Conserved Protein Domain Family
ABC_NikE_OppD_transporters

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cd03257: ABC_NikE_OppD_transporters 
ATP-binding cassette domain of nickel/oligopeptides specific transporters
The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.
Statistics
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PSSM-Id: 213224
View PSSM: cd03257
Aligned: 93 rows
Threshold Bit Score: 204.662
Threshold Setting Gi: 34557529
Created: 19-Jan-2005
Updated: 17-Jan-2013
Structure
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Aligned Rows:
  next features
Feature 1:ATP binding site [chemical binding site]
Evidence:
  • Comment:Walker A, Walker B, Q-loop, D-loop, and H-loop form the nucleotide binding site

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                    ## ###                             
gi 34395958   3 LLNISGLSHHYahggfngkhqhqavLNNVSLTLKSGETVALLGRSGCGKSTLARLLvgl----espAQGNISWRGeplak 78
gi 19704969   4 VLSIKNLNKTFesg---------fkLKDINFDIKEGEVVSLIGESGSGKTSISKIIval-----lkAKGQILFKGmdile 69
gi 15835092   5 LLKIENLVVAIkesn-------qrlVNHLSLTIKQRQSLALVGENGSGKTTVSKAIlgflpdncciQSGKIFYSGtditr 77
gi 33860752   8 ILEIRNLNVKYgpyq-------kstIKNFKLDLFKGDHLAIIGPSGCGKTTFAKTIvnmlp-egsiTQGFIKISGedltk 79
gi 32261963 303 ILQIHDLSISMasn---------nlVSHLNLSIKCGECVALLGKSGSGKSISALALqgflasnlsqTSGKIMLDDkvinp 373
gi 34557529 329 LLNLENITHHYgsf---------qaLQGLSLRLLHGEIYSLVGASGSGKSTLAWIAagv----lkpTQGRRTPKEgl--- 392
gi 34763374   3 ILKIKNLNLRIhek---------eiLKNISFEIEEGEIIGLIGESGSGKTIFTKYIlgilpiaahfTQESFEVVPk---- 69
gi 52424518   5 IIRFDNFSIENpdsd-------rplIAPLNLTLPPYRTLALVGESGSGKTLLGRSIlgllp-eqlnTTGNIYFQDkkiis 76
gi 32033790   3 LLRIENVGVKTttg--------ltlVEPISLSLEQGKNITILGETGSGKSLLIQAImgalp-egleASGQIFVENgkten 73
gi 27467978   1 MIQFDHVDYSYhrk--------qpvLKDINISIQRGEKIGVLGESGAGKSTIGSLIlgq----lkpTKGKISIDSg---- 64
                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                     #                                                 
gi 34395958  79 lnra-------------qrkafrrdIQMVFQDSiSAVNPRKTVREILREPMrhllslkkseqlaras--emlkavdldds 143
gi 19704969  70 np-----------------kkisgkIQMIFQSPySSLNPKYKIKDIILEGViyqkvlkkeenideyl-lnilnevgldke 131
gi 15835092  78 lsrk------------efqsirgkkISTIFQNAmGTLTPSMRVGTQIIETLrhhfvmskeeafakarellvsvhiespdr 145
gi 33860752  80 idkk------------qiqlfrrnnFGFIYQDSiKKLNPLMTVGDHLKELFkthfqnyppliikdlv-eenfrkvgidie 146
gi 32261963 374 s------------------fyrslaFSCIMQNPrTCFNPLLSIAHHFKETLkslhkpynqpfivq-----clqesgldkq 430
gi 34557529 393 ------------------------rIGMVYQNPlLALSPRLSILESLLEPLrlakippkeaedqafe-lakaaglkadlh 447
gi 34763374  70 -------------------------IGAIFQNAfTSLNPTVKIRKQLQHLYishygnkknwkekies-lledvgldkkkn 123
gi 52424518  77 vtgtptvddkqktneiatleirgkaVSFIMQNAiNAFDPLFSLQDQFCETLqkhtalsyrqalikaq--qsvskvklssa 154
gi 32033790  74 mql---------------eslwgrtLVMLPQEPrRSLDPIMTIGKQLWESFtfvakkdkqaakneg---kkalehlglka 135
gi 27467978  65 ------------------------kVLPIFQHAtESFDRQFTIEQSLREPLlfyrqlipqnikniil--nyliefnlstd 118
                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                       ##                                #             
gi 34395958 144 vldkRPPQLSGGQLQRVCLARALAVEPKLLILDEAVSNLDLVLQAGVIRLLKKLQqqfgtACLFITHDLRLVerFCQRVM 223
gi 19704969 132 vlnkYPHELSGGQRQRVAIARAVAVKPDLIIADEILTALDALTQIQILELFQKLKenkkiSYLFISHDINVVkkISDRLL 211
gi 15835092 146 clqlYPFELSGGMCQRVSIAIALATNPELIIADEPSTALDSISQAQVLRVLKQIHqnnntALLLITHNLALVseLCEEMA 225
gi 33860752 147 rldsFPHQFSGGMRQRVSIAMALALKPKILIADEPSTSLDSKTSFEVMNQILCLCeksgtTLVLISHDINLAakWCKKVV 226
gi 32261963 431 vldmYPFELSGGMLQRVMIALALLTQAPFLIADEPSSDLDKDIAFEILKTLRELQqqrglGILLITHDLRVVayMAQYVY 510
gi 34557529 448 llkrYPHELSLGTLQRACIARALANSPELLIADEPTSALDPSVQACVIKTLLELQverglSVLFITHHLALArkISDRIG 527
gi 34763374 124 fldkYPHELSGGEQQRIVIMGALIGEPNFLIADEVTTALDVETKIEIINFFKKLQkkfkiSILFITHDLSTLkdFADKIY 203
gi 52424518 155 llkrLPSQLSGGQLQRMMLALTFALEPELVIADEPTSALDSLTQFELLPLFKQMAke--rSMIFITHDLALVqeLADDIA 232
gi 32033790 136 wetaYPHQLSGGMAQRASFAVATAAGGKILLADEPTKGLDPKSKANVIQLLKQAYqq-qgGLLTITHDIDVAeqLGGEIL 214
gi 27467978 119 litkFPQEVSGGQLQRLNIIRSLLAQPDILVCDEITSNLDVMAEQNVINILLNEKniqnkTLIVISHDLSVLqrLTNRII 198
                       250
                ....*....|.
Feature 1                  
gi 34395958 224 VMDNGQIVETQ 234
gi 19704969 212 IIKDGEIIESG 222
gi 15835092 226 IIHHGEIVEQG 236
gi 33860752 227 IMDQGSIQEQG 237
gi 32261963 511 VMDKGKIIEEV 521
gi 34557529 528 LLHEGKLSYEG 538
gi 34763374 204 VMYHGEIIDEN 214
gi 52424518 233 VLKRGEIVEFR 243
gi 32033790 215 VMKKGQLLEKG 225
gi 27467978 199 VIKDGQIVDDF 209

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