3Q4W - JenaLib

Title :   THE STRUCTURE OF ARCHAEAL INORGANIC PYROPHOSPHATASE IN COMPLEX WITH SUBSTRATE

Authors :   R. C. Hughes, E. J. Meehan, L Coates, J. D. Ng

Date :   24 Dec 10 (Deposition) - 04 Jan 12 (Release) - 17 Sep 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.44

Chains :   Asym. Unit : A
Biol. Unit 1: A  (6x)

Keywords :   Inorganic Pyrophosphatase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. C. Hughes, L. Coates, M. P. Blakeley, S. J. Tomanicek, P. Langan, A. Y. Kovalevsky, J. M. Garcia-Ruiz, J. D. Ng
Inorganic Pyrophosphatase Crystals From Thermococcus Thioreducens For X-Ray And Neutron Diffraction.
Acta Crystallogr. , Sect. F V. 68 1482 2012
PubMed-ID: 23192028 | Reference-DOI: 10.1107/S1744309112032447

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 6)

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:98 , ASP A:103 , HOH A:205 , POP A:227 , HOH A:302	BINDING SITE FOR RESIDUE CA A 224
2	AC2	SOFTWARE	ASP A:66 , ASP A:71 , ASP A:103 , HOH A:189 , POP A:227 , HOH A:228	BINDING SITE FOR RESIDUE CA A 225
3	AC3	SOFTWARE	LYS A:30 , ARG A:44 , TYR A:56 , ASP A:66 , ASP A:71 , ASP A:98 , ASP A:103 , TYR A:140 , LYS A:141 , HOH A:205 , CA A:224 , CA A:225 , HOH A:228 , HOH A:230 , BR A:279 , HOH A:281 , NA A:283 , CA A:284 , HOH A:345	BINDING SITE FOR RESIDUE POP A 227
4	AC4	SOFTWARE	GLU A:22 , TYR A:56 , GLY A:57 , ASP A:71 , POP A:227 , NA A:283 , HOH A:317	BINDING SITE FOR RESIDUE BR A 279
5	AC5	SOFTWARE	ASP A:71 , POP A:227 , HOH A:228 , BR A:279 , HOH A:292 , HOH A:317	BINDING SITE FOR RESIDUE NA A 283
6	AC6	SOFTWARE	ASP A:66 , ASP A:68 , POP A:227 , HOH A:280 , HOH A:281 , HOH A:448 , HOH A:450 , HOH A:451	BINDING SITE FOR RESIDUE CA A 284

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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
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Chain A from PDB  Type:PROTEIN  Length:175
 aligned with H2L2L6_9EURY | H2L2L6 from UniProtKB/TrEMBL  Length:178

    Alignment length:175
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170     
         H2L2L6_9EURY     1 MNPFHELEPGPEVPEVVYALIEIPKGSRNKYELDKATGLLKLDRVLYSPFFYPVDYGIIPQTWYDDGDPFDIMVIMREPVYPLTIIEARPIGIMKMEDSGDKDWKVLAVPVEDPYFNDWKDISDVPKAFLDEIAHFFQRYKELQGKTTKIEGWGNAEEAKREILRAIEMYKEKFG 175
               SCOP domains d3q4wa_ A: automated matches                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhh.........eeeeeee.....eeeee......eeeeee.........eeee............eeee..........eeeeeeeeeeeeee..ee..eeeeee..hhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3q4w A   1 MNPFHELEPGPEVPEVVYALIEIPKGSRNKYELDKKTGLLKLDRVLYSPFFYPVDYGIIPQTWYDDGDPFDIMVIMREPVYPLTIIEARPIGIMKMEDSGDKDWKVLAVPVEDPYFNDWKDISDVPKAFLDEIAHFFQRYKELQGKTTKIEGWGNAEEAKREILRAIEMYKEKFG 175
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170

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, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (6, 6)

Asymmetric Unit(hide GO term definitions)

Chain A (H2L2L6_9EURY | H2L2L6)

molecular function
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0004427	inorganic diphosphatase activity	Catalysis of the reaction: diphosphate + H(2)O = H(+) + 2 phosphate.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0006796	phosphate-containing compound metabolic process	The chemical reactions and pathways involving the phosphate group, the anion or salt of any phosphoric acid.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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