Conserved Protein Domain Family
CBM-like
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pfam14683: CBM-like (This model is not part of the current CDD release)
Polysaccharide lyase family 4, domain III
CBM-like is domain III of rhamnogalacturonan lyase (RG-lyase). The full-length protein specifically recognises and cleaves alpha-1,4 glycosidic bonds between l-rhamnose and d-galacturonic acids in the backbone of rhamnogalacturonan-I, a major component of the plant cell wall polysaccharide, pectin. This domain possesses a jelly roll beta-sandwich fold structurally homologous to carbohydrate binding modules (CBMs), and it carries two sulfate ions and a hexa-coordinated calcium ion.
Links
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Statistics
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PSSM-Id: 521364
Aligned: 121 rows
Threshold Bit Score: 79.5796
Created: 16-Feb-2025
Updated: 28-Apr-2025
Structure
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Aligned Rows:
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PubMed ReferencesClick to see Conserved Features Help
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
Q5KEU1        389 ELWRLGVPDKTAGEFLHGFAKdpDH--TLHQeeyreywgawdfptdfPD-------------GVNYTIGTSDPSkDW--- 450  Cryptococcus ...
CDB99105      387 vTWRIGDWDGTPLEFKNGS----LM--TKMH----------------PAdsrv------eswKGNYIVGTSDAS-SFpcy 437 
XP_001932951  323 VIWRIGDWDGTPKGFLNFGDTpmKP--TYMH----------------PSdsrl-----akwdAGNYIIGTSTAS-GFpgy 378 
XP_014080095  371 AIWRIGDWDGTPRGFLNFQDTpmKP--TYMH----------------PSdsrl-----anwkVGNFIIGTTPIS-GFpay 426 
XP_003844929  368 PLWRIGDWDGTPQGLLNFEDT--PMkpTYMH----------------PSdyrrl----hkwdQGIYRVGISNSS-LFpgy 424 
EMR67284      378 AIWRIGEWDGTPRGFLNFGDTpmKP--TYMH----------------PSdsrl-----adwdAANYIVGTSAAS-SFpgy 433 
XP_003041718  377 AIWRIGEWDGTPRGFLNFEDKvmKP--TYMH----------------PSdkrl-----anwdAGNFIVGTSKTN-GFpgy 432 
Q1IU01         32 SIWKLGTFNHSSGEFRdqgi-----------------------dhadPKs------------DLTFVVGHNKDS-DWyrf 75   Candidatus Ko...
Q8A5X5         25 TVWQIGEKNHSASELAl-----------------------------sPDkykeflandfgweDRFYIIGLSSPQkDFpyv 75   Bacteroides t...
WP_013305988   24 VLWQIGKADNSSHEFAl-----------------------------aPSyyakflkndfgweDGSFVIGHSNIKkDFpyv 74   Maribacter sp...

Q5KEU1        451 NYVHYSRyggsftrpeyvldnvNAWTVNWVPeGGLdvSGKTAALTVQLAGA------RT-ASgnldlpeptsnysnvdYT 523  Cryptococcus ...
CDB99105      438 IFKDVNN----------------GLIVYFRL-NSEq-AAKDHTLKIGITGS------YIgGR----------------IQ 477 
XP_001932951  379 MWKDINN----------------DHLVYFRL-TDAq-LAKGAKIRIGVTEG------MAgGR----------------PS 418 
XP_014080095  427 IWKDINN----------------DYLVYFRL-TDAq-LARGAKIRVGVTQG------QAgGR----------------PT 466 
XP_003844929  425 LWRDIND----------------DRRIIFLM-EEKq-RLHGMTIRLGVTQG------QAgGR----------------PQ 464 
EMR67284      434 IFQDINN----------------NHVVYFKL-TQAq-LAAAHTVRIGVTEG------YIgGR----------------PK 473 
XP_003041718  433 MWQDINN----------------NHLVYFRL-NQAq-LGKEHTIRLGITQA------YInGR----------------PT 472 
Q1IU01         76 QPGPANGmtg---------grvHPYTLKFAL-KDAp--RGVYHLKIAMLYEtpr---------------------lsfLK 122  Candidatus Ko...
Q8A5X5         76 LPGPADHwggtsy---tagirtHVLNILFGM-KEVp-ETDSWKLIIDLLDThhelpaL--------------------FK 130  Bacteroides t...
WP_013305988   75 LPGAMDYwggtsg---lsgirpHQLNLLFAI-KDKp-NHGDWKLVIDILECspekppL--------------------FK 129  Maribacter sp...

Q5KEU1        524 VNVNGnpl--twtILYNQSSSCSDRSGIA-CYN--------LRNVFTFPGEWLKNd--TNNVFEFALPynas-------- 582  Cryptococcus ...
CDB99105      478 PSVNSwtsk-lpsASNQPGTRLMTIG-TYrGNN--------YTYSFTVPASAFNTntrDWNQLKLNVIsgs--------- 538 
XP_001932951  419 ISVGSwsap-lqgDKGQGDTRSLTVG-TYrGNN--------YIYEYNIPASAWVQstrEYQILKISVIsgk--------- 479 
XP_014080095  467 VAVNAwaak-lpaDKGQGDTRSLTVG-TYrGNN--------YVYEFDVPASAWVAsarEYQILKITVIsgk--------- 527 
XP_003844929  465 VSLNGkicplnnvRP-QSRNRTLTIG-NYrGNN--------HMYEFEILASQYTAd--FVQEMRIEVVsddpviidenga 532 
EMR67284      474 ITVNSwdgg-atpAIGQASTRSLTVG-TYrGNN--------VMLTWDVPASAWKQstsEWQTLTITVItgss-------- 535 
XP_003041718  473 IKVNDwsar-tpgATSQASTRSLTTG-TYrGNN--------VKLEFTVPSSAFKQstsEWQIMTISIVtgs--------- 533 
Q1IU01        123 LEINGhsgyfyfhPKLd------fNAGDWeGTFvpq--tstDEKVIAIPASWLHQ---GENTLVFTAMdapa-------- 183  Candidatus Ko...
Q8A5X5        131 ITING-----------KSWKYALPKG-SGkSIDgdysqikpHTIEIPLNSGVIRK---GSNSIALTSLe----------- 184  Bacteroides t...
WP_013305988  130 VTVNG-----------KSWKFQLKKGLNAeALNgsidntveQKFEITLDSQIIKK---GGNEIQLTSLd----------- 184  Maribacter sp...

Q5KEU1        583 -ggdvNFRNY---SISVLYDAIRL 602  Cryptococcus neoformans
CDB99105      539 --ngsDYLSP-----AVSIDCIEL 555 
XP_001932951  480 --tstGYLSP-----GVSFDAIDM 496 
XP_014080095  528 --taaGYLSP-----AVSFDAVEL 544 
XP_003844929  533 rhkghGYLSP-----GFSIDCIDa 551 
EMR67284      536 --gsgGFLSG-----AVSIDCVDm 552 
XP_003041718  534 --tgtKYLSG-----GVSFDSIDM 550 
Q1IU01        184 -tpqnSLGAIapgHTGLVYDALEl 206  Candidatus Koribacter versatilis Ellin345
Q8A5X5        185 -------------GSWILFDDIrl 195  Bacteroides thetaiotaomicron
WP_013305988  185 -------------GSWLLFDQIRl 195  Maribacter sp. HTCC2170
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