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(-) Description

Title :  CRYSTAL STRUCTURE OF CHITINASE CHIW FROM PAENIBACILLUS SP. STR. FPU-7 REVEALS A NOVEL TYPE OF BACTERIAL CELL-SURFACE-EXPRESSED MULTI-MODULAR ENZYME MACHINERY
 
Authors :  T. Itoh, T. Hibi, F. Suzuki, I. Sugimoto, A. Fujiwara, K. Inaka, H. Tanak Y. Fujii, A. Taketo, H. Kimoto
Date :  01 Oct 16  (Deposition) - 28 Dec 16  (Release) - 04 Jan 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Itoh, T. Hibi, F. Suzuki, I. Sugimoto, A. Fujiwara, K. Inaka, H. Tanaka, K. Ohta, Y. Fujii, A. Taketo, H. Kimoto
Crystal Structure Of Chitinase Chiw From Paenibacillus Sp. Str. Fpu-7 Reveals A Novel Type Of Bacterial Cell-Surface-Expressed Multi-Modular Enzyme Machinery
Plos One V. 11 67310 2016
PubMed-ID: 27907169  |  Reference-DOI: 10.1371/JOURNAL.PONE.0167310

(-) Compounds

Molecule 1 - CHITINASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 198-282
    Gene: CHIW
    Organism Scientific: PAENIBACILLUS SP. FPU-7
    Organism Taxid: 762821
 
Molecule 2 - CHITINASE
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 283-1418
    Gene: CHIW
    Organism Scientific: PAENIBACILLUS SP. FPU-7
    Organism Taxid: 762821

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 12)

Asymmetric/Biological Unit (3, 12)
No.NameCountTypeFull Name
1FMT10Ligand/IonFORMIC ACID
2NA1Ligand/IonSODIUM ION
3PO41Ligand/IonPHOSPHATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU B:326 , THR B:332 , PHE B:334 , SER B:354binding site for residue NA B 4001
02AC2SOFTWAREMET B:1164 , HIS B:1165 , GLY B:1168 , PHE B:1169 , LYS B:1217 , TYR B:1219 , HOH B:4267 , HOH B:4354 , HOH B:4399 , HOH B:4503 , HOH B:4829binding site for residue PO4 B 4002
03AC3SOFTWARESER B:354 , PHE B:355 , THR B:374 , ILE B:375 , GLU B:376binding site for residue FMT B 4003
04AC4SOFTWARESER B:393 , GLY B:394 , HOH B:4333 , HOH B:4339binding site for residue FMT B 4004
05AC5SOFTWARELYS B:554 , PHE B:556 , PRO B:756 , LYS B:808binding site for residue FMT B 4005
06AC6SOFTWAREARG B:861 , TYR B:862 , TRP B:863 , PRO B:870 , ASP B:883 , LEU B:1026binding site for residue FMT B 4006
07AC7SOFTWAREGLU B:1141 , GLY B:1142 , SER B:1144 , ASP B:1145 , LYS B:1188 , HOH B:4102binding site for residue FMT B 4007
08AC8SOFTWAREVAL B:974 , THR B:975 , VAL B:976 , TYR B:985 , HOH B:4241 , HOH B:4652binding site for residue FMT B 4008
09AC9SOFTWARELYS B:323 , SER B:352 , ASN B:371 , HOH B:4743 , HOH B:4958binding site for residue FMT B 4009
10AD1SOFTWAREARG B:1017 , ALA B:1034 , PRO B:1035 , ARG B:1288 , LYS B:1289 , GLY B:1291 , HOH B:4223 , HOH B:4368 , HOH B:4956binding site for residue FMT B 4010
11AD2SOFTWAREVAL B:850 , SER B:911 , ASP B:912 , HOH B:4103 , HOH B:4334 , HOH B:4707 , HOH B:4872binding site for residue FMT B 4011
12AD3SOFTWARETYR B:1000 , VAL B:1001 , ASN B:1002binding site for residue FMT B 4012

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5GZT)

(-) Cis Peptide Bonds  (9, 9)

Asymmetric/Biological Unit
No.Residues
1Gly B:456 -Gly B:457
2Gly B:457 -Ser B:458
3Ser B:458 -Gly B:459
4Ala B:589 -Phe B:590
5Glu B:691 -Tyr B:692
6Trp B:905 -Glu B:906
7Ala B:1076 -Phe B:1077
8Glu B:1177 -Tyr B:1178
9Trp B:1396 -Asp B:1397

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5GZT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5GZT)

(-) Exons   (0, 0)

(no "Exon" information available for 5GZT)

(-) 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:69
                                                                                                      
               SCOP domains --------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............ee....ee.......ee.ee....ee.hhhhh...eeee.......eee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------- Transcript
                5gzt A  214 AYDKAGTYGPASGTETIDGNVKVTVPGVTLRNLVIKGDLLLSEGVGSGDVTLDKVSVHGLTTVSGGGEN  282
                                   223       233       243       253       263       273         


Chain B from PDB  Type:PROTEIN  Length:1134
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee......eee......eeeeeee......eee...eeeeeeee.......eee.........eeeeeeeeeeee......eeeeeeeeeeeeee.......eeee....eeeeeee....eee...eeeeeee.hhhh..ee.....eee..hhhhhee....................eeeeeeee.....eeeeeee......eeeeee.....eeeeehhhhh..eee...eeeee.......eeeeeeeeeee..ee...eeeeeee..eeeeeee............hhhhh.eeeeeeeeee..eeee...hhhhhh....hhhhhhhhhh.hhhhhhhhhhhhhhh....eeeeeee.....hhhhhh.hhhhhhhhhhhhhhhhhhh...eeeee.....hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..hhhhhh..hhhhhhhhh.eeee...........................hhhhhhhhhhhh..hhh.eeeeee.eeeee......................eeehhhhhhhh......eeeee....eeeee....eee..hhhhhhhhhhhhhhh...eeeeehhhhh...hhhhhhhhhhhh.........ee.....eee.....ee..eeeeeeeee.......hhh.eeee.......eeeee......eeeeee..ee........eeeeeee.hhhh..........eeeeee.....eeeeeee...hhhhh..........eeeeeeeeee..eeee...hhhhhh...hhhhhhhhhh.hhhhhhhhhhhhhhhh...eeeeeee.....hhhhhh.hhhhhhhhhhhhhhhhhhh...eeeee.....hhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhh...eeeeee..hhhhhhhhhhhhhhhhh.eeee.............................hhhhhhhhhhhh..hhh.eeeeee...eee.....hhhhh..............hhhhhhhhh.....eeeee....eeeeee......eeee..hhhhhhhhhhhhhhhh..eeeeehhhhh..hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                5gzt B  283 SVHMNDSVIGVVYVDKKDTPVRIVAKGSAKVGEVIIAGSVKLEETDLTGTGFEKVVLKDLLPANAKVTLSGSFTDVDVAASANPQLNVNSGTIERLTVAASSKDAVIVLASGVKVTTLTLNIKTQIKGQGSVGTAVVNLGGKGSSFESAPGKTEGIAKDSVTTGGSFGGGGYGGGSGSSSNPVVKLISTASNNDRQLVLKFNAYGWDNNATIVLTSPAGKQTTYTYEKNSAQFAVSAPEVTFTSDKGLAAGTWLYSVKTAKGSVTSDTVTGKAFVQGKIVSYIPAWVDWAKDERGVDATKFTHLYYAFGRINNGKVVTIKEDAKWTEDPTITEADRIKRRNNPDESNLAYLTGLKAKNPNLKVLVSIGGWEAEGFSDAALTPESREVFANSALDFMNKYNLDGIDLDWEYPVYGAWGVIKSRPEDKANFTALLKLLREKLDAQSTTTNKYYELAIAAGASKTYTDSVELTKITPYLDYINLMTYDLHGGWDPATSHHTAVYSATNNQLSVDSTVKLYLNNGVPAEKLMVGGAFYSRVWQNVENKGTGLSEKAGSQAGSPGTIVYSELVNNYINKNGYTRYWDDTAKAPYLFNGSTFISYEDTASAAYKAEYIKQNNLAGFMYWEYSQDSDSHELANTIYSRLYAKSGTPLSVGTSVYAGTVTMATYTQLPAGTFILPLTQGTLKPVISASDVTVSGIPAGITYTVANAADHRNAVAVYVNGGTVASNVYDPIDVRVVVKASAVLEANMTDSAPASVTIMPKFGPILLGYVPGWVDWTNSAYKVDATKLTHINYAFARIKDNKVVKISEDINWVNEFPSEEIREQRRNNPDDANFAYLKTLKQQNPSLKVLVSIGGWAAEGFSDAALTPETREELANSAIAFMHQYGFDGIDLDWEYPVYGAFGVIKSRPEDKQNFTALLKLFREKLDVEGALHGKYYELAIASAAAPIYINSVELDKIHQYLDYMSVMTYDYHGSWESKTAHQASVYTSALSPGDFSADSVLTAYRKQGVPASKLVIGGAFYARGWVNVPNINHGLFQQAGDQAKNPGTPTYNDLVKDYFDKGYTRYWDNSAKAPYLYNPDANGGTFITYDDEESLKYKAEYAKNQGLRGVMFWDYSQDISGKLLGAIFNELKA 1416
                                   292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       522       532       542       552       562       572       582       592       602       612       622       632       642       652       662       672       682       692       702       712       722       732       742       752       762       772       782       792       802       812       822       832       842       852       862       872       882       892       902       912       922       932       942       952       962       972       982       992      1002      1012      1022      1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162      1172      1182      1192      1202      1212      1222      1232      1242      1252      1262      1272      1282      1292      1302      1312      1322      1332      1342      1352      1362      1372      1382      1392      1402      1412
   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 5GZT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5GZT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5GZT)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Ala B:1076 - Phe B:1077   [ RasMol ]  
    Ala B:589 - Phe B:590   [ RasMol ]  
    Glu B:1177 - Tyr B:1178   [ RasMol ]  
    Glu B:691 - Tyr B:692   [ RasMol ]  
    Gly B:456 - Gly B:457   [ RasMol ]  
    Gly B:457 - Ser B:458   [ RasMol ]  
    Ser B:458 - Gly B:459   [ RasMol ]  
    Trp B:1396 - Asp B:1397   [ RasMol ]  
    Trp B:905 - Glu B:906   [ RasMol ]  
 

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  5gzt
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  K7ZLW6_9BACL | K7ZLW6
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 Related Entries

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

UniProtKB/TrEMBL
        K7ZLW6_9BACL | K7ZLW6: 5gzu 5gzv

(-) Related Entries Specified in the PDB File

5gzu 5gzv