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(-) Description

Title :  THE CRYSTAL STRUCTURE OF A TRANSPORTER IN COMPLEX WITH 3-PHENYLPYRUVIC ACID
 
Authors :  K. Tan, J. C. Mack, S. Zerbs, F. Collart, A. Joachimiak, Midwest Center Structural Genomics (Mcsg)
Date :  15 Feb 12  (Deposition) - 29 Feb 12  (Release) - 25 Sep 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Structural Genomics, Psi-Biology, Protein Structure Initiative, Midwest Center For Structural Ge Nomics, Mcsg, Midwest Center For Structural Genomics, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Tan, C. Chang, M. Cuff, J. Osipiuk, E. Landorf, J. C. Mack, S. Zerbs, A. Joachimiak, F. R. Collart
Structural And Functional Characterization Of Solute Bindin Proteins For Aromatic Compounds Derived From Lignin: P-Coumaric Acid And Related Aromatic Acids.
Proteins V. 81 1709 2013
PubMed-ID: 23606130  |  Reference-DOI: 10.1002/PROT.24305

(-) Compounds

Molecule 1 - EXTRACELLULAR LIGAND-BINDING RECEPTOR
    Chains: A
    Engineered: YES
    Gene: RPB_4630
    Organism Scientific: RHODOPSEUDOMONAS PALUSTRIS
    Organism Taxid: 316058
    Strain: HAA2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 14)

Asymmetric/Biological Unit (5, 14)
No.NameCountTypeFull Name
13PY1Ligand/Ion3-HYDROXYPYRUVIC ACID
2GOL2Ligand/IonGLYCEROL
3MSE8Mod. Amino AcidSELENOMETHIONINE
4PG42Ligand/IonTETRAETHYLENE GLYCOL
5PPY1Ligand/Ion3-PHENYLPYRUVIC ACID

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:40 , SER A:94 , LEU A:95 , THR A:96 , PRO A:97 , MSE A:116 , ALA A:117 , ALA A:118 , VAL A:137 , TYR A:168 , ARG A:195 , ALA A:220 , HIS A:244 , GLY A:245 , HIS A:307BINDING SITE FOR RESIDUE PPY A 401
2AC2SOFTWAREALA A:38 , GLN A:42 , ARG A:129 , GLU A:250BINDING SITE FOR RESIDUE GOL A 402
3AC3SOFTWAREGLU A:191 , GLY A:202 , GLN A:203 , LYS A:206 , HOH A:652BINDING SITE FOR RESIDUE GOL A 403
4AC4SOFTWAREPRO A:52 , ARG A:287 , TRP A:309 , MSE A:312 , THR A:313 , GLU A:316 , HOH A:735BINDING SITE FOR RESIDUE 3PY A 404
5AC5SOFTWAREGLU A:249 , GLU A:250 , ALA A:300 , PRO A:301 , THR A:302 , HOH A:723BINDING SITE FOR RESIDUE PG4 A 405
6AC6SOFTWARESER A:165 , ASP A:166 , ALA A:167 , GLU A:170BINDING SITE FOR RESIDUE PG4 A 406

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Gly A:92 -Ser A:93
2Ala A:124 -Pro A:125

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4DQD)

(-) 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:361
 aligned with Q2IR47_RHOP2 | Q2IR47 from UniProtKB/TrEMBL  Length:383

    Alignment length:361
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382 
         Q2IR47_RHOP2    23 AEIKIGITMSASGPGAALGQPQSKTVAALPKEIGGEKVTYFALDDESDPTKAAQNARKLLSEEKVDVLIGSSLTPVSLPLIDIAAEAKTPLMTMAAAAILVAPMDERRKWVYKVVPNDDIMAEAIGKYIAKTGAKKVGYIGFSDAYGEGYYKVLAAAAPKLGFELTTHEVYARSDASVTGQVLKIIATKPDAVFIASAGTPAVLPQKALRERGFKGAIYQTHGVATEEFIKLGGKDVEGAIFAGEAFSGAEDMPADSPFRKVKARFVDAYKAANGGAAPTIFGVHLWDSMTLVENAIPAALKAAKPGTPEFRAAIRDQIEKSKDLALNNGLSNMTPDNHNGYDERSAFLIEIRDGAFRLKQ 383
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeee.....hhhhhhhhhhhhhhh..ee..eeeeeeeee...hhhhhhhhhhhhhhh....eee...hhhhhhhhhhhhhhh...eee...hhhhh.....hhh.eee...hhhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhhhhhhhhhh.ee...eee......hhhhhhhhhhh...eeeee..hhhhhhhhhhhhhh....eee.hhhhhhhhhhhhhhhhhh..eeeehhhhhhhhh...hhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh....eee..eee..........hhhhheeeeee..eeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4dqd A  23 AEIKIGITmSASGPGAALGQPQSKTVAALPKEIGGEKVTYFALDDESDPTKAAQNARKLLSEEKVDVLIGSSLTPVSLPLIDIAAEAKTPLmTmAAAAILVAPmDERRKWVYKVVPNDDImAEAIGKYIAKTGAKKVGYIGFSDAYGEGYYKVLAAAAPKLGFELTTHEVYARSDASVTGQVLKIIATKPDAVFIASAGTPAVLPQKALRERGFKGAIYQTHGVATEEFIKLGGKDVEGAIFAGEAFSGAEDmPADSPFRKVKARFVDAYKAANGGAAPTIFGVHLWDSmTLVENAIPAALKAAKPGTPEFRAAIRDQIEKSKDLALNNGLSNmTPDNHNGYDERSAFLIEIRDGAFRLKQ 383
                                    32        42        52        62        72        82        92       102       112 | |   122   |   132       142|      152       162       172       182       192       202       212       222       232       242       252       262       272  |    282       292       302       312       322       332       342       352   |   362       372       382 
                                   31-MSE                                                                            114-MSE     126-MSE          143-MSE                                                                                                                             275-MSE                              312-MSE                                     356-MSE                       
                                                                                                                       116-MSE
   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 4DQD)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4DQD)

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  Cis Peptide Bonds
    Ala A:124 - Pro A:125   [ RasMol ]  
    Gly A:92 - Ser A:93   [ RasMol ]  
 

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 Related Entries

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UniProtKB/TrEMBL
        Q2IR47_RHOP2 | Q2IR47: 3sg0

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