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Asym./Biol. Unit (Jmol Viewer)

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Title :   PUTATIVE NAGD PROTEIN

Authors :   M. E. Cuff, T. Skarina, A. Savchenko, A. Edwards, A. Joachimiak, Midwest Center For Structural Genomics (Mcsg)

Date :   30 Jun 03 (Deposition) - 02 Mar 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

Chains :   Asym./Biol. Unit : A

Keywords :   Nagd Protein, T. Maritima, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. E. Cuff, T. Skarina, A. Savchenko, A. Edwards, A. Joachimiak
Putative Nagd Protein
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - NAGD PROTEIN, PUTATIVE
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	TM1742
	Organism Scientific	:	THERMOTOGA MARITIMA
	Organism Taxid	:	2336

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 10)

No.	Name	Count	Type	Full Name
1	MSE	7	Mod. Amino Acid	SELENOMETHIONINE
2	NDG	1	Ligand/Ion	2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
3	SO4	2	Ligand/Ion	SULFATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:233 , PRO A:234 , GLU A:235 , ARG A:239 , HOH A:358	BINDING SITE FOR RESIDUE NDG A 254
2	AC2	SOFTWARE	ARG A:209 , LEU A:210 , TYR A:211 , THR A:212	BINDING SITE FOR RESIDUE SO4 A 301
3	AC3	SOFTWARE	ASP A:11 , THR A:44 , ASN A:45 , LYS A:183 , ARG A:209 , HOH A:321 , HOH A:379	BINDING SITE FOR RESIDUE SO4 A 302

(no "SS Bond" information available for 1PW5)

Asymmetric/Biological Unit

No.	Residues
1	Lys A:183	-	Pro A:184

(no "SAP(SNP)/Variant" information available for 1PW5)

(no "PROSITE Motif" information available for 1PW5)

(no "Exon" information available for 1PW5)

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:253
 aligned with Q9X264_THEMA | Q9X264 from UniProtKB/TrEMBL  Length:259

    Alignment length:253
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250   
         Q9X264_THEMA     1 MLDKIELFILDMDGTFYLDDSLLPGSLEFLETLKEKNKRFVFFTNNSSLGAQDYVRKLRNMGVDVPDDAVVTSGEITAEHMLKRFGRCRIFLLGTPQLKKVFEAYGHVIDEENPDFVVLGFDKTLTYERLKKACILLRKGKFYIATHPDINCPSKEGPVPDAGSIMAAIEASTGRKPDLIAGKPNPLVVDVISEKFGVPKERMAMVGDRLYTDVKLGKNAGIVSILVLTGETTPEDLERAETKPDFVFKNLGE 253
               SCOP domains d1pw5a_ A: Hypothetical protein TM1742                                                                                                                                                                                                                        SCOP domains
               CATH domains -1pw5A01 A:2-72,A:181-253  [code=3.40.50.1000, no name defined]         1pw5A02 A:73-180 4-nitrophenylphosphatase; domain 2                                                         1pw5A01 A:2-72,A:181-253  [code=3.40.50.1000, no name defined]            CATH domains
               Pfam domains -------Hydrolase_6-1pw5A01 A:8-108                                                                          -----------------------------------------------------------------------Hydrolase_like-1pw5A02 A:180-253                                           Pfam domains
         Sec.struct. author ......eeee......ee..ee..hhhhhhhhhhhh..eeeeee.....hhhhhhhhhhhhh.......eeehhhhhhhhhhhhh...eeeee.hhhhhhhhhhh..ee......eeee......hhhhhhhhhhhhhh..eeee.....ee......eehhhhhhhhhhhhhh....ee.....hhhhhhhhhhhh.hhh.eeeee...hhhhhhhhhhh.eeeee.............eee.hhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1pw5 A   1 mLDKIELFILDmDGTFYLDDSLLPGSLEFLETLKEKNKRFVFFTNNSSLGAQDYVRKLRNmGVDVPDDAVVTSGEITAEHmLKRFGRCRIFLLGTPQLKKVFEAYGHVIDEENPDFVVLGFDKTLTYERLKKACILLRKGKFYIATHPDINCPSKEGPVPDAGSImAAIEASTGRKPDLIAGKPNPLVVDVISEKFGVPKERmAmVGDRLYTDVKLGKNAGIVSILVLTGETTPEDLERAETKPDFVFKNLGE 253
                            |       10 |      20        30        40        50        60|       70        80|       90       100       110       120       130       140       150       160     | 170       180       190       200  | |  210       220       230       240       250   
                            |         12-MSE                                           61-MSE              81-MSE                                                                              166-MSE                              203-MSE                                              
                            1-MSE                                                                                                                                                                                                     205-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/Biological 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: NagD-like (9)

Protein domain: Hypothetical protein TM1742 (2)

Thermotoga maritima [TaxId: 2336] (2)

d1pw5a_

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Rossmann fold (7312)

Homologous Superfamily: [code=3.40.50.1000, no name defined] (211)

Thermotoga maritima. Organism_taxid: 2336. (2)

1pw5A01

A:2-72,A:181-253

Homologous Superfamily: 4-nitrophenylphosphatase; domain 2 (12)

Thermotoga maritima. Organism_taxid: 2336. (2)

1pw5A02

A:73-180

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: HAD (186)

Family: Hydrolase_6 (9)

Thermotoga maritima (2)

Hydrolase_6-1pw5A01

A:8-108

Family: Hydrolase_like (9)

Thermotoga maritima (2)

Hydrolase_like-1pw5A02

A:180-253

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q9X264_THEMA | Q9X264)

molecular function
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0016791	phosphatase activity	Catalysis of the hydrolysis of phosphoric monoesters, releasing inorganic phosphate.
biological process
	GO:0016311	dephosphorylation	The process of removing one or more phosphoric (ester or anhydride) residues from a molecule.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Lys A:183 - Pro A:184	[ RasMol ]

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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 10)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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