1RUS,9RUB


Conserved Protein Domain Family
RuBisCO_large_II

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cd08211: RuBisCO_large_II 
Click on image for an interactive view with Cn3D
Ribulose bisphosphate carboxylase large chain, Form II
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 II is mainly found in bacteria, and forms large subunit oligomers (dimers, tetramers, etc.) that do not include small subunits.
Statistics
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PSSM-Id: 173976
View PSSM: cd08211
Aligned: 8 rows
Threshold Bit Score: 703.876
Threshold Setting Gi: 91774234
Created: 7-Jan-2010
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 13 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Structure:9RUB, Rhodospirillum rubrum ribulose-1,5-bisphosphate carboxylase with bound substrate and magnesium, contacts 4A
    View structure with Cn3D
  • Citation:PMID 1905726

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                                                                             
1RUS_B             26 DQSSRYVNLALKe-EDLIAGgEHVLCAYIMKPkaGYGYVATAAHFAAESSTGTNVevcttddftrGVDALVYEVDea--- 101 Rhodospiri...
9RUB_A              2 DQSSRYVNLALKe-EDLIAGgEHVLCAYIMKPkaGYGYVATAAHFAAESSTGTNVevcttddftrGVDALVYEVDea--- 77  Rhodospiri...
Q41407              2 EQSSRYADLTLDeaGSLRNG-EHVLVAYIMKPkmGYDYLATAAHFAAESCTGARStdd----akeSANAVVYYIDad--- 73  Symbiodini...
O84917              4 DQSSRYANLDLKe-SDLIAGgKHILVAYKMKPkaGYDYLATAAHFAAESSTGTNVevsttddftkGVDALVYFIDea--- 79  Thiomonas ...
REF_jgi:Mbur_2322  12 LDSKQQAYVDLKl-PDPTNG-EFLLAVFHMIPggDLNVLQAAAEIAAESSTGTNIkvstetafsrTMNARVYQLDle--- 86  Methanococ...
ZP_01451219         2 DQSNRYADLSLNe-ADLIAGgKHLLVAYKLIPakGYGFLEVAAHIAAESSTGTNVevsttddftrGVDALVYDIDetafg 80  Mariprofun...
Q31IK3              2 DQSNRYADLSLKe-EDLIAGqNHILVAYTMEPaaGYGYLEVAAHIAAESSTGTNVevcttddftkGVDAIVYDIDea--- 77  Thiomicros...
ZP_06233763         5 DQTSRYVNFDLKe-DQLIADgNHVLCAYIYKPanGYGNVEVAAHFAAESSTGTNVevcttddftkGVDALVYEVSdasn- 82  Desulfovib...
Feature 1                                                    #                                        
1RUS_B            102 ------reLTKIAYPVALFDRnitdgkAMIASFLTLTMGNNQGMGDVEYAKMHDFYVPEAYRALfdGPSVNISALWKVLG 175 Rhodospiri...
9RUB_A             78 ------reLTKIAYPVALFDRnitdgkAMIASFLTLTMGNNQGMGDVEYAKMHDFYVPEAYRALfdGPSVNISALWKVLG 151 Rhodospiri...
Q41407             74 ------sqEMRIAYPTVLFDSnltdgrDMVRSFLTLAIGNTQGMEDVEFGKIYDFYLPPSFLRL--QESPSVNTMWRILD 145 Symbiodini...
O84917             80 ------teDMRIAYPIELFDRnvidgrFMIVSFLTLVIGNNQGMGDVEYGKMIDFYVPERAIQMfdGPATDISNLWRILG 153 Thiomonas ...
REF_jgi:Mbur_2322  87 ------reLVWIAYPWRLFDRg-----GNVQNILTYIIGNILGMKEIQALKLMDIWFPPSMLEQydGPSYTVDDMRKYLD 155 Methanococ...
ZP_01451219        81 degvtgggLMKVAYPVELFDPnlidghYNVSHMWSLILGNNQGMGDHEGLRMLDFMVPECMIRKfdGPSAGIADLWKVLG 160 Mariprofun...
Q31IK3             78 ------ngIMKVAYPFDLFDRngldgkTMIVSFLTLAIGNNQGMGDVKNLQMFDFWVPETKLHLfdGPAVDITNMWKMLG 151 Thiomicros...
ZP_06233763        83 -----gdsLMKIAYPVELFDRniidgrAMLASFLTLCIGNNQGMGDVAYAKMHDFYVPRQYLELfdGPSKNIADFWRMLG 157 Desulfovib...
Feature 1                         #                             ##                                    
1RUS_B            176 rpevdgGLVVGTIIKPKLGLRPKPFAEACHAFWLGG-DFIKNDEpQGNQPFAPLRDTIALVADAMRRAQDETGEAKLFSA 254 Rhodospiri...
9RUB_A            152 rpevdgGLVVGTIIKPKLGLRPKPFAEACHAFWLGG-DFIKNDEpQGNQPFAPLRDTIALVADAMRRAQDETGEAKLFSA 230 Rhodospiri...
Q41407            146 kga-snGGLAAGAMKPKLGMQPKPFRAASYALWQGG-AYTTADV-QANQAPTQASEGIPEVVKAMRSCVQGTDVAKRHSG 222 Symbiodini...
O84917            154 rpikdgGYIAGTIIKPKLGLRPEPFAQAAYQFWLGG-DFIKNDEpQGNQVFAPVKKVIPLVYDAMKRAQDETGEAKLFSM 232 Thiomonas ...
REF_jgi:Mbur_2322 156 vy---dRPILGTIVKPKMGLTSAEYAEVCYDFWVGGgDFVKNDEpQANQDFCPYEKMVAHVKEAMDKAVKETGQKKVHSF 232 Methanococ...
ZP_01451219       161 rpevdgGYISGTIIKPKLGLRPEPFAKACLDFWLGG-DFIKNDEpQANQPFCPMKVVIPKVAEAMDRAQQETGQAKLFSA 239 Mariprofun...
Q31IK3            152 rdkdngGYIAGTIIKPKLGLRPEPFADAAYQFWLGG-DFIKNDEpQGNQTFCPMKKVIPLVADAMKRAQDETGETKLFSA 230 Thiomicros...
ZP_06233763       158 rptengGMIAGTIVKPKLGLRPKPFADACYHFWLGG-DFVKNDEpQGNQVFAPLKETITAVADAMRRAQDETGEAKIFSA 236 Desulfovib...
Feature 1                                                                        #                    
1RUS_B            255 NITADdPFEIIARGEYVLETFGe--NASHVALLVDgyvaGAAAITTARRRFPdNFLHYHRAGHGAVTSpQSKRGYTAFVH 332 Rhodospiri...
9RUB_A            231 NITADdPFEIIARGEYVLETFGe--NASHVALLVDgyvaGAAAITTARRRFPdNFLHYHRAGHGAVTSpQSKRGYTAFVH 308 Rhodospiri...
Q41407            223 GNYTDePKEMDARGKYVLSQFGp--FSGNCVSLVA----GYAAGGSARHTFPrQFVHYHRAGQASTSSpQTQRGYSAFVH 296 Symbiodini...
O84917            233 NITADdYHEMCARADFALEVFGp--DADKLAFLVDgyvgGPGMVTTARRQYPnQYLHYHRAGHGAITSpSSKRGYTAFVL 310 Thiomonas ...
REF_jgi:Mbur_2322 233 NVSAAdFDTMIERCEMITNAGF---EPGSYAFLIDgitaGWMAVQTLRRRYPdVFLHFHRAAHGAFTRqENPIGFSVLVL 309 Methanococ...
ZP_01451219       240 NATADyHGECVARGEYILSEFAkygNEKHVAFLIDgfvtGPAGVTTARRAFPdTFLHFHRAGHGAVTSyKSPMGMDPLCY 319 Mariprofun...
Q31IK3            231 NITADdHHEMCYRADYILETFGa--DAPQVAFLVDgyvgGPGMITTARRNYPsQYLHYHRAGHGAITSpSAKRGYTAFVL 308 Thiomicros...
ZP_06233763       237 NITADdPREMIARGEFILNAFGe--NASRVAFLVDgyvaGPTAITTARRNFPnQFLHYHRAGHGAVTSpQAKRGYTAFVL 314 Desulfovib...
Feature 1                         # #                                                                 
1RUS_B            333 CKMARLQGASGIHTGTMGFGKMEGe-sSDRAIAYMLTq-----------------------------DEAQGPFYRQSWG 382 Rhodospiri...
9RUB_A            309 CKMARLQGASGIHTGTMGFGKMEGe-sSDRAIAYMLTq-----------------------------DEAQGPFYRQSWG 358 Rhodospiri...
Q41407            297 TKISQVISTTSIHADTMSFGKTQGd-sPDKSIAVMLQd-----------------------------DAADARLCNQEWE 346 Symbiodini...
O84917            311 AKMSRLQGASGIHVGTMGYGKMEGe-gDDRNIAYMIEr-----------------------------DECQGPVYFQKWY 360 Thiomonas ...
REF_jgi:Mbur_2322 310 SKFARLAGASGIHTGTAGIGKMKGtpaEDVVAAHSIQylkspghffeqtwskimdtdkdvinlvnedLAHHVILEDDSWR 389 Methanococ...
ZP_01451219       320 MKLARLQGASGIHTGTMGYGKMEGh-gKETVLAYMLEr-----------------------------DECMGHYFNQKWY 369 Mariprofun...
Q31IK3            309 AKISRLQGASGIHVGTMGYGKMEGd-aSDKNIAYMIEr-----------------------------DECQGPAFYQKWN 358 Thiomicros...
ZP_06233763       315 SKMSRLQGASGIHTGTMGFGKMEGe-mADKSMAYMIEr-----------------------------EEAQGPYFKQKWY 364 Desulfovib...
Feature 1                    # ##                     ###                                             
1RUS_B            383 GMKACTPIISGGMNALRMPGFFENLGnANVILTAGGGAFGHIDGPVAGARSLRQAWQAWRDgv-----------pVLDYA 451 Rhodospiri...
9RUB_A            359 GMKACTPIISGGMNALRMPGFFENLGnANVILTAGGGAFGHIDGPVAGARSLRQAWQAWRDgv-----------pVLDYA 427 Rhodospiri...
Q41407            347 GMRQNAPIISGSMNALRLPAFFETLGnSNVILTADSGSFGHKDGPASGAIACRQVEEAWKAwrsgqygnvslsdgVVEFA 426 Symbiodini...
O84917            361 GMKPTTPIISGGMNALRLPGFFENLGhGNVINTAGGGSYGHIDSPAAGAKSLRQAYECWKAga-----------dPIEYA 429 Thiomonas ...
REF_jgi:Mbur_2322 390 AMKKCCPIVSGGLNPVKLKPFIDVMEnVDFITTMGSGVHSHPGGTQSGAKALVQACDAYLQgm-----------dIEEYA 458 Methanococ...
ZP_01451219       370 GMKPTAPIISGGMNALRLPGFFENLGhGNVINTCGGGSFGHIDSPAAGGKSLDQAYDCWKSgt-----------dPIEYA 438 Mariprofun...
Q31IK3            359 GMKPTTPIISGGMNALRLPGFFENLGhGNVINTSGGGSYGHIDSPAAGATSLRQSYECWKSga-----------dPIEFA 427 Thiomicros...
ZP_06233763       365 GMKATTPMISGGMNALRLPGFFDNLGhSNICQTSGGGAFGHLDGPTAGALSLRQSHDAWIQgv-----------nLLDYA 433 Desulfovib...
Feature 1                          
1RUS_B            452 REHKELARAFESF 464 Rhodospirillum rubrum
9RUB_A            428 REHKELARAFESF 440 Rhodospirillum rubrum
Q41407            427 KTHEEIKGAFLTF 439 Symbiodinium sp.
O84917            430 KEHKEFARAFESF 442 Thiomonas intermedia
REF_jgi:Mbur_2322 459 KDHKELAEAIEFY 471 Methanococcoides burtonii DSM 6242
ZP_01451219       439 KTHGEFARAFESF 451 Mariprofundus ferrooxydans PV-1
Q31IK3            428 KDHKEFARAFESF 440 Thiomicrospira crunogena XCL-2
ZP_06233763       434 KEHNELARAFESF 446 Desulfovibrio aespoeensis Aspo-2

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