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(-) Description

Title :  CRYSTAL STRUCTURE OF VIBRIO CHOLERAE DNCV CYCLIC AMP-GMP SYNTHASE IN COMPLEX WITH NONHYDROLYZABLE GTP
 
Authors :  P. J. Kranzusch, A. S. Y. Lee, S. C. Wilson, M. S. Solovykh, R. E. Vance, J. J. A. Doudna
Date :  07 Jul 14  (Deposition) - 13 Aug 14  (Release) - 01 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Nucleotidyl Transferase, Cyclic Nucleotide Synthase, Cgas (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. J. Kranzusch, A. S. Lee, S. C. Wilson, M. S. Solovykh, R. E. Vance, J. M. Berger, J. A. Doudna
Structure-Guided Reprogramming Of Human Cgas Dinucleotide Linkage Specificity.
Cell V. 158 1011 2014
PubMed-ID: 25131990  |  Reference-DOI: 10.1016/J.CELL.2014.07.028

(-) Compounds

Molecule 1 - CYCLIC AMP-GMP SYNTHASE
    Chains: A, B
    EC Number: 2.7.7.86
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: DNCV, VC_0179
    Organism Scientific: VIBRIO CHOLERAE O1 BIOVAR EL TOR STR. N16961
    Organism Taxid: 243277
    Strain: ATCC 39315 / EL TOR INABA N16961
    Synonym: C-AMP-GMP SYNTHASE,DINUCLEOTIDE CYCLASE DNCV

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1G2P2Ligand/IonPHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
2MG4Ligand/IonMAGNESIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1G2P1Ligand/IonPHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1G2P1Ligand/IonPHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER
2MG-1Ligand/IonMAGNESIUM ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:132 , ASP A:134 , ASP A:194 , G2P A:503binding site for residue MG A 501
2AC2SOFTWARESER A:115 , ASP A:132 , ASP A:134 , G2P A:503binding site for residue MG A 502
3AC3SOFTWAREGLN A:113 , GLY A:114 , SER A:115 , TYR A:118 , ASP A:132 , ASP A:134 , PRO A:262 , LYS A:288 , SER A:302 , ASP A:346 , ASP A:349 , LEU A:353 , MG A:501 , MG A:502binding site for residue G2P A 503
4AC4SOFTWAREASP B:132 , ASP B:134 , ASP B:194binding site for residue MG B 501
5AC5SOFTWARESER B:115 , ASP B:132 , ASP B:134 , G2P B:503binding site for residue MG B 502
6AC6SOFTWAREGLN B:113 , GLY B:114 , SER B:115 , TYR B:118 , ASP B:132 , ASP B:134 , PRO B:262 , LYS B:288 , SER B:302 , ASP B:349 , LEU B:353 , MG B:502 , HOH B:601binding site for residue G2P B 503

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4TXZ)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4TXZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4TXZ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4TXZ)

(-) Exons   (0, 0)

(no "Exon" information available for 4TXZ)

(-) 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:370
                                                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eehhhhhhh...hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh....eeeee.................eeeeeeeeeee....hhhhhhhhhhhhhhhhhh....eeeee...eeeeee....eeeeeeeeeee......hhhh.eee.......eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh....hhhhhee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4txz A   5 TWNFHQYYTNRNDGLMGKLVLTDEEKNNLKALRKIIRLRTRDVFEEAKGIAKAVKKSALTFEIIQEKVSTTQIKHLSDSEQREVAKLIYEMDDDARDEFLGLTPRFWTQGSFQYDTLNRPFQPGQEMDIDDGTYMPMPIKIGHSLLILLVDASLKSLVAENHGWKFEAKQTCGRIKIEAEKTHIDVPMYAIPKDEFELDSENVNLALREGDRKWINSDPKIVEDWFNDSCIRIGKHLRKVCRFMKAWRDAQWDVGGPSSISLMAATVNILDSVAHDASDLGETMKIIAKHLPSEFARGVESPDSTDEKPLFPPSYKHGPREMDIMSKLERLPEILSSAESADSKSEALKKINMAFGNRVTNSELIVLAKA 413
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       149       159       169       179       189       199     ||243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413
                                                                                                                                                                    143|                                                     205|                                                                                                                                                                             
                                                                                                                                                                     149                                                      240                                                                                                                                                                             


Chain B from PDB  Type:PROTEIN  Length:366
                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eehhhhhhh...hhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhh....eeeee.................eeeeeeeeeee...hhhhhhhhhhhhhhhhh....eeeeee..eeeeee....eeeeeeeeeee....hhhh.eee.......eee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh....hhhhhee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4txz B   5 TWNFHQYYTNRNDGLMGKLVLTDEEKNNLKALRKIIRLRTRDVFEEAKGIAKAVKKSALTFEIIQEKVSTTQIKHLSDSEQREVAKLIYEMDDDARDEFLGLTPRFWTQGSFQYDTLNRPFQPGQEMDIDDGTYMPMPIGHSLLILLVDASLKSLVAENHGWKFEAKQTCGRIKIEAEKTHIDVPMYAIPKDEFDSENVNLALREGDRKWINSDPKIVEDWFNDSCIRIGKHLRKVCRFMKAWRDAQWDVGGPSSISLMAATVNILDSVAHDASDLGETMKIIAKHLPSEFARGVESPDSTDEKPLFPPSYKHGPREMDIMSKLERLPEILSSAESADSKSEALKKINMAFGNRVTNSELIVLAKA 413
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       151       161       171       181       191       201   ||  247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407      
                                                                                                                                                                    143|                                                   205|                                                                                                                                                                           
                                                                                                                                                                     151                                                    242
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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  (0, 0)

(no "SCOP Domain" information available for 4TXZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4TXZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4TXZ)

(-) Gene Ontology  (14, 14)

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 Related Entries

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

UniProtKB/Swiss-Prot
        DNCV_VIBCH | Q9KVG7: 4txy 4ty0 4u03 4u0l 4u0m 4u0n 4xj1 4xj3 4xj4 4xj5 5go3

(-) Related Entries Specified in the PDB File

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