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(-) Description

Title :  CRYSTAL STRUCTURE OF PERIPLASMIC BINDING PROTEIN TYPE 1 FROM BORDETELLA PERTUSSIS TOHAMA I
 
Authors :  Y. Kim, G. Joachimiak, S. Clancy, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  13 Sep 13  (Deposition) - 11 Dec 13  (Release) - 11 Dec 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Structural Genomics, Psi-Biology, Midwest Center For Structural Genomics, Mcsg, Sulute-Binding Protein, Alpha-Beta Structure, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Kim, G. Joachimiak, S. Clancy, A. Joachimiak
Crystal Structure Of Periplasmic Binding Protein Type 1 Fro Bordetella Pertussis Tohama I
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - PUTATIVE LEU/ILE/VAL-BINDING PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG68
    Expression System Strain: BL21 MAGIC
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: DELTA-N21
    Gene: BP0622
    Mutation: YES
    Organism Scientific: BORDETELLA PERTUSSIS TOHAMA I
    Organism Taxid: 257313
    Strain: TOHAMA I

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 28)

Asymmetric Unit (3, 28)
No.NameCountTypeFull Name
1ACY3Ligand/IonACETIC ACID
2MSE24Mod. Amino AcidSELENOMETHIONINE
3NA1Ligand/IonSODIUM ION
Biological Unit 1 (2, 13)
No.NameCountTypeFull Name
1ACY1Ligand/IonACETIC ACID
2MSE12Mod. Amino AcidSELENOMETHIONINE
3NA-1Ligand/IonSODIUM ION
Biological Unit 2 (2, 14)
No.NameCountTypeFull Name
1ACY2Ligand/IonACETIC ACID
2MSE12Mod. Amino AcidSELENOMETHIONINE
3NA-1Ligand/IonSODIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:81 , SER A:82 , ALA A:104 , GLN A:105 , TYR A:158BINDING SITE FOR RESIDUE ACY A 401
2AC2SOFTWARETHR A:282 , ASP A:283 , GLY A:287 , THR B:282 , ACY B:401BINDING SITE FOR RESIDUE NA A 402
3AC3SOFTWARETHR A:282 , ASP A:283 , ARG A:284 , NA A:402 , THR B:282 , ASP B:283 , ARG B:284 , GLY B:287 , ASN B:288BINDING SITE FOR RESIDUE ACY B 401
4AC4SOFTWAREGLY B:81 , SER B:82 , ALA B:104 , GLN B:105 , TYR B:158 , HOH B:517BINDING SITE FOR RESIDUE ACY B 402

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Asn A:263 -Pro A:264
2Asn B:263 -Pro B:264

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4MPT)

(-) 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:374
                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhhhhhhhhhhhh......eeeeeeeee...hhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhh..eee....hhhhh.............eee...hhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhhhhh......eeeee......hhhhhhhhhhh...eeeee.hhhhhhhhhhhhhhh.....eee.hhhhhhhhhhhhhhhhh.eeeeee.......hhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhh..ee....ee..........hhh.eeeeeeee....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mpt A   2 DTIKIGmTSALTGPYNEFGEGNRRAVELAVEQWNAKGGINGKKIEIAmLLDDQLNPDRAVQNIRAILDNKDIVGIIGPAGSGPmLAVIDmVQADGRPYmNPIAQTPVVTYPGEKTGEKPRPNVFSFALQNDIEAVAmGEYLAKKFKRVGIIHESTAYGVTGVDYLAASIAKNGGAKPVATDSYNQGAQDmTAQVARmKRANVDAIAAIGLGKDLAVLRRTmARLNVNVPLAASNGALGQPYQEGAGELTLGTLGTmIGAFGNPmRAPAADFAKAYKAKYGTDRWWGNDPENPQLFmAISVSNGYDAANILFEGIRLANSTDPKAVIAAIESIKDYQGVNTAYTFSKERHHGIETDGVKVFEYVKKGDKIRLEPI 375
                                  | 11        21        31        41       |51        61        71        81   |    91       101       111       121       131      |141       151       161       171       181       191      |201       211       221|      231       241       251     | 261   |   271       281       291     | 301       311       321       331       341       351       361       371    
                                  8-MSE                                   49-MSE                              85-MSE |      100-MSE                               138-MSE                                              191-MSE  |                     222-MSE                            257-MSE 265-MSE                         297-MSE                                                                          
                                                                                                                    91-MSE                                                                                                    198-MSE                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:374
                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee.....hhhhhhhhhhhhhhhhhhhhh.......eeeeeeeee...hhhhhhhhhhhhhh......ee...hhhhhhhhhhhhhhhh..eee....hhhhh.............eee...hhhhhhhhhhhhhhhhh..eeeeee.hhhhhhhhhhhhhhhhhh......eeeee......hhhhhhhhhh....eeeee.hhhhhhhhhhhhhhh.....eee.hhhhhhhhhhhhhhhhh..eeeee.......hhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhh....ee....ee..........hhh.eeeeeeee....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4mpt B   2 DTIKIGmTSALTGPYNEFGEGNRRAVELAVEQWNAKGGINGKKIEIAmLLDDQLNPDRAVQNIRAILDNKDIVGIIGPAGSGPmLAVIDmVQADGRPYmNPIAQTPVVTYPGEKTGEKPRPNVFSFALQNDIEAVAmGEYLAKKFKRVGIIHESTAYGVTGVDYLAASIAKNGGAKPVATDSYNQGAQDmTAQVARmKRANVDAIAAIGLGKDLAVLRRTmARLNVNVPLAASNGALGQPYQEGAGELTLGTLGTmIGAFGNPmRAPAADFAKAYKAKYGTDRWWGNDPENPQLFmAISVSNGYDAANILFEGIRLANSTDPKAVIAAIESIKDYQGVNTAYTFSKERHHGIETDGVKVFEYVKKGDKIRLEPI 375
                                  | 11        21        31        41       |51        61        71        81   |    91       101       111       121       131      |141       151       161       171       181       191      |201       211       221|      231       241       251     | 261   |   271       281       291     | 301       311       321       331       341       351       361       371    
                                  8-MSE                                   49-MSE                              85-MSE |      100-MSE                               138-MSE                                              191-MSE  |                     222-MSE                            257-MSE 265-MSE                         297-MSE                                                                          
                                                                                                                    91-MSE                                                                                                    198-MSE
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  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 4MPT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

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