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(-) Description

Title :  CRYSTAL STRUCTURE OF MYO-INOSITOL DEHYDROGENASE FROM LACTOBACILLUS CASEI WITH BOUND COFACTOR NAD
 
Authors :  D. Bertwistle, D. A. R. Sanders, D. R. J. Palmer
Date :  01 Sep 13  (Deposition) - 04 Mar 15  (Release) - 04 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Nad, Sugar Alcohol Dehydrogenases, Rossmann Fold, Dehydrogenase, Nad Binding, Myo-Inositol Binding, Dehydrogenate, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. Bertwistle, H. Aamudalapalli, D. A. R. Sanders, D. R. J. Palmer
Crystal Structure Of Myo-Inositol Dehydrogenase From Lactobacillus Casei With Bound Cofactor Nad
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - INOSITOL 2-DEHYDROGENASE/D-CHIRO-INOSITOL 3-DEHYDROGENASE
    Chains: A, B, C, D
    EC Number: 1.1.1.18
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE-80L
    Expression System Strain: XL1-BLUE
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: IDH, IOLG, IOLG1, LCABL_02210
    Organism Scientific: LACTOBACILLUS CASEI
    Organism Taxid: 543734
    Strain: BL23
    Synonym: MYO-INOSITOL 2-DEHYDROGENASE/D-CHIRO-INOSITOL 3- DEHYDROGENASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 15)

Asymmetric/Biological Unit (3, 15)
No.NameCountTypeFull Name
1GOL5Ligand/IonGLYCEROL
2NAD4Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE
3SO46Ligand/IonSULFATE ION

(-) Sites  (15, 15)

Asymmetric Unit (15, 15)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:11 , ALA A:12 , MET A:13 , ASP A:35 , ILE A:36 , VAL A:73 , SER A:74 , PHE A:75 , ALA A:78 , HIS A:79 , GLU A:96 , LYS A:97 , GLY A:124 , HIS A:176 , TYR A:282 , HOH A:542 , HOH A:688BINDING SITE FOR RESIDUE NAD A 401
02AC2SOFTWAREGLN A:266 , GLN B:266 , THR B:268BINDING SITE FOR RESIDUE GOL A 402
03AC3SOFTWAREARG A:152 , ALA A:153 , SER A:154 , GLU A:241 , HOH A:553 , ARG C:152 , GLU C:241BINDING SITE FOR RESIDUE GOL A 403
04AC4SOFTWARETHR A:26 , GLY A:27 , HOH A:666 , HOH A:682 , THR D:26 , GLY D:27BINDING SITE FOR RESIDUE SO4 A 404
05AC5SOFTWAREARG B:198 , HOH B:767 , PRO D:148 , LYS D:220 , HOH D:643 , HOH D:767BINDING SITE FOR RESIDUE SO4 A 405
06AC6SOFTWAREARG A:198 , HOH A:532 , HOH A:620 , HOH A:701 , ALA C:147 , PRO C:148 , LYS C:220BINDING SITE FOR RESIDUE SO4 A 406
07AC7SOFTWAREGLY B:9 , GLY B:11 , ALA B:12 , MET B:13 , ASP B:35 , ILE B:36 , VAL B:73 , SER B:74 , PHE B:75 , ALA B:78 , HIS B:79 , GLU B:96 , LYS B:97 , GLY B:124 , MET B:126 , TYR B:282 , HOH B:527 , HOH B:607 , HOH B:614 , HOH B:616 , HOH B:625 , HOH B:638 , HOH B:645 , HOH B:716BINDING SITE FOR RESIDUE NAD B 401
08AC8SOFTWAREHOH A:515 , LEU B:140 , ASP B:141 , GLY B:143 , GLY B:146 , PRO B:148 , HOH B:611 , HOH B:766BINDING SITE FOR RESIDUE GOL B 402
09AC9SOFTWAREHOH B:738 , HOH B:741 , GLY C:11 , ALA C:12 , MET C:13 , ASP C:35 , ILE C:36 , VAL C:73 , SER C:74 , PHE C:75 , ALA C:78 , HIS C:79 , GLU C:96 , LYS C:97 , GLY C:124 , HIS C:176 , TYR C:282 , HOH C:585 , HOH C:601 , HOH C:627 , HOH C:643 , HOH C:654 , HOH C:731 , HOH C:753 , HOH C:765 , HOH C:767BINDING SITE FOR RESIDUE NAD C 401
10BC1SOFTWAREARG A:152 , GLU A:241 , ARG C:152 , ALA C:153 , SER C:154 , GLU C:241 , HOH C:619BINDING SITE FOR RESIDUE GOL C 402
11BC2SOFTWAREPRO A:148 , LYS A:220 , ARG C:198 , HOH C:573BINDING SITE FOR RESIDUE SO4 C 403
12BC3SOFTWARELEU B:25 , THR B:26 , GLY B:27 , THR C:26 , GLY C:27 , HOH C:760BINDING SITE FOR RESIDUE SO4 C 404
13BC4SOFTWAREHOH C:606 , GLY D:11 , ALA D:12 , MET D:13 , ASP D:35 , ILE D:36 , VAL D:73 , SER D:74 , ALA D:78 , HIS D:79 , GLU D:96 , LYS D:97 , MET D:126 , ASP D:172 , HIS D:176 , TRP D:274 , TYR D:282 , HOH D:501 , HOH D:536 , HOH D:587 , HOH D:595 , HOH D:597 , HOH D:664 , HOH D:666 , HOH D:682 , HOH D:761 , HOH D:762 , HOH D:770 , HOH D:783BINDING SITE FOR RESIDUE NAD D 401
14BC5SOFTWARETYR D:129 , ARG D:134 , GLU D:288 , SO4 D:403 , HOH D:755BINDING SITE FOR RESIDUE GOL D 402
15BC6SOFTWAREARG D:134 , TRP D:183 , GOL D:402BINDING SITE FOR RESIDUE SO4 D 403

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Lys A:97 -Pro A:98
2Asp A:210 -Pro A:211
3Lys B:97 -Pro B:98
4Asp B:210 -Pro B:211
5Lys C:97 -Pro C:98
6Asp C:210 -Pro C:211
7Lys D:97 -Pro D:98
8Asp D:210 -Pro D:211

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MIN)

(-) 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:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhhh...ee..hhhhhhh.....eeee..hhhhhhhhhhhhh....eeee......hhhhhhhhhhhhh......eee.hhhhhhhhhhhhhhhhhh.....eeeeeeeee..........hhhhhh.hhhhhhhhhhhhh..eeeeeee................eeeeeee....eeeeeee.......eeeeeeee...eee........eeee..eeeee...hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh..ee......hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4min A   1 MVVKVGVIGTGAMGRAHIDRLTNVLTGAEVVAVTDIDHEAAEAAVRDFHLNAKVYPDDTSLLQDPDIDAVFVVSFGGAHEATVLKALDTDKFIFTEKPLATTLEGAKRIVDKELTKSKKVIQVGFMRRYDQGIRALKEKLDTGIIGAPLVVRASHINPNVASNYSNEMAITDTLIHEIDEMHWLLDDEYTSIQITYPRQSAEVRNEGLHDPQLATLTTKKGTVIQVLVHVTAQYGYEVKLEVIGETGELQLPNYGLGPILRSNANQQTAVEMSWINRFIQAYNTEVQEFIDEVAKSEPPVGPSAWDGYIAAITAAAANRSQKDQETVLINVAGTPTFYQ 339
                                    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         


Chain B from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhh....ee..hhhhhhh.....eeee..hhhhhhhhhhhhh....eeee......hhhhhhhhhhhhh......eee.hhhhhhhhhhhhhhhhhh.....eeeeeeeee..........hhhhhh.hhhhhhhhhhhhh..eeeeeee................eeeeeee....eeeeeee.......eeeeeeee...eee........eeee..eeeee...hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhh.....ee......hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4min B   1 MVVKVGVIGTGAMGRAHIDRLTNVLTGAEVVAVTDIDHEAAEAAVRDFHLNAKVYPDDTSLLQDPDIDAVFVVSFGGAHEATVLKALDTDKFIFTEKPLATTLEGAKRIVDKELTKSKKVIQVGFMRRYDQGIRALKEKLDTGIIGAPLVVRASHINPNVASNYSNEMAITDTLIHEIDEMHWLLDDEYTSIQITYPRQSAEVRNEGLHDPQLATLTTKKGTVIQVLVHVTAQYGYEVKLEVIGETGELQLPNYGLGPILRSNANQQTAVEMSWINRFIQAYNTEVQEFIDEVAKSEPPVGPSAWDGYIAAITAAAANRSQKDQETVLINVAGTPTFYQ 339
                                    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         


Chain C from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhh....ee..hhhhhhh.....eeee..hhhhhhhhhhhhh....eeee......hhhhhhhhhhhhhh.....eee.hhhhhhhhhhhhhhhhh......eeeeeeeee..........hhhhhh.hhhhhhhhhhhhh..eeeeeee................eeeeeee....eeeeeee.......eeeeeeee...eee........eeee..eeeee...hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh..ee......hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4min C   1 MVVKVGVIGTGAMGRAHIDRLTNVLTGAEVVAVTDIDHEAAEAAVRDFHLNAKVYPDDTSLLQDPDIDAVFVVSFGGAHEATVLKALDTDKFIFTEKPLATTLEGAKRIVDKELTKSKKVIQVGFMRRYDQGIRALKEKLDTGIIGAPLVVRASHINPNVASNYSNEMAITDTLIHEIDEMHWLLDDEYTSIQITYPRQSAEVRNEGLHDPQLATLTTKKGTVIQVLVHVTAQYGYEVKLEVIGETGELQLPNYGLGPILRSNANQQTAVEMSWINRFIQAYNTEVQEFIDEVAKSEPPVGPSAWDGYIAAITAAAANRSQKDQETVLINVAGTPTFYQ 339
                                    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         


Chain D from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee..hhhhhhhhhhhhhh...eeeeeee..hhhhhhhhhhhh....ee..hhhhhhh.....eeee..hhhhhhhhhhhhh....eeee......hhhhhhhhhhhhh......eee.hhhhhhhhhhhhhhhhhh.....eeeeeeeee..........hhhhhh.hhhhhhhhhhhhh..eeeeeee................eeeeeee....eeeeeee.......eeeeeeee...eee........eeee..eeeee...hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhh..ee......hhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4min D   1 MVVKVGVIGTGAMGRAHIDRLTNVLTGAEVVAVTDIDHEAAEAAVRDFHLNAKVYPDDTSLLQDPDIDAVFVVSFGGAHEATVLKALDTDKFIFTEKPLATTLEGAKRIVDKELTKSKKVIQVGFMRRYDQGIRALKEKLDTGIIGAPLVVRASHINPNVASNYSNEMAITDTLIHEIDEMHWLLDDEYTSIQITYPRQSAEVRNEGLHDPQLATLTTKKGTVIQVLVHVTAQYGYEVKLEVIGETGELQLPNYGLGPILRSNANQQTAVEMSWINRFIQAYNTEVQEFIDEVAKSEPPVGPSAWDGYIAAITAAAANRSQKDQETVLINVAGTPTFYQ 339
                                    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
   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  (0, 0)

(no "SCOP Domain" information available for 4MIN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

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 Related Entries

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

UniProtKB/TrEMBL
        A0A0J9X1Y2_L | A0A0J9X1Y2: 4mie 4mio 4miy 4mjl

(-) Related Entries Specified in the PDB File

3cea 3mz0 3nt4 3ntq 4mie 4mio 4miy 4mjl 4mkx 4mkz