Conserved Protein Domain Family
YkuD_2

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pfam13645: YkuD_2 
L,D-transpeptidase catalytic domain
This family is related to pfam03734.
Statistics
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PSSM-Id: 493574
Aligned: 59 rows
Threshold Bit Score: 167.298
Created: 16-Feb-2025
Updated: 28-Apr-2025
Structure
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Aligned Rows:
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
jgi:Cpha266_0681  31 EKISVDAYK--SAFVALDAYRTTHPEENPr--yLAVVDFTKPSFIKRLALIDLKTGEEFFYR-VAHGKN---SGEL---F 99 
WP_014243796      38 SGIDFDAFS--KGITGYYSLAAQGKTSDSp--iFSIIDFNEPSNRHRWYFFDLSQGRFLYNVpVSHGAR---TGEL---M 107 Halobacteri...
Q6MJ45            59 nsgKTIKVK--AKIRGREKTYMSTRDVTIksdfVAVIDFSKPSSQRRLYIMNMQTGAV-TKHfVAHGKG---SGVN---I 129 Bdellovibri...
Q6MN59           100 RMINSKALA--EAVLYFDKNQSRIKNKKY----MSLIDFGKRSTQARFFIINMSTGEV-TAIhTAHGKG---SDANhdgY 169 Bdellovibri...
Q6MPR3            90 HIVPTKALE--TAVLYFHENKAKFKNQAV----MSILDFSQKSTQKRWYFIDMKTGAV-WNVhVSHGKG---SDSNhdgF 159 Bdellovibri...
WP_013836464      60 fDVNPKLLE--KALAALDTHSGRIRDHGR----IAFVDFSVSSSRRRMHFLDIENGKT-KQIlVAHGSG---SDPDhtgF 129 Novosphingo...
WP_012508884      31 EKVSPQAYR--AAIAALETYRAAHPEMGIr--yLAVVDYSKPSYIKRMAVIDLVSGEEWFYR-VAHGKN---SGDL---Y 99  Pelodictyon...
WP_013685654      43 tRLELTLLQqlKSLKTYIKSKNGAYSNQK----AILIDMKIPSKYFRLFVVDLKTDKILSKGlCSHGSGseiAGT----D 114 Fluviicola ...
5_pfamImport       3 PEKNYKKFH--LEAQNYCKSHEMNTEY------YFLLDLSLHPGRNRFFVINIKEQKIIDRNlVTHGSCdvfSDNPnkwE 74 
Q5ZTF5            56 NSLQPAVID--KVITTIQCANAYQVDRNNi---LTIIDYSMPSNQKRLWVFDLDKKELLFHTyVSHGIK---SGTL---L 124 Legionella ...
jgi:Cpha266_0681 100 ASWFSDTSESNMSSLGLYKVLET-YSGDHGKAMR--LEGLEPSVNSNAFSRDIVLHSAEYVSLRYIfINLltlngpRIGR 176
WP_014243796     108 SQYFSNTNGTKKSSLGFYKTGTRkNWSKFSKAMF--LYGLDPGENDNAYERLIIFHNSAYVRFNLP-EGT------RNGR 178 Halobacteri...
Q6MJ45           130 AAKFSNIDGSKMSSLGLYLGGNT-YYGGHGESLN--LYGLEAS-NSNAAERDIVVHAASYVSEDYV-KSQg-----RLGR 199 Bdellovibri...
Q6MN59           170 AEKFSNNSGSNASSLGYYLAAET-YYGKHGLSLK--LDGLSST-NSKARARAVVIHGASYVKESSV-IQ---------GR 235 Bdellovibri...
Q6MPR3           160 AEKFSNVEGSNASSLGFYKTAET-YQGSNGYSLR--LDGLSTT-NSNARSRAIVVHGANYVQDSNV-IQ---------GR 225 Bdellovibri...
WP_013836464     130 VERFSNAIGSNASSQGAFLTDDY-YVGKHGRSQR--LIGLDPT-NDNALDRAIVLHSAWYANEDMI-HTHg-----MLGR 199 Novosphingo...
WP_012508884     100 ATRFSNTLDSGMSSTGLYNVLDA-YTGDHGMAVR--LEGLEPARNGNAFSRDIVLHSADYVSLGYIiLNLvtlngpRIGR 176 Pelodictyon...
WP_013685654     115 SLQFSNTPNSYMTSLGMYKVGSA-YQGSFGKSYR--LIGLEKS-NDKAIARAIVLHRYSCVPDEEQf--------yPICN 182 Fluviicola ...
5_pfamImport      75 KSKFDNRLDSHCSMKGKYKIGKR-DWSAWGIKVKywLEGLEES-NQNAVKRVVVLHSWEAVSNTEIyPEVs-----PL-- 145
Q5ZTF5           125 TDKFSNKFDSKASSIGVYKTEQV-YYGREGLSLR--LVGLDTKFNDNAFNRYIVMHGGWYMDEQFI-KRYg-----RPGR 195 Legionella ...
jgi:Cpha266_0681 177 SNGCFVVSP-HAIDEVVQKLNHGAFLYA 203
WP_014243796     179 SHGCFAVPNgTLPEKLLKLMADGSPTII 206 Halobacteriovorax marinus
Q6MJ45           200 SWGCPAVAP-GIIKRMLNNFKDGGLVYA 226 Bdellovibrio bacteriovorus
Q6MN59           236 SWGCPAVAN-HLRDKVIGMLKGGSLIYA 262 Bdellovibrio bacteriovorus
Q6MPR3           226 SWGCPAVSQ-ANRDKVINLIKGGSLLYA 252 Bdellovibrio bacteriovorus
WP_013836464     200 SQGCFAVGE-THLDDLFSFLGKGRMIYA 226 Novosphingobium sp. PP1Y
WP_012508884     177 SNGCFVVSP-GDIDDVAQKLSHKGLLYA 203 Pelodictyon phaeoclathratiforme
WP_013685654     183 SLGCAMLSE-NYFEELIPLIDSESkpmi 209 Fluviicola taffensis
5_pfamImport     146 SWGCPAVSD-VFMQKLDAKLKAS----- 167
Q5ZTF5           196 SWGCPALPL-PIKKQIIDTIKDNSLLVV 222 Legionella pneumophila subsp. pneumophila str. Philadelphia 1
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