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(-) Description

Title :  CRYSTAL STRUCTURE OF MODULATOR OF DRUG ACTIVITY B IN COMPLEX WITH FLAVIN ADENINE DINUCLEOTIDE
 
Authors :  M. A. Adams, Z. Jia
Date :  20 Sep 05  (Deposition) - 29 Aug 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Modulator Of Drug Activity B, Nad(P)H:Oxidoreductase; Dt- Diaphorase; Menadione Reductase; Quinone (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Adams, Z. Jia
Modulator Of Drug Activity B From Escherichia Coli: Crystal Structure Of A Prokaryotic Homologue Of Dt-Diaphorase.
J. Mol. Biol. V. 359 455 2006
PubMed-ID: 16630630  |  Reference-DOI: 10.1016/J.JMB.2006.03.053
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MODULATOR OF DRUG ACTIVITY B
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:24 , ALA A:25 , HIS A:26 , SER A:27 , ASN A:28 , GLY A:29 , GLN A:30 , LEU A:31 , ASN A:32 , THR A:34 , PRO A:79 , GLY A:80 , TRP A:81 , TRP A:82 , MET A:83 , THR A:135 , TRP A:136 , ASN A:137 , ALA A:138 , VAL A:182 , HOH A:1215 , HOH A:1250 , HOH A:1263 , HOH A:1334 , HOH A:1398 , THR B:98 , TYR B:119BINDING SITE FOR RESIDUE FAD A 1205
2AC2SOFTWARETHR A:98 , TYR A:119 , ARG A:190 , PHE B:24 , HIS B:26 , SER B:27 , ASN B:28 , GLY B:29 , GLN B:30 , LEU B:31 , ASN B:32 , THR B:34 , PRO B:79 , GLY B:80 , TRP B:81 , TRP B:82 , MET B:83 , THR B:135 , TRP B:136 , ASN B:137 , ALA B:138 , VAL B:182 , HOH B:1220 , HOH B:1224 , HOH B:1245 , HOH B:1260 , HOH B:1315 , HOH B:1347 , HOH B:1393BINDING SITE FOR RESIDUE FAD B 1206

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2B3D)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Val A:188 -Pro A:189
2Val B:188 -Pro B:189

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2B3D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2B3D)

(-) Exons   (0, 0)

(no "Exon" information available for 2B3D)

(-) 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:193
 aligned with MDAB_ECOLI | P0AEY5 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
           MDAB_ECOLI     1 MSNILIINGAKKFAHSNGQLNDTLTEVADGTLRDLGHDVRIVRADSDYDVKAEVQNFLWADVVIWQMPGWWMGAPWTVKKYIDDVFTEGHGTLYASDGRTRKDPSKKYGSGGLVQGKKYMLSLTWNAPMEAFTEKDQFFHGVGVDGVYLPFHKANQFLGMEPLPTFIANDVIKMPDVPRYTEEYRKHLVEIFG 193
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.........hhhhhhhhhhhhhhhhhh..eeeeee.....hhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhhhhh............................eeeeeee....hhhhhh........hhhhhhhhhhhhhhhh..ee...eee..........hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b3d A  12 SSNILIINGAKKFAHSNGQLNDTLTEVADGTLRDLGHDVRIVRADSDYDVKAEVQNFLWADVVIWQMPGWWMGAPWTVKKYIDDVFTEGHGTLYASDGRTRKDPSKKYGSGGLVQGKKYMLSLTWNAPMEAFTEKDQFFHGVGVDGVYLPFHKANQFLGMEPLPTFIANDVIKMPDVPRYTEEYRKHLVEIFG 204
                                    21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201   


Chain B from PDB  Type:PROTEIN  Length:191
 aligned with MDAB_ECOLI | P0AEY5 from UniProtKB/Swiss-Prot  Length:193

    Alignment length:193
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190   
           MDAB_ECOLI     1 MSNILIINGAKKFAHSNGQLNDTLTEVADGTLRDLGHDVRIVRADSDYDVKAEVQNFLWADVVIWQMPGWWMGAPWTVKKYIDDVFTEGHGTLYASDGRTRKDPSKKYGSGGLVQGKKYMLSLTWNAPMEAFTEKDQFFHGVGVDGVYLPFHKANQFLGMEPLPTFIANDVIKMPDVPRYTEEYRKHLVEIFG 193
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.........hhhhhhhhhhhhhhhhhh..eeeeee.....hhhhhhhhhhhh.eeeeeee......hhhhhhhhhhhhhhh...........--...............eeeeeee....hhhhhh........hhhhhhhhhhhhhhh...ee...eee..........hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b3d B  12 SSNILIINGAKKFAHSNGQLNDTLTEVADGTLRDLGHDVRIVRADSDYDVKAEVQNFLWADVVIWQMPGWWMGAPWTVKKYIDDVFTEGHGTLYASDGRT--DPSKKYGSGGLVQGKKYMLSLTWNAPMEAFTEKDQFFHGVGVDGVYLPFHKANQFLGMEPLPTFIANDVIKMPDVPRYTEEYRKHLVEIFG 204
                                    21        31        41        51        61        71        81        91       101       111  |    121       131       141       151       161       171       181       191       201   
                                                                                                                             111  |                                                                                          
                                                                                                                                114
   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 2B3D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2B3D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2B3D)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (MDAB_ECOLI | P0AEY5)
molecular function
    GO:0008753    NADPH dehydrogenase (quinone) activity    Catalysis of the reaction: NADPH + H+ + a quinone = NADP+ + a quinol.
    GO:0050660    flavin adenine dinucleotide binding    Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
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:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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2amj CRYSTAL STRUCTURE OF MODULATOR OF DRUG ACTIVITY B