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(-) Description

Title :  CRYSTAL STRUCTURE OF M37 LIPASE
 
Authors :  S. K. Jung, D. G. Jeong, S. J. Kim
Date :  05 Feb 07  (Deposition) - 29 Jan 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.20
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A,B  (1x)
Keywords :  Alpha/Beta Hydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. K. Jung, D. G. Jeong, M. S. Lee, J. K. Lee, H. K. Kim, S. E. Ryu, B. C. Park J. H. Kim, S. J. Kim
Structural Basis For The Cold Adaptation Of Psychrophilic M37 Lipase From Photobacterium Lipolyticum.
Proteins V. 71 476 2008
PubMed-ID: 18186467  |  Reference-DOI: 10.1002/PROT.21884

(-) Compounds

Molecule 1 - LIPASE
    Chains: A, B
    EC Number: 3.1.1.3
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: PHOTOBACTERIUM SP. M37
    Organism Taxid: 269172

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2ORY)

(-) Sites  (0, 0)

(no "Site" information available for 2ORY)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2ORY)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Gly A:57 -Pro A:58
2Ala A:241 -Trp A:242
3Gly B:57 -Pro B:58
4Ala B:241 -Trp B:242

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2ORY)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2ORY)

(-) Exons   (0, 0)

(no "Exon" information available for 2ORY)

(-) 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:335
 aligned with Q5DRN8_9GAMM | Q5DRN8 from UniProtKB/TrEMBL  Length:340

    Alignment length:339
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331         
         Q5DRN8_9GAMM     2 SYTKEQLMLAFSYMSYYGITHTGSAKKNAELILKKMKEALKTWKPFQEDDWEVVWGPAVYTMPFTIFNDAMMYVIQKKGAEGEYVIAIRGTNPVSISDWLFNDFMVSAMKKWPYASVEGRILKISESTSYGLKTLQKLKPKSHIPGENKTILQFLNEKIGPEGKAKICVTGHSKGGALSSTLALWLKDIQGVKLSQNIDISTIPFAGPTAGNADFADYFDDCLGDQCTRIANSLDIVPYAWNTNSLKKLKSIYISEQASVKPLLYQRALIRAMIAETKGKKYKQIKAETPPLEGNINPILIEYLVQAAYQHVVGYPELMGMMDDIPLTDIFEDAIAGLL 340
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh.......----.hhhhhhhhhhhhhhhhhhhh...eeeeeeeeeeee..eeeeeeeeeeeee.....eeeeeee.....hhhhhh..hhhhh.eee...........eeehhhhhhhhhhhhh...........hhhhhhhhhhh....eeeeeeeehhhhhhhhhhhhhhhhh........eeeeeeee......hhhhhhhhhhhhhhhh........hhhhh.hhhhhh...............hhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhh......hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ory A   2 SYTKEQLMLAFSYMSYYGITHT----KNAELILKKMKEALKTWKPFQEDDWEVVWGPAVYTMPFTIFNDAMMYVIQKKGAEGEYVIAIRGTNPVSISDWLFNDFMVSAMKKWPYASVEGRILKISESTSYGLKTLQKLKPKSHIPGENKTILQFLNEKIGPEGKAKICVTGHSKGGALSSTLALWLKDIQGVKLSQNIDISTIPFAGPTAGNADFADYFDDCLGDQCTRIANSLDIVPYAWNTNSLKKLKSIYISEQASVKPLLYQRALIRAMIAETKGKKYKQIKAETPPLEGNINPILIEYLVQAAYQHVVGYPELMGMMDDIPLTDIFEDAIAGLL 340
                                    11        21 |    | 31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331         
                                                23   28                                                                                                                                                                                                                                                                                                                        


Chain B from PDB  Type:PROTEIN  Length:344
 aligned with Q5DRN8_9GAMM | Q5DRN8 from UniProtKB/TrEMBL  Length:340

    Alignment length:344
                                                                                                                                                                                                                                                                                                                                                                           340      
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       | -    
         Q5DRN8_9GAMM     3 YTKEQLMLAFSYMSYYGITHTGSAKKNAELILKKMKEALKTWKPFQEDDWEVVWGPAVYTMPFTIFNDAMMYVIQKKGAEGEYVIAIRGTNPVSISDWLFNDFMVSAMKKWPYASVEGRILKISESTSYGLKTLQKLKPKSHIPGENKTILQFLNEKIGPEGKAKICVTGHSKGGALSSTLALWLKDIQGVKLSQNIDISTIPFAGPTAGNADFADYFDDCLGDQCTRIANSLDIVPYAWNTNSLKKLKSIYISEQASVKPLLYQRALIRAMIAETKGKKYKQIKAETPPLEGNINPILIEYLVQAAYQHVVGYPELMGMMDDIPLTDIFEDAIAGLL------   -
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------------------------------------------------------------------------------Lipase_3-2oryB01 B:86-245                                                                                                                                       ----------------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -----------------------------------------------------------------------------------Lipase_3-2oryB02 B:86-245                                                                                                                                       ----------------------------------------------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author .hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhheeeeeeeeeee.........eeeeeeeee....eeeeeee.....hhhhhh..hhhhh.eee...........eeehhhhhhhhhhhhh...........hhhhhhhhhhh....eeeeeeeehhhhhhhhhhhhhhhhhh.......eeeeeeee......hhhhhhhhhhhhhhhh........hhhhh.hhhhhh...............hhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2ory B   3 YTKEQLMLAFSYMSYYGITHTGSAKKNAELILKKMKEALKTWKPFQEDDWEVVWGPAVYTMPFTIFNDAMMYVIQKKGAEGEYVIAIRGTNPVSISDWLFNDFMVSAMKKWPYASVEGRILKISESTSYGLKTLQKLKPKSHIPGENKTILQFLNEKIGPEGKAKICVTGHSKGGALSSTLALWLKDIQGVKLSQNIDISTIPFAGPTAGNADFADYFDDCLGDQCTRIANSLDIVPYAWNTNSLKKLKSIYISEQASVKPLLYQRALIRAMIAETKGKKYKQIKAETPPLEGNINPILIEYLVQAAYQHVVGYPELMGMMDDIPLTDIFEDAIAGLLHHHHHH 346
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342
   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 2ORY)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2ORY)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: AB_hydrolase (347)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q5DRN8_9GAMM | Q5DRN8)
biological process
    GO:0006629    lipid metabolic process    The chemical reactions and pathways involving lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent. Includes fatty acids; neutral fats, other fatty-acid esters, and soaps; long-chain (fatty) alcohols and waxes; sphingoids and other long-chain bases; glycolipids, phospholipids and sphingolipids; and carotenes, polyprenols, sterols, terpenes and other isoprenoids.

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  Cis Peptide Bonds
    Ala A:241 - Trp A:242   [ RasMol ]  
    Ala B:241 - Trp B:242   [ RasMol ]  
    Gly A:57 - Pro A:58   [ RasMol ]  
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