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Conserved domains on  [gi|568871060|ref|XP_006488711|]
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guanosine deaminase isoform X2 [Citrus sinensis]

Protein Classification

nucleoside deaminase( domain architecture ID 10001752)

nucleoside deaminase such as adenosine, guanine, or cytosine deaminase is a Zn-dependent enzyme which catalyzes the deamination of nucleosides. 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. The functional enzyme is a homodimer

EC:  3.5.4.-
Gene Ontology:  GO:0008270|GO:0019239|GO:0009116
PubMed:  38524700
SCOP:  3001838

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TadA COG0590
tRNA(Arg) A34 adenosine deaminase TadA [Translation, ribosomal structure and biogenesis]; tRNA ...
 22-133 1.04e-37

tRNA(Arg) A34 adenosine deaminase TadA [Translation, ribosomal structure and biogenesis]; tRNA(Arg) A34 adenosine deaminase TadA is part of the Pathway/BioSystem: Pyrimidine salvagetRNA modification


:

Pssm-ID: 440355 [Multi-domain]  Cd Length: 148  Bit Score: 126.77  E-value: 1.04e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060  22 DRDHEFLSKAVEEAYKGVECGdGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASC 101
Cdd:COG0590    2 EDDEEFMRRALELARKAVAEG-EVPVGAVLVKDGEIIARGHNRVETLNDPTAHAEILAIRAAARKLGNWRLSGCTLYVTL 80

                         90       100       110
                 ....*....|....*....|....*....|..
gi 568871060 102 EPCPMCFGAIHLSRIKRLVYGAKAEAAIAIGF 133
Cdd:COG0590   81 EPCPMCAGAIVWARIGRVVYGASDPKAGAAGS 112
 
Name Accession Description Interval E-value
TadA COG0590
tRNA(Arg) A34 adenosine deaminase TadA [Translation, ribosomal structure and biogenesis]; tRNA ...
 22-133 1.04e-37

tRNA(Arg) A34 adenosine deaminase TadA [Translation, ribosomal structure and biogenesis]; tRNA(Arg) A34 adenosine deaminase TadA is part of the Pathway/BioSystem: Pyrimidine salvagetRNA modification


Pssm-ID: 440355 [Multi-domain]  Cd Length: 148  Bit Score: 126.77  E-value: 1.04e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060  22 DRDHEFLSKAVEEAYKGVECGdGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASC 101
Cdd:COG0590    2 EDDEEFMRRALELARKAVAEG-EVPVGAVLVKDGEIIARGHNRVETLNDPTAHAEILAIRAAARKLGNWRLSGCTLYVTL 80

                         90       100       110
                 ....*....|....*....|....*....|..
gi 568871060 102 EPCPMCFGAIHLSRIKRLVYGAKAEAAIAIGF 133
Cdd:COG0590   81 EPCPMCAGAIVWARIGRVVYGASDPKAGAAGS 112
nucleoside_deaminase cd01285
Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn ...
 28-135 1.79e-36

Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. 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. The functional enzyme is a homodimer. Cytosine deaminase catalyzes the deamination of cytosine to uracil and ammonia and is a member of the pyrimidine salvage pathway. Cytosine deaminase is found in bacteria and fungi but is not present in mammals; for this reason, the enzyme is currently of interest for antimicrobial drug design and gene therapy applications against tumors. Some members of this family are tRNA-specific adenosine deaminases that generate inosine at the first position of their anticodon (position 34) of specific tRNAs; this modification is thought to enlarge the codon recognition capacity during protein synthesis. Other members of the family are guanine deaminases which deaminate guanine to xanthine as part of the utilization of guanine as a nitrogen source.


Pssm-ID: 238612 [Multi-domain]  Cd Length: 109  Bit Score: 122.34  E-value: 1.79e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060  28 LSKAVEEAYKGVEcGDGGPFGAVVVRSDEVVVSC-HNMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASCEPCPM 106
Cdd:cd01285    1 MRLAIELARKALA-EGEVPFGAVIVDDDGKVIARgHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTLEPCPM 79

                         90       100
                 ....*....|....*....|....*....
gi 568871060 107 CFGAIHLSRIKRLVYGAKAEAAIAIGFDD 135
Cdd:cd01285   80 CAGALLWARIKRVVYGASDPKLGGIGFLI 108
dCMP_cyt_deam_1 pfam00383
Cytidine and deoxycytidylate deaminase zinc-binding region;
24-122 8.13e-24

Cytidine and deoxycytidylate deaminase zinc-binding region;


Pssm-ID: 395307 [Multi-domain]  Cd Length: 100  Bit Score: 89.67  E-value: 8.13e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060   24 DHEFLSKAVEEAYKGVECGdGGPFGAVVVRSDEVVVS-CHNMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASCE 102
Cdd:pfam00383   2 DEYFMRLALKAAKRAYPYS-NFPVGAVIVKKDGEIIAtGYNGENAGYDPTIHAERNAIRQAGKRGEGVRLEGATLYVTLE 80

                          90       100
                  ....*....|....*....|
gi 568871060  103 PCPMCFGAIHLSRIKRLVYG 122
Cdd:pfam00383  81 PCGMCAQAIIESGIKRVVFG 100
PRK10860 PRK10860
tRNA-specific adenosine deaminase; Provisional
 63-132 3.08e-15

tRNA-specific adenosine deaminase; Provisional


Pssm-ID: 182786 [Multi-domain]  Cd Length: 172  Bit Score: 69.45  E-value: 3.08e-15
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060  63 NMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASCEPCPMCFGAIHLSRIKRLVYGAKAEAAIAIG 132
Cdd:PRK10860  51 NRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVTLEPCVMCAGAMVHSRIGRLVFGARDAKTGAAG 120
 
Name Accession Description Interval E-value
TadA COG0590
tRNA(Arg) A34 adenosine deaminase TadA [Translation, ribosomal structure and biogenesis]; tRNA ...
 22-133 1.04e-37

tRNA(Arg) A34 adenosine deaminase TadA [Translation, ribosomal structure and biogenesis]; tRNA(Arg) A34 adenosine deaminase TadA is part of the Pathway/BioSystem: Pyrimidine salvagetRNA modification


Pssm-ID: 440355 [Multi-domain]  Cd Length: 148  Bit Score: 126.77  E-value: 1.04e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060  22 DRDHEFLSKAVEEAYKGVECGdGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASC 101
Cdd:COG0590    2 EDDEEFMRRALELARKAVAEG-EVPVGAVLVKDGEIIARGHNRVETLNDPTAHAEILAIRAAARKLGNWRLSGCTLYVTL 80

                         90       100       110
                 ....*....|....*....|....*....|..
gi 568871060 102 EPCPMCFGAIHLSRIKRLVYGAKAEAAIAIGF 133
Cdd:COG0590   81 EPCPMCAGAIVWARIGRVVYGASDPKAGAAGS 112
nucleoside_deaminase cd01285
Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn ...
 28-135 1.79e-36

Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. 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. The functional enzyme is a homodimer. Cytosine deaminase catalyzes the deamination of cytosine to uracil and ammonia and is a member of the pyrimidine salvage pathway. Cytosine deaminase is found in bacteria and fungi but is not present in mammals; for this reason, the enzyme is currently of interest for antimicrobial drug design and gene therapy applications against tumors. Some members of this family are tRNA-specific adenosine deaminases that generate inosine at the first position of their anticodon (position 34) of specific tRNAs; this modification is thought to enlarge the codon recognition capacity during protein synthesis. Other members of the family are guanine deaminases which deaminate guanine to xanthine as part of the utilization of guanine as a nitrogen source.


Pssm-ID: 238612 [Multi-domain]  Cd Length: 109  Bit Score: 122.34  E-value: 1.79e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060  28 LSKAVEEAYKGVEcGDGGPFGAVVVRSDEVVVSC-HNMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASCEPCPM 106
Cdd:cd01285    1 MRLAIELARKALA-EGEVPFGAVIVDDDGKVIARgHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTLEPCPM 79

                         90       100
                 ....*....|....*....|....*....
gi 568871060 107 CFGAIHLSRIKRLVYGAKAEAAIAIGFDD 135
Cdd:cd01285   80 CAGALLWARIKRVVYGASDPKLGGIGFLI 108
dCMP_cyt_deam_1 pfam00383
Cytidine and deoxycytidylate deaminase zinc-binding region;
24-122 8.13e-24

Cytidine and deoxycytidylate deaminase zinc-binding region;


Pssm-ID: 395307 [Multi-domain]  Cd Length: 100  Bit Score: 89.67  E-value: 8.13e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060   24 DHEFLSKAVEEAYKGVECGdGGPFGAVVVRSDEVVVS-CHNMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASCE 102
Cdd:pfam00383   2 DEYFMRLALKAAKRAYPYS-NFPVGAVIVKKDGEIIAtGYNGENAGYDPTIHAERNAIRQAGKRGEGVRLEGATLYVTLE 80

                          90       100
                  ....*....|....*....|
gi 568871060  103 PCPMCFGAIHLSRIKRLVYG 122
Cdd:pfam00383  81 PCGMCAQAIIESGIKRVVFG 100
MafB19-deam pfam14437
MafB19-like deaminase; A member of the nucleic acid/nucleotide deaminase superfamily ...
 24-132 1.48e-18

MafB19-like deaminase; A member of the nucleic acid/nucleotide deaminase superfamily prototyped by Neisseria MafB19. Members of this family are present in a wide phyletic range of bacteria and are predicted to function as toxins in bacterial polymorphic toxin systems.


Pssm-ID: 433953 [Multi-domain]  Cd Length: 144  Bit Score: 77.56  E-value: 1.48e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060   24 DHEFLSKAVEEAYKGVECgDGGPFGAVVVRSDEVVVSCHNMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASCEP 103
Cdd:pfam14437   3 HEKWFRKALGLAEKAYDA-GEVPIGAVIVKDGKVIARGYNRKELNADTTAHAEILAIQQAAKKLGSWRLDDATLYVTLEP 81

                          90       100
                  ....*....|....*....|....*....
gi 568871060  104 CPMCFGAIHLSRIKRLVYGAKAEAAIAIG 132
Cdd:pfam14437  82 CPMCAGAIVQAGLKSLVYGAGNPKGGAVG 110
PRK10860 PRK10860
tRNA-specific adenosine deaminase; Provisional
 63-132 3.08e-15

tRNA-specific adenosine deaminase; Provisional


Pssm-ID: 182786 [Multi-domain]  Cd Length: 172  Bit Score: 69.45  E-value: 3.08e-15
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060  63 NMVLKHTDPTAHAEVTAVREACKKLNKIELSDCEIYASCEPCPMCFGAIHLSRIKRLVYGAKAEAAIAIG 132
Cdd:PRK10860  51 NRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVTLEPCVMCAGAMVHSRIGRLVFGARDAKTGAAG 120
deoxycytidylate_deaminase cd01286
Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP ...
 72-121 5.14e-06

Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the enzyme is allosterically regulated by the ratio of dCTP to dTTP not only in eukaryotic cells but also in T-even phage-infected Escherichia coli, with dCTP acting as an activator and dTTP as an inhibitor.


Pssm-ID: 238613 [Multi-domain]  Cd Length: 131  Bit Score: 43.80  E-value: 5.14e-06
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 568871060  72 TAHAEVTAVREACKklNKIELSDCEIYASCEPCPMCFGAIHLSRIKRLVY 121
Cdd:cd01286   68 TVHAEQNAILQAAR--HGVSLEGATLYVTLFPCIECAKLIIQAGIKKVVY 115
cd PHA02588
deoxycytidylate deaminase; Provisional
 74-124 1.24e-04

deoxycytidylate deaminase; Provisional


Pssm-ID: 222894 [Multi-domain]  Cd Length: 168  Bit Score: 40.51  E-value: 1.24e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 568871060  74 HAEVTAVREACKKLNKIElsDCEIYASCEPCPMCFGAIHLSRIKRLVYGAK 124
Cdd:PHA02588  83 HAELNAILFAARNGISIE--GATMYVTASPCPDCAKAIAQSGIKKLVYCEK 131
ComEB COG2131
Deoxycytidylate deaminase [Nucleotide transport and metabolism];
72-121 1.78e-04

Deoxycytidylate deaminase [Nucleotide transport and metabolism];


Pssm-ID: 441734 [Multi-domain]  Cd Length: 154  Bit Score: 39.82  E-value: 1.78e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 568871060  72 TAHAEVTAVREACKklNKIELSDCEIYASCEPCPMCFGAIHLSRIKRLVY 121
Cdd:COG2131   78 TVHAEQNAILQAAR--HGVSTEGATLYVTHFPCLECAKMIIQAGIKRVVY 125
Riboflavin_deaminase-reductase cd01284
Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD ...
 71-124 1.78e-04

Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the biosynthesis of riboflavin.The ribG gene of Bacillus subtilis and the ribD gene of E. coli are bifunctional and contain this deaminase domain and a reductase domain which catalyzes the subsequent reduction of the ribosyl side chain.


Pssm-ID: 238611 [Multi-domain]  Cd Length: 115  Bit Score: 39.14  E-value: 1.78e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 568871060  71 PTAHAEVTAVREACKKLnkieLSDCEIYASCEPC------PMCFGAIHLSRIKRLVYGAK 124
Cdd:cd01284   42 GGPHAEVNALASAGEKL----ARGATLYVTLEPCshhgktPPCVDAIIEAGIKRVVVGVR 97
cytidine_deaminase-like cd00786
Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine ...
 62-118 3.53e-03

Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members 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.


Pssm-ID: 238406 [Multi-domain]  Cd Length: 96  Bit Score: 35.22  E-value: 3.53e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 568871060  62 HNMVLKHTDPTAHAEVTAVrEACKKLNKIElsDCEIYASCEPCPMCFGAIHLSRIKR 118
Cdd:cd00786   37 CNIENAAYSMCNHAERTAL-FNAGSEGDTK--GQMLYVALSPCGACAQLIIELGIKD 90
 
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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