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(-) Description

Title :  CRYSTAL STRUCTURE ANALYSIS OF MGLU IN ITS TRIS AND GLUTAMATE FORM
 
Authors :  K. Yoshimune, Y. Shirakihara
Date :  29 Jul 09  (Deposition) - 19 Jan 10  (Release) - 26 Jan 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Salt-Tolerant Glutaminase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Yoshimune, Y. Shirakihara, M. Wakayama, I. Yumoto
Crystal Structure Of Salt-Tolerant Glutaminase From Micrococcus Luteus K-3 In The Presence And Absence Of Its Product L-Glutamate And Its Activator Tris
Febs J. V. 277 738 2010
PubMed-ID: 20050917  |  Reference-DOI: 10.1111/J.1742-4658.2009.07523.X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SALT-TOLERANT GLUTAMINASE
    Chains: A, B
    EC Number: 3.5.1.2
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PKK223-3
    Expression System Strain: JM109
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: GLUTAMINASE
    Organism Common: MICROCOCCUS LYSODEIKTICUS
    Organism Scientific: MICROCOCCUS LUTEUS
    Organism Taxid: 1270
    Strain: K-3

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (2x): A 
Biological Unit 2 (2x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1GLU2Mod. Amino AcidGLUTAMIC ACID
2TRS2Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 1 (2, 4)
No.NameCountTypeFull Name
1GLU2Mod. Amino AcidGLUTAMIC ACID
2TRS2Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
Biological Unit 2 (2, 4)
No.NameCountTypeFull Name
1GLU2Mod. Amino AcidGLUTAMIC ACID
2TRS2Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLN A:63 , SER A:64 , ASN A:114 , GLU A:160 , ASN A:167 , CYS A:195 , GLY A:260 , VAL A:261 , HOH A:486 , HOH A:622BINDING SITE FOR RESIDUE GLU A 500
2AC2SOFTWAREGLN B:63 , SER B:64 , ASN B:114 , GLU B:160 , ASN B:167 , CYS B:195 , GLY B:260 , VAL B:261 , HOH B:508BINDING SITE FOR RESIDUE GLU B 500
3AC3SOFTWAREARG A:223 , PRO A:226 , SER A:227 , HOH A:507 , HOH A:508 , HOH A:509 , HOH A:510 , HOH A:633 , HOH A:640BINDING SITE FOR RESIDUE TRS A 600
4AC4SOFTWAREARG B:223 , PRO B:226 , SER B:227 , ILE B:228BINDING SITE FOR RESIDUE TRS B 600

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3IHB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3IHB)

(-) 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    
   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:451
 aligned with Q4U1A6_MICLU | Q4U1A6 from UniProtKB/TrEMBL  Length:456

    Alignment length:452
                                    10        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       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450  
         Q4U1A6_MICLU     1 MRHPIPDYLASLVTELGAVNPGETAQYIPVLAEADPDRFGIALATPTGRLHCAGDADVEFTIQSASKPFTYAAALVDRGFAAVDRQVGLNPSGEAFNELSLEAESHRPDNAMINAGALAVHQLLVGPEASRKERLDRAVEIMSLLAGRRLSVDWETYESEMAVSDRNLSLAHMLRSYGVLQDSAEEIVAGYVAQCAVLVTVKDLAVMGACLATGGIHPMTGERMLPSIVARRVVSVMTSSGMYDAAGQWLADVGIPAKSGVAGGVLGALPGRVGIGVFSPRLDEVGNSARGVLACRRLSEDFRLHLMDGDSLGGTAVRFVEREGDRVFLHLQGVIRFGGAEAVLDALTDLRTGAEKPGTGWDAAVYPRWQEAAADRAALSAATGGGAVHEAAAAAARDENDGPIRTVVLNLARVDRIDDVGRRLIAEGVRRLQADGVRVEVEDPERILPLEE 452
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh..........hhhhhh......eeeee.....eeeee.....ee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhhh.........hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.hhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.eehhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee....eeeeee...eeeeee.........hhhhhhhhhhhhhhhh........hhhh.eeeee....eeeeee.eeehhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh...eeeee...eeeehhhhhhhhhhhhhhhhh...eeeee........-. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ihb A   1 MRHPIPDYLASLVTELGAVNPGETAQYIPVLAEADPDRFGIALATPTGRLHCAGDADVEFTIQSASKPFTYAAALVDRGFAAVDRQVGLNPSGEAFNELSLEAESHRPDNAMINAGALAVHQLLVGPEASRKERLDRAVEIMSLLAGRRLSVDWETYESEMAVSDRNLSLAHMLRSYGVLQDSAEEIVAGYVAQCAVLVTVKDLAVMGACLATGGIHPMTGERMLPSIVARRVVSVMTSSGMYDAAGQWLADVGIPAKSGVAGGVLGALPGRVGIGVFSPRLDEVGNSARGVLACRRLSEDFRLHLMDGDSLGGTAVRFVEREGDRVFLHLQGVIRFGGAEAVLDALTDLRTGAEKPGTGWDAAVYPRWQEAAADRAALSAATGGGAVHEAAAAAARDENDGPIRTVVLNLARVDRIDDVGRRLIAEGVRRLQADGVRVEVEDPERILPL-E 500
                                    10        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       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450 |
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           450 |
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             500


Chain B from PDB  Type:PROTEIN  Length:449
 aligned with Q4U1A6_MICLU | Q4U1A6 from UniProtKB/TrEMBL  Length:456

    Alignment length:449
                                    10        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       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440         
         Q4U1A6_MICLU     1 MRHPIPDYLASLVTELGAVNPGETAQYIPVLAEADPDRFGIALATPTGRLHCAGDADVEFTIQSASKPFTYAAALVDRGFAAVDRQVGLNPSGEAFNELSLEAESHRPDNAMINAGALAVHQLLVGPEASRKERLDRAVEIMSLLAGRRLSVDWETYESEMAVSDRNLSLAHMLRSYGVLQDSAEEIVAGYVAQCAVLVTVKDLAVMGACLATGGIHPMTGERMLPSIVARRVVSVMTSSGMYDAAGQWLADVGIPAKSGVAGGVLGALPGRVGIGVFSPRLDEVGNSARGVLACRRLSEDFRLHLMDGDSLGGTAVRFVEREGDRVFLHLQGVIRFGGAEAVLDALTDLRTGAEKPGTGWDAAVYPRWQEAAADRAALSAATGGGAVHEAAAAAARDENDGPIRTVVLNLARVDRIDDVGRRLIAEGVRRLQADGVRVEVEDPERILP 449
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhh..........hhhhhh......eeeee.....eeeee.....ee.hhhhhhhhhhhhhhhhhhhhhhh............hhhhhh.........hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh.....hhhhhhhhhh.hhhhhhhhhhhhhh.....hhhhhhhhhhhhhh.eehhhhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eee....eeeeee...eeeeee.........hhhhhhhhhhhhhhhh........hhhh.eeeeee...eeeeeeeeeehhhhhhhhhhhhhh................hhhhhhhhhhhhhhhhh.....hhhhhhhh..........eeeeeeeeeeeehhhhhhhhhhhhhhhhh...eeeee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3ihb B   1 MRHPIPDYLASLVTELGAVNPGETAQYIPVLAEADPDRFGIALATPTGRLHCAGDADVEFTIQSASKPFTYAAALVDRGFAAVDRQVGLNPSGEAFNELSLEAESHRPDNAMINAGALAVHQLLVGPEASRKERLDRAVEIMSLLAGRRLSVDWETYESEMAVSDRNLSLAHMLRSYGVLQDSAEEIVAGYVAQCAVLVTVKDLAVMGACLATGGIHPMTGERMLPSIVARRVVSVMTSSGMYDAAGQWLADVGIPAKSGVAGGVLGALPGRVGIGVFSPRLDEVGNSARGVLACRRLSEDFRLHLMDGDSLGGTAVRFVEREGDRVFLHLQGVIRFGGAEAVLDALTDLRTGAEKPGTGWDAAVYPRWQEAAADRAALSAATGGGAVHEAAAAAARDENDGPIRTVVLNLARVDRIDDVGRRLIAEGVRRLQADGVRVEVEDPERILE 500
                                    10        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       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       ||
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         448|
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          500
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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 3IHB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q4U1A6_MICLU | Q4U1A6)
molecular function
    GO:0004359    glutaminase activity    Catalysis of the reaction: L-glutamine + H2O = L-glutamate + NH3.
    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.
biological process
    GO:0006541    glutamine metabolic process    The chemical reactions and pathways involving glutamine, 2-amino-4-carbamoylbutanoic acid.

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 Related Entries

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

UniProtKB/TrEMBL
        Q4U1A6_MICLU | Q4U1A6: 3agd 3age 3if5 3ih8 3ih9 3iha

(-) Related Entries Specified in the PDB File

3if5 MAJOR FRAGMENT OF MICROCOCCUS GLUTAMINASE
3ih8 NATIVE FORM OF MICROCOCCUS GLUTAMINASE
3ih9 TRIS FORM OF MICROCOCCUS GLUTAMINASE
3iha GLUTAMATE FORM OF MICROCOCCUS GLUTAMINASE