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Asym./Biol. Unit (Jmol Viewer)

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Title :   A METAZOAN ORTHOLOG OF SPOT HYDROLYZES PPGPP AND PLAYS A ROLE IN STARVATION RESPONSES

Authors :   D. W. Sun, H. Y. Kim, K. J. Kim, Y. H. Jeon, J. Chung

Date :   30 Jun 10 (Deposition) - 08 Sep 10 (Release) - 09 Oct 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.90

Chains :   Asym./Biol. Unit : A,B

Keywords :   Stringent Response, Pyrophosphohydrolase, Hd (Histidine And Aspartic Acid) Family , Ppgpp Hydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. W. Sun, G. Lee, J. H. Lee, H. Y. Kim, H. W. Rhee, S. Y. Park, K. J. Kim, Y. Kim, B. Y. Kim, J. I. Hong, C. Park, H. E. Choy, J. H. Kim, Y. H. Jeon, J. Chung
A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Functions In Starvation Responses
Nat. Struct. Mol. Biol. V. 17 1188 2010
PubMed-ID: 20818390 | Reference-DOI: 10.1038/NSMB.1906

Molecule 1 - CG11900
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL23(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PET28(A)
	Gene	:	CG11900, DMEL_CG11900
	Organism Common	:	FRUIT FLY
	Organism Scientific	:	DROSOPHILA MELANOGASTER
	Organism Taxid	:	7227
	Synonym	:	IP06614P, METAZOAN SPOT HOMOLOG 1, MESH1

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 4)

No.	Name	Count	Type	Full Name
1	MN	2	Ligand/Ion	MANGANESE (II) ION
2	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:33 , HIS A:36 , HIS A:62 , ASP A:63 , ASP A:123	BINDING SITE FOR RESIDUE MN A 300
2	AC2	SOFTWARE	LYS A:98 , LYS A:102 , TRP A:139	BINDING SITE FOR RESIDUE SO4 A 301
3	AC3	SOFTWARE	TYR B:33 , HIS B:36 , HIS B:62 , ASP B:63 , ASP B:123	BINDING SITE FOR RESIDUE MN B 300
4	AC4	SOFTWARE	LYS B:98 , LYS B:102 , TRP B:139 , ARG B:143 , TYR B:147	BINDING SITE FOR RESIDUE SO4 B 301

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

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

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

Asymmetric/Biological Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	HD	PS51831	HD domain profile.	MESH1_DROME	33-128	2	A:33-128 B:33-128

(no "Exon" information available for 3NQW)

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
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Chain A from PDB  Type:PROTEIN  Length:178
 aligned with MESH1_DROME | Q9VAM9 from UniProtKB/Swiss-Prot  Length:179

    Alignment length:178
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171        
          MESH1_DROME     2 ATYPSAKFMECLQYAAFKHRQQRRKDPQETPYVNHVINVSTILSVEACITDEGVLMAALLHDVVEDTDASFEDVEKLFGPDVCGLVREVTDDKSLEKQERKRLQIENAAKSSCRAKLIKLADKLDNLRDLQVNTPTGWTQERRDQYFVWAKKVVDNLRGTNANLELKLDEIFRQRGLL 179
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh............hhhhhhhhhhhhhh.....hhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------HD  PDB: A:33-128 UniProt: 33-128                                                               --------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3nqw A   2 ATYPSAKFMECLQYAAFKHRQQRRKDPQETPYVNHVINVSTILSVEACITDEGVLMAALLHDVVEDTDASFEDVEKLFGPDVCGLVREVTDDKSLEKQERKRLQIENAAKSSCRAKLIKLADKLDNLRDLQVNTPTGWTQERRDQYFVWAKKVVDNLRGTNANLELKLDEIFRQRGLL 179
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171

Chain B from PDB  Type:PROTEIN  Length:178
 aligned with MESH1_DROME | Q9VAM9 from UniProtKB/Swiss-Prot  Length:179

    Alignment length:178
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171        
          MESH1_DROME     2 ATYPSAKFMECLQYAAFKHRQQRRKDPQETPYVNHVINVSTILSVEACITDEGVLMAALLHDVVEDTDASFEDVEKLFGPDVCGLVREVTDDKSLEKQERKRLQIENAAKSSCRAKLIKLADKLDNLRDLQVNTPTGWTQERRDQYFVWAKKVVDNLRGTNANLELKLDEIFRQRGLL 179
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------------HD-3nqwB01 B:33-128                                                                             --------------------------------------------------- Pfam domains (1)
           Pfam domains (2) -------------------------------HD-3nqwB02 B:33-128                                                                             --------------------------------------------------- Pfam domains (2)
         Sec.struct. author ....hhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------HD  PDB: B:33-128 UniProt: 33-128                                                               --------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3nqw B   2 ATYPSAKFMECLQYAAFKHRQQRRKDPQETPYVNHVINVSTILSVEACITDEGVLMAALLHDVVEDTDASFEDVEKLFGPDVCGLVREVTDDKSLEKQERKRLQIENAAKSSCRAKLIKLADKLDNLRDLQVNTPTGWTQERRDQYFVWAKKVVDNLRGTNANLELKLDEIFRQRGLL 179
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171

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 '\|'

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

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

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: HD_PDEase (93)

Family: HD (9)

Drosophila melanogaster (Fruit fly) (1)

1a	HD-3nqwB01	B:33-128
1b	HD-3nqwB02	B:33-128

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (MESH1_DROME | Q9VAM9)

molecular function
	GO:0008728	GTP diphosphokinase activity	Catalysis of the reaction: ATP + GTP = AMP + guanosine 3'-diphosphate 5'-triphosphate.
	GO:0008893	guanosine-3',5'-bis(diphosphate) 3'-diphosphatase activity	Catalysis of the reaction: guanosine 3',5'-bis(diphosphate) + H2O = guanosine 5'-diphosphate + diphosphate.
	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:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0015971	guanosine tetraphosphate catabolic process	The chemical reactions and pathways resulting in the breakdown of guanine tetraphosphate (5'-ppGpp-3'), a derivative of guanine riboside with four phosphates.
	GO:0042594	response to starvation	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a starvation stimulus, deprivation of nourishment.

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Description

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Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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SAPs(SNPs)/Variants (0, 0)

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