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(-) Description

Title :  CRYSTAL STRUCTURE OF NIKA FROM STAPHYLOCOCCUS AUREUS IN COMPLEX WITH NI(L-HIS)2
 
Authors :  H. Lebrette, C. Cavazza
Date :  14 Jan 14  (Deposition) - 04 Feb 15  (Release) - 22 Apr 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A
Keywords :  Extracytoplasmic, Nickel Import, Metal Transport, Abc-Type Importer, Extracytoplasmic Nickel-Binding Protein, Transport Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Lebrette, E. Borezee-Durant, L. Martin, P. Richaud, E. Boeri Erba C. Cavazza
Novel Insights Into Nickel Import In Staphylococcus Aureus: The Positive Role Of Free Histidine And Structural Characterization Of A New Thiazolidine-Type Nickel Chelator
Metallomics V. 7 613 2015
PubMed-ID: 25611161  |  Reference-DOI: 10.1039/C4MT00295D

(-) Compounds

Molecule 1 - EXTRACYTOPLASMIC NICKEL-BINDING PROTEIN SANIKA
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: SACOL0217
    Organism Scientific: STAPHYLOCOCCUS AUREUS
    Organism Taxid: 93062
    Strain: SUBSP. AUREUS COL
    Synonym: SANIKA

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 21)

Asymmetric/Biological Unit (4, 21)
No.NameCountTypeFull Name
1EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
2GOL17Ligand/IonGLYCEROL
3HIS2Mod. Amino AcidHISTIDINE
4NI1Ligand/IonNICKEL (II) ION

(-) Sites  (21, 21)

Asymmetric Unit (21, 21)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:502 , HIS A:503BINDING SITE FOR RESIDUE NI A 501
02AC2SOFTWARELEU A:17 , ARG A:234 , TYR A:322 , ARG A:325 , ILE A:354 , GLU A:355 , TYR A:369 , SER A:370 , NI A:501 , HIS A:503 , HOH A:615BINDING SITE FOR RESIDUE HIS A 502
03AC3SOFTWAREARG A:234 , GLU A:355 , SER A:370 , PHE A:371 , GLY A:372 , NI A:501 , HIS A:502 , HOH A:726 , HOH A:887 , HOH A:993BINDING SITE FOR RESIDUE HIS A 503
04AC4SOFTWAREILE A:48 , GLU A:49 , LYS A:50 , TYR A:56 , TYR A:101 , LYS A:389 , ASP A:390 , ASP A:404 , GOL A:511 , HOH A:765 , HOH A:982 , HOH A:1003 , HOH A:1014BINDING SITE FOR RESIDUE EPE A 504
05AC5SOFTWARELYS A:54 , LYS A:69 , ASP A:70 , ASN A:402 , HOH A:846BINDING SITE FOR RESIDUE GOL A 505
06AC6SOFTWARETHR A:109 , ALA A:110 , LYS A:114 , THR A:116 , LYS A:245BINDING SITE FOR RESIDUE GOL A 506
07AC7SOFTWAREGLU A:83 , LYS A:86 , THR A:109 , ALA A:110 , LYS A:341 , GOL A:510BINDING SITE FOR RESIDUE GOL A 507
08AC8SOFTWARELYS A:159 , LYS A:318 , LYS A:349 , TYR A:357 , HOH A:812 , HOH A:870BINDING SITE FOR RESIDUE GOL A 508
09AC9SOFTWARELYS A:32 , LYS A:456 , GLY A:461 , ILE A:462 , TYR A:463 , HOH A:627 , HOH A:699 , HOH A:989 , HOH A:991BINDING SITE FOR RESIDUE GOL A 509
10BC1SOFTWAREGLU A:83 , ALA A:110 , GLN A:295 , ASP A:338 , LYS A:341 , GOL A:507 , HOH A:693 , HOH A:792 , HOH A:947BINDING SITE FOR RESIDUE GOL A 510
11BC2SOFTWARETYR A:101 , ASN A:384 , LYS A:388 , LYS A:389 , EPE A:504 , HOH A:941BINDING SITE FOR RESIDUE GOL A 511
12BC3SOFTWAREASP A:260 , GLY A:263 , HIS A:267 , VAL A:334 , HOH A:624 , HOH A:672BINDING SITE FOR RESIDUE GOL A 512
13BC4SOFTWAREGLU A:90 , MET A:93 , ILE A:105 , SER A:106 , SER A:107 , ILE A:108BINDING SITE FOR RESIDUE GOL A 513
14BC5SOFTWARESER A:55 , GLU A:67 , ARG A:252 , TYR A:398 , ASN A:399 , ASN A:400 , ASP A:433 , GOL A:521 , HOH A:707 , HOH A:1011BINDING SITE FOR RESIDUE GOL A 514
15BC6SOFTWAREASP A:256 , ARG A:261 , THR A:277 , LYS A:291 , THR A:293 , SER A:431 , HOH A:606 , HOH A:609 , HOH A:621BINDING SITE FOR RESIDUE GOL A 515
16BC7SOFTWAREGLN A:58 , ASN A:60 , ASP A:61 , THR A:63 , THR A:119 , ALA A:122 , TYR A:123 , HOH A:675 , HOH A:984BINDING SITE FOR RESIDUE GOL A 516
17BC8SOFTWAREASP A:145 , THR A:149 , ILE A:348 , LYS A:349 , SER A:350 , HOH A:906 , HOH A:950BINDING SITE FOR RESIDUE GOL A 517
18BC9SOFTWARETYR A:463 , HOH A:640 , HOH A:762 , HOH A:821 , HOH A:848 , HOH A:862BINDING SITE FOR RESIDUE GOL A 518
19CC1SOFTWARELYS A:226 , LYS A:453 , ASN A:454 , TYR A:455BINDING SITE FOR RESIDUE GOL A 519
20CC2SOFTWARELYS A:143 , LYS A:349 , VAL A:351 , ASP A:352 , ASP A:353 , HOH A:826BINDING SITE FOR RESIDUE GOL A 520
21CC3SOFTWARELYS A:114 , HIS A:242 , LYS A:245 , MET A:247 , THR A:248 , LYS A:249 , ARG A:252 , GOL A:514 , HOH A:707 , HOH A:881 , HOH A:992BINDING SITE FOR RESIDUE GOL A 521

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4OFJ)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
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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:467
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee............hhhhhh......eee.....eee..eeeeeeee..eeeeee............hhhhhhhhhhhhhhhhhhhhhhh.eeeeeee..eeeeee.....hhhhhhhhhhhh...................eeeeeee...eeeeee............eeeeee..hhhhhhhhhhh....ee...hhhhhhhhhh...eeeeeeeeeeeeeeee.......hhhhhhhhhhhhhhhhhhhhh....eee....................hhhhhhhhhhhh.......eeeeeee.....hhhhhhhhhhhhhhh..eeeeeee..hhhhhhh......eeeeeee......hhhhhhhhh............hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhh.eeeeeeeeeeeeee..ee................ee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4ofj A   8 GKDLNISLPLKTKSIAPYETDVPVKIGAAESLFKTNDQGKIEKALVKSYHQPNDTTLDIELKDNIKFQNGQKLTAEKVKSSLENSMKKSDLVKYSLPISSITAKGQKLTIKTNSAYPELVSELANPFMAIYDTDAKSDVNQTPVGTGPYQIKDYKQSRKISLSNFKDYWQGKPKLDHITVTYQEDGNNRVRNLESQKDDLITDVPVNKVQDIENNQNLKVSKESGFRTSLLMYNHTNKKMTKSVREALDHIIDRQGIADHIYQGYAKPATSPFNDKIPYIKEPKLTKQNIEQAKMLLAKDGYTKEHPLKIKLITYDGRPELSKIAQVLQSDAKKANIEIDIKSVDDIEGYLKDRSAWDATMYSFGTIPRGDTGYFFNQAYKKDGAINKGDYNNSNVDDLINQLNHTVDVKERHNISNDIIKLSSRDVPNSYIAYNDQIVAANSKVKNYKVTPEGIYLIDYRTTIEHH 503
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467    || 
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          472| 
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           502
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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 4OFJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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(-) Gene Ontology  (0, 0)

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