVPFLMVGSIG 280
Cdd:PRK15082 154 VVAILGSGMANVIIAVAIFSIPAFARLVRGNTLVLKQQTYIESARSIGASDWTILLRHILPGTVSSIVVYFTMRIGTSII 233

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 564727951 281 TLVTLDFLGFGMPVGSASLGELLEQGKNNL-ASPHLALsgFSAVALLLSLLCF--IGEGVRDALNPSV 345
Cdd:PRK15082 234 TAASLSFLGLGAQPPTPEWGAMLNEARADMvIAPHVAL--FPSLAIFLTVLAFnlLGDGLRDALDPKI 299
BPD_transp_1 pfam00528
Binding-protein-dependent transport system inner membrane component; The alignments cover the ...
 208-345 4.79e-12

Binding-protein-dependent transport system inner membrane component; The alignments cover the most conserved region of the proteins, which is thought to be located in a cytoplasmic loop between two transmembrane domains. The members of this family have a variable number of transmembrane helices.


Pssm-ID: 334128 [Multi-domain]  Cd Length: 183  Bit Score: 63.86  E-value: 4.79e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951  208 SFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVFAHILPNACIATIAYVPFLMVGSIGTLVTLDF 287
Cdd:pfam00528  50 HGILPAIILALLGWAGYARLIRRAALRSLPSDLVEAARALGASRWQIFRKIILPNALPPILTGLALAFGGALGGAVLLEF 129

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 564727951  288 LGFGMPVGSASLGELLEQGKNNLASPHLALSGFSAVAlllsllCFIGEGVRDALNPSV 345
Cdd:pfam00528 130 LGSWPGLGLLLIEAILGYDYPEIQGPVLAAALILLLL------NLLVDILQRLLDPRV 181
PRK10913 PRK10913
dipeptide ABC transporter permease DppC;
112-343 1.25e-11

dipeptide ABC transporter permease DppC;


Pssm-ID: 182833 [Multi-domain]  Cd Length: 300  Bit Score: 64.42  E-value: 1.25e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 112 VLDLHTPAP-------TPP------SSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGGLI 178
Cdd:PRK10913  51 WIAPHNPAEqfrdallAPPvwqeggSWAHILGTDDVGRDVLSRLMYGARLSLLVGCLVVVLSLVMGVILGLIAGYFGGLV 130

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 179 DLIGQRGIEVYASIPLLFLLIILSSFITPSfwwILGIVLAFSWIPLSAIVRAEFLKVRESV---YVKAARALGASDMRIV 255
Cdd:PRK10913 131 DNIIMRVVDIMLALPSLLLALVLVAIFGPS---IVNAALALTFVALPHYVRLTRAAVLVEVnrdYVTASRVAGAGAMRQM 207

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 256 FAHILPNaCIAtiayvPFLMVGSIG------TLVTLDFLGFGMPVGSASLGELLEQGKNNLASPHLALSgFSAVALLLSL 329
Cdd:PRK10913 208 FINILPN-CLA-----PLIVQASLGfsnailDMAALGFLGMGAQPPTPEWGTMLSDVLQFAQSAWWVVT-FPGLAILLTV 280

                        250
                 ....*....|....*.
gi 564727951 330 LCF--IGEGVRDALNP 343
Cdd:PRK10913 281 LAFnlMGDGLRDALDP 296
TM_PBP2 cd06261
Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding ...
 207-291 1.56e-10

Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and are mainly involved in importing solutes from the environment. The solute is captured by the PBP which delivers it to a gated translocation pathway formed by the two TMs. The two ABCs bind and hydrolyze ATP and drive the transport reaction. For these transporters the ABCs and TMs are on independent polypeptide chains. These systems transport a diverse range of substrates. Most are specific for a single substrate or a group of related substrates; however some transporters are more promiscuous, transporting structurally diverse substrates such as the histidine/lysine and arginine transporter in Enterobacteriaceae. In the latter case, this is achieved through binding different PBPs with different specificities to the TMs. For other promiscuous transporters such as the multiple-sugar transporter Msm of Streptococcus mutans, the PBP has a wide substrate specificity. These transporters include the maltose-maltodextrin, phosphate and sulfate transporters, among others.


Pssm-ID: 119394 [Multi-domain]  Cd Length: 190  Bit Score: 59.60  E-value: 1.56e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 207 PSFWWILGIVLAFSWIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVFAHILPNACIATIAYVPFLMVGSIGTLVTLD 286
Cdd:cd06261   70 PGLGLPALILALLLIAPFARLIRRAALESIPKDLVEAARALGASPWQIFRRIILPLALPPILTGLVLAFARALGEFALVS 149


                 ....*
gi 564727951 287 FLGFG 291
Cdd:cd06261  150 FLGGG 154
nikC PRK10417
nickel transporter permease NikC; Provisional
 122-345 2.15e-10

nickel transporter permease NikC; Provisional


Pssm-ID: 236687 [Multi-domain]  Cd Length: 272  Bit Score: 60.45  E-value: 2.15e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 122 PPSSKHWLGTDDQARDVLARLLYGLGISIAFGLILSACSVVIGIGIGGLQGYYGGLIDLIGQRGIEVYASIPLLFLliil 201
Cdd:PRK10417  42 SPDAQHWLGTDHLGRDIFSRLMAGTRVSLGSVMACLLLVLALGLVIGGSAGLLGGRVDQATMRVADMFMTFPTSIL---- 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 202 ssfitpSFWWI--LG-------IVLAFS-WIPLSAIVRAEFLKVRESVYVKAARALGASDMRIVFAHILPnACIATIAYV 271
Cdd:PRK10417 118 ------AFFMVgvLGtgltnviIAIALShWAWYARMVRSLVISLRQREFVLAARLSGAGHVRVFIDHLLP-AVIPQLLVL 190

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 272 PFLMVGSIGTLVT-LDFLGFGMPVGSASLGELLEQGKNNLAS-------PHLALsgFSAVALLLSllcfIGEGVRDALNP 343
Cdd:PRK10417 191 ATLDIGHMMLHVAgLSFLGLGVTAPTAEWGVMINDARQYIWTqpllmfwPGLAL--FISVMAFNL----LGDALRDHLDP 264


                 ..
gi 564727951 344 SV 345
Cdd:PRK10417 265 HL 266
DppB COG0601
ABC-type dipeptide/oligopeptide/nickel transport system, permease component [Amino acid ...
 215-279 3.22e-07

ABC-type dipeptide/oligopeptide/nickel transport system, permease component [Amino acid transport and metabolism, Inorganic ion transport and metabolism];


Pssm-ID: 440366 [Multi-domain]  Cd Length: 314  Bit Score: 51.22  E-value: 3.22e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564727951 215 IVLAFSWIPLSA-IVRAEFLKVRESVYVKAARALGASDMRIVFAHILPNACIATIAYV----PFLMVGSI 279
Cdd:COG0601  186 LTLALGSLAGIArLTRSSMLEVLGQDYVRTARAKGLSERRVLLRHALRNALIPVVTVLglqlGGLLGGAV 255
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH