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(-) Description

Title :  CRYSTAL STRUCTURE OF A BETAGAMMA-CRYSTALLIN FROM AN ARCHAEA
 
Authors :  P. Aravind, R. Sankaranarayanan
Date :  23 Jun 09  (Deposition) - 01 Dec 09  (Release) - 19 Jan 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.86
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Calcium-Bound Betagamma-Crystallin, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Aravind, A. Mishra, S. K. Suman, M. K. Jobby, R. Sankaranarayanan, Y. Sharma
The Betagamma-Crystallin Superfamily Contains A Universal Motif For Binding Calcium
Biochemistry V. 48 12180 2009
PubMed-ID: 19921810  |  Reference-DOI: 10.1021/BI9017076
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - BETA/GAMA CRYSTALLIN FAMILY PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 37-120
    Gene: 1474415
    Organism Scientific: METHANOSARCINA ACETIVORANS
    Organism Taxid: 2214
    Strain: C2A
    Synonym: M-CRYSTALLIN

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1CA8Ligand/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  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:9 , LYS A:34 , SER A:36 , ASN A:76 , HOH A:96 , HOH A:230 , HOH A:237BINDING SITE FOR RESIDUE CA A 101
2AC2SOFTWAREASP A:33 , GLU A:49 , SER A:77 , SER A:79 , HOH A:90 , HOH A:272BINDING SITE FOR RESIDUE CA A 102
3AC3SOFTWAREGLU B:9 , LYS B:34 , SER B:36 , ASN B:76 , HOH B:85 , HOH B:88 , HOH B:110BINDING SITE FOR RESIDUE CA B 103
4AC4SOFTWAREASP B:33 , GLU B:49 , SER B:77 , SER B:79 , HOH B:93 , HOH B:254BINDING SITE FOR RESIDUE CA B 104
5AC5SOFTWAREGLU C:9 , LYS C:34 , SER C:36 , ASN C:76 , HOH C:85 , HOH C:231 , HOH C:241BINDING SITE FOR RESIDUE CA C 105
6AC6SOFTWAREASP C:33 , GLU C:49 , SER C:77 , SER C:79 , HOH C:239 , HOH C:249BINDING SITE FOR RESIDUE CA C 106
7AC7SOFTWAREGLU D:9 , LYS D:34 , SER D:36 , ASN D:76 , HOH D:85 , HOH D:87 , HOH D:97BINDING SITE FOR RESIDUE CA D 107
8AC8SOFTWAREASP D:33 , GLU D:49 , SER D:77 , SER D:79 , HOH D:98 , HOH D:257BINDING SITE FOR RESIDUE CA D 108

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3HZ2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3HZ2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3HZ2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3HZ2)

(-) Exons   (0, 0)

(no "Exon" information available for 3HZ2)

(-) 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:84
 aligned with Q8TMX3_METAC | Q8TMX3 from UniProtKB/TrEMBL  Length:120

    Alignment length:84
                                    46        56        66        76        86        96       106       116    
         Q8TMX3_METAC    37 NAAEVIVYEHVNFGGKSFDATSDQPGAGDNLNDKISSIKVKSGTWRFYEYINYGGRYWDLGPGEYSSVESAGIPDNSISSFRQI 120
               SCOP domains d3hz2a_ A: automated matches                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeehhheeeeeee................eeeeee.eeeeeee...eeeeeee..eee.hhhhhh.......eeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------ Transcript
                 3hz2 A   1 NAAEVIVYEHVNFGGKSFDATSDQPGAGDNLNDKISSIKVKSGTWRFYEYINYGGRYWDLGPGEYSSVESAGIPDNSISSFRQI  84
                                    10        20        30        40        50        60        70        80    


Chain B from PDB  Type:PROTEIN  Length:84
 aligned with Q8TMX3_METAC | Q8TMX3 from UniProtKB/TrEMBL  Length:120

    Alignment length:84
                                    46        56        66        76        86        96       106       116    
         Q8TMX3_METAC    37 NAAEVIVYEHVNFGGKSFDATSDQPGAGDNLNDKISSIKVKSGTWRFYEYINYGGRYWDLGPGEYSSVESAGIPDNSISSFRQI 120
               SCOP domains d3hz2b_ B: automated matches                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeehhheeeeeee................eeeeee..eeeeee...eeeeeee..eee.hhhhhh.......eeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------ Transcript
                 3hz2 B   1 NAAEVIVYEHVNFGGKSFDATSDQPGAGDNLNDKISSIKVKSGTWRFYEYINYGGRYWDLGPGEYSSVESAGIPDNSISSFRQI  84
                                    10        20        30        40        50        60        70        80    


Chain C from PDB  Type:PROTEIN  Length:84
 aligned with Q8TMX3_METAC | Q8TMX3 from UniProtKB/TrEMBL  Length:120

    Alignment length:84
                                    46        56        66        76        86        96       106       116    
         Q8TMX3_METAC    37 NAAEVIVYEHVNFGGKSFDATSDQPGAGDNLNDKISSIKVKSGTWRFYEYINYGGRYWDLGPGEYSSVESAGIPDNSISSFRQI 120
               SCOP domains d3hz2c_ C: automated matches                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeeehhheeeeeee................eeeeee.eeeeeee...eeeeeee..eee.hhhhhh.......eeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------ Transcript
                 3hz2 C   1 NAAEVIVYEHVNFGGKSFDATSDQPGAGDNLNDKISSIKVKSGTWRFYEYINYGGRYWDLGPGEYSSVESAGIPDNSISSFRQI  84
                                    10        20        30        40        50        60        70        80    


Chain D from PDB  Type:PROTEIN  Length:84
 aligned with Q8TMX3_METAC | Q8TMX3 from UniProtKB/TrEMBL  Length:120

    Alignment length:84
                                    46        56        66        76        86        96       106       116    
         Q8TMX3_METAC    37 NAAEVIVYEHVNFGGKSFDATSDQPGAGDNLNDKISSIKVKSGTWRFYEYINYGGRYWDLGPGEYSSVESAGIPDNSISSFRQI 120
               SCOP domains d3hz2d_ D: automated matches                                                         SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeeeee...eeeeeee................eeeeee.eeeeeee...eeeeeee..eee.hhhhhh.......eeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------ Transcript
                 3hz2 D   1 NAAEVIVYEHVNFGGKSFDATSDQPGAGDNLNDKISSIKVKSGTWRFYEYINYGGRYWDLGPGEYSSVESAGIPDNSISSFRQI  84
                                    10        20        30        40        50        60        70        80
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3HZ2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3HZ2)

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (Q8TMX3_METAC | Q8TMX3)
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
        Q8TMX3_METAC | Q8TMX3: 2k1w 2k1x 5ht9

(-) Related Entries Specified in the PDB File

2bv2 CRYSTAL STRUCTURE OF A UROCHORDATE BETAGAMMA CRYSTALLIN
2k1w NMR STRUCTURE OF M-CRYSTALLIN IN CALCIUM-LOADED FORM
3hzb