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Title :   CRYSTAL STRUCTURE OF YSXC COMPLEXED WITH GMPPNP

Authors :   S. N. Ruzheinikov, S. K. Das, S. E. Sedelnikova, P. J. Baker, P. J. Artymiuk, J. Garcia-Lara, S. J. Foster, D. W. Rice

Date :   30 Mar 04 (Deposition) - 25 May 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

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

Keywords :   Ysxc, Gtpase, Gtp-Binding Protein, Gmppnp, Gtp, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. N. Ruzheinikov, S. K. Das, S. E. Sedelnikova, P. J. Baker, P. J. Artymiuk, J. Garcia-Lara, S. J. Foster, D. W. Rice
Analysis Of The Open And Closed Conformations Of The Gtp-Binding Protein Ysxc From Bacillus Subtilis.
J. Mol. Biol. V. 339 265 2004
PubMed-ID: 15136032 | Reference-DOI: 10.1016/J.JMB.2004.03.043
(for further references see the PDB file header)

Molecule 1 - GTP-BINDING PROTEIN YSXC
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	YSXC, ENGB, BSU28190
	Organism Scientific	:	BACILLUS SUBTILIS
	Organism Taxid	:	1423

		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 (2, 4)

No.	Name	Count	Type	Full Name
1	GTP	2	Ligand/Ion	GUANOSINE-5'-TRIPHOSPHATE
2	MG	2	Ligand/Ion	MAGNESIUM ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	GTP	1	Ligand/Ion	GUANOSINE-5'-TRIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	GTP	1	Ligand/Ion	GUANOSINE-5'-TRIPHOSPHATE
2	MG	-1	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS A:36 , SER A:37 , THR A:59 , ASP A:75 , VAL A:76 , GTP A:401	BINDING SITE FOR RESIDUE MG A 300
2	AC2	SOFTWARE	LYS B:36 , SER B:37 , THR B:59 , ASP B:75 , GTP B:402	BINDING SITE FOR RESIDUE MG B 301
3	AC3	SOFTWARE	ASN A:33 , VAL A:34 , GLY A:35 , LYS A:36 , SER A:37 , SER A:38 , THR A:52 , SER A:53 , SER A:54 , GLY A:57 , LYS A:58 , THR A:59 , GLY A:78 , LYS A:143 , ASP A:145 , LYS A:146 , SER A:176 , MG A:300	BINDING SITE FOR RESIDUE GTP A 401
4	AC4	SOFTWARE	SER B:32 , ASN B:33 , VAL B:34 , GLY B:35 , LYS B:36 , SER B:37 , SER B:38 , THR B:52 , SER B:53 , SER B:54 , GLY B:57 , LYS B:58 , THR B:59 , GLY B:78 , THR B:142 , LYS B:143 , ASP B:145 , SER B:175 , SER B:176 , MG B:301	BINDING SITE FOR RESIDUE GTP B 402

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

(no "Cis Peptide Bond" information available for 1SVW)

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	G_ENGB	PS51706	EngB-type guanine nucleotide-binding (G) domain profile.	ENGB_BACSU	22-195	2	A:22-195 B:22-195

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	G_ENGB	PS51706	EngB-type guanine nucleotide-binding (G) domain profile.	ENGB_BACSU	22-195	1	A:22-195 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	G_ENGB	PS51706	EngB-type guanine nucleotide-binding (G) domain profile.	ENGB_BACSU	22-195	1	- B:22-195

(no "Exon" information available for 1SVW)

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:190
 aligned with ENGB_BACSU | P38424 from UniProtKB/Swiss-Prot  Length:195

    Alignment length:195
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190     
           ENGB_BACSU     1 MKVTKSEIVISAVKPEQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMINR 195
               SCOP domains d1s  vwa_ A: Probable GTPase EngB                                                                                                                                                                   SCOP domains
               CATH domains 1sv  wA00 A:1-195 P-loop containing nucleotide triphosphate hydrolases                                                                                                                              CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...--.eeeeee............eeeeee....hhhhhhhhhhh................eeeeee...eeeee........---hhhhhhhhhhhhhh.....eeeeeeeee.....hhhhhhhhhhhhhh......eeehhhhhhhhhhhhhhhhhhhhh.................hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------G_ENGB  PDB: A:22-195 UniProt: 22-195                                                                                                                                          PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1svw A   1 MKV--SEIVISAVKPEQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAK---SEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMINR 195
                              |  |  10        20        30        40        50        60        70        80  |   | 90       100       110       120       130       140       150       160       170       180       190     
                              3  6                                                                           83  87

Chain B from PDB  Type:PROTEIN  Length:189
 aligned with ENGB_BACSU | P38424 from UniProtKB/Swiss-Prot  Length:195

    Alignment length:195
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190     
           ENGB_BACSU     1 MKVTKSEIVISAVKPEQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMINR 195
               SCOP domains d1svwb_ B: Probable GTPase EngB                                                                                                                                                                     SCOP domains
               CATH domains 1svwB00 B:1-195 P-loop containing nucleotide triphosphate hydrolases                                                                                                                                CATH domains
           Pfam domains (1) ------------------------MMR_HSR1-1svwB01 B:25-143                                                                                              ---------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ------------------------MMR_HSR1-1svwB02 B:25-143                                                                                              ---------------------------------------------------- Pfam domains (2)
         Sec.struct. author .....ee...ee.hhhhh......eeeeee....hhhhhhhhhh.................eeeeee...eeeee......------hhhhhhhhhhhhhh....eeeeeeeee.....hhhhhhhhhhhhhhh....eeeehhhhh...hhhhhhhhhhhhh.................hhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------G_ENGB  PDB: B:22-195 UniProt: 22-195                                                                                                                                          PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1svw B   1 MKVTKSEIVISAVKPEQYPEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIINDELHFVDVPGYGF------EREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMINR 195
                                    10        20        30        40        50        60        70        80|      |90       100       110       120       130       140       150       160       170       180       190     
                                                                                                           81     88

Legend:		→ Mismatch	(orange background)
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	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(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

)

Organisms( (-)

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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: G proteins (693)

Protein domain: Probable GTPase EngB (4)

Bacillus subtilis [TaxId: 1423] (3)

1a	d1svwa_	A:
1b	d1svwb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

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

Topology: Rossmann fold (7312)

Homologous Superfamily: P-loop containing nucleotide triphosphate hydrolases (1378)

Bacillus subtilis. Organism_taxid: 1423. (11)

1a	1svwA00	A:1-195
1b	1svwB00	B:1-195

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: P-loop_NTPase (1112)

Family: MMR_HSR1 (17)

Bacillus subtilis (4)

1a	MMR_HSR1-1svwB01	B:25-143
1b	MMR_HSR1-1svwB02	B:25-143

Asymmetric Unit(hide GO term definitions)

Chain A,B (ENGB_BACSU | P38424)

molecular function
	GO:0005525	GTP binding	Interacting selectively and non-covalently with GTP, guanosine triphosphate.
	GO:0003924	GTPase activity	Catalysis of the reaction: GTP + H2O = GDP + phosphate.
	GO:0000287	magnesium ion binding	Interacting selectively and non-covalently with magnesium (Mg) ions.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0005515	protein binding	Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
	GO:0007049	cell cycle	The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
	GO:0051301	cell division	The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.

Asymmetric Unit
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	ENGB_BACSU \| P38424	:	1sul 1svi

1sui	CRYSTAL STRUCTURE OF THE GTP-BINDING PROTEIN YSXC COMPLEXED WITH GDP
1svl	CRYSTAL STRUCTURE OF THE APO-YSXC

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