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(-) Description

Title :  FIRST STRUCTURE OF A PROLINE UTILIZATION A PROLINE DEHYDROGENASE DOMAIN
 
Authors :  J. J. Tanner
Date :  26 Dec 13  (Deposition) - 15 Jan 14  (Release) - 15 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  A  (2x)
Keywords :  Flavoenzyme, Proline Dehydrogenase, Puta, Proline Utilization A, Aldehyde Dehydrogenase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. H. Lee, S. Nadaraia, D. Gu, D. F. Becker, J. J. Tanner
Structure Of The Proline Dehydrogenase Domain Of The Multifunctional Puta Flavoprotein.
Nat. Struct. Biol. V. 10 109 2003
PubMed-ID: 12514740  |  Reference-DOI: 10.1038/NSB885
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - BIFUNCTIONAL PROTEIN PUTA
    Chains: A
    EC Number: 1.5.99.8, 1.2.1.88
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET23B
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 1-669
    Gene: B1014, JW0999, POAA, PUTA
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83333
    Strain: K12
    Synonym: PROLINE DEHYDROGENASE, PROLINE OXIDASE, DELTA-1-PYRROLINE-5- CARBOXYLATE DEHYDROGENASE, P5C DEHYDROGENASE, L-GLUTAMATE GAMMA- SEMIALDEHYDE DEHYDROGENASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (1x): A
Biological Unit 2 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 4)

Asymmetric Unit (3, 4)
No.NameCountTypeFull Name
12OP1Ligand/Ion(2S)-2-HYDROXYPROPANOIC ACID
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3PG42Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
12OP1Ligand/Ion(2S)-2-HYDROXYPROPANOIC ACID
2FAD1Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3PG42Ligand/IonTETRAETHYLENE GLYCOL
Biological Unit 2 (3, 8)
No.NameCountTypeFull Name
12OP2Ligand/Ion(2S)-2-HYDROXYPROPANOIC ACID
2FAD2Ligand/IonFLAVIN-ADENINE DINUCLEOTIDE
3PG44Ligand/IonTETRAETHYLENE GLYCOL

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:370 , ALA A:371 , VAL A:402 , GLN A:404 , TYR A:406 , ARG A:431 , VAL A:433 , LYS A:434 , GLY A:435 , ALA A:436 , TYR A:437 , TRP A:438 , TYR A:456 , THR A:457 , ARG A:458 , LYS A:459 , THR A:462 , ALA A:485 , THR A:486 , HIS A:487 , ASN A:488 , CYS A:512 , LEU A:513 , TYR A:540 , ARG A:556 , GLU A:559 , SER A:565 , PHE A:566 , 2OP A:2002 , HOH A:2106 , HOH A:2113 , HOH A:2138 , HOH A:2141 , HOH A:2227BINDING SITE FOR RESIDUE FAD A 2001
2AC2SOFTWARELYS A:329 , ASP A:370 , ALA A:436 , TYR A:540 , TYR A:552 , ARG A:555 , ARG A:556 , FAD A:2001 , HOH A:2128BINDING SITE FOR RESIDUE 2OP A 2002
3AC3SOFTWARETHR A:422 , ARG A:425 , ARG A:426 , LEU A:474 , ASN A:478 , LEU A:498BINDING SITE FOR RESIDUE PG4 A 2003
4AC4SOFTWAREMET A:255 , ASN A:560BINDING SITE FOR RESIDUE PG4 A 2004

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4O8A)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4O8A)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4O8A)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4O8A)

(-) Exons   (0, 0)

(no "Exon" information available for 4O8A)

(-) 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:462
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains d4o8aa1 A:88-261 N-terminal domain of bifunctional PutA protein                                                  d4o8aa2 A:262-610 Proline dehydrohenase domain of bifunctional PutA protein                                                                                                                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhh...hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh..hhhhhhhh.hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh.eeeehhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eee...hhhhhhhhhhhhhhhhhhhhhh....eeeeee....hhhhhhhhhhhhhhhhh..eeeeee...hhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhh....eeeeee..hhhhhhhhhhhh.........eeeee...hhhhhh....hhhhh.....eeeeeee.hhhhhhhhhhhhhhhhhh..hhhhhh.....hhhhhh.hhhhhhhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4o8a A  88 QSVSRAAITAAYRRPETEAVSMLLEQARLPQPVAEQAHKLAYQLADKLRNQKNASGRAGMVQGLLSLSSQEGVALMCLAEALLRIPDKATRDALLIRKGVDMAMRLMGEQFVTGETIAEALANARKLEEKGFRYSYDMLGEAALTAADAQAYMVSYQQAIHAIGKASNGRGIYEGPGISIKLSALHPRYSRAQYDRVMEELYPRLKSLTLLARQYDIGINIDAEESDRLEISLDLLEKLCFEPELAGWNGIGFVIQAYQKRCPLVIDYLIDLATRSRRRLMIRLVKGAYWDSEIKRAQMDGLEGYPVYTRKVYTDVSYLACAKKLLAVPNLIYPQFATHNAHTLAAIYQLAGQNYYPGQYEFQCLHGMGEPLYEQVTGKVADGKLNRPCRIYAPVGTHETLLAYLVRRLLENGANTSFVNRIADTSLPLDELVADPVTAVEKLAQQEGQTGLPHPKIPLPRD 610
                                    97       107       117       127       137       147    || 160       170       180   ||  248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608  
                                                                                          152|                         184|                                                                                                                                                                                                                                                                                                                                                                               
                                                                                           156                          243
   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  (2, 2)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0 ; only for superseded entry 1K87: 3,3)

(no "CATH Domain" information available for 4O8A, only for superseded entry 1K87 replaced by 4O8A)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4O8A)

(-) Gene Ontology  (21, 21)

Asymmetric Unit(hide GO term definitions)

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  4o8a
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  PUTA_ECOLI | P09546
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 Related Entries

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

UniProtKB/Swiss-Prot
        PUTA_ECOLI | P09546: 1tiw 1tj0 1tj1 1tj2 2ay0 2fzm 2fzn 2gpe 2rbf 3e2q 3e2r 3e2s 3itg 4jny 4jnz

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