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Conserved domains on  [gi|1371545249|ref|NP_001233159|]
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DNA dC-

Protein Classification

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List of domain hits

 Name Accession Description Interval E-value
NAD2 pfam18782
Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.
 10-189 5.30e-106

Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.


:

Pssm-ID: 436733 [Multi-domain]  Cd Length: 176  Bit Score: 309.30  E-value: 5.30e-106
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  10 ERMYQRTFYYHFENKPILYGRSYTWLCYEVKIRKDPSKLPWDTGVFRGQvyskPEHHAEMCFLSRFCGNQLPAYKRFQIT 89
Cdd:pfam18782   1 KRMYPRTFYFNFNNKPILYGRNKTYLCYEVERLDNGTWLPQHRGFFRNQ----AKYHAELCFLSWFCGNQLPPYQNYQVT 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  90 WFVSWNPCPDCVAKVIEFLAEHPNVTLTISTARLYYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFVYNEDQSFM 169
Cdd:pfam18782  77 WYVSWSPCPECAGEVAEFLAEHPNVTLTIFAARLYYFWDPDYQEALRRLRQAGARVKIMDYEEFEYCWENFVYNQGEPFQ 156

                         170       180
                  ....*....|....*....|
gi 1371545249 170 PWYKFNDNYAFLHRMLKEIL 189
Cdd:pfam18782 157 PWDGLEENSRFLHRRLREIL 176
NAD2 pfam18782
Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.
 191-377 1.71e-94

Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.


:

Pssm-ID: 436733 [Multi-domain]  Cd Length: 176  Bit Score: 280.02  E-value: 1.71e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 191 HLMDPDTFTSNFNNDVSVRGRHQTYLCYEVERLDNGTWVPMDQhwGFLCNQAKnvlrgdygCHAELCFLGWVPSWQLDPA 270
Cdd:pfam18782   1 KRMYPRTFYFNFNNKPILYGRNKTYLCYEVERLDNGTWLPQHR--GFFRNQAK--------YHAELCFLSWFCGNQLPPY 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 271 QTYRVTWFISWSPCFSwgCAEQVRAFLQENTHVRLHIFAARIY-DYDPLYQEALRTLRDAGAQVSIMTYDEFEYCWDTFV 349
Cdd:pfam18782  71 QNYQVTWYVSWSPCPE--CAGEVAEFLAEHPNVTLTIFAARLYyFWDPDYQEALRRLRQAGARVKIMDYEEFEYCWENFV 148

                         170       180
                  ....*....|....*....|....*...
gi 1371545249 350 DRQGRPFQPWDGLDEHSQALSGRLRAIL 377
Cdd:pfam18782 149 YNQGEPFQPWDGLEENSRFLHRRLREIL 176
 
Name Accession Description Interval E-value
NAD2 pfam18782
Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.
 10-189 5.30e-106

Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.


Pssm-ID: 436733 [Multi-domain]  Cd Length: 176  Bit Score: 309.30  E-value: 5.30e-106
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  10 ERMYQRTFYYHFENKPILYGRSYTWLCYEVKIRKDPSKLPWDTGVFRGQvyskPEHHAEMCFLSRFCGNQLPAYKRFQIT 89
Cdd:pfam18782   1 KRMYPRTFYFNFNNKPILYGRNKTYLCYEVERLDNGTWLPQHRGFFRNQ----AKYHAELCFLSWFCGNQLPPYQNYQVT 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  90 WFVSWNPCPDCVAKVIEFLAEHPNVTLTISTARLYYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFVYNEDQSFM 169
Cdd:pfam18782  77 WYVSWSPCPECAGEVAEFLAEHPNVTLTIFAARLYYFWDPDYQEALRRLRQAGARVKIMDYEEFEYCWENFVYNQGEPFQ 156

                         170       180
                  ....*....|....*....|
gi 1371545249 170 PWYKFNDNYAFLHRMLKEIL 189
Cdd:pfam18782 157 PWDGLEENSRFLHRRLREIL 176
NAD2 pfam18782
Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.
 191-377 1.71e-94

Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.


Pssm-ID: 436733 [Multi-domain]  Cd Length: 176  Bit Score: 280.02  E-value: 1.71e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 191 HLMDPDTFTSNFNNDVSVRGRHQTYLCYEVERLDNGTWVPMDQhwGFLCNQAKnvlrgdygCHAELCFLGWVPSWQLDPA 270
Cdd:pfam18782   1 KRMYPRTFYFNFNNKPILYGRNKTYLCYEVERLDNGTWLPQHR--GFFRNQAK--------YHAELCFLSWFCGNQLPPY 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 271 QTYRVTWFISWSPCFSwgCAEQVRAFLQENTHVRLHIFAARIY-DYDPLYQEALRTLRDAGAQVSIMTYDEFEYCWDTFV 349
Cdd:pfam18782  71 QNYQVTWYVSWSPCPE--CAGEVAEFLAEHPNVTLTIFAARLYyFWDPDYQEALRRLRQAGARVKIMDYEEFEYCWENFV 148

                         170       180
                  ....*....|....*....|....*...
gi 1371545249 350 DRQGRPFQPWDGLDEHSQALSGRLRAIL 377
Cdd:pfam18782 149 YNQGEPFQPWDGLEENSRFLHRRLREIL 176
cytidine_deaminase cd01283
Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the ...
 8-158 7.57e-12

Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. Cytidine deaminases catalyze the deamination of cytidine to uridine and are important in the pyrimadine salvage pathway in many cell types, from bacteria to humans. This family also includes the apoBec proteins, which are a mammal specific expansion of RNA editing enzymes, and the closely related phorbolins, and the AID (activation-induced) enzymes.


Pssm-ID: 238610 [Multi-domain]  Cd Length: 112  Bit Score: 61.59  E-value: 7.57e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249   8 PMERMYQRTFYYhfenkpiLYGRSYTWLCYEVKirkdpsklpWDTGVFRGQVYSKPEH----HAEMCFLSRFCGNQlpaY 83
Cdd:cd01283     1 IEAALAAAEFAY-------APYSNFTVGAALLT---------KDGRIFTGVNVENASYgltlCAERTAIGKAVSEG---L 61

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  84 KRFQITWFVS-----WNPCPDCVAKVIEFLAehpnvtltistARLYYYWGRDWQralcrlrqagarvkimdyEEFAYCWE 158
Cdd:cd01283    62 RRYLVTWAVSdeggvWSPCGACRQVLAEFLP-----------SRLYIIIDNPKG------------------EEFAYTLS 112
cytidine_deaminase cd01283
Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the ...
 208-303 1.87e-09

Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. Cytidine deaminases catalyze the deamination of cytidine to uridine and are important in the pyrimadine salvage pathway in many cell types, from bacteria to humans. This family also includes the apoBec proteins, which are a mammal specific expansion of RNA editing enzymes, and the closely related phorbolins, and the AID (activation-induced) enzymes.


Pssm-ID: 238610 [Multi-domain]  Cd Length: 112  Bit Score: 54.65  E-value: 1.87e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 208 VRGRHQTYLCYEVERldngtwvPMDQHWGFLCNQAKnvlrGDYGCHAELCFLGWVPSWQLdpaQTYRVTWFIS-----WS 282
Cdd:cd01283    13 APYSNFTVGAALLTK-------DGRIFTGVNVENAS----YGLTLCAERTAIGKAVSEGL---RRYLVTWAVSdeggvWS 78

                          90       100
                  ....*....|....*....|.
gi 1371545249 283 PCFSwgCAEQVRAFLQENTHV 303
Cdd:cd01283    79 PCGA--CRQVLAEFLPSRLYI 97
 
Name Accession Description Interval E-value
NAD2 pfam18782
Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.
 10-189 5.30e-106

Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.


Pssm-ID: 436733 [Multi-domain]  Cd Length: 176  Bit Score: 309.30  E-value: 5.30e-106
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  10 ERMYQRTFYYHFENKPILYGRSYTWLCYEVKIRKDPSKLPWDTGVFRGQvyskPEHHAEMCFLSRFCGNQLPAYKRFQIT 89
Cdd:pfam18782   1 KRMYPRTFYFNFNNKPILYGRNKTYLCYEVERLDNGTWLPQHRGFFRNQ----AKYHAELCFLSWFCGNQLPPYQNYQVT 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  90 WFVSWNPCPDCVAKVIEFLAEHPNVTLTISTARLYYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFVYNEDQSFM 169
Cdd:pfam18782  77 WYVSWSPCPECAGEVAEFLAEHPNVTLTIFAARLYYFWDPDYQEALRRLRQAGARVKIMDYEEFEYCWENFVYNQGEPFQ 156

                         170       180
                  ....*....|....*....|
gi 1371545249 170 PWYKFNDNYAFLHRMLKEIL 189
Cdd:pfam18782 157 PWDGLEENSRFLHRRLREIL 176
NAD2 pfam18782
Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.
 191-377 1.71e-94

Novel AID APOBEC clade 2; A distnct family of AID/APOBEC deaminases found only in Amphibians.


Pssm-ID: 436733 [Multi-domain]  Cd Length: 176  Bit Score: 280.02  E-value: 1.71e-94
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 191 HLMDPDTFTSNFNNDVSVRGRHQTYLCYEVERLDNGTWVPMDQhwGFLCNQAKnvlrgdygCHAELCFLGWVPSWQLDPA 270
Cdd:pfam18782   1 KRMYPRTFYFNFNNKPILYGRNKTYLCYEVERLDNGTWLPQHR--GFFRNQAK--------YHAELCFLSWFCGNQLPPY 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 271 QTYRVTWFISWSPCFSwgCAEQVRAFLQENTHVRLHIFAARIY-DYDPLYQEALRTLRDAGAQVSIMTYDEFEYCWDTFV 349
Cdd:pfam18782  71 QNYQVTWYVSWSPCPE--CAGEVAEFLAEHPNVTLTIFAARLYyFWDPDYQEALRRLRQAGARVKIMDYEEFEYCWENFV 148

                         170       180
                  ....*....|....*....|....*...
gi 1371545249 350 DRQGRPFQPWDGLDEHSQALSGRLRAIL 377
Cdd:pfam18782 149 YNQGEPFQPWDGLEENSRFLHRRLREIL 176
APOBEC2 pfam18772
APOBEC2; APOBEC2 is a highly conserved (slow-evolving) family of AID/APOBECs found in most ...
 12-190 2.55e-91

APOBEC2; APOBEC2 is a highly conserved (slow-evolving) family of AID/APOBECs found in most vertebrates including cartilaginous fishes. APOBEC2 is poorly understood in terms of their molecular functions and substrate specificity.


Pssm-ID: 465863 [Multi-domain]  Cd Length: 174  Bit Score: 271.78  E-value: 2.55e-91
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  12 MYQRTFYYHFENKPILYGRSYTWLCYEVKiRKDPSKLPWDTGVFRGQvyskPEHHAEMCFLSRFCGNQLPAYKRFQITWF 91
Cdd:pfam18772   1 MDPKTFKFQFKNVPYASGRNKTYLCYEVE-TRSGSDLSPDRGYLRNQ----AGCHAELCFLSWILPWQLDPGQKYQVTWY 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  92 VSWNPCPDCVAKVIEFLAEHPNVTLTISTARLYYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFVYNEDQSFMPW 171
Cdd:pfam18772  76 VSWSPCPDCARKLAEFLARHPNLSLTIFAARLYFFWEPEYQEGLRRLKRAGAQLKIMDYQDFEYCWENFVDNQGRPFEPW 155

                         170
                  ....*....|....*....
gi 1371545249 172 YKFNDNYAFLHRMLKEILR 190
Cdd:pfam18772 156 EDLDENYEYLSRKLQEILR 174
APOBEC2 pfam18772
APOBEC2; APOBEC2 is a highly conserved (slow-evolving) family of AID/APOBECs found in most ...
 193-378 2.59e-80

APOBEC2; APOBEC2 is a highly conserved (slow-evolving) family of AID/APOBECs found in most vertebrates including cartilaginous fishes. APOBEC2 is poorly understood in terms of their molecular functions and substrate specificity.


Pssm-ID: 465863 [Multi-domain]  Cd Length: 174  Bit Score: 243.66  E-value: 2.59e-80
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 193 MDPDTFTSNFNNDVSVRGRHQTYLCYEVERLDNGtwvPMDQHWGFLCNQAknvlrgdyGCHAELCFLGWVPSWQLDPAQT 272
Cdd:pfam18772   1 MDPKTFKFQFKNVPYASGRNKTYLCYEVETRSGS---DLSPDRGYLRNQA--------GCHAELCFLSWILPWQLDPGQK 69

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 273 YRVTWFISWSPCFSwgCAEQVRAFLQENTHVRLHIFAARIYDY-DPLYQEALRTLRDAGAQVSIMTYDEFEYCWDTFVDR 351
Cdd:pfam18772  70 YQVTWYVSWSPCPD--CARKLAEFLARHPNLSLTIFAARLYFFwEPEYQEGLRRLKRAGAQLKIMDYQDFEYCWENFVDN 147

                         170       180
                  ....*....|....*....|....*..
gi 1371545249 352 QGRPFQPWDGLDEHSQALSGRLRAILQ 378
Cdd:pfam18772 148 QGRPFEPWEDLDENYEYLSRKLQEILR 174
NAD1 pfam18778
Novel AID APOBEC clade 1; A distinct family of AID/APOBEC-like deaminases found in ray-finned ...
 191-377 4.75e-79

Novel AID APOBEC clade 1; A distinct family of AID/APOBEC-like deaminases found in ray-finned fishes, the coelacanth, amphibians, lizards, and marsupials.


Pssm-ID: 465865 [Multi-domain]  Cd Length: 175  Bit Score: 240.64  E-value: 4.75e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 191 HLMDPDTFTSNFNNDVSVRGRHQTYLCYEVERLDngtwvPMDQHWGFLCNQAKnvlrgdyGCHAELCFLGWVPSWQL-DP 269
Cdd:pfam18778   1 ERMSPETFKFQFKNVEYASGRNKTLLCYEVKRGN-----SSSLWRGHLRNENS-------GCHAEICFLRWFSSWRLfDP 68

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 270 AQTYRVTWFISWSPCFSwgCAEQVRAFLQENTHVRLHIFAARIYDY-DPLYQEALRTLRDAGAQVSIMTYDEFEYCWDTF 348
Cdd:pfam18778  69 SQCYTITWYLSWSPCPS--CAAKLAEFLKAHPNVTLTIFAARLYYFeDPWNQEGLRSLASAGVTLSIMDYSDFEYCWENF 146

                         170       180
                  ....*....|....*....|....*....
gi 1371545249 349 VDRQGRPFQPWDGLDEHSQALSGRLRAIL 377
Cdd:pfam18778 147 VDNEGRPFVPWEDLEENSRYYHRKLQRIL 175
NAD1 pfam18778
Novel AID APOBEC clade 1; A distinct family of AID/APOBEC-like deaminases found in ray-finned ...
 10-189 5.18e-79

Novel AID APOBEC clade 1; A distinct family of AID/APOBEC-like deaminases found in ray-finned fishes, the coelacanth, amphibians, lizards, and marsupials.


Pssm-ID: 465865 [Multi-domain]  Cd Length: 175  Bit Score: 240.26  E-value: 5.18e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  10 ERMYQRTFYYHFENKPILYGRSYTWLCYEVKiRKDPSKLPWdtGVFRGQvysKPEHHAEMCFLSRFCGNQL-PAYKRFQI 88
Cdd:pfam18778   1 ERMSPETFKFQFKNVEYASGRNKTLLCYEVK-RGNSSSLWR--GHLRNE---NSGCHAEICFLRWFSSWRLfDPSQCYTI 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  89 TWFVSWNPCPDCVAKVIEFLAEHPNVTLTISTARLYYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFVYNEDQSF 168
Cdd:pfam18778  75 TWYLSWSPCPSCAAKLAEFLKAHPNVTLTIFAARLYYFEDPWNQEGLRSLASAGVTLSIMDYSDFEYCWENFVDNEGRPF 154

                         170       180
                  ....*....|....*....|.
gi 1371545249 169 MPWYKFNDNYAFLHRMLKEIL 189
Cdd:pfam18778 155 VPWEDLEENSRYYHRKLQRIL 175
APOBEC_N pfam08210
APOBEC-like N-terminal domain; A mechanism of generating protein diversity is mRNA editing. ...
 198-374 3.53e-61

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.


Pssm-ID: 462396 [Multi-domain]  Cd Length: 170  Bit Score: 194.51  E-value: 3.53e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 198 FTSNFNNDVSVRGRHQTYLCYEVERLDNGTWVpmdQHWGFLCNQAknvlrgDYGCHAELCFLGWVPSWQLDPAQTYRVTW 277
Cdd:pfam08210   1 FFFHFKNLPYASGRHETYLCYEVKRDSGGLVV---EDKGYLRNQA------ASSLHAEERFLRWIHDLALDPGSNYEVTW 71

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 278 FISWSPCFSwgCAEQVRAFLQENTHVRLHIFAARIY-DYDPLYQ--EALRTLRDAGAQVSIMTYDEFEYCWDTFVDRQGR 354
Cdd:pfam08210  72 YVSWSPCNE--CASELAAFLSKHPNVRLRIFVSRLYyWEEPDYWnrEGLRSLAQAGVQLRPMSYKDFEYCWNNFVDHDGE 149

                         170       180
                  ....*....|....*....|
gi 1371545249 355 PFQPWDGLDEHSQALSGRLR 374
Cdd:pfam08210 150 PFKPWDGLHENSVYLARKLQ 169
APOBEC_N pfam08210
APOBEC-like N-terminal domain; A mechanism of generating protein diversity is mRNA editing. ...
 17-187 7.21e-55

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.


Pssm-ID: 462396 [Multi-domain]  Cd Length: 170  Bit Score: 178.33  E-value: 7.21e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  17 FYYHFENKPILYGRSYTWLCYEVKIRKDPSKLpWDTGVFRGQVYSKPehHAEMCFLSRFCGNQLPAYKRFQITWFVSWNP 96
Cdd:pfam08210   1 FFFHFKNLPYASGRHETYLCYEVKRDSGGLVV-EDKGYLRNQAASSL--HAEERFLRWIHDLALDPGSNYEVTWYVSWSP 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  97 CPDCVAKVIEFLAEHPNVTLTISTARLYYYWGRDWQR--ALCRLRQAGARVKIMDYEEFAYCWENFVYNEDQSFMPWYKF 174
Cdd:pfam08210  78 CNECASELAAFLSKHPNVRLRIFVSRLYYWEEPDYWNreGLRSLAQAGVQLRPMSYKDFEYCWNNFVDHDGEPFKPWDGL 157

                         170
                  ....*....|...
gi 1371545249 175 NDNYAFLHRMLKE 187
Cdd:pfam08210 158 HENSVYLARKLQE 170
SNAD4 pfam18750
Secreted Novel AID/APOBEC-like Deaminase 4; A family of secreted AID/APOBEC like deaminases ...
 39-159 5.48e-51

Secreted Novel AID/APOBEC-like Deaminase 4; A family of secreted AID/APOBEC like deaminases found only in sponges that often shows lineage-specific expansions.


Pssm-ID: 465854 [Multi-domain]  Cd Length: 116  Bit Score: 166.28  E-value: 5.48e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  39 VKIRKDPSKLPWDTGVFRGqvysKPEHHAEMCFLSRFCGNQLPAYKRFQITWFVSWNPCPDCVAKVIEFLAEHPNVTLTI 118
Cdd:pfam18750   1 YEIKWGNGSKIWQRGYLSN----EHEQHAEICFLENIRSRELDPSQRYRVTWYLSWSPCPECAQKIAEFLAEHPNVTLTI 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 1371545249 119 STARLyYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWEN 159
Cdd:pfam18750  77 FAARL-YHWDEDNRQGLRSLAQAGVTLQIMTLEDFEYCWKN 116
SNAD4 pfam18750
Secreted Novel AID/APOBEC-like Deaminase 4; A family of secreted AID/APOBEC like deaminases ...
 243-347 1.20e-50

Secreted Novel AID/APOBEC-like Deaminase 4; A family of secreted AID/APOBEC like deaminases found only in sponges that often shows lineage-specific expansions.


Pssm-ID: 465854 [Multi-domain]  Cd Length: 116  Bit Score: 165.51  E-value: 1.20e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 243 KNVLRGDYGCHAELCFLGWVPSWQLDPAQTYRVTWFISWSPCFSwgCAEQVRAFLQENTHVRLHIFAARIYDYDPLYQEA 322
Cdd:pfam18750  14 RGYLSNEHEQHAEICFLENIRSRELDPSQRYRVTWYLSWSPCPE--CAQKIAEFLAEHPNVTLTIFAARLYHWDEDNRQG 91

                          90       100
                  ....*....|....*....|....*
gi 1371545249 323 LRTLRDAGAQVSIMTYDEFEYCWDT 347
Cdd:pfam18750  92 LRSLAQAGVTLQIMTLEDFEYCWKN 116
APOBEC_C pfam05240
APOBEC-like C-terminal domain; This domain is found at the C-termini of the Apolipoprotein B ...
 302-377 2.41e-38

APOBEC-like C-terminal domain; This domain is found at the C-termini of the Apolipoprotein B mRNA editing enzyme.


Pssm-ID: 461599  Cd Length: 78  Bit Score: 132.22  E-value: 2.41e-38
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1371545249 302 HVRLHIFAARIYD-YDPLYQEALRTLRDAGAQVSIMTYDEFEYCWDTFVDRQGRPFQPWDGLDEHSQALSGRLRAIL 377
Cdd:pfam05240   2 NVSLTIFAARLYYhWDPEYQQGLRRLVQAGAQVAIMSYKEFEYCWDNFVDNQGRPFQPWEGLEENSQLLSRRLQEIL 78
APOBEC_C pfam05240
APOBEC-like C-terminal domain; This domain is found at the C-termini of the Apolipoprotein B ...
 112-189 8.63e-37

APOBEC-like C-terminal domain; This domain is found at the C-termini of the Apolipoprotein B mRNA editing enzyme.


Pssm-ID: 461599  Cd Length: 78  Bit Score: 127.98  E-value: 8.63e-37
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1371545249 112 PNVTLTISTARLYYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFVYNEDQSFMPWYKFNDNYAFLHRMLKEIL 189
Cdd:pfam05240   1 PNVSLTIFAARLYYHWDPEYQQGLRRLVQAGAQVAIMSYKEFEYCWDNFVDNQGRPFQPWEGLEENSQLLSRRLQEIL 78
APOBEC3 pfam18771
APOBEC3; APOBEC3 deaminases act as restriction factors in the innate response to retroviruses ...
 211-357 1.74e-36

APOBEC3; APOBEC3 deaminases act as restriction factors in the innate response to retroviruses and various retroelements.


Pssm-ID: 465862 [Multi-domain]  Cd Length: 135  Bit Score: 129.14  E-value: 1.74e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 211 RHQTYLCYEVERLDNGTWVPmdqhwGFLCNQAKNvlrgdygcHAELCFLGWVPSWQLDPAQTYRVTWFISWSPCFSwgCA 290
Cdd:pfam18771   3 DRKAYLCYQLKGRNGSALDR-----GYFSNKKKR--------HAEIRFIDKIRSLDLDNIQCYRITCYITWSPCPN--CA 67

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1371545249 291 EQVRAFLQENTHVRLHIFAARIYDYD-PLYQEALRTLRDAGAQVSIMTYDEFEYCWDTFVDRQGRPFQ 357
Cdd:pfam18771  68 AELVDFISLNPHLKLRIFASRLYYHWeRSYKEGLQKLQRAGVSVAVMTLPEFQDCWEDFVDHQEEPFR 135
APOBEC3 pfam18771
APOBEC3; APOBEC3 deaminases act as restriction factors in the innate response to retroviruses ...
 33-168 1.75e-30

APOBEC3; APOBEC3 deaminases act as restriction factors in the innate response to retroviruses and various retroelements.


Pssm-ID: 465862 [Multi-domain]  Cd Length: 135  Bit Score: 113.35  E-value: 1.75e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  33 TWLCYEVKIRKDpskLPWDTGVFRGQVYSkpehHAEMCFLSRFCGNQLPAYKRFQITWFVSWNPCPDCVAKVIEFLAEHP 112
Cdd:pfam18771   6 AYLCYQLKGRNG---SALDRGYFSNKKKR----HAEIRFIDKIRSLDLDNIQCYRITCYITWSPCPNCAAELVDFISLNP 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1371545249 113 NVTLTISTARLYYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFVYNEDQSF 168
Cdd:pfam18771  79 HLKLRIFASRLYYHWERSYKEGLQKLQRAGVSVAVMTLPEFQDCWEDFVDHQEEPF 134
APOBEC4_like pfam18774
APOBEC4-like -AID/APOBEC-deaminase; Cnidarian and Algal homologs of the APOBEC4-like AID ...
 46-161 1.36e-17

APOBEC4-like -AID/APOBEC-deaminase; Cnidarian and Algal homologs of the APOBEC4-like AID/APOBEC-like deaminases characterized by a distinct Zn chelating site involving residues from the conserved loops 1 and 3.


Pssm-ID: 408545 [Multi-domain]  Cd Length: 131  Bit Score: 78.38  E-value: 1.36e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  46 SKLPWDTGVFRGQVYSKPEH-HAEMCFLSRFCGNQlpAYKRFQITWFVSWNPCPDCVAKVIEFLAEHPNVTLTISTARLY 124
Cdd:pfam18774  15 YEIQWGRGTIWRNWTENNCTeHAEVNFLENFRSER--PSRSCTITWYLSWSPCWECSGRILEFLSRHPNVTLGIYVARLF 92

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1371545249 125 YYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFV 161
Cdd:pfam18774  93 MHDDDRNRQGLRILQMNGVTIQVMMNKDYCYCWKAFK 129
APOBEC4 pfam18775
APOBEC4; A member of the AID/APOBEC family of cytosine deaminases. The biological function of ...
 88-161 1.57e-16

APOBEC4; A member of the AID/APOBEC family of cytosine deaminases. The biological function of APOBEC4 is poorly understood. However, it is widely conserved across vertebrates.


Pssm-ID: 436728  Cd Length: 74  Bit Score: 73.52  E-value: 1.57e-16
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1371545249  88 ITWFVSWNPCPDCVAKVIEFLAEHPNVTLTISTARLYYYWGRDWQRALCRLRQAGARVKIMDYEEFAYCWENFV 161
Cdd:pfam18775   1 VTLYLSWSPCNECSEKIQEFLKKHPKVNLDIYFAQLYHTEEEDNRQGLRSLVEKGVTLSVMSGEDWIYCLRTFV 74
APOBEC4_like pfam18774
APOBEC4-like -AID/APOBEC-deaminase; Cnidarian and Algal homologs of the APOBEC4-like AID ...
 252-350 1.15e-13

APOBEC4-like -AID/APOBEC-deaminase; Cnidarian and Algal homologs of the APOBEC4-like AID/APOBEC-like deaminases characterized by a distinct Zn chelating site involving residues from the conserved loops 1 and 3.


Pssm-ID: 408545 [Multi-domain]  Cd Length: 131  Bit Score: 67.21  E-value: 1.15e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 252 CHAELCFLGWVPSWQldPAQTYRVTWFISWSPCfsWGCAEQVRAFLQENTHVRLHIFAARIYDY-DPLYQEALRTLRDAG 330
Cdd:pfam18774  35 EHAEVNFLENFRSER--PSRSCTITWYLSWSPC--WECSGRILEFLSRHPNVTLGIYVARLFMHdDDRNRQGLRILQMNG 110

                          90       100
                  ....*....|....*....|
gi 1371545249 331 AQVSIMTYDEFEYCWDTFVD 350
Cdd:pfam18774 111 VTIQVMMNKDYCYCWKAFKN 130
APOBEC4 pfam18775
APOBEC4; A member of the AID/APOBEC family of cytosine deaminases. The biological function of ...
 275-349 4.37e-13

APOBEC4; A member of the AID/APOBEC family of cytosine deaminases. The biological function of APOBEC4 is poorly understood. However, it is widely conserved across vertebrates.


Pssm-ID: 436728  Cd Length: 74  Bit Score: 63.89  E-value: 4.37e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1371545249 275 VTWFISWSPCfsWGCAEQVRAFLQENTHVRLHIFAARIYDYDPLY-QEALRTLRDAGAQVSIMTYDEFEYCWDTFV 349
Cdd:pfam18775   1 VTLYLSWSPC--NECSEKIQEFLKKHPKVNLDIYFAQLYHTEEEDnRQGLRSLVEKGVTLSVMSGEDWIYCLRTFV 74
APOBEC1 pfam18769
APOBEC1; APOBEC1 deaminates cytosine both in RNA and ssDNA and has roles in both mRNA editing ...
 63-148 6.75e-13

APOBEC1; APOBEC1 deaminates cytosine both in RNA and ssDNA and has roles in both mRNA editing and ssDNA mutagenesis as part of the defense against retroviruses and genomic retrotransposons.


Pssm-ID: 408540  Cd Length: 101  Bit Score: 64.45  E-value: 6.75e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  63 PEHHAEMCFLSRFCgNQLPAYK--RFQITWFVSWNPCPDCVAKVIEFLAEHPNVTLTISTARLYYYWGRDWQRALCRLRQ 140
Cdd:pfam18769  15 TTQHAEVNFLEKFF-SERHFDPsvSCSITWFLSWSPCGECSKAIGEFLSQHPNVTLVIYAARLFKHLDIRNRQGLRDLAM 93


                  ....*...
gi 1371545249 141 AGARVKIM 148
Cdd:pfam18769  94 SGVTIQIM 101
cytidine_deaminase cd01283
Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the ...
 8-158 7.57e-12

Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. Cytidine deaminases catalyze the deamination of cytidine to uridine and are important in the pyrimadine salvage pathway in many cell types, from bacteria to humans. This family also includes the apoBec proteins, which are a mammal specific expansion of RNA editing enzymes, and the closely related phorbolins, and the AID (activation-induced) enzymes.


Pssm-ID: 238610 [Multi-domain]  Cd Length: 112  Bit Score: 61.59  E-value: 7.57e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249   8 PMERMYQRTFYYhfenkpiLYGRSYTWLCYEVKirkdpsklpWDTGVFRGQVYSKPEH----HAEMCFLSRFCGNQlpaY 83
Cdd:cd01283     1 IEAALAAAEFAY-------APYSNFTVGAALLT---------KDGRIFTGVNVENASYgltlCAERTAIGKAVSEG---L 61

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249  84 KRFQITWFVS-----WNPCPDCVAKVIEFLAehpnvtltistARLYYYWGRDWQralcrlrqagarvkimdyEEFAYCWE 158
Cdd:cd01283    62 RRYLVTWAVSdeggvWSPCGACRQVLAEFLP-----------SRLYIIIDNPKG------------------EEFAYTLS 112
APOBEC1 pfam18769
APOBEC1; APOBEC1 deaminates cytosine both in RNA and ssDNA and has roles in both mRNA editing ...
 253-336 3.11e-11

APOBEC1; APOBEC1 deaminates cytosine both in RNA and ssDNA and has roles in both mRNA editing and ssDNA mutagenesis as part of the defense against retroviruses and genomic retrotransposons.


Pssm-ID: 408540  Cd Length: 101  Bit Score: 59.44  E-value: 3.11e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 253 HAELCFLGWVPS-WQLDPAQTYRVTWFISWSPCfsWGCAEQVRAFLQENTHVRLHIFAARIYDY-DPLYQEALRTLRDAG 330
Cdd:pfam18769  18 HAEVNFLEKFFSeRHFDPSVSCSITWFLSWSPC--GECSKAIGEFLSQHPNVTLVIYAARLFKHlDIRNRQGLRDLAMSG 95


                  ....*.
gi 1371545249 331 AQVSIM 336
Cdd:pfam18769  96 VTIQIM 101
cytidine_deaminase cd01283
Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the ...
 208-303 1.87e-09

Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. Cytidine deaminases catalyze the deamination of cytidine to uridine and are important in the pyrimadine salvage pathway in many cell types, from bacteria to humans. This family also includes the apoBec proteins, which are a mammal specific expansion of RNA editing enzymes, and the closely related phorbolins, and the AID (activation-induced) enzymes.


Pssm-ID: 238610 [Multi-domain]  Cd Length: 112  Bit Score: 54.65  E-value: 1.87e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1371545249 208 VRGRHQTYLCYEVERldngtwvPMDQHWGFLCNQAKnvlrGDYGCHAELCFLGWVPSWQLdpaQTYRVTWFIS-----WS 282
Cdd:cd01283    13 APYSNFTVGAALLTK-------DGRIFTGVNVENAS----YGLTLCAERTAIGKAVSEGL---RRYLVTWAVSdeggvWS 78

                          90       100
                  ....*....|....*....|.
gi 1371545249 283 PCFSwgCAEQVRAFLQENTHV 303
Cdd:cd01283    79 PCGA--CRQVLAEFLPSRLYI 97
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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