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(-) Description

Title :  CRYSTAL STRUCTURE OF MYCOBACTERIUM AVIUM SERB2 IN COMPLEX WITH SERINE AT CATALYTIC (PSP) DOMAIN
 
Authors :  S. Shree, S. Dubey, A. Agrawal, R. Ramachandran
Date :  28 Apr 16  (Deposition) - 03 May 17  (Release) - 03 May 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.03
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Had Family, Phosphoserine Phosphatase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Shree, R. Ramachandran
Crystal Structure Of Mycobacterium Avium Serb2 In Complex With Serine At Catalytic (Psp) Domain
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHOSPHOSERINE PHOSPHATASE
    Chains: A
    EC Number: 3.1.3.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 5-400
    Gene: SERB, MAV_3907
    Mutation: YES
    Organism Scientific: MYCOBACTERIUM AVIUM (STRAIN 104)
    Organism Taxid: 243243
    Strain: 104
    Synonym: PSPASE,O-PHOSPHOSERINE PHOSPHOHYDROLASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2MG1Ligand/IonMAGNESIUM ION
3SER1Mod. Amino AcidSERINE
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1EDO4Ligand/Ion1,2-ETHANEDIOL
2MG-1Ligand/IonMAGNESIUM ION
3SER2Mod. Amino AcidSERINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:189 , GLU A:196 , VAL A:197 , ILE A:198 , PHE A:225 , ARG A:232 , GLY A:277 , HOH A:601binding site for residue SER A 501
2AC2SOFTWAREASP A:187 , ASP A:189 , ASP A:343 , HOH A:607 , HOH A:615 , HOH A:649binding site for residue MG A 502
3AC3SOFTWAREGLN A:194 , GLN A:250 , LEU A:251 , GLU A:252binding site for residue EDO A 503
4AC4SOFTWAREGLU A:172 , ASP A:173 , GLY A:355binding site for residue EDO A 504

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5JMA)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Arg A:105 -Pro A:106
2Tyr A:135 -Pro A:136
3Gly A:312 -Pro A:313

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5JMA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5JMA)

(-) Exons   (0, 0)

(no "Exon" information available for 5JMA)

(-) Sequences/Alignments

Asymmetric 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    
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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:397
                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeeee...hhhhhhhhhhh....eeeeeeeeee..eeeeeeeeee......hhhhhhhhhhhhhhh..eeeeee............eeeeeee...hhhhhhhhhhhhhhh..eeeeeeeee....eeeeeeee....hhhhhhhhhhhhhhhhh.eeeeee..hhhhh..eeee.........hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhh......hhhhhhhhhh....hhhhhhhhhhhh..eeeeeeeeehhhhhhhhhhh...eeeee.eeee..eeeeee.....hhhhhhhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh.eeeee..hhhhhh...eee.....hhhhhhh..hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5jma A   5 PKVSVLITVTGVDQPGVTATLFEVLSRHGVELLNVEQVVIRHRLTLGVLVCCPADVADGPALRHDVEAAIRKVGLDVSIERSDDVPIIREPSTHTIFVLGRPITAAAFGAVAREVAALGVNIDLIRGVSDYPVIGLELRVSVPPGADGALRTALNRVSSEEHVDVAVEDYTLERRAKRLIVFDVDSTLVQGEVIEMLAAKAGAEGQVAAITDAAMRGELDFAQSLQQRVATLAGLPATVIDEVAGQLELMPGARTTLRTLRRLGYACGVVSGGFRRIIEPLAEELMLDYVAANELEIVDGTLTGRVVGPIIDRAGKATALREFAQRAGVPMAQTVAVGDGANDIDMLAAAGLGIAFNAKPALREVADASLSHPYLDTVLFLLGVTRGEIEAADAIDS 501
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394     ||
                                                                                                                                                                                                                                                                                                                                                                                                                                     400|
                                                                                                                                                                                                                                                                                                                                                                                                                                      501
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  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 5JMA)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5JMA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5JMA)

(-) Gene Ontology  (10, 10)

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        SERB_MYCA1 | A0QJI1: 3p96 5is2 5it0 5it4 5jjb 5jlp 5jlr 5t41

(-) Related Entries Specified in the PDB File

5jlp 5jlr