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(-) Description

Title :  SUBSTRATE AND DIOXYGEN BINDING TO THE ENDOSPORE COAT LACCASE COTA FROM BACILLUS SUBTILIS
 
Authors :  F. J. Enguita, D. Marcal, R. Grenha, P. F. Lindley, M. A. Carrondo
Date :  01 Dec 12  (Deposition) - 19 Dec 12  (Release) - 19 Dec 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Hydrolase, Abts (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. J. Enguita, D. Marcal, L. O. Martins, R. Grenha, A. O. Henriques, P. F. Lindley, M. A. Carrondo
Substrate And Dioxygen Binding To The Endospore Coat Laccase From Bacillus Subtilis.
J. Biol. Chem. V. 279 23472 2004
PubMed-ID: 14764581  |  Reference-DOI: 10.1074/JBC.M314000200

(-) Compounds

Molecule 1 - COTA LACCASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Organism Scientific: BACILLUS SUBTILIS
    Organism Taxid: 1423

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 13)

Asymmetric/Biological Unit (4, 13)
No.NameCountTypeFull Name
1CU14Ligand/IonCOPPER (I) ION
2EBS1Ligand/Ion3-ETHYL-2-[(2Z)-2-(3-ETHYL-6-SULFO-1,3-BENZOTHIAZOL-2(3H)-YLIDENE)HYDRAZINO]-6-SULFO-3H-1,3-BENZOTHIAZOL-1-IUM
3GOL7Ligand/IonGLYCEROL
4OXY1Ligand/IonOXYGEN MOLECULE

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS A:419 , CYS A:492 , HIS A:497 , MET A:502BINDING SITE FOR RESIDUE CU1 A1511
02AC2SOFTWAREHIS A:107 , HIS A:153 , HIS A:493 , OXY A:1515BINDING SITE FOR RESIDUE CU1 A1512
03AC3SOFTWAREHIS A:155 , HIS A:424 , HIS A:491 , CU1 A:1514 , OXY A:1515BINDING SITE FOR RESIDUE CU1 A1513
04AC4SOFTWAREHIS A:105 , HIS A:107 , HIS A:422 , HIS A:424 , CU1 A:1513 , OXY A:1515 , HOH A:2056BINDING SITE FOR RESIDUE CU1 A1514
05AC5SOFTWAREHIS A:105 , HIS A:107 , HIS A:153 , HIS A:155 , HIS A:422 , HIS A:424 , HIS A:491 , HIS A:493 , CU1 A:1512 , CU1 A:1513 , CU1 A:1514 , HOH A:2093BINDING SITE FOR RESIDUE OXY A1515
06AC6SOFTWAREPRO A:226 , ALA A:227 , CYS A:229 , GLY A:323 , PRO A:384 , HIS A:497BINDING SITE FOR RESIDUE EBS A1516
07AC7SOFTWAREASP A:113 , ASP A:114 , TYR A:133 , LYS A:135 , ARG A:487 , HOH A:2062 , HOH A:2064BINDING SITE FOR RESIDUE GOL A1519
08AC8SOFTWAREARG A:136 , GLU A:137 , VAL A:138 , PRO A:247 , THR A:307 , GLU A:310 , GOL A:1524BINDING SITE FOR RESIDUE GOL A1520
09AC9SOFTWAREGLN A:20 , LYS A:25 , VAL A:138 , ALA A:308 , GLU A:310 , GOL A:1524BINDING SITE FOR RESIDUE GOL A1521
10BC1SOFTWAREPRO A:112 , ASP A:113 , TYR A:484 , SER A:485 , TYR A:488 , HOH A:2069BINDING SITE FOR RESIDUE GOL A1522
11BC2SOFTWAREGLU A:128 , ILE A:369 , THR A:371 , SER A:410 , ARG A:476 , GOL A:1525BINDING SITE FOR RESIDUE GOL A1523
12BC3SOFTWAREVAL A:138 , THR A:307 , ALA A:308 , TYR A:309 , GLU A:310 , GOL A:1520 , GOL A:1521BINDING SITE FOR RESIDUE GOL A1524
13BC4SOFTWARELEU A:447 , GOL A:1523BINDING SITE FOR RESIDUE GOL A1525

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:229 -A:322

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Phe A:55 -Pro A:56
2Asn A:221 -Pro A:222
3Gly A:482 -Pro A:483
4Tyr A:500 -Asp A:501

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3ZDW)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3ZDW)

(-) Exons   (0, 0)

(no "Exon" information available for 3ZDW)

(-) 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:503
 aligned with COTA_BACSU | P07788 from UniProtKB/Swiss-Prot  Length:513

    Alignment length:510
                                    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       381       391       401       411       421       431       441       451       461       471       481       491       501       511
           COTA_BACSU     2 TLEKFVDALPIPDTLKPVQQSKEKTYYEVTMEECTHQLHRDLPPTRLWGYNGLFPGPTIEVKRNENVYVKWMNNLPSTHFLPIDHTIHHSDSQHEEPEVKTVVHLHGGVTPDDSDGYPEAWFSKDFEQTGPYFKREVYHYPNQQRGAILWYHDHAMALTRLNVYAGLVGAYIIHDPKEKRLKLPSDEYDVPLLITDRTINEDGSLFYPSAPENPSPSLPNPSIVPAFCGETILVNGKVWPYLEVEPRKYRFRVINASNTRTYNLSLDNGGDFIQIGSDGGLLPRSVKLNSFSLAPAERYDIIIDFTAYEGESIILANSAGCGGDVNPETDANIMQFRVTKPLAQKDESRKPKYLASYPSVQHERIQNIRTLKLAGTQDEYGRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTRGTHPIHLHLVSFRVLDRRPFDIARYQESGELSYTGPAVPPPPSEKGWKDTIQAHAGEVLRIAATFGPYSGRYVWHCHILEHEDYDMMRPMDITDP 511
               SCOP domains d3zdwa1 A:2-182 Spore coat protein A, CotA                                                                                                                                           d3zdwa2 A:183-356 Spore coat protein A, CotA                                                                                                                                  d3zdwa3 A:357-511 Spore coat protein A, CotA                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..................eee..eeeeeeeeeeeee........eeeeee........eeee....eeeeeee...............-------.......eeee....hhhhh.......hhhhh.........eeee......eeeeeee....hhhhhhhh..eeeeeeehhhhhhhh..hhh.eeeeeeeeeee.....ee........................eeee..ee..eee....eeeeeeee......eeeee.....eeeeee..eeeeeeeee.eeee....eeeeeee.......eeeeee..............eeeeee...................hhhhh...eeeeeeeeeeeee.....eeeee.................eeeeeeee.....eeeee.....eeeeeee.hhhhhhhhh...........hhhhh....eeee...eeeeeeee.....eeeeeee.hhhhhh...eeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3zdw A   2 TLEKFVDALPIPDTLKPVQQSKEKTYYEVTMEECTHQLHRDLPPTRLWGYNGLFPGPTIEVKRNENVYVKWMNNLPSTHFLPIDHTIH-------EPEVKTVVHLHGGVTPDDSDGYPEAWFSKDFEQTGPYFKREVYHYPNQQRGAILWYHDHAMALTRLNVYAGLVGAYIIHDPKEKRLKLPSDEYDVPLLITDRTINEDGSLFYPSAPENPSPSLPNPSIVPAFCGETILVNGKVWPYLEVEPRKYRFRVINASNTRTYNLSLDNGGDFIQIGSDGGLLPRSVKLNSFSLAPAERYDIIIDFTAYEGESIILANSAGCGGDVNPETDANIMQFRVTKPLAQKDESRKPKYLASYPSVQHERIQNIRTLKLAGTQDEYGRPVLLLNNKRWHDPVTETPKVGTTEIWSIINPTRGTHPIHLHLVSFRVLDRRPFDIARYQESGELSYTGPAVPPPPSEKGWKDTIQAHAGEVLRIAATFGPYSGRYVWHCHILEHEDYDMMRPMDITDP 511
                                    11        21        31        41        51        61        71        81       | -     | 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       381       391       401       411       421       431       441       451       461       471       481       491       501       511
                                                                                                                  89      97
   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  (1, 3)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (0, 0 ; only for superseded entry 1UVW: 1,3)

(no "CATH Domain" information available for 3ZDW, only for superseded entry 1UVW replaced by 3ZDW)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3ZDW)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (COTA_BACSU | P07788)
molecular function
    GO:0005507    copper ion binding    Interacting selectively and non-covalently with copper (Cu) ions.
    GO:0052716    hydroquinone:oxygen oxidoreductase activity    Catalysis of the reaction: 4 hydroquinone + O2 = 4 benzosemiquinone + 4 H2O.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016722    oxidoreductase activity, oxidizing metal ions    Catalysis of an oxidation-reduction in which the oxidation state of metal ion is altered.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
    GO:0030435    sporulation resulting in formation of a cellular spore    The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.
cellular component
    GO:0030288    outer membrane-bounded periplasmic space    The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.

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  3zdw
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 Related Entries

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

UniProtKB/Swiss-Prot
        COTA_BACSU | P07788: 1gsk 1of0 1w6l 1w6w 1w8e 2bhf 2wsd 2x87 2x88 4a66 4a67 4a68 4ako 4akp 4akq 4q89 4q8b 4yvn 4yvu

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3ZDW)