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(-) Description

Title :  HORSE LIVER ALCOHOL DEHYDROGENASE VAL292THR MUTANT COMPLEXED TO NAD+ AND PYRAZOLE
 
Authors :  J. K. Rubach, B. V. Plapp
Date :  21 Nov 02  (Deposition) - 04 Feb 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.13
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Dehydrogenase, Alcohol, Nicotinamide Coenzyme, Mutant, Pyrazole, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. K. Rubach, B. V. Plapp
Amino Acid Residues In The Nicotinamide Binding Site Contribute To Catalysis By Horse Liver Alcohol Dehydrogenase
Biochemistry V. 42 2907 2003
PubMed-ID: 12627956  |  Reference-DOI: 10.1021/BI0272656
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ALCOHOL DEHYDROGENASE E CHAIN
    ChainsA, B
    EC Number1.1.1.1
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPBPP
    Expression System StrainCJ236
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneADHE M64864
    MutationYES
    Organism CommonHORSE
    Organism ScientificEQUUS CABALLUS
    Organism Taxid9796

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 9)

Asymmetric/Biological Unit (4, 9)
No.NameCountTypeFull Name
1MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL
2NAJ2Ligand/IonNICOTINAMIDE-ADENINE-DINUCLEOTIDE (ACIDIC FORM)
3PZO2Ligand/IonPYRAZOLE
4ZN4Ligand/IonZINC ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:46 , HIS A:67 , CYS A:174 , NAJ A:377 , PZO A:378BINDING SITE FOR RESIDUE ZN A 375
2AC2SOFTWARECYS A:97 , CYS A:100 , CYS A:103 , CYS A:111BINDING SITE FOR RESIDUE ZN A 376
3AC3SOFTWARECYS B:46 , HIS B:67 , CYS B:174 , NAJ B:377 , PZO B:378BINDING SITE FOR RESIDUE ZN B 375
4AC4SOFTWARECYS B:97 , CYS B:100 , CYS B:103 , CYS B:111BINDING SITE FOR RESIDUE ZN B 376
5AC5SOFTWARECYS A:46 , ARG A:47 , SER A:48 , HIS A:51 , CYS A:174 , THR A:178 , GLY A:199 , GLY A:201 , GLY A:202 , VAL A:203 , ASP A:223 , ILE A:224 , VAL A:268 , ILE A:269 , ARG A:271 , THR A:292 , GLY A:293 , VAL A:294 , ALA A:317 , ILE A:318 , PHE A:319 , ARG A:369 , ZN A:375 , PZO A:378 , HOH A:807 , HOH A:831 , HOH A:840 , HOH A:861 , HOH A:947 , HOH A:1053 , HOH A:1054 , HOH A:1093 , HOH A:1145BINDING SITE FOR RESIDUE NAJ A 377
6AC6SOFTWARESER A:48 , HIS A:67 , CYS A:174 , ZN A:375 , NAJ A:377BINDING SITE FOR RESIDUE PZO A 378
7AC7SOFTWARECYS B:46 , ARG B:47 , SER B:48 , HIS B:51 , CYS B:174 , THR B:178 , GLY B:199 , GLY B:201 , GLY B:202 , VAL B:203 , ASP B:223 , ILE B:224 , LYS B:228 , VAL B:268 , ILE B:269 , ARG B:271 , THR B:292 , GLY B:293 , VAL B:294 , ALA B:317 , ILE B:318 , PHE B:319 , ARG B:369 , ZN B:375 , PZO B:378 , HOH B:381 , HOH B:423 , HOH B:429 , HOH B:499 , HOH B:575 , HOH B:583BINDING SITE FOR RESIDUE NAJ B 377
8AC8SOFTWARESER B:48 , HIS B:67 , PHE B:93 , CYS B:174 , ZN B:375 , NAJ B:377BINDING SITE FOR RESIDUE PZO B 378
9AC9SOFTWAREARG A:218 , GLU A:239 , GLU B:239BINDING SITE FOR RESIDUE MPD A 801

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1N8K)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Leu A:61 -Pro A:62
2Leu B:61 -Pro B:62

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1N8K)

(-) PROSITE Motifs  (1, 2)

Asymmetric/Biological Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADH_ZINCPS00059 Zinc-containing alcohol dehydrogenases signature.ADH1E_HORSE67-81
 
  2A:66-80
B:66-80

(-) Exons   (0, 0)

(no "Exon" information available for 1N8K)

(-) 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:374
 aligned with ADH1E_HORSE | P00327 from UniProtKB/Swiss-Prot  Length:375

    Alignment length:374
                                    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       341       351       361       371    
          ADH1E_HORSE     2 STAGKVIKCKAAVLWEEKKPFSIEEVEVAPPKAHEVRIKMVATGICRSDDHVVSGTLVTPLPVIAGHEAAGIVESIGEGVTTVRPGDKVIPLFTPQCGKCRVCKHPEGNFCLKNDLSMPRGTMQDGTSRFTCRGKPIHHFLGTSTFSQYTVVDEISVAKIDAASPLEKVCLIGCGFSTGYGSAVKVAKVTQGSTCAVFGLGGVGLSVIMGCKAAGAARIIGVDINKDKFAKAKEVGATECVNPQDYKKPIQEVLTEMSNGGVDFSFEVIGRLDTMVTALSCCQEAYGVSVIVGVPPDSQNLSMNPMLLLSGRTWKGAIFGGFKSKDSVPKLVADFMAKKFALDPLITHVLPFEKINEGFDLLRSGESIRTILTF 375
               SCOP domains d1n8ka1 A:1-163,A:340-374 Alcohol dehydrogenase                                                                                                                    d1n8ka2 A:164-339 Alcohol dehydrogenase                                                                                                                                         d1n8ka1 A:1-163,A:340-374           SCOP domains
               CATH domains 1n8kA01 A:1-178,A:318-374 Medium-chain alcohol dehydrogenases, catalytic domain                                                                                                   1n8kA02 A:179-317 NAD(P)-binding Rossmann-like Domain                                                                                      1n8kA01 A:1-178,A:318-374                                 CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeeeeee.......eeeeeee......eeeeeeeeee.hhhhhhhhh........ee....eeeeeeee...........eeee........hhhhhh........................eee..eee...........eeeee...eee.....hhhhhhhhhhhhhhhhhhhhh........eeeee..hhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhh..eeehhhhh..hhhhhhhhhh.....eeee...hhhhhhhhhhhh.....eeee.........eee.hhhhhh..eeee.hhhhhhhhhhhhhhhhhhhh....hhh.eeeeee..hhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------ADH_ZINC       ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1n8k A   1 STAGKVIKCKAAVLWEEKKPFSIEEVEVAPPKAHEVRIKMVATGICRSDDHVVSGTLVTPLPVIAGHEAAGIVESIGEGVTTVRPGDKVIPLFTPQCGKCRVCKHPEGNFCLKNDLSMPRGTMQDGTSRFTCRGKPIHHFLGTSTFSQYTVVDEISVAKIDAASPLEKVCLIGCGFSTGYGSAVKVAKVTQGSTCAVFGLGGVGLSVIMGCKAAGAARIIGVDINKDKFAKAKEVGATECVNPQDYKKPIQEVLTEMSNGGVDFSFEVIGRLDTMVTALSCCQEAYGVSVITGVPPDSQNLSMNPMLLLSGRTWKGAIFGGFKSKDSVPKLVADFMAKKFALDPLITHVLPFEKINEGFDLLRSGESIRTILTF 374
                                    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    

Chain B from PDB  Type:PROTEIN  Length:374
 aligned with ADH1E_HORSE | P00327 from UniProtKB/Swiss-Prot  Length:375

    Alignment length:374
                                    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       341       351       361       371    
          ADH1E_HORSE     2 STAGKVIKCKAAVLWEEKKPFSIEEVEVAPPKAHEVRIKMVATGICRSDDHVVSGTLVTPLPVIAGHEAAGIVESIGEGVTTVRPGDKVIPLFTPQCGKCRVCKHPEGNFCLKNDLSMPRGTMQDGTSRFTCRGKPIHHFLGTSTFSQYTVVDEISVAKIDAASPLEKVCLIGCGFSTGYGSAVKVAKVTQGSTCAVFGLGGVGLSVIMGCKAAGAARIIGVDINKDKFAKAKEVGATECVNPQDYKKPIQEVLTEMSNGGVDFSFEVIGRLDTMVTALSCCQEAYGVSVIVGVPPDSQNLSMNPMLLLSGRTWKGAIFGGFKSKDSVPKLVADFMAKKFALDPLITHVLPFEKINEGFDLLRSGESIRTILTF 375
               SCOP domains d1n8kb1 B:1-163,B:340-374 Alcohol dehydrogenase                                                                                                                    d1n8kb2 B:164-339 Alcohol dehydrogenase                                                                                                                                         d1n8kb1 B:1-163,B:340-374           SCOP domains
               CATH domains 1n8kB01 B:1-178,B:318-374 Medium-chain alcohol dehydrogenases, catalytic domain                                                                                                   1n8kB02 B:179-317 NAD(P)-binding Rossmann-like Domain                                                                                      1n8kB01 B:1-178,B:318-374                                 CATH domains
           Pfam domains (1) --------------------------------ADH_N-1n8kB01 B:33-160                                                                                                          -----------------------------------------ADH_zinc_N-1n8kB03 B:202-337                                                                                                            ------------------------------------- Pfam domains (1)
           Pfam domains (2) --------------------------------ADH_N-1n8kB02 B:33-160                                                                                                          -----------------------------------------ADH_zinc_N-1n8kB04 B:202-337                                                                                                            ------------------------------------- Pfam domains (2)
         Sec.struct. author ......eeeeeee........eeeeeee......eeeeeeeeee.hhhhhhhhh.............eeeeeeeee...........eeee........hhhhhh........................eee..eee...........eeeee...eee.....hhhhhhhhhhhhhhhhhhhhh........eeeee..hhhhhhhhhhhhhh...eeeee..hhhhhhhhhhhh..eeehhhhh..hhhhhhhhhh.....eeee...hhhhhhhhhhhh.....eeee.........eee.hhhhhh..eeee.hhhhhhhhhhhhhhhhhhhh....hhh.eeeeee..hhhhhhhhhhh....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------ADH_ZINC       ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1n8k B   1 STAGKVIKCKAAVLWEEKKPFSIEEVEVAPPKAHEVRIKMVATGICRSDDHVVSGTLVTPLPVIAGHEAAGIVESIGEGVTTVRPGDKVIPLFTPQCGKCRVCKHPEGNFCLKNDLSMPRGTMQDGTSRFTCRGKPIHHFLGTSTFSQYTVVDEISVAKIDAASPLEKVCLIGCGFSTGYGSAVKVAKVTQGSTCAVFGLGGVGLSVIMGCKAAGAARIIGVDINKDKFAKAKEVGATECVNPQDYKKPIQEVLTEMSNGGVDFSFEVIGRLDTMVTALSCCQEAYGVSVITGVPPDSQNLSMNPMLLLSGRTWKGAIFGGFKSKDSVPKLVADFMAKKFALDPLITHVLPFEKINEGFDLLRSGESIRTILTF 374
                                    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    

   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  (2, 4)

Asymmetric/Biological Unit

(-) CATH Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit
(-)
Clan: GroES (70)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (ADH1E_HORSE | P00327)
molecular function
    GO:0004022    alcohol dehydrogenase (NAD) activity    Catalysis of the reaction: an alcohol + NAD+ = an aldehyde or ketone + NADH + H+.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ADH1E_HORSE | P003271a71 1a72 1adb 1adc 1adf 1adg 1axe 1axg 1bto 1het 1heu 1hf3 1hld 1ju9 1lde 1ldy 1mg0 1mgo 1n92 1p1r 1qlh 1qlj 1qv6 1qv7 1ye3 2jhf 2jhg 2ohx 2oxi 3bto 3oq6 4dwv 4dxh 4nfh 4nfs 4ng5 4xd2 5adh 5cdg 5cds 5cdt 5cdu 5kcp 5kcz 5kj1 5kj6 5kjc 5kje 5kjf 5vj5 5vjg 5vkr 5vl0 5vn1 6adh 7adh 8adh

(-) Related Entries Specified in the PDB File

1deh CRYSTALLIZATION OF HUMAN 1 ALCOHOL DEHYDROGENASE (15 MG/ML) IN 50 MM SODIUM PHOSPHATE (PH 7.5), 2.0 MM NAD+ AND 1 MM 4- IODOPYRAZOLE AT 25 OC, 13% (W/V) PEG 8000
1hld STRUCTURES OF HORSE LIVER ALCOHOL DEHYDROGENASE COMPLEXED WITH NAD+ AND SUBSTITUTED BENZYL ALCOHOLS
1htb CRYSTALLIZATION OF HUMAN 3 ALCOHOL DEHYDROGENASE (10 MG/ML) IN 100 MM SODIUM PHOSPHATE (PH 7.5), 7.5 MM NAD+ AND 1 MM 4-IODOPYRAZOLE AT 25 C
1ju9 HORSE LIVER ALCOHOL DEHYDROGENASE VAL292SER MUTANT