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(-) Description

Title :  COMPLEX STRUCTURE OF PROTEUS MIRABLIS DSBA (C30S) WITH A NON-COVALENTLY BOUND PEPTIDE PWATCDS
 
Authors :  F. Kurth, L. Premkumar, J. L. Martin
Date :  10 Jan 14  (Deposition) - 28 May 14  (Release) - 30 Jul 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,D  (1x)
Biol. Unit 2:  B,F  (1x)
Biol. Unit 3:  C,E  (1x)
Keywords :  Oxidative Folding Protein, Virulence Factor Maturation Protein, Disulfide Oxidoreductase, Thioredoxin, Dsba, Dithiol Exchange, Dsbb, Periplasmic, Oxidoreductase-Peptide Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. Kurth, W. Duprez, L. Premkumar, M. A. Schembri, D. P. Fairlie, J. L. Martin
Crystal Structure Of The Dithiol Oxidase Dsba Enzyme From Proteus Mirabilis Bound Non-Covalently To An Active Site Peptide Ligand.
J. Biol. Chem. V. 289 19810 2014
PubMed-ID: 24831013  |  Reference-DOI: 10.1074/JBC.M114.552380

(-) Compounds

Molecule 1
    ChainsA, B, C
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)PLYSS
    Expression System Taxid562
    GeneDSBA, PMI2828
    MutationYES
    Organism ScientificPROTEUS MIRABILIS
    Organism Taxid529507
    StrainHI4320
 
Molecule 2 - (ACE)PWATCDS(NH2) PEPTIDE
    ChainsD, E, F
    EngineeredYES
    SyntheticYES

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit ABCDEF
Biological Unit 1 (1x)A  D  
Biological Unit 2 (1x) B   F
Biological Unit 3 (1x)  C E 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric Unit (3, 10)
No.NameCountTypeFull Name
1ACE3Mod. Amino AcidACETYL GROUP
2NH23Mod. Amino AcidAMINO GROUP
3SCN4Ligand/IonTHIOCYANATE ION
Biological Unit 1 (3, 4)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP
3SCN2Ligand/IonTHIOCYANATE ION
Biological Unit 2 (2, 2)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP
3SCN-1Ligand/IonTHIOCYANATE ION
Biological Unit 3 (3, 4)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP
3SCN2Ligand/IonTHIOCYANATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:36 , ARG A:58 , ALA A:151BINDING SITE FOR RESIDUE SCN A 201
2AC2SOFTWAREHIS A:32 , PHE A:36 , TYR A:40 , PRO D:66BINDING SITE FOR RESIDUE SCN A 202
3AC3SOFTWAREHIS C:32 , TYR C:40 , PRO E:66BINDING SITE FOR RESIDUE SCN C 201
4AC4SOFTWAREARG C:58 , ALA C:151 , MET C:152 , HOH C:303BINDING SITE FOR RESIDUE SCN C 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4OD7)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Val A:149 -Pro A:150
2Val B:149 -Pro B:150
3Val C:149 -Pro C:150

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4OD7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4OD7)

(-) Exons   (0, 0)

(no "Exon" information available for 4OD7)

(-) 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:187
                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee..........eeeee...hhhhhhhhh..hhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhh......eeee...eee........hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4od7 A   1 ADISEGKQYTNLSKPVAGAPQVVEFFSFYSPHCYQFSEVYKVNSTVEKNVPENTKMARYHVDFLGPLGKEMTRAWAVAIALGVEDQVSPALFKGIQETQSIRSVDDIRTTFINAGVKAEDYDAAINSFVVNSLVSQQQNAVTDFQINGVPAMVIDGKYKMKNDGISAKSPEEYAKAYSDVVNQLLMK 187
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       

Chain B from PDB  Type:PROTEIN  Length:187
                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee..........eeeee...hhhhhhhhh..hhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhh.hhhhhhhhhhhhhhhhhh......eeee...eee........hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4od7 B   1 ADISEGKQYTNLSKPVAGAPQVVEFFSFYSPHCYQFSEVYKVNSTVEKNVPENTKMARYHVDFLGPLGKEMTRAWAVAIALGVEDQVSPALFKGIQETQSIRSVDDIRTTFINAGVKAEDYDAAINSFVVNSLVSQQQNAVTDFQINGVPAMVIDGKYKMKNDGISAKSPEEYAKAYSDVVNQLLMK 187
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       

Chain C from PDB  Type:PROTEIN  Length:187
                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........eee..........eeeee...hhhhhhhhh..hhhhhhhhhh.....eeeee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeee...eee.hhhh...hhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4od7 C   1 ADISEGKQYTNLSKPVAGAPQVVEFFSFYSPHCYQFSEVYKVNSTVEKNVPENTKMARYHVDFLGPLGKEMTRAWAVAIALGVEDQVSPALFKGIQETQSIRSVDDIRTTFINAGVKAEDYDAAINSFVVNSLVSQQQNAVTDFQINGVPAMVIDGKYKMKNDGISAKSPEEYAKAYSDVVNQLLMK 187
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       

Chain D from PDB  Type:PROTEIN  Length:9
                                         
               SCOP domains --------- SCOP domains
               CATH domains --------- CATH domains
               Pfam domains --------- Pfam domains
         Sec.struct. author ......... Sec.struct. author
                 SAPs(SNPs) --------- SAPs(SNPs)
                    PROSITE --------- PROSITE
                 Transcript --------- Transcript
                 4od7 D  65 xPWATCDSx  73
                            |       |
                           65-ACE  73-NH2

Chain E from PDB  Type:PROTEIN  Length:9
                                         
               SCOP domains --------- SCOP domains
               CATH domains --------- CATH domains
               Pfam domains --------- Pfam domains
         Sec.struct. author ......... Sec.struct. author
                 SAPs(SNPs) --------- SAPs(SNPs)
                    PROSITE --------- PROSITE
                 Transcript --------- Transcript
                 4od7 E  65 xPWATCDSx  73
                            |       |
                            |      73-NH2
                           65-ACE    

Chain F from PDB  Type:PROTEIN  Length:9
                                         
               SCOP domains --------- SCOP domains
               CATH domains --------- CATH domains
               Pfam domains --------- Pfam domains
         Sec.struct. author ......... Sec.struct. author
                 SAPs(SNPs) --------- SAPs(SNPs)
                    PROSITE --------- PROSITE
                 Transcript --------- Transcript
                 4od7 F  65 xPWATCDSx  73
                            |       |
                            |      73-NH2
                           65-ACE    

   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  (0, 0)

(no "SCOP Domain" information available for 4OD7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4OD7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4OD7)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        B4EZ68_PROMH | B4EZ684oce 4ocf

(-) Related Entries Specified in the PDB File

4oce WILD TYPE PROTEUS MIRABLIS DSBA
4ocf PROTEUS MIRABLIS DSBA (CYS30SER)