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(-) Description

Title :  THE CBS DOMAIN PAIR STRUCTURE OF A MAGNESIUM AND COBALT EFFLUX PROTEIN FROM BORDETELLA PARAPERTUSSIS IN COMPLEX WITH AMP
 
Authors :  M. E. Cuff, C. Tesar, G. Cobb, A. Joachimiak, Midwest Center For Stru Genomics (Mcsg)
Date :  11 Sep 09  (Deposition) - 22 Dec 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Cbs Domain, Corc, Amp, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Cuff, C. Tesar, G. Cobb, A. Joachimiak
The Cbs Domain Pair Structure Of A Magnesium And Cobalt Efflux Protein From Bordetella Parapertussis In Complex Wit Amp
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - MAGNESIUM AND COBALT EFFLUX PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: MODIFIED BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: SEQUENCE DATABASE RESIDUES 75-200
    Gene: BPP1138, CORC
    Organism Scientific: BORDETELLA PARAPERTUSSIS
    Organism Taxid: 519
    Strain: 12822

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 14)

Asymmetric/Biological Unit (3, 14)
No.NameCountTypeFull Name
1AMP2Ligand/IonADENOSINE MONOPHOSPHATE
2MSE8Mod. Amino AcidSELENOMETHIONINE
3SO44Ligand/IonSULFATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:83 , ARG A:87 , MSE A:88 , ASP A:89 , ALA A:108 , HIS A:109 , SER A:110 , ARG A:111 , PRO A:113 , THR A:187 , GLU A:189 , ASP A:190 , HOH A:213 , HOH A:216 , HOH A:224 , HOH A:233BINDING SITE FOR RESIDUE AMP A 1
2AC2SOFTWAREHOH B:14 , HOH B:57 , ARG B:87 , ASP B:89 , ALA B:108 , HIS B:109 , SER B:110 , ARG B:111 , LEU B:185 , THR B:187 , GLU B:189 , ASP B:190 , HOH B:210 , HOH B:221BINDING SITE FOR RESIDUE AMP B 1
3AC3SOFTWAREGLU A:75 , ARG A:157 , ASN A:159 , VAL A:160 , ARG A:163BINDING SITE FOR RESIDUE SO4 A 2
4AC4SOFTWAREHOH A:27 , SER A:168 , ARG A:169 , ASN A:170 , HOH B:26 , TYR B:134 , PRO B:138BINDING SITE FOR RESIDUE SO4 A 3
5AC5SOFTWAREARG B:85 , ARG B:166 , HOH B:236BINDING SITE FOR RESIDUE SO4 B 4
6AC6SOFTWAREHOH A:202 , ARG B:111 , HIS B:171 , THR B:187 , MSE B:188 , GLU B:189 , HOH B:250BINDING SITE FOR RESIDUE SO4 B 5

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3JTF)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3JTF)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3JTF)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3JTF)

(-) Exons   (0, 0)

(no "Exon" information available for 3JTF)

(-) 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:124
 aligned with Q7WB69_BORPA | Q7WB69 from UniProtKB/TrEMBL  Length:300

    Alignment length:125
                                    84        94       104       114       124       134       144       154       164       174       184       194     
         Q7WB69_BORPA    75 ERTVADIMVPRSRMDLLDISQPLPQLLATIIETAHSRFPVYEDDRDNIIGILLAKDLLRYMLEPALDIRSLVRPAVFIPEVKRLNVLLREFRASRNHLAIVIDEHGGISGLVTMEDVLEQIVGDI 199
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhee.hhh..ee...hhhhhhhhhhhh...eeeee......eeeeee.hhhhhhhh....hhhhhh....eee...hhhhhhhhhhh....eeeee..-..eeeeeehhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 3jtf A  75 ERTVADImVPRSRmDLLDISQPLPQLLATIIETAHSRFPVYEDDRDNIIGILLAKDLLRYmLEPALDIRSLVRPAVFIPEVKRLNVLLREFRASRNHLAIVIDE-GGISGLVTmEDVLEQIVGDI 199
                                   |84   |    94       104       114       124       134|      144       154       164       174   | | 184   |   194     
                                  82-MSE |                                            135-MSE                                    178 |     188-MSE       
                                        88-MSE                                                                                     180                   


Chain B from PDB  Type:PROTEIN  Length:125
 aligned with Q7WB69_BORPA | Q7WB69 from UniProtKB/TrEMBL  Length:300

    Alignment length:125
                                    84        94       104       114       124       134       144       154       164       174       184       194     
         Q7WB69_BORPA    75 ERTVADIMVPRSRMDLLDISQPLPQLLATIIETAHSRFPVYEDDRDNIIGILLAKDLLRYMLEPALDIRSLVRPAVFIPEVKRLNVLLREFRASRNHLAIVIDEHGGISGLVTMEDVLEQIVGDI 199
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------------------------------------------------CBS-3jtfB01 B:142-197                                   -- Pfam domains (1)
           Pfam domains (2) -------------------------------------------------------------------CBS-3jtfB02 B:142-197                                   -- Pfam domains (2)
           Pfam domains (3) -------------------------------------------------------------------CBS-3jtfB03 B:142-197                                   -- Pfam domains (3)
           Pfam domains (4) -------------------------------------------------------------------CBS-3jtfB04 B:142-197                                   -- Pfam domains (4)
         Sec.struct. author ..hhhhhhee.hhh..ee...hhhhhhhhhhhh...eeeee......eeeeee.hhhhhhhh....hhhhhh....eee...hhhhhhhhhhhh...eeeee.....eeeeeehhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 3jtf B  75 ERTVADImVPRSRmDLLDISQPLPQLLATIIETAHSRFPVYEDDRDNIIGILLAKDLLRYmLEPALDIRSLVRPAVFIPEVKRLNVLLREFRASRNHLAIVIDEHGGISGLVTmEDVLEQIVGDI 199
                                   |84   |    94       104       114       124       134|      144       154       164       174       184   |   194     
                                  82-MSE |                                            135-MSE                                              188-MSE       
                                        88-MSE
   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 3JTF)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3JTF)

(-) Pfam Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: CBS] (51)
(-)
Family: CBS (51)
(-)
Bordetella parapertussis (2)
1aCBS-3jtfB01B:142-197
1bCBS-3jtfB02B:142-197
1cCBS-3jtfB03B:142-197
1dCBS-3jtfB04B:142-197

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q7WB69_BORPA | Q7WB69)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    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.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016614    oxidoreductase activity, acting on CH-OH group of donors    Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group act as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
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.

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