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(-) Description

Title :  RAT METALLOPHOSPHODIESTERASE MPPED2 G252H MUTANT
 
Authors :  M. Podobnik, U. Dermol
Date :  19 Apr 11  (Deposition) - 10 Aug 11  (Release) - 04 Jan 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.29
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha-Beta Fold, Metallophosphodiesterase, Active Site Mutant, Gmp, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  U. Dermol, V. Janardan, R. Tyagi, S. S. Visweswariah, M. Podobnik
Unique Utilization Of A Phosphoprotein Phosphatase Fold By Mammalian Phosphodiesterase Associated With Wagr Syndrome.
J. Mol. Biol. V. 412 481 2011
PubMed-ID: 21824479  |  Reference-DOI: 10.1016/J.JMB.2011.07.060
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - METALLOPHOSPHOESTERASE MPPED2
    Chains: A
    EC Number: 3.1.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PPROEXHTC
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MPPED2
    Mutation: YES
    Organism Common: BROWN RAT,RAT,RATS
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: 239FB, FETAL BRAIN PROTEIN 239 HOMOLOG, METALLOPHOSPHOESTERASE DOMAIN-CONTAINING PROTEIN 2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
15GP1Ligand/IonGUANOSINE-5'-MONOPHOSPHATE
2CL1Ligand/IonCHLORIDE ION
3EDO1Ligand/Ion1,2-ETHANEDIOL
4MN8Ligand/IonMANGANESE (II) ION

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:65 , HIS A:67 , ASP A:86 , HIS A:254 , HOH A:467 , MN A:555 , 5GP A:951BINDING SITE FOR RESIDUE MN A 444
02AC2SOFTWAREASP A:86 , ASN A:117 , HIS A:213 , HIS A:252 , MN A:444 , HOH A:467 , 5GP A:951BINDING SITE FOR RESIDUE MN A 555
03AC3SOFTWAREGLU A:147 , ASP A:150 , ASN A:151 , HOH A:532BINDING SITE FOR RESIDUE MN A 666
04AC4SOFTWAREGLU A:109 , HOH A:498 , HOH A:499 , HOH A:500 , HOH A:564BINDING SITE FOR RESIDUE MN A 771
05AC5SOFTWAREASP A:45 , HOH A:508 , HOH A:509BINDING SITE FOR RESIDUE MN A 772
06AC6SOFTWAREASP A:208 , HOH A:563 , HOH A:590 , MN A:774BINDING SITE FOR RESIDUE MN A 773
07AC7SOFTWAREGLY A:206 , ASP A:208 , HOH A:590 , MN A:773BINDING SITE FOR RESIDUE MN A 774
08AC8SOFTWAREGLU A:205 , VAL A:243 , HOH A:413 , HOH A:510 , HOH A:511 , HOH A:517BINDING SITE FOR RESIDUE MN A 775
09AC9SOFTWAREARG A:220 , ARG A:229 , HOH A:322BINDING SITE FOR RESIDUE CL A 888
10BC1SOFTWAREHIS A:67 , ASP A:86 , ASN A:117 , HIS A:118 , PHE A:183 , GLU A:226 , VAL A:230 , HIS A:252 , HIS A:254 , GLU A:255 , VAL A:275 , PHE A:277 , HOH A:374 , MN A:444 , HOH A:447 , HOH A:467 , HOH A:476 , HOH A:522 , MN A:555 , HOH A:586 , HOH A:589BINDING SITE FOR RESIDUE 5GP A 951
11BC2SOFTWAREVAL A:44 , ASP A:45 , PRO A:46 , THR A:259 , ILE A:284 , HOH A:330 , HOH A:572BINDING SITE FOR RESIDUE EDO A 333

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RL4)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Pro A:38 -Pro A:39

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RL4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3RL4)

(-) Exons   (0, 0)

(no "Exon" information available for 3RL4)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:275
 aligned with MPPD2_RAT | B1WBP0 from UniProtKB/Swiss-Prot  Length:294

    Alignment length:281
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290 
            MPPD2_RAT    11 VTITVDEYSSNPTQAFTHYNINQSRFQPPHVHMVDPIPYDTPKPAGHTRFVCISDTHSRTDGIQMPYGDILLHTGDFTELGLPSEVKKFNDWLGNLPYEYKIVIAGNHELTFDKEFMADLVKQDYYRFPSVSKLKPEDFDNVQSLLTNSIYLQDSEVTVKGFRIYGAPWTPWFNGWGFNLPRGQSLLDKWNLIPEGTDILMTHGPPLGFRDWVPKELQRVGCVELLNTVQRRVRPKLHVFGGIHEGYGTMTDGYTTYINASTCTVSFQPTNPPIIFDLPNP 291
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhhhhhhhhhhh.......ee.............eeeeeee................eeee........hhhhhhhhhhhhhh....eeee.....hhhhhhhhhhhh.------hhhhhh.hhhhhh.hhhhh...ee...eeeee..eeeeee..ee.......ee..hhhhhhhhh.......eeee.........ee....ee..hhhhhhhhhhh....eeee..hhhhheeee....eeee..............eeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3rl4 A  11 VTITVDEYSSNPTQAFTHYNINQSRFQPPHVHMVDPIPYDTPKPAGHTRFVCISDTHSRTDGIQMPYGDILLHTGDFTELGLPSEVKKFNDWLGNLPYEYKIVIAGNHELTFDKEFMADLV------FPSVSKLKPEDFDNVQSLLTNSIYLQDSEVTVKGFRIYGAPWTPWFNGWGFNLPRGQSLLDKWNLIPEGTDILMTHGPPLGFRDWVPKELQRVGCVELLNTVQRRVRPKLHVFGHIHEGYGTMTDGYTTYINASTCTVSFQPTNPPIIFDLPNP 291
                                    20        30        40        50        60        70        80        90       100       110       120       130|      140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290 
                                                                                                                                                  131    138
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3RL4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3RL4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3RL4)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MPPD2_RAT | B1WBP0)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        MPPD2_RAT | B1WBP0: 3rl3 3rl5

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