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(-) Description

Title :  THE CRYSTAL STRUCTURE OF AN ADENYLATE KINASE-RELATED PROTEIN BOUND TO AMP FROM SULFOLOBUS SOLFATARICUS TO 2.3A
 
Authors :  A. J. Stein, A. Sather, R. Hendricks, J. Abdullah, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)
Date :  23 Feb 10  (Deposition) - 09 Mar 10  (Release) - 09 Mar 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Adenylate, Kinase, Amp, Sulfolobus, Solfataricus, Psi, Mcsg, Structural Genomics, Midwest Center For Structural Genomics, Protein Structure Initiative, Atp-Binding, Nucleotide-Binding, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. J. Stein, A. Sather, R. Hendricks, J. Abdullah, A. Joachimiak
The Crystal Structure Of An Adenylate Kinase-Related Protein Bound To Amp From Sulfolobus Solfataricus To 2. 3A
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - ADENYLATE KINASE RELATED PROTEIN (ADKA-LIKE)
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SSO1041, SSOL_2012
    Organism Scientific: SULFOLOBUS SOLFATARICUS
    Organism Taxid: 555311
    Strain: P2, 98/2

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1AMP1Ligand/IonADENOSINE MONOPHOSPHATE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS B:21 , MET B:38 , SER B:39 , LEU B:56 , MET B:57 , ALA B:60 , ARG B:64 , VAL B:72 , GLY B:92 , ARG B:94 , GLU B:98 , ARG B:144 , GLU B:148 , HOH B:195BINDING SITE FOR RESIDUE AMP B 189

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3LW7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3LW7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3LW7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3LW7)

(-) Exons   (0, 0)

(no "Exon" information available for 3LW7)

(-) 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:170
 aligned with D0KU01_SULS9 | D0KU01 from UniProtKB/TrEMBL  Length:188

    Alignment length:177
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       
         D0KU01_SULS9     9 KVILITGMPGSGKSEFAKLLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLGDSVYIVAVHSPPKIRYKRMIERLRSDDSKEISELIRRDREELKLGIGEVIAMADYIITNDSNYEEFKRRCEEVTDRVL 185
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....hhhhhhhhhhhh..eeeehhhhhhhhhhhhh---.hhhhhhhhhhhhhh.hhhhhhhhhhhh......eeee...hhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh..----..hhhhhhhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lw7 A   9 KVILITGMPGSGKSEFAKLLKERGAKVIVMSDVVRKRYSIEA---ERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLGDSVYIVAVHSPPKIRYKRMIERL----SKEISELIRRDREELKLGIGEVIAMADYIITNDSNYEEFKRRCEEVTDRVL 185
                                    18        28        38        48 |   |  58        68        78        88        98       108       118       128 |    |138       148       158       168       178       
                                                                    50  54                                                                         130  135                                                  


Chain A from PDB  Type:PROTEIN  Length:170
 aligned with Y1041_SULSO | Q97Z90 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:177
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       
          Y1041_SULSO     9 KVILITGMPGSGKSEFAKLLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLGDSVYIVAVHSPPKIRYKRMIERLRSDDSKEISELIRRDREELKLGIGEVIAMADYIITNDSNYEEFKRRCEEVTDRVL 185
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....hhhhhhhhhhhh..eeeehhhhhhhhhhhhh---.hhhhhhhhhhhhhh.hhhhhhhhhhhh......eeee...hhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh..----..hhhhhhhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lw7 A   9 KVILITGMPGSGKSEFAKLLKERGAKVIVMSDVVRKRYSIEA---ERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLGDSVYIVAVHSPPKIRYKRMIERL----SKEISELIRRDREELKLGIGEVIAMADYIITNDSNYEEFKRRCEEVTDRVL 185
                                    18        28        38        48 |   |  58        68        78        88        98       108       118       128 |    |138       148       158       168       178       
                                                                    50  54                                                                         130  135                                                  


Chain B from PDB  Type:PROTEIN  Length:170
 aligned with D0KU01_SULS9 | D0KU01 from UniProtKB/TrEMBL  Length:188

    Alignment length:178
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177        
         D0KU01_SULS9     8 IKVILITGMPGSGKSEFAKLLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLGDSVYIVAVHSPPKIRYKRMIERLRSDDSKEISELIRRDREELKLGIGEVIAMADYIITNDSNYEEFKRRCEEVTDRVL 185
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---AAA_18-3lw7B01 B:11-150                                                                                                                     ----------------------------------- Pfam domains (1)
           Pfam domains (2) ---AAA_18-3lw7B02 B:11-150                                                                                                                     ----------------------------------- Pfam domains (2)
         Sec.struct. author ..eeeeee....hhhhhhhhhhhhh.eeeehhhhhhhhhhhhh....hhhhhhhhhhhhhh.hhhhhhhhhhhh......eeee...hhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh--------hhhhhhhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lw7 B   8 IKVILITGMPGSGKSEFAKLLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLGDSVYIVAVHSPPKIRYKRMIE--------EISELIRRDREELKLGIGEVIAMADYIITNDSNYEEFKRRCEEVTDRVL 185
                                    17        27        37        47        57        67        77        87        97       107       117       127|      137       147       157       167       177        
                                                                                                                                                  128      137                                                


Chain B from PDB  Type:PROTEIN  Length:170
 aligned with Y1041_SULSO | Q97Z90 from UniProtKB/Swiss-Prot  Length:188

    Alignment length:178
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177        
          Y1041_SULSO     8 IKVILITGMPGSGKSEFAKLLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLGDSVYIVAVHSPPKIRYKRMIERLRSDDSKEISELIRRDREELKLGIGEVIAMADYIITNDSNYEEFKRRCEEVTDRVL 185
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---AAA_18-3lw7B01 B:11-150                                                                                                                     ----------------------------------- Pfam domains (1)
           Pfam domains (2) ---AAA_18-3lw7B02 B:11-150                                                                                                                     ----------------------------------- Pfam domains (2)
         Sec.struct. author ..eeeeee....hhhhhhhhhhhhh.eeeehhhhhhhhhhhhh....hhhhhhhhhhhhhh.hhhhhhhhhhhh......eeee...hhhhhhhhhhhhh..eeeeeee.hhhhhhhhhhh--------hhhhhhhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3lw7 B   8 IKVILITGMPGSGKSEFAKLLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLAEVEEFKRLLGDSVYIVAVHSPPKIRYKRMIE--------EISELIRRDREELKLGIGEVIAMADYIITNDSNYEEFKRRCEEVTDRVL 185
                                    17        27        37        47        57        67        77        87        97       107       117       127|      137       147       157       167       177        
                                                                                                                                                  128      137
   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  (0, 0)

(no "SCOP Domain" information available for 3LW7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3LW7)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: P-loop_NTPase (1112)

(-) Gene Ontology  (4, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (D0KU01_SULS9 | D0KU01)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    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.
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.

Chain A,B   (Y1041_SULSO | Q97Z90)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    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.

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 Related Entries

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