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(-) Description

Title :  CRYSTAL STRUCTURE OF NATIVE FG41MALONATE SEMIALDEHYDE DECARBOXYLASE
 
Authors :  Y. Guo, H. Serrano, G. J. Poelarends, W. H. Johnson Jr. , M. L. Hackert, C. P. Whitman
Date :  01 Jul 13  (Deposition) - 24 Jul 13  (Release) - 26 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.02
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H,I,J,K,L
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Biol. Unit 3:  G,H,I  (1x)
Biol. Unit 4:  J,K,L  (1x)
Keywords :  The Tautomerase Superfamily, Beta-Alpha-Beta-Motif, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Guo, H. Serrano, G. J. Poelarends, W. H. Johnson, M. L. Hackert, C. P. Whitman
Kinetic, Mutational, And Structural Analysis Of Malonate Semialdehyde Decarboxylase From Coryneform Bacterium Strain Fg41: Mechanistic Implications For The Decarboxylase And Hydratase Activities.
Biochemistry V. 52 4830 2013
PubMed-ID: 23781927  |  Reference-DOI: 10.1021/BI400567A

(-) Compounds

Molecule 1 - FG41 MALONATE SEMIALDEHYDE DECARBOXYLASE
    Chains: A, B, C, D, E, F, G, H, I, J, K, L
    EC Number: 4.1.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-3B
    Expression System Strain: BL21-GOLD (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: CORYNEFORM BACTERIUM
    Organism Taxid: 1728
    Strain: FG41

 Structural Features

(-) Chains, Units

  123456789101112
Asymmetric Unit : ABCDEFGHIJKL
Biological Unit 1 (1x): ABC         
Biological Unit 2 (1x):    DEF      
Biological Unit 3 (1x):       GHI   
Biological Unit 4 (1x):          JKL

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 14)

Asymmetric Unit (2, 14)
No.NameCountTypeFull Name
1PO412Ligand/IonPHOSPHATE ION
2SO42Ligand/IonSULFATE ION
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1PO43Ligand/IonPHOSPHATE ION
2SO4-1Ligand/IonSULFATE ION
Biological Unit 2 (2, 5)
No.NameCountTypeFull Name
1PO43Ligand/IonPHOSPHATE ION
2SO42Ligand/IonSULFATE ION
Biological Unit 3 (1, 3)
No.NameCountTypeFull Name
1PO43Ligand/IonPHOSPHATE ION
2SO4-1Ligand/IonSULFATE ION
Biological Unit 4 (1, 3)
No.NameCountTypeFull Name
1PO43Ligand/IonPHOSPHATE ION
2SO4-1Ligand/IonSULFATE ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPRO A:1 , ASP A:37 , THR A:72 , GLN A:73 , TYR A:123 , PRO A:131BINDING SITE FOR RESIDUE PO4 A 201
02AC2SOFTWAREPRO B:1 , THR B:72 , GLN B:73 , TRP B:114 , TYR B:123 , PRO B:131 , HOH B:365 , HOH B:391BINDING SITE FOR RESIDUE PO4 B 201
03AC3SOFTWAREPRO C:1 , ASP C:37 , THR C:72 , GLN C:73 , TYR C:123 , PRO C:131 , HOH C:386BINDING SITE FOR RESIDUE PO4 C 201
04AC4SOFTWAREPRO D:1 , ASP D:37 , THR D:72 , GLN D:73 , TRP D:114 , TYR D:123 , PRO D:131BINDING SITE FOR RESIDUE PO4 D 201
05AC5SOFTWAREPRO E:111 , HIS E:112 , TRP E:114 , ALA E:121 , GLN E:122 , TYR E:123 , VAL E:124BINDING SITE FOR RESIDUE SO4 E 201
06AC6SOFTWAREPRO E:1 , ASP E:37 , THR E:72 , GLN E:73 , PRO E:131 , HOH E:401BINDING SITE FOR RESIDUE PO4 E 202
07AC7SOFTWAREARG F:76 , THR F:77 , THR F:80 , HOH K:354 , ALA L:35BINDING SITE FOR RESIDUE SO4 F 201
08AC8SOFTWAREPRO F:1 , THR F:72 , GLN F:73 , TYR F:123 , HOH F:400BINDING SITE FOR RESIDUE PO4 F 202
09AC9SOFTWAREPRO G:1 , ASP G:37 , THR G:72 , GLN G:73 , TYR G:123 , HOH G:313BINDING SITE FOR RESIDUE PO4 G 201
10BC1SOFTWAREPRO H:1 , ASP H:37 , THR H:72 , GLN H:73 , TRP H:114 , TYR H:123 , HOH H:381BINDING SITE FOR RESIDUE PO4 H 201
11BC2SOFTWAREPRO I:1 , THR I:72 , GLN I:73 , TRP I:114 , TYR I:123 , HOH I:381BINDING SITE FOR RESIDUE PO4 I 201
12BC3SOFTWAREPRO J:1 , PHE J:71 , THR J:72 , GLN J:73 , TYR J:123 , HOH J:310BINDING SITE FOR RESIDUE PO4 J 201
13BC4SOFTWAREPRO K:1 , THR K:72 , GLN K:73 , TRP K:114 , TYR K:123 , HOH K:382BINDING SITE FOR RESIDUE PO4 K 201
14BC5SOFTWAREPRO L:1 , ASP L:37 , THR L:72 , GLN L:73 , TRP L:114 , TYR L:123BINDING SITE FOR RESIDUE PO4 L 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4LHP)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4LHP)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4LHP)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4LHP)

(-) Exons   (0, 0)

(no "Exon" information available for 4LHP)

(-) 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:131
                                                                                                                                                                   
               SCOP domains d4lhpa_ A: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhh....hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp A   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain B from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhpb_ B: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp B   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain C from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhpc_ C: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp C   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain D from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhpd_ D: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhh....hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp D   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain E from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhpe_ E: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp E   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain F from PDB  Type:PROTEIN  Length:130
                                                                                                                                                                  
               SCOP domains d4lhpf_ F: automated matches                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeehhh.ee............... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp F   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAI 130
                                    10        20        30        40        50        60        70        80        90       100       110       120       130


Chain G from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhpg_ G: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhh....hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp G   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain H from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhph_ H: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhh....hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp H   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain I from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhpi_ I: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhh....hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp I   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain J from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhpj_ J: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhh....hhh.eeeeeeeehhh.ee.....hhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp J   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130 


Chain K from PDB  Type:PROTEIN  Length:130
                                                                                                                                                                  
               SCOP domains d4lhpk_ K: automated matches                                                                                                       SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhh....hhh.eeeeeeeehhh.ee.....hhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp K   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAI 130
                                    10        20        30        40        50        60        70        80        90       100       110       120       130


Chain L from PDB  Type:PROTEIN  Length:131
                                                                                                                                                                   
               SCOP domains d4lhpl_ L: automated matches                                                                                                        SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee...hhhhhhhhhhhhhhhhhhhhh......eeeeeeehhh.eee.............eeeeeeee...hhhhhhhhhhhhhhhhhhhh.hhh.eeeeeeeehhh.ee................ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4lhp L   1 PLIRIDLTSDRSREQRRAIADAVHDALVEVLAIPARDRFQILTAHDPSDIIAEDAGLGFQRSPSVVIIHVFTQAGRTIETKQRVFAAITESLAPIGVAGSDVFIAITENAPHDWSFGFGSAQYVTGELAIP 131
                                    10        20        30        40        50        60        70        80        90       100       110       120       130
   Legend:   → Mismatch (orange background)
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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  (1, 12)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4LHP)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4LHP)

(-) Gene Ontology  (2, 2)

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  4lhp
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 Related Entries

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        F2Z288_9CORY | F2Z288: 3mjz 3mlc 4lho

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