Conserved Protein Domain Family
cnd41_like

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cd05472: cnd41_like 
Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase.
Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This family of aspartate proteases is classified by MEROPS as the peptidase family A1 (pepsin A, clan AA).
Statistics
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PSSM-Id: 133139
View PSSM: cd05472
Aligned: 23 rows
Threshold Bit Score: 368.908
Threshold Setting Gi: 125555043
Created: 31-Mar-2008
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
Feature 1:catalytic residue [active site]
Evidence:
  • Comment:The two ASPs at the active site plays key catalytic roles in the pepsin family and conserved for all family members.

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                           #                                                            
gi 15223368  141 EYFTRLGVGTParYVYMVLDTGSDIVWLQCAPCrrcysqsdpifdprksktyati---------pcssphcrrldsagcn 211
gi 54290728  143 EFVVAVGLGTPaqPSALIFDTGSDLSWVQCQPCgssghchpqqdplfdpsksstya-------avhcgepqcaaagdlcs 215
gi 8979711   103 NYIVTVGLGTPknDLSLIFDTGSDLTWTQCQPCvrtcydqkepifnpskstsyynvs-----cssaacgslssatgnags 177
gi 18412482  134 NYIVTVELGGK--NMSLIVDTGSDLTWVQCQPCrscynqqgplydpsvsssyktvfcnsstcqdlvaatsnsgpcggnng 211
gi 125540927 130 QYVVTVSLGTPavAQTLEVDTGSDVSWVQCKPCpsppcysqrdplfdptrsssysa-------vpcaaascsqlalysng 202
gi 125563764 125 NYVATVGLGGG--EATVIVDTASELTWVQCAPCaschdqqgplfdpasspsyavlpcn--ssscdalqvatgsaagacgg 200
gi 125526796 176 EYVISVGLGSPamTQRVVIDTGSDVSWVQCEPCpapspchahagalfdpaasstyaaf---ncsaaacaqlgdsgeangc 252
gi 125564143 148 NYVVSVGLGTPakQYAVIFDTGSDLSWVQCKPCadcyeqqdplfdpslsstyaa----------vacgapecqeldasgc 217
gi 125553832  67 ATTNSAPDGTSavSQTVIIDSGSDVPWVQCQPCpllvchpqrdplfdpatsttyaa------vpcssaacarlgpyrrgc 140
gi 125556036 281 NYVVTVGLGTPasRYTVVFDTGSDTTWVQCQPCvvacyeqreklfdpassstya----------nvscaapacsdldvsg 350
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
gi 15223368  212 trrktCLYQVSYGDGSFTVGDFsTETLTFrrn-rvkGVALGCGHDNEGLFv--gAAGLLGLGKGKLSFPGQTGHrfnqKF 288
gi 54290728  216 ednttCLYLVRYGDGSSTTGVLsRDTLALtssraltGFPFGCGTRNLGDFg--rVDGLLGLGRGELSLPSQAAAsfgaVF 293
gi 8979711   178 csasnCIYGIQYGDQSFSVGFLaKEKFTLtnsdvfdGVYFGCGENNQGLFt--gVAGLLGLGRDKLSFPSQTATaynkIF 255
gi 18412482  212 vvktpCEYVVSYGDGSYTRGDLaSESILLgdt-kleNFVFGCGRNNKGLFg--gSSGLMGLGRSSVSLVSQTLKtfngVF 288
gi 125540927 203 csggqCGYVVSYGDGSTTTGVYsSDTLTLtgsnalkGFLFGCGHAQQGLFa--gVDGLLGLGRQGQSLVSQASStyggVF 280
gi 125563764 201 geqpsCSYTLSYRDGSYSQGVLaHDKLSLage-vidGFVFGCGTSNQGPFg--gTSGLMGLGRSQLSLISQTMDqfggVF 277
gi 125526796 253 daksrCQYIVKYGDGSNTTGTYsSDVLTLsgsdvvrGFQFGCSHAELGAGmddkTDGLIGLGGDAQSLVSQTAArygkSF 332
gi 125564143 218 ssdsrCRYEVQYGDQSQTDGNLvRDTLTLsasdtlpGFVFGCGDQNAGLFg--qVDGLFGLGREKVSLPSQGAPsygpGF 295
gi 125553832 141 lansqCQFGITYANGATATGTYsSDDLTLgpydvvrGFLFGCAHADQGSTfsydVAGTLALGGGSQSFVQQTASqysrVF 220
gi 125556036 351 csgghCLYGVQYGDGSYSIGFFaMDTLTLssydavkGFRFGCGERNDGLFg--eAAGLLGLGRGKTSLPVQTYGkyggVF 428
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
gi 15223368  289 SYCLVdrsasskPSSVVFGNAav-----srIARFTPLlsnp-kldtFYYVGLLGISVGGtrvpgvtaslfkldqigngGV 362
gi 54290728  294 SYCLPssn--stTGYLTIGATpat---dtgAAQYTAMlrkp-qfpsFYFVELVSIDIGGyvlpvpp------avftrgGT 361
gi 8979711   256 SYCLPssa--syTGHLTFGSAgi-----srSVKFTPIstit-dgtsFYGLNIVAITVGGqklpips------tvfstpGA 321
gi 18412482  289 SYCLPsle-dgaSGSLSFGNDssvy-tnstSVSYTPLvqnp-qlrsFYILNLTGASIGGvelks---------ssfgrGI 356
gi 125540927 281 SYCLPptq--nsVGYISLGGPss-----taGFSTTPLltas-ndptYYIVMLAGISVGGqplsid-------asvfasGA 345
gi 125563764 278 SYCLPlke-sesSGSLVLGDDtsvy-rnstPIVYTTMvsdp-vqgpFYFVNLTGITIGGqeve-----------ssagKV 343
gi 125526796 333 SYCLPatp--asSGFLTLGAPasgggggasRFATTPMlrsk-kvptYYFAALEDIAVGGkklgls-------psvfaaGS 402
gi 125564143 296 TYCLPsss--sgRGYLSLGGApp------aNAQFTALadga--tpsFYYIDLVGIKVGGrairipa-----tafaaagGT 360
gi 125553832 221 SYCVPpst--ssFGFIMFGVPpqra-alvpTFVSTPLlssstmsptFYRVLLRSIIVAGrplpvp-------ptvfsaSS 290
gi 125556036 429 AHCLPars--tgTGYLDFGAGsp------pATTTTPMltgn--gptFYYVGMTGIRVGGrllpiap------svfaaaGT 492
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1          #                                                                             
gi 15223368  363 IIDSGTSVTRLIRPAYIAMRDAFrvgaktl--krapdfsLFDTCFDLSNmnevkVPTVVLHFr-GADVSLpatnyli-pv 438
gi 54290728  362 LLDSGTVLTYLPAQAYALLRDRFrltmery--tpappndVLDACYDFAGesevvVPAVSFRFgdGAVFELdffgvmi--f 437
gi 8979711   322 LIDSGTVITRLPPKAYAALRSSFkakmsky--pttsgvsILDTCFDLSGfktvtIPKVAFSFsgGAVVELgskgify--v 397
gi 18412482  357 LIDSGTVITRLPPSIYKAVKIEFlkqfsgf--ptapgysILDTCFNLTSyedisIPIIKMIFqgNAELEVdvtgvfyfvk 434
gi 125540927 346 VVDTGTVVTRLPPTAYSALRSAFraamapygypsapatgILDTCYDFTRygtvtLPTISIAFggGAAMDLgtsg------ 419
gi 125563764 344 IVDSGTIITSLVPSVYNAVKAEFlsqfaey--pqapgfsILDTCFNLTGfrevqIPSLKFVFegNVEVEVdssgvlyfvs 421
gi 125526796 403 LVDSGTVITRLPPAAYAALSSAFragmtry--araeplgILDTCFNFTGldkvsIPTVALVFagGAVVDLdahg------ 474
gi 125564143 361 VIDSGTVITRLPPRAYAPLRAAFarsmaqy--kkapalsILDTCYDFTGhrtaqIPTVELAFagGATVSLdftgvly--v 436
gi 125553832 291 VIDSATVISRIPPTAYQALRAAFrsamtmy--rpappvsILDTCYDFSGvrsitLPSIALVFdgGATVNLdaag------ 362
gi 125556036 493 IVDSGTVITRLPPAAYSSLRSAFaaamaargyrkaaavsLLDTCYDFTGmsqvaIPTVSLLFqgGAALDVdasgimy--t 570
                        330       340       350       360
                 ....*....|....*....|....*....|....*....|....*....
Feature 1                                                         
gi 15223368  439 dtngkFCFAFagt---mggLSIIGNIQQQGFRVVYDLassRVGFAPGGC 484
gi 54290728  438 ldenvGCLAFaamdtgglpLSIIGNTQQRSAEVIYDVaaeKIGFVPASC 486
gi 8979711   398 fkisqVCLAFagns-ddsnAAIFGNVQQQTLEVVYDGaggRVGFAPNGC 445
gi 18412482  435 pdaslVCLALasls-yeneVGIIGNYQQKNQRVIYDTtqeRLGIVGENC 482
gi 125540927 420 -iltsGCLAFaptg-gdsqASILGNVQQRSFEVRFDGs--TVGFMPASC 464
gi 125563764 422 sdssqVCLALaslk-seyeTSIIGNYQQKNLRVIFDTlgsQIGFAQETC 469
gi 125526796 475 -ivsgGCLAFaptr-ddkaFGTIGNVQQRTFEVLYDVgggVFGFRAGAC 521
gi 125564143 437 skvsqACLAFapna-ddssIAILGNTQQKTFAVTYDVanqRIGFGAKGC 484
gi 125553832 363 -illqGCLAFapta-sdrmPGFIGNVQQRTLEVVYDVpgkAIRFRSAAC 409
gi 125556036 571 vsasqVCLAFagne-dggdVGIVGNTQLKTFGVAYDIgkkVVGFSPGAC 618

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