Conserved Protein Domain Family
APOBEC_N

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pfam08210: APOBEC_N 
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APOBEC-like N-terminal domain
A mechanism of generating protein diversity is mRNA editing. Members of this family are C-to-U editing enzymes. The N-terminal domain of APOBEC-1 like proteins is the catalytic domain, while the C-terminal domain is a pseudocatalyitc domain. More specifically, the catalytic domain is a zinc dependent deaminases domain and is essential for cytidine deamination.APOBEC-3 like members contain two copies of this domain. RNA editing by APOBEC-1 requires homodimerisation and this complex interacts with RNA binding proteins to from the editosome (and references therein). This family also includes the functionally homologous activation induced deaminase (AID), which is essential for the development of antibody diversity in B lymphocytes, and the sea lamprey PmCDA1 and PmCDA2, which are predicted to play an AID-like role in the adaptive immune response of jawless vertebrates. Divergent members of this family are present in various eukaryotes such as Nematostella, C. elegans, Micromonas and Emiliania, and prokaryotes such as Wolbachia and Pseudomonas brassicacearum.
Statistics
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PSSM-Id: 311913
View PSSM: pfam08210
Aligned: 25 rows
Threshold Bit Score: 107.023
Threshold Setting Gi: 255074389
Created: 23-Jul-2016
Updated: 4-Aug-2016
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
3WUS_A         17 FYFHFKNLRKAYGRNESw--LCFTMEVVKHHSpv-----swK--RGV----------------------------FRNQ- 58
gi 74751569    47 efCQIFGFPYGTTFPQTkhlTFYELKTSSGSLv--------Q--KGHassct---------------------------- 88
gi 992220930    6 FRFQFKNVEYCSGRNKTl--LCYLVDQSSGADg-------lL--RGF----------------------------LEDE- 45
gi 17566846   157 VPKHVQNC-FLEHKHESsglIVTLIGEDYVYRgd-----fyHesKGE----------------------------P---- 198
gi 156350041   49 hkkiakagdKVLGNKKEfcgAFYHVPRSKSGCldkqscaiaK--RGHdatpltavalvkyeqqessewaiksvrrYTNC- 125
gi 255074389   53 aFFHCSPTPELSSHPDE---LCLRVACDPAGRkc------eT--KGVvvv-----------------------aaLRDRa 98
gi 803129030   51 efyqifGFPYGPTYPPTkhlTFYELKTSSGSLv--------Q--KGHassct---------------------------- 92
gi 1033366091  51 EFHQAFGFPYGPTHHQNkhlLFYEVRHFSGKLm--------Q--KGHatnct---------------------------- 92
gi 327271243   58 FKFQFKNVEYSSGRNKTf--LCYIIEMQGKESk-------tL--RGY----------------------------LEDE- 97
gi 562838969   52 FKFQFRNVEYSSGRNKTf--LCYVVEAQAKGGqv-----qaT--RGY----------------------------LEDE- 93
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
3WUS_A         59 ----------VdpethcHAERCFLSWfc---------------ddI-LS---P------------NTNYEVTWYTSWSPC 97
gi 74751569    89 -------------gnyiHPESMLFE---------------------------Mngylds-aiynnDSIRHIILYSNNSPC 127
gi 992220930   46 ----------Hag---lHAELAFFQli----------------lpQ-YD---P------------SVNYTVTWYVSSSPC 80
gi 17566846   199 -----------------HVEEQLVAAiy---------------dlIsKY---T------------VDLHEIQIFVSKSPC 231
gi 156350041  126 ----------Sdk--mkHAEEFFLMDid---------------cqL-EA---RhkgeegfldfwnKKKWQITMYLTMQPC 174
gi 255074389   99 gdlrflsrysNcpl-ssHAEEYVVRDeelvravmemapeddarssT-KT---P------------GSAGTLTLYQRLQPC 161
gi 803129030   93 -------------gndtHPESMLFE---------------------------Mngyfds-avhsnDGMRHIILYSSNSPC 131
gi 1033366091  93 -------------endiHPESMLFE---------------------------Tggylds-ivrnwENVMYIILYSNYSPC 131
gi 327271243   98 ----------Haa---aHAEEAFFNT-------------------I-LPtceP------------GFRYEVTWYVSSSPC 132
gi 562838969   94 ----------Haa---aHAEEAFFNT-------------------I-LPafdP------------ALRYNVTWYVSSSPC 128
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
3WUS_A         98 PE------------------CAGEVAEFLARH----SNVNLTIFTARL-----Y---Y----------------FWDT-D 130
gi 74751569   128 NEan--------------hcCISKMYNFLITY----PGITLSIYFSQL-----Y---Htemdf----------------p 165
gi 992220930   81 AH------------------CCSKLLEILQER----KTLRLNIFSARL-----L---E----------------AEEE-E 113
gi 17566846   232 FHqdcepkcevvdecksnkaCAKLLGLLLSKVrkeiKKVDVKMTVKFL-----Y---P----------------HLNRgD 287
gi 156350041  175 HLstdtggt-----kedqscCEVMIKAKEKLG----DNVEIVIKPTHLcqvgwYkgkP----------------REKP-K 228
gi 255074389  162 HGssdnr--------gplwsCSDALVAGLHREllgpRGVSLRVAVSYT-----Y---RahwdvrgfesererrwWGPK-V 224
gi 803129030  132 NEan--------------hcCISKMYTFLAKY----PDITLSIYFSQL-----Y---Hteaef----------------p 169
gi 1033366091 132 NEae--------------qcCISKIYHFLMKY----PGITLCIYFSQL-----Y---Hteedl----------------p 169
gi 327271243  133 VS------------------CAERIVKALKKN----KNLRLSIAVGRL-----F---M----------------WEEP-D 165
gi 562838969  129 AA------------------CADRIIKTLSKT----KNLRLLILVGRL-----F---M----------------WEEP-E 161
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
3WUS_A        131 Y--QEG--LRSLSQE---GASVEIMGYKDfk--ycWENF---VY----ND----DEPF-----------------KPWKG 173
gi 74751569   166 asawNReaLRSLASLw-pRVVLSPISGGIwh--svLHSF---I------------------------------------- 202
gi 992220930  114 GqeDNRagMKALAGA---GCKLRVMKPLDfs--ysWDTF---VE----HE----DERF-----------------TPWED 160
gi 17566846   288 L--YTKqgILCMLQA---GIKVEPLLMKDwcsimdWSPH---VD----HK----GDYL-----------------QLWNN 334
gi 156350041  229 N--AEKgvRKLFKTT---GIELECMKEGDwk--ylLQYAqpeVE----NKlpdyDTSR-----------------RKTED 280
gi 255074389  225 E--AARegIRVFAAAakdGVTLEALNAED------WAFL---VS----LC----DEDVardyaaafgeggegfgsKGCGV 285
gi 803129030  170 aspwNReaLRSLASLs-pRVTLSPISGGMwy--slLSNF---V------------------------------------- 206
gi 1033366091 170 ispwNCeaLQSLASLw-pQVTLNPLCGGLwh--svLHSF---V------------------------------------- 206
gi 327271243  166 I--QAA--LKQMKAA---GCKLRIMKPQDfe--yvWKNF---VEqeegEE----PKAF-----------------APWDD 212
gi 562838969  162 I--QAA--LRKMREA---GCKLRIMKPQDfe--yiWQNF---VEqe-egE----SKAF-----------------EPWED 207
                         330
                  ....*....|....
3WUS_A        174 LKYNFLFLDSKLQE 187
gi 74751569   203 ---SGVSGSHVFQP 213
gi 992220930  161 CQENYEYHHEKLAQ 174
gi 17566846   335 HHLDKAVAQSQLFI 348
gi 156350041  281 EKIGEELHNQQLEQ 294
gi 255074389  286 FTAPAVAHRRAMDE 299
gi 803129030  207 ---SGVQGATVFQP 217
gi 1033366091 207 ---TSVPQAGCYHP 217
gi 327271243  213 IQENFQYYDEKLAE 226
gi 562838969  208 IQENFLYYEEKLAD 221
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