4IOU


Conserved Protein Domain Family
APOBEC_N

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pfam08210: APOBEC_N (this model, PSSM-Id:285428 is obsolete and has been replaced by 400493)
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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 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: 285428
View PSSM: pfam08210
Aligned: 26 rows
Threshold Bit Score: 101.997
Threshold Setting Gi: 255074389
Created: 27-Jun-2015
Updated: 5-Aug-2015
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 FYFHFKNLRKAYGRNESw--LCFTMEVVKHHSpv-----swK--RGV----------------------------FRNQ- 67  human
Q8WW27        47 efCQIFGFPYGTTFPQTkhlTFYELKTSSGSLv--------Q--KGHassct---------------------------- 88  human
XP_006148665  52 FKFQFRNVEYSSGRNKTf--LCYVVEAQAKGGqv-----qaT--RGY----------------------------LEDE- 93  Chinese tree shrew
XP_007256811  26 FRFQFKNVEYCSGRNKTl--LCYLVDQSSGADg-------lL--RGF----------------------------LEDE- 65  Mexican tetra
XP_003220397  58 FKFQFKNVEYSSGRNKTf--LCYIIEMQGKESk-------tL--RGY----------------------------LEDE- 97  green anole
XP_012043105  51 EFYQIFGFPYGPTYPPTkhlTFYELKTSSGSLv--------Q--KGH----------------------------ASSC- 91  sheep
XP_008112919  51 EFHQAFGFPYGPTHHQNkhlLFYEVRHFSGKLm--------Q--KGH----------------------------ATNC- 91  green anole
EGT34430     157 VPKHVQNC-FLEHKHESsglIVTLIGEDYVYRgd-----fyHesKGE----------------------------P---- 198 Caenorhabditis ...
XP_001622116  49 hkkiakagdKVLGNKKEfcgAFYHVPRSKSGCldkqscaiaK--RGHdatpltavalvkyeqqessewaiksvrrYTNC- 125 starlet sea ane...
XP_002500869  53 aFFHCSPTPELSSHPDE---LCLRVACDPAGRkc------eT--KGVvvv-----------------------aaLRDRa 98  Micromonas sp. ...
4IOU_D        68 ----------VdpetgrHAERCFLS---Wfa---------------ddI-LSP------------NTNYEVTWYTSWSPC 106 human
Q8WW27        89 -------------gnyiHPESMLFE---------------------------Mngylds-aiynnDSIRHIILYSNNSPC 127 human
XP_006148665  94 ----------Haaa---haEEAFFN---Til----------------pA-FDP------------ALRYNVTWYVSSSPC 128 Chinese tree shrew
XP_007256811  66 ----------Hag---lHAELAFFQli-------------------lpQ-YDP------------SVNYTVTWYVSSSPC 100 Mexican tetra
XP_003220397  98 ----------Haaa---haEEAFFN---Til---------------ptC--EP------------GFRYEVTWYVSSSPC 132 green anole
XP_012043105  92 ----------Tgn--dtHPESMLFEmngYfd---------------saV-HSN------------DGMRHIILYSSNSPC 131 sheep
XP_008112919  92 ----------Ten--diHPESMLFEtggYld---------------siV-RNW------------ENVMYIILYSNYSPC 131 green anole
EGT34430     199 -----------------HVEEQLVA---Aiy---------------dlIsKYT------------VDLHEIQIFVSKSPC 231 Caenorhabditis ...
XP_001622116 126 ----------Sdk--mkHAEEFFLM---Did---------------cqL-EARhkgeegfldfwnKKKWQITMYLTMQPC 174 starlet sea ane...
XP_002500869  99 gdlrflsrysNcpl-ssHAEEYVVR---DeelvravmemapeddarssT-KTP------------GSAGTLTLYQRLQPC 161 Micromonas sp. ...
4IOU_D       107 PE------------------CAGEVAEFLARH----SNVNLTIKTARL-----Y---Y----------------FD---D 137 human
Q8WW27       128 NEan--------------hcCISKMYNFLITY----PGITLSIYFSQL-----Y---Htemdf----------------- 164 human
XP_006148665 129 a------------------aCADRIIKTLSKT----KNLRLLILVGRL-----F---M----------------WE---E 159 Chinese tree shrew
XP_007256811 101 AH------------------CCSKLLEILQER----KTLRLNIFSARL-----L---E----------------AE---E 131 Mexican tetra
XP_003220397 133 Vs------------------CAERIVKALKKN----KNLRLSIAVGRL-----F---M----------------WE---E 163 green anole
XP_012043105 132 NEan--------------hcCISKMYTFLAKY----PDITLSIYFSQL-----Y---H----------------TEaefP 169 sheep
XP_008112919 132 NEae--------------qcCISKIYHFLMKY----PGITLCIYFSQL-----Y---H----------------TE---E 166 green anole
EGT34430     232 FHqdcepkcevvdecksnkaCAKLLGLLLSKVrkeiKKVDVKMTVKFL-----Y---P----------------HL---N 284 Caenorhabditis ...
XP_001622116 175 HLstdtggt-----kedqscCEVMIKAKEKLG----DNVEIVIKPTHLcqvgwYkgkP----------------RE---K 226 starlet sea ane...
XP_002500869 162 HGssdnr--------gplwsCSDALVAGLHREllgpRGVSLRVAVSYT-----Y---RahwdvrgfesererrwWG---P 222 Micromonas sp. ...
4IOU_D       138 T---DA--AEG--LRSLSQE---GASVEIMGYKDfk--ycWENF---VYND----D----EPF----------------- 177 human
Q8WW27       165 ----pasawNReaLRSLASLw-pRVVLSPISGGIwh--svLHSF---I-------------------------------- 202 human
XP_006148665 160 P---EI--QAA--LRKMREA---GCKLRIMKPQDfe--yiWQNF---VEQE----Ege-sKAF----------------- 202 Chinese tree shrew
XP_007256811 132 E---EGqeDNRagMKALAGA---GCKLRVMKPLDfs--ysWDTF---VEHE----D----ERF----------------- 175 Mexican tetra
XP_003220397 164 P---DI--QAA--LKQMKAA---GCKLRIMKPQDfe--yvWKNF---VEQE----EgeepKAF----------------- 207 green anole
XP_012043105 170 A---SP--WNReaLRSLASLs-pRVTLSPISGGMwy--slLSNF---Vsgvqgatvfqpiltgraladrhnaheinaitg 238 sheep
XP_008112919 167 DlpiSP--WNCeaLQSLASLw-pQVTLNPLCGGLwh--svLHSF---Vtsvpqagcyhpilpiraltdrqnaqqinnitg 238 green anole
EGT34430     285 Rg--DL--YTKqgILCMLQA---GIKVEPLLMKDwcaimdWSPH---VDHK----G----DYL----------------- 329 Caenorhabditis ...
XP_001622116 227 P---KN--AEKgvRKLFKTT---GIELECMKEGDwk--ylLQYAqpeVENKlpdyD----TSR----------------- 275 starlet sea ane...
XP_002500869 223 K---VE--AARegIRVFAAAakdGVTLEALNAED------WAFL---VSLC----D----EDVardyaaafgeggegfgs 280 Micromonas sp. ...
4IOU_D       178 KPWDGLDYNFLDLDSKLQE 196 human
Q8WW27       203 --------SGVSGSHVFQP 213 human
XP_006148665 203 EPWEDIQENFLYYEEKLAD 221 Chinese tree shrew
XP_007256811 176 TPWEDCQENYEYHHEKLAQ 194 Mexican tetra
XP_003220397 208 APWDDIQENFQYYDEKLAE 226 green anole
XP_012043105 239 vkpyftdvlqakenpnvkv 257 sheep
XP_008112919 239 mrspfmknlpqpiygnasa 257 green anole
EGT34430     330 QLWNNHHLDKAVAQSQLFI 348 Caenorhabditis brenneri
XP_001622116 276 RKTEDEKIGEELHNQQLEQ 294 starlet sea anemone
XP_002500869 281 KGCGVFTAPAVAHRRAMDE 299 Micromonas sp. RCC299
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