1RUS,3FK4,2OEM,4RUB,9RUB


Conserved Protein Domain Family
RuBisCO_large

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cd08148: RuBisCO_large 
Click on image for an interactive view with Cn3D
Ribulose bisphosphate carboxylase large chain
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.
Statistics
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PSSM-Id: 173969
View PSSM: cd08148
Aligned: 8 rows
Threshold Bit Score: 506.964
Threshold Setting Gi: 231338
Created: 29-Sep-2008
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site include 1 residue -Click on image for an interactive view with Cn3D
Feature 1:catalytic residue [active site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                        
1RUS_B        48 VLCAYImkpkagygyvATAAHFAAESSTGtnvevct-tddftrGVDALVYEVdea---------------reLTKIAYPV 111 Rhodospirillum ...
3FK4_A         4 IIATYLihdds-hnleKKAEQIALGLTIGswthlphllqeqlkQHKGNVIHVeelaehehtnsylrkkvkrgIIKIEYPL 82  Bacillus cereus...
2OEM_A         4 VMATYLlhde--tdirKKAEGIALGLTIGtwtdlpaleqeqlrKHKGEVVAIeelgeservnayfgkrlkraIVKIAYPT 81  Geobacillus kau...
4RUB_A        36 ILAAFRvtpqpgvppeEAGAAVAAESSTGtwttvwtdgltsldRYKGRCYRIervvg----------ekdqyIAYVAYPL 105 common tobacco
9RUB_A        24 VLCAYImkpkagygyvATAAHFAAESSTGtnvevct-tddftrGVDALVYEVdea---------------reLTKIAYPV 87  Rhodospirillum ...
YP_003356171   6 VRTTYHveaet-kpldVVAKEIAAEQSTGtwtnvpa-erevheKVGARVVSAen-----------------nTVVIDFPE 66  methanogenic ar...
YP_002465365   4 VTAIYYfrpradtspeQAAQAICEEETTGtwtdist-tteyvrRLDGAVESVepkg-------------qgyLTKITYPA 69  Candidatus Meth...
YP_844023      6 VVARYRvetd--lpmrKAAEAIAAEQSTGtwtev----rgaesDLAASVLSIdg-----------------nTVEIEFPV 62  Methanosaeta th...
Feature 1                                                                                        
1RUS_B       112 ALFdrnitdgkamiASFLTLTMGNnqgmgdveYAKMHDFYVPEAYralfdGPSVNISALWKVLGrpevdgGLVVGTIIKP 191 Rhodospirillum ...
3FK4_A        83 LNFsp-------dlPAILTTTFGKlsl---dgEVKLIDLTFSDELkkhfpGPKFGIDGIRNLLQvh---dRPLLMSIFKG 149 Bacillus cereus...
2OEM_A        82 VNFsa-------dlPALLVTTFGKlsl---dgEVRLLDLEFPDEWkrqfpGPRFGIDGIRDRVGvh---nRPLLMSIFKG 148 Geobacillus kau...
4RUB_A       106 DLFeeg------svTNMFTSIVGNvfgfkalrALRLEDLRIPPAYvktfqGPPHGIQVERDKLNky---gRPLLGCTIKP 176 common tobacco
9RUB_A        88 ALFdrnitdgkamiASFLTLTMGNnqgmgdveYAKMHDFYVPEAYralfdGPSVNISALWKVLGrpevdgGLVVGTIIKP 167 Rhodospirillum ...
YP_003356171  67 EIFept------niPQILSVVAGNlyglgglkALRLEDVDFDPLVky-ykGPVFGIKEVRKYLGvy---dRPLVGTIIKP 136 methanogenic ar...
YP_002465365  70 EIFepg------nvPQYLSVVAGNlfglgrveAVRLLDVEFPRELvt-fsGPKFGIDGVRRLVGsq---nRPHVGTIIKP 139 Candidatus Meth...
YP_844023     63 ELFepg------niPQYLSVIAGNlfglealkKVRLVDVDFPESLvrahsGPKFGIEEARRIIDay---nRPLVGTIVKP 133 Methanosaeta th...
Feature 1                                #                                                       
1RUS_B       192 klGLRPKPFAEACHAFWLGG-DFIKNDEpQGNQpFAPLRDTIALVADAMRRAQDetGEAKLFSANITAddpfeIIARGEY 270 Rhodospirillum ...
3FK4_A       150 miGRNIGYLKTQLRDQAIGGvDIVKDDEiLFENaLTPLTKRIVSGKEVLQSVYEtyGHKTLYAVNLTGrt-fdLKENAKR 228 Bacillus cereus...
2OEM_A       149 miGRDLAYLTSELKKQALGGvDLVXDDEiLFDSeLLPFEKRITEGKAALQEVYEqtGKRTLYAVNLTGkt-faLKDKAKR 227 Geobacillus kau...
4RUB_A       177 klGLSAKNYGRAVYECLRGGlDFTKDDEnVNSQpFMRWRDRFLFCAEALYKAQAetGEIKGHYLNATAgtceeMIKRAVF 256 common tobacco
9RUB_A       168 klGLRPKPFAEACHAFWLGG-DFIKNDEpQGNQpFAPLRDTIALVADAMRRAQDetGEAKLFSANITAddpfeIIARGEY 246 Rhodospirillum ...
YP_003356171 137 kvGLSPKRTAEVAEQAALGGlDLIKDDEtLTDQaFCPLEERLTAVMDKLDKVKKvvGKPCLYAVNVTTga-dkIVERAER 215 methanogenic ar...
YP_002465365 140 kvGLNPTDTAEVAYQAAIGGvDLIKDDEtLTDQqFCPLFERLPAVMARLDQAKTetGRNVLYAVNVTTra-dkILERAEH 218 Candidatus Meth...
YP_844023    134 kvGLNPSQTAEVAGAAVRGGlDLVKDDEtLTDQkFCPMERRVEEVMAEFDRVESetGKKAFYAVNVTTga-dtILERAER 212 Methanosaeta th...
Feature 1                                                                                        
1RUS_B       271 VLEtfgenashVALLVDgyvaGAAAITTARRRfp--dNFLHYHRAGHGAVTspqskrgytafvhCKMARLQGASGIHTGT 348 Rhodospirillum ...
3FK4_A       229 AVQag-----aDILLFNvfayGLDVLQSLAEDde-ipVPIMAHPAVSGAYSasklygvssplllGKLLRYAGADFSLFPS 302 Bacillus cereus...
2OEM_A       228 AAElg-----aDVLLFNvfayGLDVLQALREDee-iaVPIMAHPAFSGAVTpsefygvapslwlGKLLRLAGADFVLFPS 301 Geobacillus kau...
4RUB_A       257 ARElg-----vPIVMHDyltgGFTANTSLAHYcrdngLLLHIHRAMHAVIDrqknhg-ihfrvlAKALRMSGGDHIHSGT 330 common tobacco
9RUB_A       247 VLEtfgenashVALLVDgyvaGAAAITTARRRfp--dNFLHYHRAGHGAVTspqskrgytafvhCKMARLQGASGIHTGT 324 Rhodospirillum ...
YP_003356171 216 AKElg-----aNMIMVDiltaGFSAIQAINEAni--dLPIHVHRTMHGALTrgpfgi--smpviSKLTRMVGGTNLHIGT 286 methanogenic ar...
YP_002465365 219 ALElg-----aNMLMVDvisaGFSAVQALAEDps-ikVPIHVHRTMHAAMTrnpehg-iamrtfAKLVRMLGGDQLHTGS 291 Candidatus Meth...
YP_844023    213 AIDrg-----aNMLMVDvltaGFSALEALARGv---dLPIHVHRTMHGAMTrdrahg-ismlviAKLVRMAGGTNLHTGS 283 Methanosaeta th...
Feature 1                                                                                        
1RUS_B       349 MgfgkmegesSDRAIAYMLTqdeaqgpfy-----rqswggmkACTPIISGGMNALRMPGFFENLGnANVILTAGGGAFGH 423 Rhodospirillum ...
3FK4_A       303 PygsvalekeEALAISKYLTedda---------------sfkKSFSVPSAGIHPGFVPFIVRDFG-KDVVINAGGGIHGH 366 Bacillus cereus...
2OEM_A       302 PygsvalereQALGIARALTddqe---------------pfaRAFPVPSAGIHPGLVPLIIRDFG-LDTIVNAGGGIHGH 365 Geobacillus kau...
4RUB_A       331 VvgklegerdITLGFVDLLRddfveqdrsrgiyftqdwvslpGVLPVASGGIHVWHMPALTEIFG-DDSVLQFGGGTLGH 409 common tobacco
9RUB_A       325 MgfgkmegesSDRAIAYMLTqdeaqgpfy-----rqswggmkACTPIISGGMNALRMPGFFENLGnANVILTAGGGAFGH 399 Rhodospirillum ...
YP_003356171 287 YsgkmehnvcDIDRSRDILRqpwd---------------nfkPMFPAVSGGIYPQLLKPNLDCYG-IDCILQAGGGIHGH 350 methanogenic ar...
YP_002465365 292 VsgkmshdaeELLGDNRALTdqcy---------------glkSTFPVSSGGLHPGKVQTELRVLG-TDLILQAGGGIHGH 355 Candidatus Meth...
YP_844023    284 YvgkmasdieENDQCRDALRedwy---------------glkRVFPVASGGIHPGKVAGNLDGYG-IDCIVQAGGGVHGH 347 Methanosaeta th...
Feature 1                      
1RUS_B       424 idgPVAGARSLRQA 437 Rhodospirillum rubrum
3FK4_A       367 pngAQGGGKAFRTA 380 Bacillus cereus ATCC 14579
2OEM_A       366 pdgAIGGGRAFRAA 379 Geobacillus kaustophilus
4RUB_A       410 pwgNAPGAVANRVA 423 common tobacco
9RUB_A       400 idgPVAGARSLRQA 413 Rhodospirillum rubrum
YP_003356171 351 pegTVAGAKAMFQA 364 methanogenic archaeon SANAE
YP_002465365 356 pdgTAAGARAMRQA 369 Candidatus Methanosphaerula palustris E1-9c
YP_844023    348 pdgTTAGARAMVQA 361 Methanosaeta thermophila PT

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