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(-) Description

Title :  CRYSTAL STRUCTURE OF THE SERRATIA MARCESCENS CHITIN-BINDING PROTEIN CBP21
 
Authors :  G. Vaaje-Kolstad, D. R. Houston, V. G. H. Eijsink, D. M. F. Van Aalten
Date :  26 Nov 04  (Deposition) - 08 Dec 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Chitin-Binding Protein, Chitin Degradation, Chitin-Binding, Fniii-Like Fold (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  G. Vaaje-Kolstad, D. R. Houston, V. G. H. Eijsink, D. M. F. Van Aalten
Crystal Structure And Binding Properties Of The Serratia Marcescens Chitin-Binding Protein Cbp21
J. Biol. Chem. V. 280 11313 2005
PubMed-ID: 15590674  |  Reference-DOI: 10.1074/JBC.M407175200

(-) Compounds

Molecule 1 - CBP21
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PRSETB
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Organism Scientific: SERRATIA MARCESCENS
    Organism Taxid: 615
    Strain: BJL200
    Synonym: CHITIN-BINDING PROTEIN CBP21

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 22)

Asymmetric Unit (3, 22)
No.NameCountTypeFull Name
1EDO15Ligand/Ion1,2-ETHANEDIOL
2NA1Ligand/IonSODIUM ION
3SO46Ligand/IonSULFATE ION
Biological Unit 1 (2, 7)
No.NameCountTypeFull Name
1EDO6Ligand/Ion1,2-ETHANEDIOL
2NA-1Ligand/IonSODIUM ION
3SO41Ligand/IonSULFATE ION
Biological Unit 2 (2, 9)
No.NameCountTypeFull Name
1EDO6Ligand/Ion1,2-ETHANEDIOL
2NA-1Ligand/IonSODIUM ION
3SO43Ligand/IonSULFATE ION
Biological Unit 3 (2, 5)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL
2NA-1Ligand/IonSODIUM ION
3SO42Ligand/IonSULFATE ION

(-) Sites  (22, 22)

Asymmetric Unit (22, 22)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:170 , SER A:171 , HOH A:2235 , HOH A:2236 , HOH A:2237BINDING SITE FOR RESIDUE SO4 A1204
02AC2SOFTWAREGLN B:48 , CYS B:49 , GLY B:50 , GLN B:53 , EDO B:1202 , HOH B:2232 , HOH B:2233 , HOH B:2234BINDING SITE FOR RESIDUE SO4 B1204
03AC3SOFTWAREARG B:113 , HOH B:2235 , HOH B:2236BINDING SITE FOR RESIDUE SO4 B1205
04AC4SOFTWAREGLY B:170 , SER B:171 , HOH B:2238 , HOH B:2240 , HOH B:2241BINDING SITE FOR RESIDUE SO4 B1206
05AC5SOFTWAREHIS C:28 , ALA C:112 , HIS C:114 , HOH C:2125BINDING SITE FOR RESIDUE NA C1201
06AC6SOFTWARELYS B:125 , ASN B:127 , HOH B:2143 , THR C:90 , THR C:92 , ARG C:93 , HOH C:2199BINDING SITE FOR RESIDUE SO4 C1202
07AC7SOFTWAREGLN C:48 , CYS C:49 , GLY C:50 , GLN C:53 , EDO C:1198 , HOH C:2018 , HOH C:2201 , HOH C:2202BINDING SITE FOR RESIDUE SO4 C1203
08AC8SOFTWAREHIS A:28 , GLU A:60 , HIS A:114 , THR A:183 , ASN A:185 , HOH A:2224 , SER B:51 , EDO B:1202BINDING SITE FOR RESIDUE EDO A1198
09AC9SOFTWAREHIS A:74 , SER A:77 , ASP A:79 , LYS A:80 , PHE A:84 , ASP A:87 , HOH A:2226BINDING SITE FOR RESIDUE EDO A1199
10BC1SOFTWAREGLN A:161 , ASN A:163 , HOH A:2190 , THR C:159 , HIS C:160BINDING SITE FOR RESIDUE EDO A1200
11BC2SOFTWAREALA A:35 , LEU A:45 , LEU A:97 , HOH A:2005 , HOH A:2229 , LEU C:195 , SER C:196BINDING SITE FOR RESIDUE EDO A1201
12BC3SOFTWAREASP A:129 , SER A:131 , GLN A:132 , HOH A:2230 , HOH A:2231 , ALA B:166 , HIS C:74BINDING SITE FOR RESIDUE EDO A1202
13BC4SOFTWAREGLN A:48 , CYS A:49 , GLY A:50 , GLN A:53 , HOH A:2024 , HOH A:2232 , HOH A:2233 , HOH A:2234BINDING SITE FOR RESIDUE EDO A1203
14BC5SOFTWARELYS B:96 , LEU B:97 , ASN B:98 , HOH B:2118 , HOH B:2223 , LEU C:45 , ASN C:95BINDING SITE FOR RESIDUE EDO B1198
15BC6SOFTWARESER A:51 , TYR A:54 , HOH A:2033 , HIS B:28 , GLU B:60 , HIS B:114 , THR B:183 , ASN B:185 , HOH B:2224 , HOH B:2225BINDING SITE FOR RESIDUE EDO B1199
16BC7SOFTWAREPRO B:66 , GLN B:67 , ARG B:113 , ARG B:136 , ALA B:155 , ALA B:156 , HOH B:2226BINDING SITE FOR RESIDUE EDO B1200
17BC8SOFTWARESER A:81 , THR A:82 , PHE A:84 , ASN B:185 , HOH B:2227 , HOH B:2228 , HOH B:2229BINDING SITE FOR RESIDUE EDO B1201
18BC9SOFTWARETHR A:183 , EDO A:1198 , HOH A:2224 , GLY B:50 , SO4 B:1204 , HOH B:2088 , HOH B:2230BINDING SITE FOR RESIDUE EDO B1202
19CC1SOFTWARETYR A:54 , HIS B:114 , SER B:115 , ASP B:182 , HOH B:2210BINDING SITE FOR RESIDUE EDO B1203
20CC2SOFTWAREPRO B:126 , ASN B:127 , GLN C:48 , GLN C:88 , SO4 C:1203 , HOH C:2080BINDING SITE FOR RESIDUE EDO C1198
21CC3SOFTWARESER B:33 , THR B:107 , LYS C:42 , GLN C:53 , TYR C:54BINDING SITE FOR RESIDUE EDO C1199
22CC4SOFTWAREASN A:148 , ASP C:140 , THR C:142 , PRO C:165 , HOH C:2197 , HOH C:2198BINDING SITE FOR RESIDUE EDO C1200

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:41 -A:49
2A:145 -A:162
3B:41 -B:49
4B:145 -B:162
5C:41 -C:49
6C:145 -C:162

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Ser A:33 -Pro A:34
2Phe A:65 -Pro A:66
3Ser B:33 -Pro B:34
4Phe B:65 -Pro B:66
5Ser C:33 -Pro C:34
6Phe C:65 -Pro C:66

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2BEM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2BEM)

(-) Exons   (0, 0)

(no "Exon" information available for 2BEM)

(-) 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:170
 aligned with O83009_SERMA | O83009 from UniProtKB/TrEMBL  Length:197

    Alignment length:170
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197
         O83009_SERMA    28 HGYVESPASRAYQCKLQLNTQCGSVQYEPQSVEGLKGFPQAGPADGHIASADKSTFFELDQQTPTRWNKLNLKTGPNSFTWKLTARHSTTSWRYFITKPNWDASQPLTRASFDLTPFCQFNDGGAIPAAQVTHQCNIPADRSGSHVILAVWDIADTANAFYQAIDVNLSK 197
               SCOP domains d2bema_ A: Chitin-binding protein CBP21                                                                                                                                    SCOP domains
               CATH domains 2bemA00 A:28-197 chitin-binding protein cbp21                                                                                                                              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhh.....hhhhhhhhhh.eee.................hhhhhhhhh........eeee.eeeeeeeee.....eeeeeeeee..........hhh.eeeeeeeeee........eeeeeeee.....eeeeeeeeeee....eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bem A  28 HGYVESPASRAYQCKLQLNTQCGSVQYEPQSVEGLKGFPQAGPADGHIASADKSTFFELDQQTPTRWNKLNLKTGPNSFTWKLTARHSTTSWRYFITKPNWDASQPLTRASFDLTPFCQFNDGGAIPAAQVTHQCNIPADRSGSHVILAVWDIADTANAFYQAIDVNLSK 197
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197


Chain B from PDB  Type:PROTEIN  Length:170
 aligned with O83009_SERMA | O83009 from UniProtKB/TrEMBL  Length:197

    Alignment length:170
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197
         O83009_SERMA    28 HGYVESPASRAYQCKLQLNTQCGSVQYEPQSVEGLKGFPQAGPADGHIASADKSTFFELDQQTPTRWNKLNLKTGPNSFTWKLTARHSTTSWRYFITKPNWDASQPLTRASFDLTPFCQFNDGGAIPAAQVTHQCNIPADRSGSHVILAVWDIADTANAFYQAIDVNLSK 197
               SCOP domains d2bemb_ B: Chitin-binding protein CBP21                                                                                                                                    SCOP domains
               CATH domains 2bemB00 B:28-197 chitin-binding protein cbp21                                                                                                                              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhh.....hhhhhhhhhh.eee.................hhhhhhhhh........eeee.eeeeeeeee.....eeeeeeee...........hhhh......eeee........eeeeeeee.....eeeeeeeeeee....eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bem B  28 HGYVESPASRAYQCKLQLNTQCGSVQYEPQSVEGLKGFPQAGPADGHIASADKSTFFELDQQTPTRWNKLNLKTGPNSFTWKLTARHSTTSWRYFITKPNWDASQPLTRASFDLTPFCQFNDGGAIPAAQVTHQCNIPADRSGSHVILAVWDIADTANAFYQAIDVNLSK 197
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197


Chain C from PDB  Type:PROTEIN  Length:170
 aligned with O83009_SERMA | O83009 from UniProtKB/TrEMBL  Length:197

    Alignment length:170
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197
         O83009_SERMA    28 HGYVESPASRAYQCKLQLNTQCGSVQYEPQSVEGLKGFPQAGPADGHIASADKSTFFELDQQTPTRWNKLNLKTGPNSFTWKLTARHSTTSWRYFITKPNWDASQPLTRASFDLTPFCQFNDGGAIPAAQVTHQCNIPADRSGSHVILAVWDIADTANAFYQAIDVNLSK 197
               SCOP domains d2bemc_ C: Chitin-binding protein CBP21                                                                                                                                    SCOP domains
               CATH domains 2bemC00 C:28-197 chitin-binding protein cbp21                                                                                                                              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhh.....hhhhhhhhhh.....................hhhhhhhhh.............eeeeeeeee.....eeeeeeee...........hhhh......eeee........eeeeeeee.....eeeeeeeeeee....eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2bem C  28 HGYVESPASRAYQCKLQLNTQCGSVQYEPQSVEGLKGFPQAGPADGHIASADKSTFFELDQQTPTRWNKLNLKTGPNSFTWKLTARHSTTSWRYFITKPNWDASQPLTRASFDLTPFCQFNDGGAIPAAQVTHQCNIPADRSGSHVILAVWDIADTANAFYQAIDVNLSK 197
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197
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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  (1, 3)

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

(-) CATH Domains  (1, 3)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2BEM)

(-) Gene Ontology  (0, 0)

Asymmetric Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2BEM)

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 Related Entries

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        O83009_SERMA | O83009: 2ben 2lhs

(-) Related Entries Specified in the PDB File

2ben CRYSTAL STRUCTURE OF THE SERRATIA MARCESCENS CHITIN-BINDING PROTEIN CBP21 Y54A MUTANT.