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(-) Description

Title :  CRYSTAL STRUCTURE OF A MUTANT T41S OF A BETAGAMMA-CRYSTALLIN DOMAIN FROM CLOSTRIDIUM BEIJERINCKII
 
Authors :  S. S. Srivastava, R. Sankaranarayanan
Date :  29 Jun 11  (Deposition) - 16 Nov 11  (Release) - 09 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.93
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Biol. Unit 3:  E,H  (1x)
Biol. Unit 4:  F,G  (1x)
Keywords :  Calcium-Bound Betagamma-Crystallin, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Mishra, S. K. Suman, S. S. Srivastava, R. Sankaranarayanan, Y. Sharma
Decoding The Molecular Design Principles Underlying Ca(2+) Binding To Beta Gamma-Crystallin Motifs
J. Mol. Biol. V. 415 75 2012
PubMed-ID: 22099475  |  Reference-DOI: 10.1016/J.JMB.2011.10.037

(-) Compounds

Molecule 1 - CLOSTRILLIN
    Chains: A, B, C, D, E, F, G, H
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: BETAGAMMA-CRYSTALLIN DOMAIN, UNP RESIDUES 118-213
    Gene: CBEI_2825
    Mutation: YES
    Organism Scientific: CLOSTRIDIUM BEIJERINCKII
    Organism Taxid: 290402
    Strain: NCIMB 8052
    Synonym: BETA AND GAMMA CRYSTALLIN

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): A C     
Biological Unit 2 (1x):  B D    
Biological Unit 3 (1x):     E  H
Biological Unit 4 (1x):      FG 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 13)

Asymmetric Unit (1, 13)
No.NameCountTypeFull Name
1CA13Ligand/IonCALCIUM ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 3 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
Biological Unit 4 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION

(-) Sites  (13, 13)

Asymmetric Unit (13, 13)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLU A:9 , TRP A:39 , SER A:41 , ASP A:79 , HOH A:252 , HOH A:254 , HOH A:255BINDING SITE FOR RESIDUE CA A 97
02AC2SOFTWAREASP A:38 , GLU A:55 , LYS A:80 , THR A:82 , HOH A:364BINDING SITE FOR RESIDUE CA A 98
03AC3SOFTWAREGLU B:9 , TRP B:39 , SER B:41 , ASP B:79 , HOH B:375BINDING SITE FOR RESIDUE CA B 97
04AC4SOFTWAREASP B:38 , GLU B:55 , LYS B:80 , THR B:82 , HOH B:362BINDING SITE FOR RESIDUE CA B 98
05AC5SOFTWAREGLU C:9 , TRP C:39 , SER C:41 , ASP C:79 , HOH C:243 , HOH C:292 , HOH C:325BINDING SITE FOR RESIDUE CA C 97
06AC6SOFTWAREASP C:38 , GLU C:55 , LYS C:80 , THR C:82 , HOH C:365BINDING SITE FOR RESIDUE CA C 98
07AC7SOFTWAREGLU D:9 , TRP D:39 , SER D:41 , ASP D:79 , HOH D:260 , HOH D:263BINDING SITE FOR RESIDUE CA D 97
08AC8SOFTWAREASP D:38 , GLU D:55 , LYS D:80 , THR D:82 , HOH D:366BINDING SITE FOR RESIDUE CA D 98
09AC9SOFTWAREGLU E:9 , TRP E:39 , SER E:41 , ASP E:79 , HOH E:302 , HOH E:370 , HOH E:378BINDING SITE FOR RESIDUE CA E 97
10BC1SOFTWAREASP E:38 , GLU E:55 , LYS E:80 , THR E:82 , HOH E:250BINDING SITE FOR RESIDUE CA E 98
11BC2SOFTWAREGLU F:9 , TRP F:39 , SER F:41 , ASP F:79 , HOH F:371 , HOH F:372 , HOH F:373BINDING SITE FOR RESIDUE CA F 97
12BC3SOFTWAREASP F:38 , GLU F:55 , LYS F:80 , THR F:82 , HOH F:367 , HOH F:369BINDING SITE FOR RESIDUE CA F 98
13BC4SOFTWAREGLU G:9 , TRP G:39 , SER G:41 , ASP G:79BINDING SITE FOR RESIDUE CA G 97

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3SO0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3SO0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3SO0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3SO0)

(-) Exons   (0, 0)

(no "Exon" information available for 3SO0)

(-) 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:86
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:86
                                   129       139       149       159       169       179       189       199      
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS 205
               SCOP domains d3so0a_ A: automated matches                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 3so0 A   3 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMSSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS  88
                                    12        22        32        42        52        62        72        82      


Chain B from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   128       138       148       158       168       178       188       198       
         A6LX94_CLOB8   119 TKAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS 205
               SCOP domains d3so0b_ B: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeee........eeee................eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3so0 B   2 TKAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMSSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS  88
                                    11        21        31        41        51        61        71        81       


Chain C from PDB  Type:PROTEIN  Length:84
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:84
                                   130       140       150       160       170       180       190       200    
         A6LX94_CLOB8   121 AVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIY 204
               SCOP domains d3so0c_ C: automated matches                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------ Transcript
                 3so0 C   4 AVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMSSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIY  87
                                    13        23        33        43        53        63        73        83    


Chain D from PDB  Type:PROTEIN  Length:85
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:85
                                   130       140       150       160       170       180       190       200     
         A6LX94_CLOB8   121 AVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS 205
               SCOP domains d3so0d_ D: automated matches                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 3so0 D   4 AVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMSSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS  88
                                    13        23        33        43        53        63        73        83     


Chain E from PDB  Type:PROTEIN  Length:86
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:86
                                   129       139       149       159       169       179       189       199      
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS 205
               SCOP domains d3so0e_ E: automated matches                                                           SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                 3so0 E   3 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMSSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS  88
                                    12        22        32        42        52        62        72        82      


Chain F from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3so0f_ F: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeehhheeeeeee..eeehhhhhhhh........eee.....eeeeeee...eeeeeee................eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3so0 F   3 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMSSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  89
                                    12        22        32        42        52        62        72        82       


Chain G from PDB  Type:PROTEIN  Length:87
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:87
                                   129       139       149       159       169       179       189       199       
         A6LX94_CLOB8   120 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST 206
               SCOP domains d3so0g_ G: automated matches                                                            SCOP domains
               CATH domains --------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee...eeeeeee..eeehhhhhhhh........eee.....eeeee........eeee................eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 3so0 G   3 KAVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMSSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYST  89
                                    12        22        32        42        52        62        72        82       


Chain H from PDB  Type:PROTEIN  Length:72
 aligned with A6LX94_CLOB8 | A6LX94 from UniProtKB/TrEMBL  Length:589

    Alignment length:85
                                   130       140       150       160       170       180       190       200     
         A6LX94_CLOB8   121 AVTFYEDINYGGASVSLQPGNYTLSQLNTAKIPNDWMTSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWVGNDANDKMTSVKIYS 205
               SCOP domains d3so0h_ H: automated matches                                                          SCOP domains
               CATH domains ------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeehhheeeeeee..eeehhhhhh------....eee.....eeeeeee...eeeeeee.......-------..eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------- Transcript
                 3so0 H   4 AVTFYEDINYGGASVSLQPGNYTLSQLN------DWMSSLKVPSGWTVDVYENDNFTGTKWTYTSDTPWV-------MTSVKIYS  88
                                    13        23       | -    |   43        53        63        73       |83     
                                                      31     38                                 73      81
   Legend:   → Mismatch (orange background)
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  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, 8)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3SO0)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3SO0)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F,G,H   (A6LX94_CLOB8 | A6LX94)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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 Related Entries

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

UniProtKB/TrEMBL
        A6LX94_CLOB8 | A6LX94: 3i9h 3iaj 3sny 3snz 3so1 5ht8

(-) Related Entries Specified in the PDB File

3i9h 3iaj 3sny 3snz 3so1