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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF MANNOSYL-3-PHOSPHOGLYCERATE PHOSPHATASE FROM PYROCOCCUS HORIKOSHII

Authors :   T. Kawamura, N. Watanabe, I. Tanaka

Date :   05 Jun 08 (Deposition) - 27 Jan 09 (Release) - 27 Jan 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.70

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)

Keywords :   Haloacid Dehalogenase Like Hydrolase, Phosphatase, Mannosylglycerate, Cytoplasm, Hydrolase, Magnesium (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. Kawamura, N. Watanabe, I. Tanaka
Structure Of Mannosyl-3-Phosphoglycerate Phosphatase From Pyrococcus Horikoshii.
Acta Crystallogr. , Sect. D V. 64 1267 2008
PubMed-ID: 19018103 | Reference-DOI: 10.1107/S0907444908033817
(for further references see the PDB file header)

Molecule 1 - MANNOSYL-3-PHOSPHOGLYCERATE PHOSPHATASE
	Chains	:	A, B
	EC Number	:	3.1.3.70
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET-26B
	Expression System Strain	:	B834(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	MNGB, PH0926
	Mutation	:	YES
	Organism Scientific	:	PYROCOCCUS HORIKOSHII
	Organism Taxid	:	53953
	Strain	:	OT3
	Synonym	:	MPGP

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 12)

No.	Name	Count	Type	Full Name
1	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (1, 6)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 2 (1, 6)

No.	Name	Count	Type	Full Name
1	MSE	6	Mod. Amino Acid	SELENOMETHIONINE

(no "Site" information available for 2ZOS)

(no "SS Bond" information available for 2ZOS)

(no "Cis Peptide Bond" information available for 2ZOS)

(no "SAP(SNP)/Variant" information available for 2ZOS)

(no "PROSITE Motif" information available for 2ZOS)

(no "Exon" information available for 2ZOS)

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
	(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:238
 aligned with MPGP_PYRHO | O58690 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:244
                                                                                                                                                                                                                                                                            243 
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240  | 
           MPGP_PYRHO     1 MIRLIFLDIDKTLIPGYEPDPAKPIIEELKDMGFEIIFNSSKTRAEQEYYRKELEVETPFISENGSAIFIPKGYFPFDVKGKEVGNYIVIELGIRVEKIREELKKLENIYGLKYYGNSTKEEIEKFTGMPPELVPLAMEREYSETIFEWSRDGWEEVLVEGGFKVTMGSRFYTVHGNSDKGKAAKILLDFYKRLGQIESYAVGDSYNDFPMFEVVDKAFIVGSLKHKKAQNVSSIIDVLEVIK-   -
               SCOP domains d2zosa_ A: automated matches                                                                                                                                                                                                                         SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...........hhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhh....eee....eee.......------......eee...hhhhhhhhhhhhhhhhh.ee.hhhhhhhhhhhhh....hhhhhhh....eeeee....hhhhhhhhh..eeee....eeee...hhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhh...eeeee.......eeee.hhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zos A   1 mIRLIFLDIDKTLIPGYEPDPAKPIIEELKDmGFEIIFNSSKTRAEQEYYRKELEVETPFISENGSAIFIPKGYFP------EVGNYIVIELGIRVEKIREELKKLENIYGLKYYGNSTKEEIEKFTGmPPELVPLAmEREYSETIFEWSRDGWEEVLVEGGFKVTmGSRFYTVHGNSDKGKAAKILLDFYKRLGQIESYAVGDSYNDFPmFEVVDKVFIVGSLKHKKAQNVSSIIDVLEVIKH 244
                            |       10        20        30 |      40        50        60        70     |   -  |     90       100       110       120       130       140       150       160      |170       180       190       200       210|      220       230       240    
                            |                             32-MSE                                      76     83                                           129-MSE  138-MSE                      167-MSE                                     211-MSE                             
                            1-MSE

Chain B from PDB  Type:PROTEIN  Length:243
 aligned with MPGP_PYRHO | O58690 from UniProtKB/Swiss-Prot  Length:243

    Alignment length:243
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240   
           MPGP_PYRHO     1 MIRLIFLDIDKTLIPGYEPDPAKPIIEELKDMGFEIIFNSSKTRAEQEYYRKELEVETPFISENGSAIFIPKGYFPFDVKGKEVGNYIVIELGIRVEKIREELKKLENIYGLKYYGNSTKEEIEKFTGMPPELVPLAMEREYSETIFEWSRDGWEEVLVEGGFKVTMGSRFYTVHGNSDKGKAAKILLDFYKRLGQIESYAVGDSYNDFPMFEVVDKAFIVGSLKHKKAQNVSSIIDVLEVIK 243
               SCOP domains d2zosb_ B: automated matches                                                                                                                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------------------------------------------------------------------------------Hydrolase_3-2zosB01 B:83-239                                                                                                                                 ---- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------Hydrolase_3-2zosB02 B:83-239                                                                                                                                 ---- Pfam domains (2)
           Pfam domains (3) ----------------------------------------------------------------------------------Hydrolase_3-2zosB03 B:83-239                                                                                                                                 ---- Pfam domains (3)
           Pfam domains (4) ----------------------------------------------------------------------------------Hydrolase_3-2zosB04 B:83-239                                                                                                                                 ---- Pfam domains (4)
         Sec.struct. author .eeeeee...........hhhhhhhhhhhhhh.eeeee....hhhhhhhhhhhhh....eee....eeeee..........eee..eeeee...hhhhhhhhhhhhhhhhh.ee.hhhhhhhhhhhhh.hhhhhhhhh.....eeeee....hhhhhhhhh..eeee....eeee...hhhhhhhhhhhhhhhhh.eeeeeee.hhhhhhhhh...eeeee.......eeee.hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2zos B   1 mIRLIFLDIDKTLIPGYEPDPAKPIIEELKDmGFEIIFNSSKTRAEQEYYRKELEVETPFISENGSAIFIPKGYFPFDVKGKEVGNYIVIELGIRVEKIREELKKLENIYGLKYYGNSTKEEIEKFTGmPPELVPLAmEREYSETIFEWSRDGWEEVLVEGGFKVTmGSRFYTVHGNSDKGKAAKILLDFYKRLGQIESYAVGDSYNDFPmFEVVDKVFIVGSLKHKKAQNVSSIIDVLEVIK 243
                            |       10        20        30 |      40        50        60        70        80        90       100       110       120       130       140       150       160      |170       180       190       200       210|      220       230       240   
                            1-MSE                         32-MSE                                                                                          129-MSE  138-MSE                      167-MSE                                     211-MSE

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: HAD-like (349)

Superfamily: HAD-like (349)

Family: Predicted hydrolases Cof (35)

Protein domain: automated matches (6)

Pyrococcus horikoshii [TaxId: 53953] (1)

1a	d2zosa_	A:
1b	d2zosb_	B:

(no "CATH Domain" information available for 2ZOS)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: HAD (186)

Family: Hydrolase_3 (28)

Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) (2)

1a	Hydrolase_3-2zosB01	B:83-239
1b	Hydrolase_3-2zosB02	B:83-239
1c	Hydrolase_3-2zosB03	B:83-239
1d	Hydrolase_3-2zosB04	B:83-239

Asymmetric Unit(hide GO term definitions)

Chain A,B (MPGP_PYRHO | O58690)

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:0050531	mannosyl-3-phosphoglycerate phosphatase activity	Catalysis of the reaction: 2-(alpha-D-mannosyl)-3-phosphoglycerate + H(2)O = 2-(alpha-D-mannosyl)-D-glycerate + phosphate.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0016311	dephosphorylation	The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.
	GO:0051479	mannosylglycerate biosynthetic process	The chemical reactions and pathways resulting in the formation of mannosylglycerate, a very common compatible solute in thermophilic and hyperthermophilic organisms.
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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Biological Units
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	MPGP_PYRHO \| O58690	:	1wzc

1wzc	THE SAME PROTEIN COMPLEXED WITH PHOSPHATE AND MAGNESIUM.

Description

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