3FK4,1TEL,1YKW,2OEM,2QYG,2ZVI


Conserved Protein Domain Family
RuBisCO_IV_RLP

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cd08205: RuBisCO_IV_RLP 
Click on image for an interactive view with Cn3D
Ribulose bisphosphate carboxylase like proteins, Rubisco-Form IV
Ribulose bisphosphate carboxylase (Rubisco) plays an important role in the Calvin reductive pentose phosphate pathway. It catalyzes the primary CO2 fixation step. Rubisco is activated by carbamylation of an active site lysine, stabilized by a divalent cation, which then catalyzes the proton abstraction from the substrate ribulose 1,5 bisphosphate (RuBP) and leads to the formation of two molecules of 3-phosphoglycerate. Members of the Rubisco family can be divided into 4 subgroups, Form I-IV, which differ in their taxonomic distribution and subunit composition. Form I-III have Rubisco activity, while Form IV, also called Rubisco-like proteins (RLP), are missing critical active site residues and therefore do not catalyze CO2 fixation. They are believed to utilize a related enzymatic mechanism, but have divergent functions, like for example 2,3-diketo-5-methylthiopentyl-1-phosphate enolase or 5-methylthio-d-ribulose 1-phosphate isomerase.
Statistics
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PSSM-Id: 173970
View PSSM: cd08205
Aligned: 59 rows
Threshold Bit Score: 323.716
Threshold Setting Gi: 217977428
Created: 4-Jan-2010
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 15 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:2OEM, Geobacillus kaustophilus 2,3-diketo-5-methylthiopentyl-1-phosphate enolase with bound Mg and 2,3- diketohexane-1-phosphate, contacts 4A
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                       
3FK4_A        4 IIATYLIhdds-----hnleKKAEQIALGLTIGswthlphllqeqlkQHKGNVIHVeelaehehtn--sylrkkvkrgII 76  Bacillus cereus ...
2OEM_A        4 VMATYLLhdet------dirKKAEGIALGLTIGtwtdlpaleqeqlrKHKGEVVAIeelgeservn--ayfgkrlkraIV 75  Geobacillus kaus...
O28685       32 IIGTYYMsfpkg----mnpfEITQVLALEQSTGtwlpvpgetpevrrKHVAKVVGVyeipdyeimv---pqevdwrnfIV 104 Archaeoglobus fu...
ZP_02088909  18 AVATYHIslpke----vdvlKKAAALAVGQTIGtwipipgiteeireKYMGKVVNVfdvpsldlat---qitgdqreyLI 90  Clostridium bolt...
ZP_02860861  25 IIATYAYqgktt----tnalKQSFALAVEQSTGtwlpvpeetpevrkEHVARVCGIyevpnhswci---pddtkerawII 97  Anaerofustis ste...
ZP_02863053  22 IVATYYMrgkgtnpmeldlaKFAESIAAEQATGtwidvpfetddiveRHAAKVIGIyetpaydrel---pdgiqyrdmIV 98  Anaerofustis ste...
ZP_03305351  18 IVASYYLrlekn----vdpyEKAKSFAIGQSLGtwvkvpgitdemrkKYMGKIVNIvevpasdlvd---dsileyrdyIF 90  Anaerococcus hyd...
ZP_03781627  24 VIATYQAkvkt-----snieKLAMAIADEQTTGtwikvsadsaektrRFGSKLVALyevpdigcd----yqsdeppmyII 94  Blautia hydrogen...
ZP_03890203   7 IRCTYYIeav-------dvaRAAAALAGEQSSGtfiavpgesdrireRHAAEVVAIrelgecapslpsrrrpervtaaEV 79  Geodermatophilus...
EES52277      7 IRATYTIssr-------dpeKACRLIAREMSVGikktgyessgsdsfEAHARIIDQgkr-----------------vaTI 62  Leptospirillum f...
Feature 1                              #                                                 # #    
3FK4_A       77 KIEYPLLNFsp-dlPAILTTTFGKlsl---dgEVKLIDLTFSDELkkhfpGPKFGIDGIRNLLQvhdRPLLMSIFKGmiG 152 Bacillus cereus ...
2OEM_A       76 KIAYPTVNFsa-dlPALLVTTFGKlsl---dgEVRLLDLEFPDEWkrqfpGPRFGIDGIRDRVGvhnRPLLMSIFKGmiG 151 Geobacillus kaus...
O28685      105 QIAFPWRNIgs-klSMLFSTVVGNism---apKLKLLDLRFPKEFvkgfkGPKFGIEGVRDVLGvkdRPLLNNMIKPdvY 180 Archaeoglobus fu...
ZP_02088909  91 QIAYPAVNFgt-dlPLLITALLGNdas--tsaQVKLLDIEFPEEFvrkfrGPRYGIEGIQKFAGisnRPILLNMIKPctG 167 Clostridium bolt...
ZP_02860861  98 QIGFPVANFsv-qfAMLLTATVGNisg---ggKLKLVDISFPKCWleafdGPKYGVEGVRELLGvkeRPLVNNMIKPccG 173 Anaerofustis ste...
ZP_02863053  99 RLAFPWENIgt-nfPMIFTTAIGNis----aaRLKLLDLEFPKEYtdhfqGPKFGIQGVRDILDipeRPLTCAMIKPdtG 173 Anaerofustis ste...
ZP_03305351  91 SIAYPFDNFgp-kfPMIMTTLLGNdas--tstQAKLIDIYMPKKFtdmfdGPNFGIEGLREVSGvkdRPILLNMIKPclG 167 Anaerococcus hyd...
ZP_03781627  95 QIAYPMENFsn-smSSLMTILFGNisa---sgMIRLIDVAFPKKFiaqfkGPKFGVEGLRKVLEvpdRPLLNAMIKPniG 170 Blautia hydrogen...
ZP_03890203  80 VVEFPMVNIgt-diATLLTAVAGNlfelvelyACRLQSIGLPDEFvaahpGPAFGVAGTRKLMGvpdGVLIGTIVKPnvG 158 Geodermatophilus...
EES52277     63 EIDVPSQRIfsaygLVLSIAGEIScln--iikSIELNDFEAPDSLlsrfpGPQFGTAEIDRRRKnpkRPLFITVLKPsqG 140 Leptospirillum f...
Feature 1                            ####                                                       
3FK4_A      153 RNIGYLKTQLRDQAIGGVDIVKDDEI-LFENaLTPLTKRIVSGKEVLQSVYEtyGHKTLYAVNLTGrtfDLKENAKRAVQ 231 Bacillus cereus ...
2OEM_A      152 RDLAYLTSELKKQALGGVDLVXDDEI-LFDSeLLPFEKRITEGKAALQEVYEqtGKRTLYAVNLTGktfALKDKAKRAAE 230 Geobacillus kaus...
O28685      181 SPPDLGAKLAYEVARGGVDIIKDDEL-LANPeFNRIEERVPKFMEAIDRADEekGEKTLYAVNVTAdlpEVLENAERAIE 259 Archaeoglobus fu...
ZP_02088909 168 LTPKEGARIFYETALGGVDFIKDDEL-FGNPvYSKPEERVRAYREAAEAAYEktGERVKYFVNITSgagEIMENVKRAED 246 Clostridium bolt...
ZP_02860861 174 LTPEVTADIAYEVALGGVDLIKDDEL-IANAaYSKIEDRVSAVMDALKRADDkkGEKTIYTFNITDtpdQAKRNAEKAIK 252 Anaerofustis ste...
ZP_02863053 174 WTPEQGGIMAYDAYLGGIDVIKDDELlVADPaWCPIEKRVQAITDAGKRAFEqtGEKKLYTVNLTEdsfKIKDLAYRAID 253 Anaerofustis ste...
ZP_03305351 168 FKAEAGAEIFYQTALGGVDLIKDDEL-LANPsYCTLEDRLDKYIEASNRAYEetGKKTLYVPNITDhvdKILDNAKMAVD 246 Anaerococcus hyd...
ZP_03781627 171 WTPDEGADLFYHACKGGVDVIKDDELmLADGpYCPLKERVTKFMEKEKQVYEetGEHSLYAVNISDsteKVRENAYRVLE 250 Blautia hydrogen...
ZP_03890203 159 LVEEEFRGVVRELARASIDLIKDDEL-MTDPaYLPLETRVRVALEEIADAEQvtGHRTMYAFNITGdlaGLQRRHDLVVE 237 Geodermatophilus...
EES52277    141 LSPREFGHIAYESLVGGSDVVKSDEL-LQEP-DADYRKRLAAMVEAAKRAEEetGEPKWAMMHPVDqptRMLARYRAGAD 218 Leptospirillum f...
Feature 1                                        ##                                #            
3FK4_A      232 AGADILLFNVFAYGLDVLQSLAEDdeipVPIMAHPAVSGAYSasklygvssplLLGKLLRYAGADFSLFPSPYGSvalEK 311 Bacillus cereus ...
2OEM_A      231 LGADVLLFNVFAYGLDVLQALREDeeiaVPIMAHPAFSGAVTpsefygvapslWLGKLLRLAGADFVLFPSPYGSvalER 310 Geobacillus kaus...
O28685      260 LGANCLLVNYLATGFPVLRALAEDesikVPIMAHMDVAGAYYvspisgvrstlILGKLPRLAGADIVVYPAPYGKapmME 339 Archaeoglobus fu...
ZP_02088909 247 AGADGLMINFAAMGYSVLKHVAEHt--vLPILGHSAGTGMCFegamngmasplAVGKLARLAGADIVMINTPYGGyplLH 324 Clostridium bolt...
ZP_02860861 253 AGANGLMLNCWTLGLDACRDIIKEf--dVPFLFHPDLTGSLYvshdyglstelIQAKLPRLAGFDMGIVLSPYGKfpmIE 330 Anaerofustis ste...
ZP_02863053 254 AGANALMINTYTAGFSALRQLAEDpniqIPVMSHPDYAAAQSyspdtgvavalLWGKLARLAGADMAITTNYYGKipvLR 333 Anaerofustis ste...
ZP_03305351 247 KGAKLVMLNFASVGIDVLQYLTKNi--dVPVIAHYASAGPYYesafsgiasnlFLGKFARMAGADVVMINTPYGGyplKK 324 Anaerococcus hyd...
ZP_03781627 251 YGGNCLMVNVYTTGFDTLKMLADDpninVPILAHVNFAGTMAastytgisaplLVGKITRLAGGDFQINGHPYGKfpvSY 330 Blautia hydrogen...
ZP_03890203 238 AGGNCVMLNVPVMGLPALAWLRGFa--qVPIHGHRAGLAASMrspal-gvdftVWQQLARLAGADHVHASGLGSKfyeRD 314 Geodermatophilus...
EES52277    219 AGAKISMVSPAASGFPMLEELARTg--lVPIMAHMATSDWLWqkhg---msvrAWARFMRMCGADLILFPALSGTlksKR 293 Leptospirillum f...
Feature 1                               ###                      ##                   
3FK4_A      312 EEALAISKYLTEddasfkKSFSVPSAGIHPGFVPFIVRDFG-KDVVINAGGGIHGHpngAQGGGKAFRTA 380 Bacillus cereus ATCC 14579
2OEM_A      311 EQALGIARALTDdqepfaRAFPVPSAGIHPGLVPLIIRDFG-LDTIVNAGGGIHGHpdgAIGGGRAFRAA 379 Geobacillus kaustophilus
O28685      340 EKYIEVAKQHRYpfyhikPCFPMPSGGIAPIMVPKLVNTLG-KDFVVAAGGGIHAHpdgPAAGARAFRQA 408 Archaeoglobus fulgidus
ZP_02088909 325 QKYMQTVAQLTLpfydikPSMPSIGGGVHPGMVEKYIREVG-KDVVLAAGGAVQGHpggAAAGARAMRQA 393 Clostridium bolteae ATCC B...
ZP_02860861 331 DKFQQVCMTHLApyhnikRSLPMPGGGTTQGHIEEVMTKFG-TDVVIAAGGAVIGHpdgAVAGGKAFRQG 399 Anaerofustis stercorihomin...
ZP_02863053 334 DSYLRTCRDLKMkfhnikDCLPAPSGGMYQGVVPDTIYEVG-TDVMIAAGGAVHGHrngATAGARALRQA 402 Anaerofustis stercorihomin...
ZP_03305351 325 SRYLRAAHELMLdhpsykKTMPCCGGGVNPGIVPTYIKQLG-KDIMLAAGGAVQGHpdgAESGVKAMIQS 393 Anaerococcus hydrogenalis ...
ZP_03781627 331 KQFYRCFKFFTQpwwnikPMMYACSGGTTQMAVEKIVKNVG-TDVMLAAGGGVHGHpdgSEAGAKSMRQA 399 Blautia hydrogenotrophica ...
ZP_03890203 315 EQVAANIRSLQAplgtttAPLPTLSSGQNVHTPGPTFAAVGsTDLLMLAGGGIAAHpdgPAAGVRSLRQA 384 Geodermatophilus obscurus ...
EES52277    294 QHLKDVQDICRLpmgsmkPSLIVVGGGMHAGTLEVHARLFG-PDFAYICGGGVCGHpdgARAGARSVRQA 362 Leptospirillum ferrodiazot...

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