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(-) Description

Title :  X-RAY CRYSTAL STRUCTURE OF THE PUTATIVE N-TYPE ATP PYROPHOSPHATASE (PF0828) IN COMPLEX WITH AMP FROM PYROCOCCUS FURIOSUS, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET PFR23
 
Authors :  F. Forouhar, N. Saadat, M. Hussain, J. Seetharaman, J. Janjua, R. Xiao, K. Cunningham, L. Ma, R. Shastry, J. K. Everett, R. Nair, T. B. Acton, B. G. T. Montelione, J. F. Hunt, L. Tong, Northeast Structural Genomic Consortium (Nesg)
Date :  16 Apr 11  (Deposition) - 11 May 11  (Release) - 11 Jan 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Structural Genomics, Psi-Biology, Northeast Structural Genomics Consortium, Nesg, Alpha-Beta Protein That Binds Atp, Possibly N-Type Atp Pyrophosphatase, Amp And Atp Binding, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  F. Forouhar, N. Saadat, M. Hussain, J. Seetharaman, I. Lee, H. Janjua, R. Xiao, R. Shastry, T. B. Acton, G. T. Montelione, L. Tong
A Large Conformational Change In The Putative Atp Pyrophosphatase Pf0828 Induced By Atp Binding.
Acta Crystallogr. , Sect. F V. 67 1323 2011
PubMed-ID: 22102225  |  Reference-DOI: 10.1107/S1744309111031447

(-) Compounds

Molecule 1 - N-TYPE ATP PYROPHOSPHATASE SUPERFAMILY
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET21
    Expression System Strain: BL21(DE3)+MAGIC
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PF0828
    Organism Scientific: PYROCOCCUS FURIOSUS
    Organism Taxid: 186497
    Strain: DSM 3638

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1AMP1Ligand/IonADENOSINE MONOPHOSPHATE
2MSE5Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (2, 12)
No.NameCountTypeFull Name
1AMP2Ligand/IonADENOSINE MONOPHOSPHATE
2MSE10Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:10 , SER A:12 , GLY A:14 , LYS A:15 , ASP A:16 , SER A:17 , MSE A:37 , ALA A:96 , GLY A:97 , ALA A:100 , GLN A:104 , ARG A:107 , HOH A:238 , HOH A:269 , HOH A:279BINDING SITE FOR RESIDUE AMP A 301

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3RK0)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3RK0)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3RK0)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3RK0)

(-) Exons   (0, 0)

(no "Exon" information available for 3RK0)

(-) Sequences/Alignments

Asymmetric Unit
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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:214
 aligned with Q8U2K6_PYRFU | Q8U2K6 from UniProtKB/TrEMBL  Length:229

    Alignment length:228
                                                                                                                                                                                                                                                           229  
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223     |  
         Q8U2K6_PYRFU     4 LADVAVLYSGGKDSNYALYWAIKNRFSVKFLVTMVSENEESYMYHTINANLTDLQARALGIPLVKGFTQGEKEKEVEDLKRVLSGLKIQGIVAGALASKYQRKRIEKVAKELGLEVYTPAWGRDAKEYMRELLNLGFKIMVVGVSAYGLDESWLGRILDESALEELITLNEKYKVHVAGEGGEFETFVLDMPLFKYKIVVDKAKKVWEPCTSSGKLIIEEAHLESK--   -
               SCOP domains d3rk0a_ A: Putative N-type ATP pyrophos   phatase PF0828                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains -ATP_bind_4-3rk0A01 A:5-226                                                                                                                                                                                                    ----- Pfam domains
         Sec.struct. author ..eeeee...hhhhhhhhhhhhhh..eeeeeeeeee...---...hhhhhhhhhhhhhhh..eeeeee-----hhhhhhhhhhh.....eee.......hhhhhhhhhhhhhh.eee...--.hhhhhhhhhhhh..eeee.eee....hhhhh....hhhhhhhhhhhhhhhh...........eeeee.....eeeeeee..ee----..eeee...eeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3rk0 A   4 LADVAVLYSGGKDSNYALYWAIKNRFSVKFLVTmVSENE---mYHTINANLTDLQARALGIPLVKGFT-----KEVEDLKRVLSGLKIQGIVAGALASKYQRKRIEKVAKELGLEVYTPA--RDAKEYmRELLNLGFKImVVGVSAYGLDESWLGRILDESALEELITLNEKYKVHVAGEGGEFETFVLDmPLFKYKIVVDKAKKV----TSSGKLIIEEAHLESKLE 231
                                    13        23        33   |    |-  |     53        63       | -   |    83        93       103       113       123  |    133       143       153       163       173       183       193|      203     |   -|      223        
                                                            37-MSE2   |                       71    77                                           123  |     |        143-MSE                                            194-MSE        209  214                 
                                                                     46-MSE                                                                         126     |                                                                                                   
                                                                                                                                                          132-MSE
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 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0 ; only for superseded entry 3H7E: 2,2)

(no "CATH Domain" information available for 3RK0, only for superseded entry 3H7E replaced by 3RK0)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: HUP (230)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q8U2K6_PYRFU | Q8U2K6)
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

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

UniProtKB/TrEMBL
        Q8U2K6_PYRFU | Q8U2K6: 3rjz 3rk1

(-) Related Entries Specified in the PDB File

3rjz THIS IS THE APO STRUCTURE
3rk1 THIS IS THE ATP-BOUND STRUCTURE