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(-) Description

Title :  STRUCTURE OF METAL-FREE PERIPLASMIC METAL BINDING PROTEIN FROM CANDIDATUS LIBERIBACTER ASIATICUS
 
Authors :  N. Sharma, P. Selvakumar, P. Kumar, A. K. Sharma
Date :  10 Dec 14  (Deposition) - 11 Feb 15  (Release) - 18 Mar 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.21
Chains :  Asym./Biol. Unit :  A
Keywords :  Metal Binding Protein, Metal Ion Transporter, Periplasmic (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. Sharma, P. Selvakumar, S. Bhose, D. K. Ghosh, P. Kumar, A. K. Sharma
Crystal Structure Of A Periplasmic Solute Binding Protein In Metal-Free, Intermediate And Metal-Bound States From Candidatus Liberibacter Asiaticus.
J. Struct. Biol. V. 189 184 2015
PubMed-ID: 25641618  |  Reference-DOI: 10.1016/J.JSB.2015.01.012

(-) Compounds

Molecule 1 - PERIPLASMIC SOLUTE BINDING PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PET28C
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Organism Scientific: CANDIDATUS LIBERIBACTER ASIATICUS
    Organism Taxid: 34021

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1ACT1Ligand/IonACETATE ION
2GOL4Ligand/IonGLYCEROL
3SO45Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREVAL A:28 , THR A:29 , THR A:30 , GLU A:33 , LYS A:50 , HOH A:2020 , HOH A:2021 , HOH A:2027 , HOH A:2168BINDING SITE FOR RESIDUE SO4 A1276
02AC2SOFTWARETYR A:245 , SER A:250 , LYS A:251 , GLY A:254 , HOH A:2169BINDING SITE FOR RESIDUE SO4 A1277
03AC3SOFTWARETHR A:44 , ALA A:46 , HOH A:2049BINDING SITE FOR RESIDUE SO4 A1278
04AC4SOFTWARESER A:150 , ARG A:264 , HOH A:2170BINDING SITE FOR RESIDUE SO4 A1279
05AC5SOFTWARETHR A:44 , SER A:45 , HOH A:2049 , HOH A:2050 , HOH A:2165BINDING SITE FOR RESIDUE SO4 A1280
06AC6SOFTWAREHIS A:205 , ASN A:208 , GLN A:209BINDING SITE FOR RESIDUE GOL A1281
07AC7SOFTWAREGLU A:95 , SER A:186 , LEU A:187 , TYR A:188 , MET A:202 , HOH A:2140BINDING SITE FOR RESIDUE GOL A1282
08AC8SOFTWARELYS A:4 , LYS A:5 , LEU A:25 , VAL A:26 , ASP A:129 , SER A:131 , ASN A:132 , HOH A:2017BINDING SITE FOR RESIDUE GOL A1283
09AC9SOFTWAREARG A:122 , LYS A:123 , ARG A:141 , HOH A:2111BINDING SITE FOR RESIDUE GOL A1284
10BC1SOFTWAREALA A:48 , GLN A:52 , TYR A:71 , THR A:73 , PHE A:265 , HOH A:2076BINDING SITE FOR RESIDUE ACT A1285

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4UDN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

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(-) 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:266
                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeehhhhhhhhhhhh...eeeeee...........hhhhhhhhhhh.eeee........hhhhh.......eeee.......................hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhh.eeeeee..hhhhhhhhh.eeeeee.....hhhhhhhhhhhhhhhh..eeeee....hhhhhhhhhhhh.eeeeee.............hhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4udn A   4 KKVVLSSFSIIGDITQNIAKDLVTVTTLVEAGNDSHSYQVTSADAIKIQNADLILCNGLHLEETYMKYFTNLKKGTKIITVTDGINPIGVSEDDSEPNPHAWMSLTNAMIYIENIRKALTALDPSNAKKYELNAREYSEKIRNSILPLKTRIEKVDPEKRWFVTSEGCLVYLAEDFGFKSLYLWPINSRSPSMMRHAINQMRSHKIKFIFSESTNSDQPAKQVAYETNASYGGVLYVDSLSKPDGPAPTYLDLLRFSLTKIVDTLF 275
                                    13        23        33        43        53        63        73        83        93  ||   106       116       126       136       146       156       166       176       186       199       209       219       229       239       249       259       269      
                                                                                                                       96|                                                                                           194|                                                                             
                                                                                                                       100                                                                                            198
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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 4UDN)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (4, 4)

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UniProtKB/TrEMBL
        C6XF58_LIBAP | C6XF58: 4cl2 4udo 5afs

(-) Related Entries Specified in the PDB File

4udo STRUCTURE OF MN-BOUND PERIPLASMIC METAL BINDING PROTEIN FROM CANDIDATUS LIBERIBACTER ASIATICUS