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(-) Description

Title :  CRYSTAL STRUCTURE OF A SHORT CHAIN DEHYDROGENASE HOMOLOG (TARGET EFI-505321) FROM BURKHOLDERIA MULTIVORANS, WITH BOUND NAD
 
Authors :  M. W. Vetting, M. E. Hobbs, L. L. Morisco, S. R. Wasserman, S. Sojitra, H. F. M. Raushel, J. A. Gerlt, S. C. Almo, Enzyme Function Initiative (
Date :  14 Aug 12  (Deposition) - 29 Aug 12  (Release) - 29 Aug 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Putative Sugar Dehydrogenase, Enzyme Function Initiative, Efi, Structural Genomics, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. W. Vetting, M. E. Hobbs, L. L. Morisco, S. R. Wasserman, S. Sojitra, H. J. Imker, F. M. Raushel, J. A. Gerlt, S. C. Almo, Enzyme Function Initiative (Efi)
Crystal Structure Of A Short Chain Dehydrogenase Homolog (Target Efi-505321) From Burkholderia Multivorans, With Bound Nad
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 3-OXOACYL-[ACYL-CARRIER PROTEIN] REDUCTASE
    Chains: A, B, C, D
    EC Number: 1.1.1.100
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET30
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: FABG, BMUL_3598, BMULJ_04919
    Organism Scientific: BURKHOLDERIA MULTIVORANS
    Organism Taxid: 395019
    Strain: ATCC 17616
    Synonym: SHORT-CHAIN DEHYDROGENASE/REDUCTASE SDR

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 25)

Asymmetric/Biological Unit (4, 25)
No.NameCountTypeFull Name
1CL4Ligand/IonCHLORIDE ION
2EDO8Ligand/Ion1,2-ETHANEDIOL
3NAD4Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
4SO49Ligand/IonSULFATE ION

(-) Sites  (25, 25)

Asymmetric Unit (25, 25)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:14 , SER A:17 , GLY A:18 , ILE A:19 , ARG A:39 , VAL A:62 , GLU A:63 , LEU A:64 , ASN A:90 , TYR A:117 , ILE A:138 , SER A:139 , TYR A:153 , LYS A:157 , PRO A:183 , ALA A:184 , VAL A:186 , LEU A:190 , SO4 A:302 , HOH A:435 , HOH A:436 , HOH A:472 , HOH A:473 , HOH A:488 , HOH A:538 , HOH A:632BINDING SITE FOR RESIDUE NAD A 301
02AC2SOFTWAREASN A:94 , SER A:140 , LYS A:141 , THR A:142 , GLN A:147 , TYR A:153 , ALA A:184 , NAD A:301 , HOH A:472 , HOH A:563BINDING SITE FOR RESIDUE SO4 A 302
03AC3SOFTWAREGLN A:65 , ARG A:112 , HOH A:537 , HOH A:594 , HOH A:625BINDING SITE FOR RESIDUE SO4 A 303
04AC4SOFTWAREARG A:132 , PHE A:198 , GLU A:199 , HOH A:534 , HOH A:599 , HOH A:633 , ARG D:217 , HOH D:535BINDING SITE FOR RESIDUE SO4 A 304
05AC5SOFTWARETHR A:220 , PRO A:221 , ASP A:222 , HOH A:610BINDING SITE FOR RESIDUE CL A 305
06AC6SOFTWAREALA A:143 , GLY A:158 , ALA B:143 , GLY B:158BINDING SITE FOR RESIDUE EDO A 306
07AC7SOFTWARETHR A:145 , TYR A:250 , THR A:251 , HOH A:433 , THR C:251 , HIS C:252 , LEU C:253 , ARG C:255 , EDO C:306BINDING SITE FOR RESIDUE EDO A 307
08AC8SOFTWAREGLY B:14 , SER B:17 , ILE B:19 , ARG B:39 , VAL B:62 , GLU B:63 , LEU B:64 , ASN B:90 , TYR B:117 , ILE B:138 , SER B:139 , SER B:140 , TYR B:153 , LYS B:157 , PRO B:183 , ALA B:184 , VAL B:186 , LEU B:190 , SO4 B:302 , HOH B:425 , HOH B:447 , HOH B:459 , HOH B:469 , HOH B:508 , HOH B:515 , HOH B:590BINDING SITE FOR RESIDUE NAD B 301
09AC9SOFTWAREASN B:94 , SER B:140 , LYS B:141 , THR B:142 , GLN B:147 , TYR B:153 , ALA B:184 , NAD B:301 , HOH B:469 , HOH B:654BINDING SITE FOR RESIDUE SO4 B 302
10BC1SOFTWAREARG B:39 , GLN B:65 , ARG B:112 , HOH B:503 , HOH B:617BINDING SITE FOR RESIDUE SO4 B 303
11BC2SOFTWARETHR B:220 , PRO B:221 , ASP B:222 , HOH B:510BINDING SITE FOR RESIDUE CL B 304
12BC3SOFTWARETHR B:145 , TYR B:250 , THR B:251 , THR D:251 , HIS D:252 , LEU D:253 , ARG D:255 , EDO D:305 , HOH D:420BINDING SITE FOR RESIDUE EDO B 305
13BC4SOFTWAREGLY C:14 , SER C:17 , GLY C:18 , ILE C:19 , GLY C:20 , ARG C:39 , VAL C:62 , GLU C:63 , LEU C:64 , GLN C:65 , ASN C:90 , TYR C:117 , ILE C:138 , SER C:139 , SER C:140 , TYR C:153 , LYS C:157 , PRO C:183 , ALA C:184 , GLU C:185 , VAL C:186 , THR C:188 , PRO C:189 , SO4 C:302 , HOH C:495 , HOH C:567 , HOH C:568BINDING SITE FOR RESIDUE NAD C 301
14BC5SOFTWAREASN C:94 , SER C:140 , LYS C:141 , THR C:142 , GLN C:147 , TYR C:153 , ALA C:184 , NAD C:301 , HOH C:488 , HOH C:494 , HOH C:495BINDING SITE FOR RESIDUE SO4 C 302
15BC6SOFTWAREARG C:39 , GLN C:65 , ARG C:112BINDING SITE FOR RESIDUE SO4 C 303
16BC7SOFTWARETHR C:220 , PRO C:221 , ASP C:222 , HOH C:528 , HOH C:549BINDING SITE FOR RESIDUE CL C 304
17BC8SOFTWAREALA C:143 , GLY C:158 , ALA D:143 , GLY D:158BINDING SITE FOR RESIDUE EDO C 305
18BC9SOFTWARETHR A:251 , HIS A:252 , LEU A:253 , ARG A:255 , EDO A:307 , THR C:145 , TYR C:250 , THR C:251 , HOH C:416BINDING SITE FOR RESIDUE EDO C 306
19CC1SOFTWAREGLY C:96 , ILE C:97 , GLY C:98 , LEU C:99 , ASP C:100 , ALA C:101 , ASN C:149BINDING SITE FOR RESIDUE EDO C 307
20CC2SOFTWAREGLY D:14 , SER D:17 , GLY D:18 , ILE D:19 , GLY D:20 , ARG D:39 , VAL D:62 , GLU D:63 , LEU D:64 , ASN D:90 , TYR D:117 , ILE D:138 , SER D:139 , SER D:140 , TYR D:153 , LYS D:157 , PRO D:183 , ALA D:184 , VAL D:186 , THR D:188 , SO4 D:302 , HOH D:459 , HOH D:489 , HOH D:543 , HOH D:549 , HOH D:588BINDING SITE FOR RESIDUE NAD D 301
21CC3SOFTWAREASN D:94 , SER D:140 , LYS D:141 , THR D:142 , GLN D:147 , TYR D:153 , ALA D:184 , NAD D:301 , HOH D:447 , HOH D:489 , HOH D:546BINDING SITE FOR RESIDUE SO4 D 302
22CC4SOFTWAREARG D:39 , GLN D:65 , ARG D:112 , HOH D:541BINDING SITE FOR RESIDUE SO4 D 303
23CC5SOFTWAREPRO D:221 , ASP D:222 , HOH D:502BINDING SITE FOR RESIDUE CL D 304
24CC6SOFTWARETHR B:251 , HIS B:252 , LEU B:253 , ARG B:255 , EDO B:305 , THR D:145 , TYR D:250 , THR D:251 , HOH D:424BINDING SITE FOR RESIDUE EDO D 305
25CC7SOFTWAREASP A:226 , PRO D:234 , ARG D:235 , SER D:237 , HOH D:481 , HOH D:505BINDING SITE FOR RESIDUE EDO D 306

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4GLO)

(-) 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:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains d4gloa_ A: automated matches                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eeeee...hhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhh...eeee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....hhhhhhhhh...hhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh.....eeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4glo A   1 MDLNLQDKVVIVTGGASGIGGAISMRLAEERAIPVVFARHAPDGAFLDALAQRQPRATYLPVELQDDAQCRDAVAQTIATFGRLDGLVNNAGVNDGIGLDAGRDAFVASLERNLIHYYAMAHYCVPHLKATRGAIVNISSKTAVTGQGNTSGYCASKGAQLALTREWAVALREHGVRVNAVIPAEVMTPLYRNWIATFEDPEAKLAEIAAKVPLGRRFTTPDEIADTAVFLLSPRASHTTGEWLFVDGGYTHLDRALV 258
                                    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        


Chain B from PDB  Type:PROTEIN  Length:258
                                                                                                                                                                                                                                                                                                  
               SCOP domains d4glob_ B: automated matches                                                                                                                                                                                                                                       SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........eeeee...hhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhh...eeee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....hhhhhhhhh...hhhhhhhhhhh.........hhhhhhhhhhhhhhhhhh.....eeee............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4glo B   1 MDLNLQDKVVIVTGGASGIGGAISMRLAEERAIPVVFARHAPDGAFLDALAQRQPRATYLPVELQDDAQCRDAVAQTIATFGRLDGLVNNAGVNDGIGLDAGRDAFVASLERNLIHYYAMAHYCVPHLKATRGAIVNISSKTAVTGQGNTSGYCASKGAQLALTREWAVALREHGVRVNAVIPAEVMTPLYRNWIATFEDPEAKLAEIAAKVPLGRRFTTPDEIADTAVFLLSPRASHTTGEWLFVDGGYTHLDRALV 258
                                    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        


Chain C from PDB  Type:PROTEIN  Length:248
                                                                                                                                                                                                                                                                                        
               SCOP domains d4gloc_ C: automated matches                                                                                                                                                                                                                             SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee...hhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhh...eeee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeee...........hhhhhhh.........hhhhhhhhhhhhhhhhhh.....eee............. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4glo C   1 MDLNLQDKVVIVTGGASGIGGAISMRLAEERAIPVVFARHAPDGAFLDALAQRQPRATYLPVELQDDAQCRDAVAQTIATFGRLDGLVNNAGVNDGIGLDAGRDAFVASLERNLIHYYAMAHYCVPHLKATRGAIVNISSKTAVTGQGNTSGYCASKGAQLALTREWAVALREHGVRVNAVIPAEVMTPLYRAKLAEIAAKVPLGRRFTTPDEIADTAVFLLSPRASHTTGEWLFVDGGYTHLDRALV 258
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190 ||    210       220       230       240       250        
                                                                                                                                                                                                                         192|                                                       
                                                                                                                                                                                                                          203                                                       


Chain D from PDB  Type:PROTEIN  Length:250
                                                                                                                                                                                                                                                                                          
               SCOP domains d4glod_ D: automated matches                                                                                                                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eeeee...hhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhh...eeee....hhhhhhhhhhhhhhhhh...eeee............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee..hhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee.........hhhhhhhhhhh........hhhhhhhhhhhhhhhhhh.....eeee............ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4glo D   1 MDLNLQDKVVIVTGGASGIGGAISMRLAEERAIPVVFARHAPDGAFLDALAQRQPRATYLPVELQDDAQCRDAVAQTIATFGRLDGLVNNAGVNDGIGLDAGRDAFVASLERNLIHYYAMAHYCVPHLKATRGAIVNISSKTAVTGQGNTSGYCASKGAQLALTREWAVALREHGVRVNAVIPAEVMTPLYDPEAKLAEIAAKVPLGRRFTTPDEIADTAVFLLSPRASHTTGEWLFVDGGYTHLDRALV 258
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190||     208       218       228       238       248       258
                                                                                                                                                                                                                        191|                                                          
                                                                                                                                                                                                                         200
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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, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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        A0A0H3KNE7_B | A0A0H3KNE7: 4gkb 4gvx

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