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(-) Description

Title :  THE CRYSTAL STRUCTURE OF HELICOBACTER PYLORI CEUE(HP1561)/NI-HIS COMPL
 
Authors :  M. Salamina, M. M. Shaik, L. Cendron, G. Zanotti
Date :  22 Jul 13  (Deposition) - 22 Jan 14  (Release) - 26 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Abc Transporter Substrate Binding Protein, Abc Transporter, Periplasmic Space, Transport Protein, Rossmann-Like Fold, Ni Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. M. Shaik, L. Cendron, M. Salamina, M. Ruzzene, G. Zanotti
Helicobacter Pylori Periplasmic Receptor Ceue (Hp1561) Modulates Its Nickel Affinity Via Organic Metallophores.
Mol. Microbiol. V. 91 724 2014
PubMed-ID: 24330328  |  Reference-DOI: 10.1111/MMI.12487

(-) Compounds

Molecule 1 - NICKEL (III) ABC TRANSPORTER, PERIPLASMIC IRON-BINDIN GPROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21-DE3
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 32-332
    Gene: HP1561, HPG27_1499
    Organism Scientific: HELICOBACTER PYLORI
    Organism Taxid: 563041
    Strain: G27

 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  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1HIS4Mod. Amino AcidHISTIDINE
2NI2Ligand/IonNICKEL (II) ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1HIS2Mod. Amino AcidHISTIDINE
2NI-1Ligand/IonNICKEL (II) ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1HIS2Mod. Amino AcidHISTIDINE
2NI-1Ligand/IonNICKEL (II) ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:58 , TYR A:79 , SER A:101 , HIS A:103 , ARG A:230 , TRP A:249 , ILE A:284 , HIS A:602 , NI A:603 , HOH A:702 , HOH A:799BINDING SITE FOR RESIDUE HIS A 601
2AC2SOFTWAREHIS A:103 , PHE A:123 , ARG A:230 , HIS A:601 , NI A:603 , HOH A:733 , HOH A:810 , HOH A:812 , HOH A:847 , HOH A:856 , HOH A:945BINDING SITE FOR RESIDUE HIS A 602
3AC3SOFTWAREHIS A:103 , HIS A:601 , HIS A:602BINDING SITE FOR RESIDUE NI A 603
4AC4SOFTWAREGLY B:58 , TYR B:79 , SER B:101 , HIS B:103 , ARG B:230 , TRP B:249 , ILE B:251 , ILE B:284 , HIS B:602 , NI B:603 , HOH B:702 , HOH B:810BINDING SITE FOR RESIDUE HIS B 601
5AC5SOFTWAREHIS B:103 , PHE B:123 , ARG B:230 , HIS B:601 , NI B:603 , HOH B:723 , HOH B:759 , HOH B:838 , HOH B:866 , HOH B:883 , HOH B:898BINDING SITE FOR RESIDUE HIS B 602
6AC6SOFTWAREHIS B:103 , HIS B:601 , HIS B:602BINDING SITE FOR RESIDUE NI B 603

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4LS3)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1Leu A:49 -Pro A:50
2Leu B:49 -Pro B:50
3Ala B:105 -Ala B:106

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4LS3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4LS3)

(-) Exons   (0, 0)

(no "Exon" information available for 4LS3)

(-) 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:304
                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..eeeeee.....eeee....hhhhhhhhhh.eeeee.hhhhhhhhhhhh.hhhhheee........hhhhhhhhh..eeeee..hhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh....eeeeee.....eee...hhhhhhhhhh.eee.hhhh....eee.hhhhhhhhh..eeee......hhhhhhhhhhhh.hhhhhh..eee.........hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ls3 A  34 QEVKVKDYFGEQTIKLPVSKIIYLGSFAEVPAMFHTWDRVVGISDYAFKSDIVKATLKDPERIKPMSSDHVAALNVELLKKLSPDLVVTFVGNPKAVEHAKKFGISFLSFQEKTIAEVMEDIDTQAKALEVDASKKLAKMQETLDFIAERLKGVKKKKGVELFHKANKISGHQALDSDILEKGGIDNFGLKYVKFGRADISVEKIVKENPEIIFIWWISPLSPEDVLNNPKFATIKAIKNKQVYKLPTMDIGGPRAPLISLFIALKAHPEAFKGVDINAIVKDYYKVVFDLNDAEVEPFLWKHH 602
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333 || 
                                                                                                                                                                                                                                                                                                                                       335| 
                                                                                                                                                                                                                                                                                                                                        601 


Chain B from PDB  Type:PROTEIN  Length:304
                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee..eeeeee.....eeee....hhhhhhhhhh.eeeee.hhhhhhhhhhhh.hhhhheee........hhhhhhhhh..eeeee..hhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh....eeeeee.....eee...hhhhhhhhhh.eee.hhhh....eee.hhhhhhhhh..eeee......hhhhhhhhhhhh.hhhhhh..eee.........hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.hhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ls3 B  34 QEVKVKDYFGEQTIKLPVSKIIYLGSFAEVPAMFHTWDRVVGISDYAFKSDIVKATLKDPERIKPMSSDHVAALNVELLKKLSPDLVVTFVGNPKAVEHAKKFGISFLSFQEKTIAEVMEDIDTQAKALEVDASKKLAKMQETLDFIAERLKGVKKKKGVELFHKANKISGHQALDSDILEKGGIDNFGLKYVKFGRADISVEKIVKENPEIIFIWWISPLSPEDVLNNPKFATIKAIKNKQVYKLPTMDIGGPRAPLISLFIALKAHPEAFKGVDINAIVKDYYKVVFDLNDAEVEPFLWKHH 602
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333 || 
                                                                                                                                                                                                                                                                                                                                       335| 
                                                                                                                                                                                                                                                                                                                                        601
   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 4LS3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4LS3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4LS3)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4LS3)

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  Cis Peptide Bonds
    Ala B:105 - Ala B:106   [ RasMol ]  
    Leu A:49 - Pro A:50   [ RasMol ]  
    Leu B:49 - Pro B:50   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/TrEMBL
        B5Z9J2_HELPG | B5Z9J2: 4ino 4inp

(-) Related Entries Specified in the PDB File

3ui8 CEUE (HP1561)
3ui9 CEUE (HP1561)