2F02 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF LACC FROM ENTEROCOCCUS FAECALIS IN COMPLEX WITH ATP

Authors :   J. Gorman, L. Shapiro, S. K. Burley, New York Sgx Research Center F Structural Genomics (Nysgxrc)

Date :   10 Nov 05 (Deposition) - 22 Nov 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   Lacc, Structural Genomics, Psi, Protein Structure Initiative, New York Sgx Research Center For Structural Genomics, Nysgxrc, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Gorman, L. Shapiro
Crystal Structure Of Lacc From Enterococcus Faecalis In Complex With Atp
To Be Published
PubMed: search

Molecule 1 - TAGATOSE-6-PHOSPHATE KINASE
	Chains	:	A, B
	EC Number	:	2.7.1.144
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	MODIFIED PET26B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector Type	:	PLASMID
	Gene	:	LACC
	Organism Scientific	:	ENTEROCOCCUS FAECALIS
	Organism Taxid	:	226185
	Strain	:	V583

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 14)

No.	Name	Count	Type	Full Name
1	ATP	2	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
2	MSE	12	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS B:183 , ASN B:185 , SER B:223 , LEU B:224 , GLY B:225 , LYS B:226 , GLY B:228 , ILE B:242 , ILE B:245 , SER B:253 , GLY B:254 , THR B:257 , MSE B:279 , GLY B:282 , MSE B:283 , HOH B:418 , HOH B:439 , HOH B:468 , HOH B:509 , HOH B:512 , HOH B:566 , HOH B:600	BINDING SITE FOR RESIDUE ATP B 410
2	AC2	SOFTWARE	LYS A:183 , ASN A:185 , SER A:223 , LEU A:224 , GLY A:225 , GLY A:228 , ILE A:242 , ILE A:245 , GLY A:252 , SER A:253 , GLY A:254 , ASP A:255 , THR A:257 , MSE A:279 , GLY A:282 , MSE A:283 , HOH A:448 , HOH A:489 , HOH A:537 , HOH A:619	BINDING SITE FOR RESIDUE ATP A 411

(no "SS Bond" information available for 2F02)

(no "Cis Peptide Bond" information available for 2F02)

(no "SAP(SNP)/Variant" information available for 2F02)

Asymmetric/Biological Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PFKB_KINASES_1	PS00583	pfkB family of carbohydrate kinases signature 1.	LACC_ENTFA	36-60	2	A:36-60 B:36-60
2	PFKB_KINASES_2	PS00584	pfkB family of carbohydrate kinases signature 2.	LACC_ENTFA	249-262	2	A:249-262 B:249-262

(no "Exon" information available for 2F02)

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:319
 aligned with LACC_ENTFA | Q833W9 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:319
                             1                                                                                                                                                                                                                                                                                                                     313     
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309   |     
           LACC_ENTFA     - -MIVTVTMNPSIDISYLLDHLKLDTVNRTSQVTKTPGGKGLNVTRVIHDLGGDVIATGVLGGFHGAFIANELKKANIPQAFTSIKEETRDSIAILHEGNQTEILEAGPTVSPEEISNFLENFDQLIKQAEIVTISGSLAKGLPSDFYQELVQKAHAQEVKVLLDTSGDSLRQVLQGPWKPYLIKPNLEELEGLLGQDFSENPLAAVQTALTKPMFAGIEWIVISLGKDGAIAKHHDQFYRVKIPTIQAKNPVGSGDATIAGLAYGLAKDAPAAELLKWGMAAGMANAQERMTGHVDVENVKKHLMNIQVVEIAK-----   -
               SCOP domains d2f02a_ A: automated matches                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...eeeeeee........eeee..eeeeeehhhhhhhhhhhhhh..eeeeeeeehhhhhhhhhhhhhh......eee....eeeeeeee..eeeeeee.....hhhhhhhhhhhhhhhhh...eeeee.........hhhhhhhhhhhhh..eeeee..hhhhhhhhhh.....ee..hhhhhhhhhh......hhhhhhhhhhhhhhh...eeeee.hhh.eeeee..eeeeee..........hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh......hhhhhhhhhh..eeee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------PFKB_KINASES_1           --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PFKB_KINASES_2-------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2f02 A   0 SLIVTVTmNPSIDISYLLDHLKLDTVNRTSQVTKTPGGKGLNVTRVIHDLGGDVIATGVLGGFHGAFIANELKKANIPQAFTSIKEETRDSIAILHEGNQTEILEAGPTVSPEEISNFLENFDQLIKQAEIVTISGSLAKGLPSDFYQELVQKAHAQEVKVLLDTSGDSLRQVLQGPWKPYLIKPNLEELEGLLGQDFSENPLAAVQTALTKPmFAGIEWIVISLGKDGAIAKHHDQFYRVKIPTIQAKNPVGSGDATIAGLAYGLAKDAPAAELLKWGmAAGmANAQERmTGHVDVENVKKHLmNIQVVEIAKEGHHH 318
                                   | 9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209   |   219       229       239       249       259       269       279   |   289|      299    |  309         
                                   7-MSE                                                                                                                                                                                                       213-MSE                                                           279-MSE      |           304-MSE          
                                                                                                                                                                                                                                                                                                                     283-MSE  |                            
                                                                                                                                                                                                                                                                                                                            290-MSE

Chain B from PDB  Type:PROTEIN  Length:314
 aligned with LACC_ENTFA | Q833W9 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:314
                             1                                                                                                                                                                                                                                                                                                                        
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309    
           LACC_ENTFA     - -MIVTVTMNPSIDISYLLDHLKLDTVNRTSQVTKTPGGKGLNVTRVIHDLGGDVIATGVLGGFHGAFIANELKKANIPQAFTSIKEETRDSIAILHEGNQTEILEAGPTVSPEEISNFLENFDQLIKQAEIVTISGSLAKGLPSDFYQELVQKAHAQEVKVLLDTSGDSLRQVLQGPWKPYLIKPNLEELEGLLGQDFSENPLAAVQTALTKPMFAGIEWIVISLGKDGAIAKHHDQFYRVKIPTIQAKNPVGSGDATIAGLAYGLAKDAPAAELLKWGMAAGMANAQERMTGHVDVENVKKHLMNIQVVEIAK 313
               SCOP domains d2f02b_ B: automated matches                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee...eeeeeee........eeee..eeeeeehhhhhhhhhhhhhh.eeeeeeeeehhhhhhhhhhhhhh......eee....eeeeeeee..eeeeeee.....hhhhhhhhhhhhhhhhhh..eeeee.........hhhhhhhhhhhhh..eeeee.hhhhhhhhhhh.....ee..hhhhhhhhhh.....hhhhhhhhhhhhhhhh...eeeee.hhh.eeeee..eeeeee..........hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh......hhhhhhhhhh..eeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------PFKB_KINASES_1           --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PFKB_KINASES_2--------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2f02 B   0 SLIVTVTmNPSIDISYLLDHLKLDTVNRTSQVTKTPGGKGLNVTRVIHDLGGDVIATGVLGGFHGAFIANELKKANIPQAFTSIKEETRDSIAILHEGNQTEILEAGPTVSPEEISNFLENFDQLIKQAEIVTISGSLAKGLPSDFYQELVQKAHAQEVKVLLDTSGDSLRQVLQGPWKPYLIKPNLEELEGLLGQDFSENPLAAVQTALTKPmFAGIEWIVISLGKDGAIAKHHDQFYRVKIPTIQAKNPVGSGDATIAGLAYGLAKDAPAAELLKWGmAAGmANAQERmTGHVDVENVKKHLmNIQVVEIAK 313
                                   | 9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209   |   219       229       239       249       259       269       279   |   289|      299    |  309    
                                   7-MSE                                                                                                                                                                                                       213-MSE                                                           279-MSE      |           304-MSE     
                                                                                                                                                                                                                                                                                                                     283-MSE  |                       
                                                                                                                                                                                                                                                                                                                            290-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: Ribokinase-like (226)

Superfamily: Ribokinase-like (189)

Family: automated matches (88)

Protein domain: automated matches (88)

Enterococcus faecalis [TaxId: 226185] (3)

1a	d2f02a_	A:
1b	d2f02b_	B:

(no "CATH Domain" information available for 2F02)

(no "Pfam Domain" information available for 2F02)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (LACC_ENTFA | Q833W9)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	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.
	GO:0016773	phosphotransferase activity, alcohol group as acceptor	Catalysis of the transfer of a phosphorus-containing group from one compound (donor) to an alcohol group (acceptor).
	GO:0009024	tagatose-6-phosphate kinase activity	Catalysis of the reaction: ATP + D-tagatose 6-phosphate = ADP + D-tagatose 1,6-bisphosphate.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:2001059	D-tagatose 6-phosphate catabolic process	The chemical reactions and pathways resulting in the breakdown of a D-tagatose 6-phosphate.
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	GO:0019512	lactose catabolic process via tagatose-6-phosphate	The chemical reactions and pathways resulting in the breakdown of lactose, via the intermediate tagatose-6-phosphate.
	GO:0005988	lactose metabolic process	The chemical reactions and pathways involving lactose, the disaccharide galactopyranosyl-glucose.
	GO:0016310	phosphorylation	The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.

Asymmetric/Biological Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		ATP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MSE	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2f02)

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym./Biol. Unit PNG format \| Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	2f02
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	LACC_ENTFA \| Q833W9
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/SwissProt

Access by Enzyme Classificator (EC Number)
	2.7.1.144
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	LACC_ENTFA \| Q833W9
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/Swiss-Prot
	LACC_ENTFA \| Q833W9	:	2awd

2awd	SAME PROTEIN WITHOUT ATP RELATED ID: NYSGXRC-T2082 RELATED DB: TARGETDB

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 14)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (2, 4)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (11, 11)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File