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(-) Description

Title :  CRYSTAL STRUCTURE OF LITOPENAEUS VANNAMEI ARGININE KINASE IN BINARY COMPLEX WITH ARGININE
 
Authors :  A. A. Lopez-Zavala, K. D. Garcia-Orozco, J. S. Carrasco-Miranda, R. Sugich-Miranda, E. F. Velazquez-Contreras, M. F. Criscitiello, L. G. Brieba, E. Rudino-Pinera, R. R. Sotelo-Mundo
Date :  03 Apr 13  (Deposition) - 04 Sep 13  (Release) - 27 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Transferase, Binary Complex, Phosphagen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. A. Lopez-Zavala, K. D. Garcia-Orozco, J. S. Carrasco-Miranda, R. Sugich-Miranda, E. F. Velazquez-Contreras, M. F. Criscitiello, L. G. Brieba, E. Rudino-Pinera, R. R. Sotelo-Mundo
Crystal Structure Of Shrimp Arginine Kinase In Binary Complex With Arginine-A Molecular View Of The Phosphagen Precursor Binding To The Enzyme.
J. Bioenerg. Biomembr. V. 45 511 2013
PubMed-ID: 23873077  |  Reference-DOI: 10.1007/S10863-013-9521-0

(-) Compounds

Molecule 1 - ARGININE KINASE
    Chains: A
    EC Number: 2.7.3.3
    Organism Common: PACIFIC WHITE SHRIMP
    Organism Scientific: LITOPENAEUS VANNAMEI
    Organism Taxid: 6689
    Tissue: TAIL MUSCLE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1ARG1Mod. Amino AcidARGININE
2BME1Ligand/IonBETA-MERCAPTOETHANOL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:63 , GLY A:64 , VAL A:65 , GLY A:66 , TYR A:68 , GLU A:225 , CYS A:271 , HOH A:2069 , HOH A:2078 , HOH A:2290 , HOH A:2291BINDING SITE FOR RESIDUE ARG A 400
2AC2SOFTWAREPRO A:138 , CYS A:139 , LYS A:303 , HOH A:2060BINDING SITE FOR RESIDUE BME A 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Trp A:204 -Pro A:205

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4BHL)

(-) 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:349
 aligned with Q004B5_LITVA | Q004B5 from UniProtKB/TrEMBL  Length:356

    Alignment length:357
                                                                                                                                                                                                                                                                                                                                                                                             356 
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350     | 
         Q004B5_LITVA     1 MADAAVIEKLEAGFKKLEAATDCKSLLKKYLTKEVFDKLKDKRTSLGATLLDVIQSGVENLDSGVGIYAPDAEAYTLFAPLFDPIIEDYHVGFKQTDKHPNKDFGDVNSFVNVDPEGKFVISTRVRCGRSLQGYPFNPCLTESQYKEMEAKVSSTLSSLEGELKGTYYPLTGMSKEVQQKLIDDHFLFKEGDRFLQAANACRYWPAGRGIYHNDNKTFLVWVNEEDHLRIISMQMGGDLGQVFRRLTSAVNEIEKRIPFSHHDRLGFLTFCPTNLGTTVRASVHIKLPKLAANREKLEEVAGKYNLQVRGTRGEHTEAEGGIYDISNKRRMGLTEFQAVKEMQDGILELIKIEKEM-   -
               SCOP domains d4bhla1 A:1-95 automated matches                                                               d4bhla2 A:96-356 automated matches                                                                                                                                                                                                                                   - SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh........hhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhh...............hhhhh.........eeeeeeeeee......hhhhhhhhhhhhhhhhhhhhhhh.hhhh.eeeee....hhhhhhhhhhh.......hhhhhh...........eeeee....eeeee.....eeeeeeee..hhhhhhhhhhhhhhhhhhhh...ee...ee...hhhhh....eeeeeee..hhhhhhhhhhhhhhhh.eeee..--------..eeeeee......hhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4bhl A   1 MADAAVIEKLEAGFKKLEAATDCKSLLKKYLTKEVFDKLKDKRTSLGATLLDVIQSGVENLDSGVGIYAPDAEAYTLFAPLFDPIIEDYHVGFKQTDKHPNKDFGDVNSFVNVDPEGKFVISTRVRCGRSMQGYPFNPCLTESQYKEMEAKVSSTLSSLEGELKGTYYPLTGMSKEVQQKLIDDHFLFKEGDRFLQAANACRYWPAGRGIYHNDNKTFLVWVNEEDHLRIISMQMGGDLGQVFRRLTSAVNEIEKRIPFSHHDRLGFLTFCPTNLGTTVRASVHIKLPKLAANEEKLEEVAGKYNLQVRGT--------GGIYDISNKRRMGLTEFQAVKEMEDGILELIKIEKEMR 400
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310|      320       330       340       350     ||
                                                                                                                                                                                                                                                                                                                                                311      320                                 356|
                                                                                                                                                                                                                                                                                                                                                                                              400
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (8, 8)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q004B5_LITVA | Q004B5)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0004054    arginine kinase activity    Catalysis of the reaction: L-arginine + ATP = N(omega)-phospho-L-arginine + ADP + 2 H(+).
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0016772    transferase activity, transferring phosphorus-containing groups    Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to another (acceptor).
biological process
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.

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 Related Entries

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UniProtKB/TrEMBL
        Q004B5_LITVA | Q004B5: 4am1 4bg4

(-) Related Entries Specified in the PDB File

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