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Conserved domains on  [gi|1622877873|ref|XP_028691896|]
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5'(3')-deoxyribonucleotidase, mitochondrial isoform X1 [Macaca mulatta]

Protein Classification

5'-3'-deoxyribonucleotidase( domain architecture ID 11552331)

5'-3'-deoxyribonucleotidase is a HAD (haloacid dehalogenase) family hydrolase that catalyzes the dephosphorylation of the 5' and 2'(3')-phosphates of deoxyribonucleotides

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
HAD_5-3dNT cd02587
5'(3')-deoxyribonucleotidase; This family includes cytosolic 5'(3')-deoxyribonucleotidase (cdN) ...
36-185 2.42e-78

5'(3')-deoxyribonucleotidase; This family includes cytosolic 5'(3')-deoxyribonucleotidase (cdN) and mitochondrial 5'(3')-deoxyribonucleotidase (mdN). cdN and mdN specifically dephosphorylate the deoxyribo form of nucleoside monophosphates helps maintain homeostasis of deoxynucleosides required for mitochondrial DNA synthesis. Their preferred substrates are dUMP and dTMP. cdN also dephosphorylates dGMP and dIMP efficiently. They can also dephosphorylate the 5'- or 3'-phosphates of pyrimidine ribonucleotides. This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.


:

Pssm-ID: 319786  Cd Length: 161  Bit Score: 234.97  E-value: 2.42e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873  36 LRVLVDMDGVLADFEGGFLRKFRARFPDQPFIALEDRRGFWVSEQYGRlrPGLSEKAISIWESKNFFFELEPLPGAVEAV 115
Cdd:cd02587     1 IVILVDMDGVLADFEGALVRAIRERFPDEPHVLLESRRGFWVIEQYKA--PELSRKAADILEEPGFFRNLEPIPGAVEAL 78
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873 116 KEMANlQNTDVFICTSPIKMFKYCPYEKYAWVEKHFGPDFLEQIVLTRDKTVVSADLLIDDRPDITAAKP 185
Cdd:cd02587    79 RELSD-EGTDVYICTSPLNKYPTCVEEKYEWVEEHFPPLFYQRIVLTRDKTVVLADILIDDNPENLEAFE 147
 
Name Accession Description Interval E-value
HAD_5-3dNT cd02587
5'(3')-deoxyribonucleotidase; This family includes cytosolic 5'(3')-deoxyribonucleotidase (cdN) ...
36-185 2.42e-78

5'(3')-deoxyribonucleotidase; This family includes cytosolic 5'(3')-deoxyribonucleotidase (cdN) and mitochondrial 5'(3')-deoxyribonucleotidase (mdN). cdN and mdN specifically dephosphorylate the deoxyribo form of nucleoside monophosphates helps maintain homeostasis of deoxynucleosides required for mitochondrial DNA synthesis. Their preferred substrates are dUMP and dTMP. cdN also dephosphorylates dGMP and dIMP efficiently. They can also dephosphorylate the 5'- or 3'-phosphates of pyrimidine ribonucleotides. This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.


Pssm-ID: 319786  Cd Length: 161  Bit Score: 234.97  E-value: 2.42e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873  36 LRVLVDMDGVLADFEGGFLRKFRARFPDQPFIALEDRRGFWVSEQYGRlrPGLSEKAISIWESKNFFFELEPLPGAVEAV 115
Cdd:cd02587     1 IVILVDMDGVLADFEGALVRAIRERFPDEPHVLLESRRGFWVIEQYKA--PELSRKAADILEEPGFFRNLEPIPGAVEAL 78
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873 116 KEMANlQNTDVFICTSPIKMFKYCPYEKYAWVEKHFGPDFLEQIVLTRDKTVVSADLLIDDRPDITAAKP 185
Cdd:cd02587    79 RELSD-EGTDVYICTSPLNKYPTCVEEKYEWVEEHFPPLFYQRIVLTRDKTVVLADILIDDNPENLEAFE 147
YorC COG4502
5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism];
37-190 3.42e-42

5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism];


Pssm-ID: 443586 [Multi-domain]  Cd Length: 177  Bit Score: 143.09  E-value: 3.42e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873  37 RVLVDMDGVLADFEGGFLRKFRARFPDQpfIALEDRRGFWVSEQYGrlrPGLSEKAISIWESKNFFFELEPLPGAVEAVK 116
Cdd:COG4502     4 RIAVDMDGVLADFYAAFLDIYNKEYGTN--LTLEDLDGWDLWELVP---PEHRERIREFLNEPGFFRDLPPIPGAQEVLK 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873 117 EManLQNTDVFICTSPIkMFKYCPYEKYAWVEKHFGPDFLEQIVLTRDKTVVSADLLIDDRPdITAAKPRG--------H 188
Cdd:COG4502    79 EL--SDKYEVYIVTAAM-EFPNSLEEKYEWLDEHFPFIPWQNIIFCGDKSLVGGDYLIDDNP-KNLEEFKGkgilfdapH 154

                  ..
gi 1622877873 189 NR 190
Cdd:COG4502   155 NR 156
NT5C pfam06941
5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); This family consists of ...
38-178 2.51e-17

5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); This family consists of several 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C (NT5C) proteins. 5'(3')-Deoxyribonucleotidase is a ubiquitous enzyme in mammalian cells whose physiological function is not known.


Pssm-ID: 284381 [Multi-domain]  Cd Length: 180  Bit Score: 78.03  E-value: 2.51e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873  38 VLVDMDGVLADFEGGFLRKFRARF-----PDQpfIALEDRRGFWVSEQYGRLRPGLSEKAisiwesknFFFELEPLPGAV 112
Cdd:pfam06941   4 IGVDLDGVCADFYGRMRQIANEWFerpllPEE--VSSWGWSEWTNPEQYDSLHRFVTQPG--------FFSDLEPIPGAR 73
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622877873 113 EAVKEMANLqnTDVFICTSPIKMFKYCPYEKYAWVEKHFGPDFLEQIVLTRDKTVVSADLLIDDRP 178
Cdd:pfam06941  74 EYLRQLSDE--GRIVIITHRLFQHYTAVQQKVNWLDSHLPGIPYWNLCFVKEKTQVRGDIYIDDSP 137
 
Name Accession Description Interval E-value
HAD_5-3dNT cd02587
5'(3')-deoxyribonucleotidase; This family includes cytosolic 5'(3')-deoxyribonucleotidase (cdN) ...
36-185 2.42e-78

5'(3')-deoxyribonucleotidase; This family includes cytosolic 5'(3')-deoxyribonucleotidase (cdN) and mitochondrial 5'(3')-deoxyribonucleotidase (mdN). cdN and mdN specifically dephosphorylate the deoxyribo form of nucleoside monophosphates helps maintain homeostasis of deoxynucleosides required for mitochondrial DNA synthesis. Their preferred substrates are dUMP and dTMP. cdN also dephosphorylates dGMP and dIMP efficiently. They can also dephosphorylate the 5'- or 3'-phosphates of pyrimidine ribonucleotides. This family belongs to the haloacid dehalogenase-like (HAD) hydrolases, a large superfamily of diverse enzymes that catalyze carbon or phosphoryl group transfer reactions on a range of substrates, using an active site aspartate in nucleophilic catalysis. Members of this superfamily include 2-L-haloalkanoic acid dehalogenase, azetidine hydrolase, phosphonoacetaldehyde hydrolase, phosphoserine phosphatase, phosphomannomutase, P-type ATPases and many others. HAD hydrolases are found in all three kingdoms of life, and most genomes are predicted to contain multiple HAD-like proteins. Members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. HAD hydrolases are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.


Pssm-ID: 319786  Cd Length: 161  Bit Score: 234.97  E-value: 2.42e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873  36 LRVLVDMDGVLADFEGGFLRKFRARFPDQPFIALEDRRGFWVSEQYGRlrPGLSEKAISIWESKNFFFELEPLPGAVEAV 115
Cdd:cd02587     1 IVILVDMDGVLADFEGALVRAIRERFPDEPHVLLESRRGFWVIEQYKA--PELSRKAADILEEPGFFRNLEPIPGAVEAL 78
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873 116 KEMANlQNTDVFICTSPIKMFKYCPYEKYAWVEKHFGPDFLEQIVLTRDKTVVSADLLIDDRPDITAAKP 185
Cdd:cd02587    79 RELSD-EGTDVYICTSPLNKYPTCVEEKYEWVEEHFPPLFYQRIVLTRDKTVVLADILIDDNPENLEAFE 147
YorC COG4502
5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism];
37-190 3.42e-42

5'(3')-deoxyribonucleotidase [Nucleotide transport and metabolism];


Pssm-ID: 443586 [Multi-domain]  Cd Length: 177  Bit Score: 143.09  E-value: 3.42e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873  37 RVLVDMDGVLADFEGGFLRKFRARFPDQpfIALEDRRGFWVSEQYGrlrPGLSEKAISIWESKNFFFELEPLPGAVEAVK 116
Cdd:COG4502     4 RIAVDMDGVLADFYAAFLDIYNKEYGTN--LTLEDLDGWDLWELVP---PEHRERIREFLNEPGFFRDLPPIPGAQEVLK 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873 117 EManLQNTDVFICTSPIkMFKYCPYEKYAWVEKHFGPDFLEQIVLTRDKTVVSADLLIDDRPdITAAKPRG--------H 188
Cdd:COG4502    79 EL--SDKYEVYIVTAAM-EFPNSLEEKYEWLDEHFPFIPWQNIIFCGDKSLVGGDYLIDDNP-KNLEEFKGkgilfdapH 154

                  ..
gi 1622877873 189 NR 190
Cdd:COG4502   155 NR 156
NT5C pfam06941
5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); This family consists of ...
38-178 2.51e-17

5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); This family consists of several 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C (NT5C) proteins. 5'(3')-Deoxyribonucleotidase is a ubiquitous enzyme in mammalian cells whose physiological function is not known.


Pssm-ID: 284381 [Multi-domain]  Cd Length: 180  Bit Score: 78.03  E-value: 2.51e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873  38 VLVDMDGVLADFEGGFLRKFRARF-----PDQpfIALEDRRGFWVSEQYGRLRPGLSEKAisiwesknFFFELEPLPGAV 112
Cdd:pfam06941   4 IGVDLDGVCADFYGRMRQIANEWFerpllPEE--VSSWGWSEWTNPEQYDSLHRFVTQPG--------FFSDLEPIPGAR 73
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1622877873 113 EAVKEMANLqnTDVFICTSPIKMFKYCPYEKYAWVEKHFGPDFLEQIVLTRDKTVVSADLLIDDRP 178
Cdd:pfam06941  74 EYLRQLSDE--GRIVIITHRLFQHYTAVQQKVNWLDSHLPGIPYWNLCFVKEKTQVRGDIYIDDSP 137
Gph COG0546
Phosphoglycolate phosphatase, HAD superfamily [Energy production and conversion];
38-131 5.06e-04

Phosphoglycolate phosphatase, HAD superfamily [Energy production and conversion];


Pssm-ID: 440312 [Multi-domain]  Cd Length: 214  Bit Score: 40.30  E-value: 5.06e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1622877873  38 VLVDMDGVLADFEGGFLRKFRARFPDQ--PFIALEDRRGF-------WVSEQYGRLRPGLSEKAISIWES---KNFFFEL 105
Cdd:COG0546     4 VLFDLDGTLVDSAPDIAAALNEALAELglPPLDLEELRALiglglreLLRRLLGEDPDEELEELLARFRElyeEELLDET 83
                          90       100
                  ....*....|....*....|....*.
gi 1622877873 106 EPLPGAVEAVKEMANlQNTDVFICTS 131
Cdd:COG0546    84 RLFPGVRELLEALKA-RGIKLAVVTN 108
 
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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