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Title :   CRYSTAL STRUCTURE OF E.COLI GUANYLATE KINASE IN COMPLEX WITH AP5G

Authors :   G. Hible, J. Cherfils

Date :   22 Nov 05 (Deposition) - 30 May 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.50

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (3x)

Keywords :   Transferase, Gmp Kinase, Guanylate Kinase, Nucleotide Analogue (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Hible, P. Daalova, A. M. Gilles, J. Cherfils
Crystal Structures Of Gmp Kinase In Complex With Ganciclovi Monophosphate And Ap5G.
Biochimie V. 88 1157 2006
PubMed-ID: 16690197 | Reference-DOI: 10.1016/J.BIOCHI.2006.04.002

Molecule 1 - GUANYLATE KINASE
	Chains	:	A, B
	EC Number	:	2.7.4.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET24A
	Expression System Strain	:	BLI5
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	GMK, SPOR
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	GMP KINASE

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (3x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	G5P	2	Ligand/Ion	P1-(5'-ADENOSYL)-P5-(5'-GUANOSYL) PENTAPHOSPHATE

Biological Unit 1 (1, 6)

No.	Name	Count	Type	Full Name
1	G5P	6	Ligand/Ion	P1-(5'-ADENOSYL)-P5-(5'-GUANOSYL) PENTAPHOSPHATE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:13 , GLY A:14 , ALA A:15 , GLY A:16 , LYS A:17 , SER A:18 , SER A:19 , LEU A:30 , TYR A:31 , GLN A:34 , SER A:38 , ARG A:42 , ARG A:45 , TYR A:54 , GLU A:73 , ALA A:75 , TYR A:82 , GLY A:83 , THR A:84 , THR A:95 , VAL A:97 , ASP A:102 , ILE A:103 , ASP A:104 , ARG A:133 , ARG A:134 , LEU A:135 , GLY A:137 , HOH A:606	BINDING SITE FOR RESIDUE G5P A 601
2	AC2	SOFTWARE	SER B:13 , GLY B:14 , ALA B:15 , GLY B:16 , LYS B:17 , SER B:18 , SER B:19 , TYR B:31 , GLN B:34 , SER B:38 , ARG B:42 , ARG B:45 , TYR B:54 , GLU B:73 , TYR B:82 , GLY B:83 , THR B:84 , THR B:95 , VAL B:97 , ASP B:102 , ILE B:103 , ASP B:104 , GLY B:107 , ARG B:134 , GLY B:137 , HOH B:604 , HOH B:609 , HOH B:610	BINDING SITE FOR RESIDUE G5P B 602

(no "SS Bond" information available for 2F3R)

(no "Cis Peptide Bond" information available for 2F3R)

(no "SAP(SNP)/Variant" information available for 2F3R)

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GUANYLATE_KINASE_2	PS50052	Guanylate kinase-like domain profile.	KGUA_ECOLI	4-184	2	A:4-184 B:4-184
2	GUANYLATE_KINASE_1	PS00856	Guanylate kinase-like signature.	KGUA_ECOLI	40-57	2	A:40-57 B:40-57

Biological Unit 1 (2, 12)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GUANYLATE_KINASE_2	PS50052	Guanylate kinase-like domain profile.	KGUA_ECOLI	4-184	6	A:4-184 B:4-184
2	GUANYLATE_KINASE_1	PS00856	Guanylate kinase-like signature.	KGUA_ECOLI	40-57	6	A:40-57 B:40-57

(no "Exon" information available for 2F3R)

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:201
 aligned with KGUA_ECOLI | P60546 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:205
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201     
           KGUA_ECOLI     2 AQGTLYIVSAPSGAGKSSLIQALLKTQPLYDTQVSVSHTTRQPRPGEVHGEHYFFVNHDEFKEMISRDAFLEHAEVFGNYYGTSREAIEQVLATGVDVFLDIDWQGAQQIRQKMPHARSIFILPPSKIELDRRLRGRGQDSEEVIAKRMAQAVAEMSHYAEYDYLIVNDDFDTALTDLKTIIRAERLRMSRQKQRHDALISKLLA 206
               SCOP domains d2f3ra_ A: Guanylate kinase                                                                                                                                                                                   SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee.....hhhhhhhhhhh......eee..eee.............eee.hhhhhhhhhhh..eeeeeee..eeeeeehhhhhhhhhh..eeeee.hhhhhhhhhhhh...eeeeee..hhhhhhhhhhh----hhhhhhhhhhhhhhhhhhhhhh.eeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --GUANYLATE_KINASE_2  PDB: A:4-184 UniProt: 4-184                                                                                                                                      ---------------------- PROSITE (1)
                PROSITE (2) --------------------------------------GUANYLATE_KINASE_1----------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2f3r A   2 AQGTLYIVSAPSGAGKSSLIQALLKTQPLYDTQVSVSHTTRQPRPGEVHGEHYFFVNHDEFKEMISRDAFLEHAEVFGNYYGTSREAIEQVLATGVDVFLDIDWQGAQQIRQKMPHARSIFILPPSKIELDRRLRG----SEEVIAKRMAQAVAEMSHYAEYDYLIVNDDFDTALTDLKTIIRAERLRMSRQKQRHDALISKLLA 206
                                    11        21        31        41        51        61        71        81        91       101       111       121       131     |   -|      151       161       171       181       191       201     
                                                                                                                                                                 137  142

Chain B from PDB  Type:PROTEIN  Length:199
 aligned with KGUA_ECOLI | P60546 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:203
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201   
           KGUA_ECOLI     2 AQGTLYIVSAPSGAGKSSLIQALLKTQPLYDTQVSVSHTTRQPRPGEVHGEHYFFVNHDEFKEMISRDAFLEHAEVFGNYYGTSREAIEQVLATGVDVFLDIDWQGAQQIRQKMPHARSIFILPPSKIELDRRLRGRGQDSEEVIAKRMAQAVAEMSHYAEYDYLIVNDDFDTALTDLKTIIRAERLRMSRQKQRHDALISKL 204
               SCOP domains d2f3rb_ B: Guanylate kinase                                                                                                                                                                                 SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee.....hhhhhhhhhhh......eee...ee..............ee.hhhhhhhhhhh..eeeeee....eeeeehhhhhhhhh...eeeee.hhhhhhhhhhhh...eeeeee..hhhhhhhhhh.----hhhhhhhhhhhhhhhhhhhhhh.eeee..hhhhhhhhhhhhhhhhh.hhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --GUANYLATE_KINASE_2  PDB: B:4-184 UniProt: 4-184                                                                                                                                      -------------------- PROSITE (1)
                PROSITE (2) --------------------------------------GUANYLATE_KINASE_1--------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2f3r B   2 AQGTLYIVSAPSGAGKSSLIQALLKTQPLYDTQVSVSHTTRQPRPGEVHGEHYFFVNHDEFKEMISRDAFLEHAEVFGNYYGTSREAIEQVLATGVDVFLDIDWQGAQQIRQKMPHARSIFILPPSKIELDRRLRG----SEEVIAKRMAQAVAEMSHYAEYDYLIVNDDFDTALTDLKTIIRAERLRMSRQKQRHDALISKL 204
                                    11        21        31        41        51        61        71        81        91       101       111       121       131     |   -|      151       161       171       181       191       201   
                                                                                                                                                                 137  142

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: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: Nucleotide and nucleoside kinases (231)

Protein domain: Guanylate kinase (13)

Escherichia coli [TaxId: 562] (6)

1a	d2f3ra_	A:
1b	d2f3rb_	B:

(no "CATH Domain" information available for 2F3R)

(no "Pfam Domain" information available for 2F3R)

Asymmetric Unit(hide GO term definitions)

Chain A,B (KGUA_ECOLI | P60546)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0004385	guanylate kinase activity	Catalysis of the reaction: ATP + GMP = ADP + GDP.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	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: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:0046710	GDP metabolic process	The chemical reactions and pathways involving GDP, guanosine 5'-diphosphate.
	GO:0046037	GMP metabolic process	The chemical reactions and pathways involving GMP, guanosine monophosphate.
	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.
	GO:0006163	purine nucleotide metabolic process	The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	2f3r
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	KGUA_ECOLI \| P60546	:	1s96 2an9 2anb 2anc 2f3t

2f3t	THE SAME PROTEIN COMPLEXED WITH GANCICLOVIR MONOPHOSPHATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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Exons (0, 0)

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