4IOU


Conserved Protein Domain Family
APOBEC_N

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pfam08210: APOBEC_N 
Click on image for an interactive view with Cn3D
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 homodimerization 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: 400493
View PSSM: pfam08210
Aligned: 22 rows
Threshold Bit Score: 103.977
Threshold Setting Gi: 156350041
Created: 21-May-2020
Updated: 7-Aug-2020
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:
4IOU_D            26 FYFHFKNLRKAYG---RNESw--LCFTMEVVKHHSpvswKRGV-----FRNQVdpe------------------------ 71  human
Q6DIS6            55 FMFQFKNVEYSSG---RNKTi--LCYTVERPEGQV----FHGY-----LEDEHa-------------------------- 94  tropical cl...
ELW66069          52 FKFQFRNVEYSSG---RNKTf--LCYVVEAQAKGGqvqaTRGY-----LEDEHa-------------------------- 95  Chinese tre...
XP_003220397      58 FKFQFKNVEYSSG---RNKTf--LCYIIEMQGKESk--tLRGY-----LEDEHa-------------------------- 99  green anole
XP_008112919      51 EFHQAFGFPYGPT---HHQNkhlLFYEVRHFSGKLm---QKGHatnc--------------------------------- 91  green anole
XP_012043105      51 efyqifGFPYGPT---YPPTkhlTFYELKTSSGSLv---QKGHassc--------------------------------- 91  sheep
Q8WW27            47 efCQIFGFPYGTT---FPQTkhlTFYELKTSSGSLv---QKGHassc--------------------------------- 87  human
XP_001622116      49 hkkiakagdKVLG---NKKEfcgAFYHVPRS--------KSGC-----LDKQScaiakrghdatpltavalvkyeqqess 112 starlet sea...
jgi:MICPUN_56782  53 AFFHCSPTPELSS---HPDE---LCLRVACDPAGRkc-eTKGVvvvaaLRDRAgdlrflsr------------------- 106 Micromonas ...
XP_021580198     232 FHLQFNNLHRAPRpycRRKTy--LCYQLRLQ--GSl--cDQDY-----FQNKKd-------------------------- 274 thirteen-li...
4IOU_D            72 ---------------tgRHAERCFLSWfa-ddILS---P-----------NTNYEVTWYTSWSPCPE------------- 108 human
Q6DIS6            95 ----------------sAHAEDAFFTS-----VLPqflT-----------SGSVTVTCYVSSSPCVN------------- 129 tropical cl...
ELW66069          96 ----------------aAHAEEAFFNT-----ILPafdP-----------ALRYNVTWYVSSSPCAA------------- 130 Chinese tre...
XP_003220397     100 ----------------aAHAEEAFFNT-----ILPtceP-----------GFRYEVTWYVSSSPCVS------------- 134 green anole
XP_008112919      92 -------------tendIHPESMLFE------------TggyldsivrnwENVMYIILYSNYSPCNEae---------qc 137 green anole
XP_012043105      92 -------------tgndTHPESMLFE------------MngyfdsavhsnDGMRHIILYSSNSPCNEan---------hc 137 sheep
Q8WW27            88 -------------tgnyIHPESMLFE------------MngyldsaiynnDSIRHIILYSNNSPCNEan---------hc 133 human
XP_001622116     113 ewaiksvrrytncsdkmKHAEEFFLMDidcqlEARhkgEegfl---dfwnKKKWQITMYLTMQPCHLstdtggtkedqsc 189 starlet sea...
jgi:MICPUN_56782 107 ----------ysncplsSHAEEYVVRDeelvrAVMemaPeddarsstktpGSAGTLTLYQRLQPCHGssdnr---gplws 173 Micromonas ...
XP_021580198     275 -----------------lHAEIRFIKKir-slDLD---Q-----------SHNYEVTCYLTWSPCPD------------- 309 thirteen-li...
4IOU_D           109 CAGEVAEFLARH----SNVNLTIKTARL-----YY----------------FDDTDAAEG--LRSLSQE---GASVEIMG 158 human
Q6DIS6           130 CAASVAQCLRRN----KTVRIQLAVARL-----FQ----------------WEEPEIRRA--LKGLRSA---GCQVRMMR 179 tropical cl...
ELW66069         131 CADRIIKTLSKT----KNLRLLILVGRL-----FM----------------WEEPEIQAA--LRKMREA---GCKLRIMK 180 Chinese tre...
XP_003220397     135 CAERIVKALKKN----KNLRLSIAVGRL-----FM----------------WEEPDIQAA--LKQMKAA---GCKLRIMK 184 green anole
XP_008112919     138 CISKIYHFLMKY----PGITLCIYFSQL-----YHteedl-------------pispwNCeaLQSLASLw-pQVTLNPLC 194 green anole
XP_012043105     138 CISKMYTFLAKY----PDITLSIYFSQL-----YHteaef-------------paspwNReaLRSLASLs-pRVTLSPIS 194 sheep
Q8WW27           134 CISKMYNFLITY----PGITLSIYFSQL-----YHtemdf-------------pasawNReaLRSLASLw-pRVVLSPIS 190 human
XP_001622116     190 CEVMIKAKEKLG----DNVEIVIKPTHLcqvgwYKgk-------------pREKPKNAEKgvRKLFKTT---GIELECMK 249 starlet sea...
jgi:MICPUN_56782 174 CSDALVAGLHREllgpRGVSLRVAVSYT-----YRahwdvrgfesererrwWGPKVEAARegIRVFAAAakdGVTLEALN 248 Micromonas ...
XP_021580198     310 CAQELVALTRSH----PHVRLTLFTSRL-----YFh---------------W---LWRFQegLRLLWRS---GVQIRVMS 359 thirteen-li...
4IOU_D           159 YKDfkycWENFV-Y--------------NDDEPF--KPWDGLDYNFLDLDSKLQE 196 human
Q6DIS6           180 GADyvyvWKNFV-EpdvtldeegkeivkDEHQDF--IPWEDLEENARYYEEKLEE 231 tropical clawed frog
ELW66069         181 PQDfeyiWQNFV-Eqe-----------egESKAF--EPWEDIQENFLYYEEKLAD 221 Chinese tree shrew
XP_003220397     185 PQDfeyvWKNFV-Eqe----------egEEPKAF--APWDDIQENFQYYDEKLAE 226 green anole
XP_008112919     195 GGLwhsvLHSFV--------------------------------TSVPQAGCYHP 217 green anole
XP_012043105     195 GGMwyslLSNFV--------------------------------SGVQGATVFQP 217 sheep
Q8WW27           191 GGIwhsvLHSFI--------------------------------SGVSGSHVFQP 213 human
XP_001622116     250 EGDwkylLQYAQpEvenklpdydtsrrkTEDEKI----------GEELHNQQLEQ 294 starlet sea anemone
jgi:MICPUN_56782 249 AED----WAFLVsLcdedvardyaaafgEGGEGFgsKGCGVFTAPAVAHRRAMDE 299 Micromonas commoda
XP_021580198     360 LREfthcWVKFV-N--------------HGGCPF---------------EPELWD 384 thirteen-lined ground squirrel
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