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(-) Description

Title :  CRYSTAL STRUCTURES OF THE B1 DOMAIN OF PROTEIN L FROM PEPTOSTREPTOCOCCUS MAGNUS, WITH A TYROSINE TO TRYPTOPHAN SUBSTITUTION
 
Authors :  J. W. O'Neill, D. E. Kim, D. Baker, K. Y. J. Zhang
Date :  23 Jan 01  (Deposition) - 04 Apr 01  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  A (1x),B (1x)
Keywords :  Four Stranded Beta-Sheet With Central Alpha Helix, Binds Kappa Light Chain Of Immunoglobulins, Zinc Coordinated Histag, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. W. O'Neill, D. E. Kim, D. Baker, K. Y. Zhang
Structures Of The B1 Domain Of Protein L From Peptostreptococcus Magnus With A Tyrosine To Tryptophan Substitution.
Acta Crystallogr. , Sect. D V. 57 480 2001
PubMed-ID: 11264576  |  Reference-DOI: 10.1107/S0907444901000373

(-) Compounds

Molecule 1 - PROTEIN L
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET3A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: B1 DOMAIN
    Mutation: YES
    Organism Scientific: FINEGOLDIA MAGNA
    Organism Taxid: 334413
    Strain: ATCC 29328
    Synonym: IG KAPPA LIGHT CHAIN-BINDING PROTEIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B
Biological Unit 3 (1x): A (1x)B (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 10)

Asymmetric Unit (1, 10)
No.NameCountTypeFull Name
1ZN10Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1ZN-1Ligand/IonZINC ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:-5 , HIS A:-3 , GLU A:46 , HIS B:-1BINDING SITE FOR RESIDUE ZN A 101
02AC2SOFTWAREHIS A:-1 , HIS B:-5 , HIS B:-3 , GLU B:46BINDING SITE FOR RESIDUE ZN A 102
03AC3SOFTWAREHIS A:-2 , HIS A:-4 , GLU A:2 , GLU A:27BINDING SITE FOR RESIDUE ZN A 103
04AC4SOFTWAREHIS A:-6 , HOH A:173 , HIS B:-6 , HOH B:182BINDING SITE FOR RESIDUE ZN A 104
05AC5SOFTWAREHIS B:-4 , HIS B:-2 , GLU B:2 , GLU B:27BINDING SITE FOR RESIDUE ZN B 105
06AC6SOFTWAREASP A:43 , HOH A:190 , HOH A:191 , HOH A:204 , ASP B:43BINDING SITE FOR RESIDUE ZN A 106
07AC7SOFTWAREASP A:38 , HIS B:-2 , LYS B:28 , HOH B:208BINDING SITE FOR RESIDUE ZN B 107
08AC8SOFTWAREHIS A:-2 , HOH A:198 , ASP B:38BINDING SITE FOR RESIDUE ZN A 108
09AC9SOFTWAREGLU A:21 , HOH A:178 , HOH A:201 , GLU B:21BINDING SITE FOR RESIDUE ZN B 109
10BC1SOFTWAREGLU B:3 , HOH B:195BINDING SITE FOR RESIDUE ZN B 110

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1HZ5)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1HZ5)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1HZ5)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1HZ5)

(-) Exons   (0, 0)

(no "Exon" information available for 1HZ5)

(-) 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:72
 aligned with Q51912_FINMA | Q51912 from UniProtKB/TrEMBL  Length:719

    Alignment length:87
                                    96       106       116       126       136       146       156       166       
         Q51912_FINMA    87 FDQSEHPFVENKEETPETPETDSEEEVTIKANLIFANGSTQTAEFKGTFEKATSEAYAYADTLKKDNGEYTVDVADKGYTLNIKFAG 173
               SCOP domains d1hz5a               _ A: Immunoglobulin light chain-binding domain of protein L        SCOP domains
               CATH domains 1hz5A0               0 A:-7-64  [code=3.10.20.10, no name defined]                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......---------------.....eeeeeeee.....eeeeeeeehhhhhhhhhhhhhhhhhhhhh.eeeeeehhh.eeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 1hz5 A  -7 MHHHHH---------------HAMEEVTIKANLIFANGSTQTAEFKGTFEKATSEAYAYADTLKKDNGEWTVDVADKGYTLNIKFAG  64
                                 |   -         - |       7        17        27        37        47        57       
                                -2              -1                                                                 


Chain B from PDB  Type:PROTEIN  Length:72
 aligned with Q51912_FINMA | Q51912 from UniProtKB/TrEMBL  Length:719

    Alignment length:87
                                    96       106       116       126       136       146       156       166       
         Q51912_FINMA    87 FDQSEHPFVENKEETPETPETDSEEEVTIKANLIFANGSTQTAEFKGTFEKATSEAYAYADTLKKDNGEYTVDVADKGYTLNIKFAG 173
               SCOP domains d1hz5b               _ B: Immunoglobulin light chain-binding domain of protein L        SCOP domains
               CATH domains 1hz5B0               0 B:-7-64  [code=3.10.20.10, no name defined]                      CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......---------------.....eeeeeeee.....eeeeeeeehhhhhhhhhhhhhhhhhhhhh.eeeeeehhh.eeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 1hz5 B  -7 MHHHHH---------------HAMEEVTIKANLIFANGSTQTAEFKGTFEKATSEAYAYADTLKKDNGEWTVDVADKGYTLNIKFAG  64
                                 |   -         - |       7        17        27        37        47        57       
                                -2              -1
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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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1HZ5)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (Q51912_FINMA | Q51912)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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  1hz5
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q51912_FINMA | Q51912: 2ptl
UniProtKB/TrEMBL
        Q51912_FINMA | Q51912: 1hz6 1jml 1k50 1k51 1k52 1k53 1kh0 2jzp 2kac

(-) Related Entries Specified in the PDB File

1hz6 1HZ6 IS PROTEIN L B1 DOMAIN (Y47W) WITH NO ZINC COORDINATION
2ptl 2PTL IS NMR DERIVED B1 DOMAIN OF PROTEIN L