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Conserved domains on  [gi|315259107|ref|NP_001186750|]
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magnesium-dependent phosphatase 1 isoform 2 [Homo sapiens]

Protein Classification

HAD family hydrolase( domain architecture ID 229399)

HAD (haloacid dehalogenase) family hydrolase; the HAD family includes phosphoesterases, ATPases, phosphonatases, dehalogenases, and sugar phosphomutases acting on a remarkably diverse set of substrates

EC:  3.6.3.-
Gene Ontology:  GO:0005524|GO:0016887|GO:0005215

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HAD_like super family cl21460
Haloacid Dehalogenase-like Hydrolases; The haloacid dehalogenase (HAD) superfamily includes ...
 3-86 3.06e-41

Haloacid Dehalogenase-like Hydrolases; The haloacid dehalogenase (HAD) superfamily includes carbon and phosphorus hydrolases such as 2-haloalkonoate dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, among others. These proteins catalyze nucleophilic substitution reactions at phosphorus or carbon centers, using a conserved Asp carboxylate in covalent catalysis. All members possess a conserve alpha/beta core domain, and many also possess a small cap domain, with varying folds and functions.


The actual alignment was detected with superfamily member pfam12689:

Pssm-ID: 473868  Cd Length: 169  Bit Score: 134.28  E-value: 3.06e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107    3 RLPKLAVFDLDYTLWPFWVDTHVDPPFHKSSDG-TVRDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEIEGANQLL 81
Cdd:pfam12689   1 PLPKLIVFDLDYTLWPFWVDTHVSPPFKKVSNGsRVVDRRGEELSLYPDVPSILQELKTRGVTLAAASRTDAPDWARELL 80


                  ....*
gi 315259107   82 ELFDL 86
Cdd:pfam12689  81 KLLHI 85
 
Name Accession Description Interval E-value
Acid_PPase pfam12689
Acid Phosphatase; This family contains phosphatase enzymes and other proteins of the HAD ...
 3-86 3.06e-41

Acid Phosphatase; This family contains phosphatase enzymes and other proteins of the HAD superfamily. It includes MDP-1 which is a eukaryotic magnesium-dependent acid phosphatase.


Pssm-ID: 372256  Cd Length: 169  Bit Score: 134.28  E-value: 3.06e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107    3 RLPKLAVFDLDYTLWPFWVDTHVDPPFHKSSDG-TVRDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEIEGANQLL 81
Cdd:pfam12689   1 PLPKLIVFDLDYTLWPFWVDTHVSPPFKKVSNGsRVVDRRGEELSLYPDVPSILQELKTRGVTLAAASRTDAPDWARELL 80


                  ....*
gi 315259107   82 ELFDL 86
Cdd:pfam12689  81 KLLHI 85
HAD_MDP-1_like cd07501
eukaryotic hypothetical phosphotyrosine phosphatase MDP-1 and related phosphatases, similar to ...
 5-112 1.64e-37

eukaryotic hypothetical phosphotyrosine phosphatase MDP-1 and related phosphatases, similar to Bacillus cereus phosphonoacetaldehyde hydrolase and Streptomyces FkbH; This family includes eukaryotic magnesium-dependent phosphatase-1 (MDP-1) which is most likely a phosphotyrosine phosphatase catalyzing the dephosphorylation of tyrosine-phosphorylated proteins, Bacillus cereus phosphonoacetaldehyde hydrolase (phosphonatase)which catalyzes the hydrolysis of phosphonoacetaldehyde to acetaldehyde and phosphate using Mg(II) as cofactor, and sequences annotated as FkbH including BafAIV an FkbH-like protein from Streptomyces griseus encoded in ORF12 of the bafilomycin synthesis gene cluster. 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: 319804 [Multi-domain]  Cd Length: 129  Bit Score: 123.61  E-value: 1.64e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107   5 PKLAVFDLDYTLWPFWVDTHVDPPFHkssdgtvrDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEIEGANQLLELF 84
Cdd:cd07501    1 PKCLVFDLDYTLWPGVVDEHGIPPFK--------DRGGKEVSLYPDAQEILKELKERGILLAVASRNNEFDHANEVLEKL 72

                         90       100
                 ....*....|....*....|....*...
gi 315259107  85 DLFRcyLHSHPEWNESSNSKSrVRDICE 112
Cdd:cd07501   73 DLKE--LFDAFEIYPGSKSSH-FRKIAK 97
MDP-1 TIGR01685
magnesium-dependent phosphatase-1; This model represents two closely related clades of ...
 4-86 3.94e-21

magnesium-dependent phosphatase-1; This model represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterized as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues.


Pssm-ID: 273756  Cd Length: 174  Bit Score: 82.97  E-value: 3.94e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107    4 LPKLAVFDLDYTLWPFWVDTHVDPPF--HKSSDGTVRDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEIEGANQLL 81
Cdd:TIGR01685   1 LPRVIVFDLDGTLWDHYMISLLGGPFkpVKQNNSIIIDKSGTEVTLIKEVRDVLQTLKDAGTYLATASWNDVPEWAYEIL 80


                  ....*
gi 315259107   82 ELFDL 86
Cdd:TIGR01685  81 GTFEI 85
COG4996 COG4996
Predicted phosphatase [General function prediction only];
4-94 1.83e-11

Predicted phosphatase [General function prediction only];


Pssm-ID: 444020  Cd Length: 165  Bit Score: 57.69  E-value: 1.83e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107   4 LPKLAVFDLDYTLWpfwvdTHVD-----PPFHKSSDGTVRDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEiEGAN 78
Cdd:COG4996    2 MIKLLVLDLDGTLW-----DHHNiselkPPFKRISENSIVDSYGREVRLFPDVREFLEWAKERGAILSTASWNVP-DKAL 75

                         90
                 ....*....|....*.
gi 315259107  79 QLLELFDLfRCYLHSH 94
Cdd:COG4996   76 EALEALGL-DEYFDYP 90
 
Name Accession Description Interval E-value
Acid_PPase pfam12689
Acid Phosphatase; This family contains phosphatase enzymes and other proteins of the HAD ...
 3-86 3.06e-41

Acid Phosphatase; This family contains phosphatase enzymes and other proteins of the HAD superfamily. It includes MDP-1 which is a eukaryotic magnesium-dependent acid phosphatase.


Pssm-ID: 372256  Cd Length: 169  Bit Score: 134.28  E-value: 3.06e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107    3 RLPKLAVFDLDYTLWPFWVDTHVDPPFHKSSDG-TVRDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEIEGANQLL 81
Cdd:pfam12689   1 PLPKLIVFDLDYTLWPFWVDTHVSPPFKKVSNGsRVVDRRGEELSLYPDVPSILQELKTRGVTLAAASRTDAPDWARELL 80


                  ....*
gi 315259107   82 ELFDL 86
Cdd:pfam12689  81 KLLHI 85
HAD_MDP-1_like cd07501
eukaryotic hypothetical phosphotyrosine phosphatase MDP-1 and related phosphatases, similar to ...
 5-112 1.64e-37

eukaryotic hypothetical phosphotyrosine phosphatase MDP-1 and related phosphatases, similar to Bacillus cereus phosphonoacetaldehyde hydrolase and Streptomyces FkbH; This family includes eukaryotic magnesium-dependent phosphatase-1 (MDP-1) which is most likely a phosphotyrosine phosphatase catalyzing the dephosphorylation of tyrosine-phosphorylated proteins, Bacillus cereus phosphonoacetaldehyde hydrolase (phosphonatase)which catalyzes the hydrolysis of phosphonoacetaldehyde to acetaldehyde and phosphate using Mg(II) as cofactor, and sequences annotated as FkbH including BafAIV an FkbH-like protein from Streptomyces griseus encoded in ORF12 of the bafilomycin synthesis gene cluster. 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: 319804 [Multi-domain]  Cd Length: 129  Bit Score: 123.61  E-value: 1.64e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107   5 PKLAVFDLDYTLWPFWVDTHVDPPFHkssdgtvrDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEIEGANQLLELF 84
Cdd:cd07501    1 PKCLVFDLDYTLWPGVVDEHGIPPFK--------DRGGKEVSLYPDAQEILKELKERGILLAVASRNNEFDHANEVLEKL 72

                         90       100
                 ....*....|....*....|....*...
gi 315259107  85 DLFRcyLHSHPEWNESSNSKSrVRDICE 112
Cdd:cd07501   73 DLKE--LFDAFEIYPGSKSSH-FRKIAK 97
MDP-1 TIGR01685
magnesium-dependent phosphatase-1; This model represents two closely related clades of ...
 4-86 3.94e-21

magnesium-dependent phosphatase-1; This model represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterized as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues.


Pssm-ID: 273756  Cd Length: 174  Bit Score: 82.97  E-value: 3.94e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107    4 LPKLAVFDLDYTLWPFWVDTHVDPPF--HKSSDGTVRDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEIEGANQLL 81
Cdd:TIGR01685   1 LPRVIVFDLDGTLWDHYMISLLGGPFkpVKQNNSIIIDKSGTEVTLIKEVRDVLQTLKDAGTYLATASWNDVPEWAYEIL 80


                  ....*
gi 315259107   82 ELFDL 86
Cdd:TIGR01685  81 GTFEI 85
COG4996 COG4996
Predicted phosphatase [General function prediction only];
4-94 1.83e-11

Predicted phosphatase [General function prediction only];


Pssm-ID: 444020  Cd Length: 165  Bit Score: 57.69  E-value: 1.83e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107   4 LPKLAVFDLDYTLWpfwvdTHVD-----PPFHKSSDGTVRDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEiEGAN 78
Cdd:COG4996    2 MIKLLVLDLDGTLW-----DHHNiselkPPFKRISENSIVDSYGREVRLFPDVREFLEWAKERGAILSTASWNVP-DKAL 75

                         90
                 ....*....|....*.
gi 315259107  79 QLLELFDLfRCYLHSH 94
Cdd:COG4996   76 EALEALGL-DEYFDYP 90
HAD-SF-IIIC TIGR01681
HAD-superfamily phosphatase, subfamily IIIC; This model represents the IIIC subfamily of the ...
 6-95 2.49e-06

HAD-superfamily phosphatase, subfamily IIIC; This model represents the IIIC subfamily of the Haloacid Dehalogenase (HAD) superfamily of aspartate nucleophile hydrolases. Subfamily III (also including IIIA - TIGR01662 and IIIB - pfam03767) contains sequences which do not contain either of the insert domains (between the 1st and 2nd conserved catalytic motifs, subfamily I - TIGR01493, TIGR01509, TIGR01549, TIGR01488, TIGR01494, TIGR01658, TIGR01544 and TIGR01545, or between the 2nd and 3rd, subfamily II - TIGR01460 and TIGR01484). Subfamily IIIC contains five relatively distantly related clades: a family of viral proteins (TIGR01684), a family of eukaryotic proteins called MDP-1 and a family of archaeal proteins most closely related to MDP-1 (TIGR01685), a family of bacteria including the Streptomyces FkbH protein (TIGR01686), and a small clade including the Pasteurella BcbF and EcbF proteins. The overall lack of species overlap among these clades may indicate a conserved function, but the degree of divergence between the clades and the differences in archetecture outside of the domain in some clades warns against such a conclusion. No member of this subfamily is characterized with respect to function, however the MDP-1 protein is a characterized phosphatase. All of the characterized enzymes within subfamily III are phosphatases, and all of the active site residues characteristic of HAD-superfamily phosphatases are present in subfamily IIIC.


Pssm-ID: 273752 [Multi-domain]  Cd Length: 128  Bit Score: 43.19  E-value: 2.49e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 315259107    6 KLAVFDLDYTLWpfwvdTHVDPPFHKSSDGTVRDRrgqdvrlYPEVPEVLKRLQSLGVPGAAASRTSEIEGANQLLELFD 85
Cdd:TIGR01681   1 KVIVFDLDNTLW-----TGENIVVGEDPIIDLEVT-------IKEIRDKLQTLKKNGFLLALASYNDDPHVAYELLKIFE 68

                          90
                  ....*....|
gi 315259107   86 LFRCYLHSHP 95
Cdd:TIGR01681  69 DFGIIFPLAE 78
Gph COG0546
Phosphoglycolate phosphatase, HAD superfamily [Energy production and conversion];
38-86 3.86e-04

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


Pssm-ID: 440312 [Multi-domain]  Cd Length: 214  Bit Score: 38.37  E-value: 3.86e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 315259107  38 RDRRGQDVRLYPEVPEVLKRLQSLGVPGAAASRTSEiEGANQLLELFDL 86
Cdd:COG0546   76 EEELLDETRLFPGVRELLEALKARGIKLAVVTNKPR-EFAERLLEALGL 123
 
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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