2BE9 - JenaLib

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Title :   CRYSTAL STRUCTURE OF THE CTP-LIGANDED (T-STATE) ASPARTATE TRANSCARBAMOYLASE FROM THE EXTREMELY THERMOPHILIC ARCHAEON SULFOLOBUS ACIDOCALDARIUS

Authors :   D. De Vos, S. N. Savvides, J. J. Van Beeumen

Date :   23 Oct 05 (Deposition) - 31 Oct 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.60

Chains :   Asym. Unit : A,B
Biol. Unit 1: A,B  (6x)

Keywords :   Atcase, Hyperthermophilic, Temperature, Transferase, Allosteric, Holoenzyme, Ctp Complex, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   D. De Vos, Y. Xu, T. Aerts, F. Van Petegem, J. J. Van Beeumen
Crystal Structure Of Sulfolobus Acidocaldarius Aspartate Carbamoyltransferase In Complex With Its Allosteric Activator Ctp.
Biochem. Biophys. Res. Commun. V. 372 40 2008
PubMed-ID: 18477471 | Reference-DOI: 10.1016/J.BBRC.2008.04.173
(for further references see the PDB file header)

Molecule 1 - ASPARTATE CARBAMOYLTRANSFERASE
	Chains	:	A
	EC Number	:	2.1.3.2
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRC99
	Expression System Strain	:	C600(DELTA(PYRBI)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	PYRB
	Organism Scientific	:	SULFOLOBUS ACIDOCALDARIUS
	Organism Taxid	:	2285
	Synonym	:	ASPARTATE TRANSCARBAMYLASE, ATCASE

Molecule 2 - ASPARTATE CARBAMOYLTRANSFERASE REGULATORY CHAIN
	Chains	:	B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PTRC99
	Expression System Strain	:	C600(DELTA(PYRBI)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	PYRI
	Organism Scientific	:	SULFOLOBUS ACIDOCALDARIUS
	Organism Taxid	:	2285

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (6x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 3)

No.	Name	Count	Type	Full Name
1	CTP	1	Ligand/Ion	CYTIDINE-5'-TRIPHOSPHATE
2	SO4	1	Ligand/Ion	SULFATE ION
3	ZN	1	Ligand/Ion	ZINC ION

Biological Unit 1 (2, 12)

No.	Name	Count	Type	Full Name
1	CTP	6	Ligand/Ion	CYTIDINE-5'-TRIPHOSPHATE
2	SO4	6	Ligand/Ion	SULFATE ION
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS B:113 , CYS B:118 , CYS B:142 , CYS B:145	BINDING SITE FOR RESIDUE ZN B 1113
2	AC2	SOFTWARE	HIS B:23 , SER B:54 , LYS B:55 , LYS B:56 , LYS B:60	BINDING SITE FOR RESIDUE SO4 B 1114
3	AC3	SOFTWARE	LYS B:14 , ILE B:15 , VAL B:20 , ASP B:22 , HIS B:23 , LYS B:55 , LYS B:64 , ASN B:88 , VAL B:90 , TYR B:93 , VAL B:95 , LYS B:98	BINDING SITE FOR RESIDUE CTP B 401

(no "SS Bond" information available for 2BE9)

Asymmetric Unit

No.	Residues
1	Leu A:260	-	Pro A:261

(no "SAP(SNP)/Variant" information available for 2BE9)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CARBAMOYLTRANSFERASE	PS00097	Aspartate and ornithine carbamoyltransferases signature.	PYRB_SULAC	45-52	1	A:45-52

Biological Unit 1 (1, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	CARBAMOYLTRANSFERASE	PS00097	Aspartate and ornithine carbamoyltransferases signature.	PYRB_SULAC	45-52	6	A:45-52

(no "Exon" information available for 2BE9)

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:293
 aligned with PYRB_SULAC | Q55338 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:300
                             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
           PYRB_SULAC     - -MKHIISAYNFSRDELEDIFALTDKYSKNLNDTRKILSGKTISIAFFEPSTRTYLSFQKAIINLGGDVIGFSGEESTSVAKGENLADTIRMLNNYSDGIVMRHKYDGASRFASEISDIPVINAGDGKHEHPTQAVIDIYTINKHFNTIDGLVFALLGDLKYARTVNSLLRILTRFRPKLVYLISPQLLRARKEILDELNYPVKEVENPFEVINEVDVLYVTRIQKERFVDEMEYEKIKGSYIVSLDLANKMKKDSIILHPLPRVNEIDRKVDKTTKAKYFEQASYGVPVRMSILTKIYGE 299
               SCOP domains d2be9a1 A:0-146 Aspartate carbamoyltransferase catalytic subunit                                                                                   d2be9a2 A:147-299 Aspartate carbamoyltransferase catalytic subunit                                                                                        SCOP domains
               CATH domains 2be9A01 A:0-129,A:278-299  [code=3.40.50.1370, no name defined]                                                                   2be9A02 A:130-277  [code=3.40.50.1370, no name defined]                                                                                             2be9A01                CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhhhhhhhh............eeeeee...hhhhhhhhhhhhhhh..eeeeee..-------..hhhhhhhhhhhhh.eeeeee...hhhhhhhhhh...eeeeee....hhhhhhhhhhhhhhhhh.....eeeee.....hhhhhhhhhhhh.....eeeee.hhhhh.hhhhhh.....eeee.hhhhhhhhh.eeee.........hhhhhhhhhhhh..hhhhhhh.....eee...........hhhhh...hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------CARBAMOY------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2be9 A   0 MLKHIISAYNFSRDELEDIFALTDKYSKNLNDTRKILSGKTISIAFFEPSTRTYLSFQKAIINLGGDVIGFSGE-------GENLADTIRMLNNYSDGIVMRHKYDGASRFASEISDIPVINAGDGKHEHPTQAVIDIYTINKHFNTIDGLVFALLGDLKYARTVNSLLRILTRFRPKLVYLISPQLLRARKEILDELNYPVKEVENPFEVINEVDVLYVTRIQKERFVDEMEYEKIKGSYIVSLDLANKMKKDSIILHPLPRVNEIDRKVDKTTKAKYFEQASYGVPVRMSILTKIYGE 299
                                     9        19        29        39        49        59        69   |     - |      89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299
                                                                                                    73      81

Chain B from PDB  Type:PROTEIN  Length:148
 aligned with PYRI_SULAC | P74766 from UniProtKB/Swiss-Prot  Length:164

    Alignment length:150
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       150       160
           PYRI_SULAC    11 MVSKIKNGTVIDHIPAGRAFAVLNVLGIKGHEGFRIALVINVDSKKMGKKDIVKIEDKEISDTEANLITLIAPTATINIVREYEVVKKTKLEVPKVVKGILKCPNPYCITSNDVEAIPTFKTLTEKPLKMRCEYCETIIDENEIMSQILG 160
               SCOP domains d2be9b1 B:11-104 Aspartate ca  rbamoyltransferase                                             d2be9b2 B:105-160                                        SCOP domains
               CATH domains 2be9B01 B:11-103  [code=3.30.  70.140, no name defined]                                      2be9B02 B:104-160  [code=2.30.30.20, no name defined]     CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .......eeeeeeee..hhhhhhhhhh..--....eeeeeeeee...eeeeeeeee....hhhhhhhhhhh....eeeeee..eeeeee......eee.........hhhhh......eeeeee....eeee.....eeehhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2be9 B  11 MVSKIKNGTVIDHIPAGRAFAVLNVLGIK--EGFRIALVINVDSKKMGKKDIVKIEDKEISDTEANLITLIAPTATINIVREYEVVKKTKLEVPKVVKGILKCPNPYCITSNDVEAIPTFKTLTEKPLKMRCEYCETIIDENEIMSQILG 160
                                    20        30        |- |      50        60        70        80        90       100       110       120       130       140       150       160
                                                       39 42

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 '\|'

(no "Pfam Domain" information available for 2BE9)

Asymmetric Unit(hide GO term definitions)

Chain A (PYRB_SULAC | Q55338)

molecular function
	GO:0016597	amino acid binding	Interacting selectively and non-covalently with an amino acid, organic acids containing one or more amino substituents.
	GO:0004070	aspartate carbamoyltransferase activity	Catalysis of the reaction: L-aspartate + carbamoyl phosphate = N-carbamoyl-L-aspartate + H(+) + phosphate.
	GO:0016743	carboxyl- or carbamoyltransferase activity	Catalysis of the transfer of a carboxyl- or carbamoyl group from one compound (donor) to another (acceptor).
	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:0044205	'de novo' UMP biosynthetic process	The chemical reactions and pathways resulting in the formation of UMP, uridine monophosphate, starting with the synthesis of (S)-dihydroorotate from bicarbonate; UMP biosynthesis may either occur via reduction by quinone, NAD(+) or oxygen.
	GO:0006207	'de novo' pyrimidine nucleobase biosynthetic process	The chemical reactions and pathways resulting in the formation of pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases, beginning with the synthesis of a pyrimidine ring from simpler precursors.
	GO:0006520	cellular amino acid metabolic process	The chemical reactions and pathways involving amino acids, carboxylic acids containing one or more amino groups, as carried out by individual cells.
	GO:0006221	pyrimidine nucleotide biosynthetic process	The chemical reactions and pathways resulting in the formation of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.

Chain B (PYRI_SULAC | P74766)

molecular function
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0006207	'de novo' pyrimidine nucleobase biosynthetic process	The chemical reactions and pathways resulting in the formation of pyrimidine nucleobases, 1,3-diazine, organic nitrogenous bases, beginning with the synthesis of a pyrimidine ring from simpler precursors.
	GO:0006221	pyrimidine nucleotide biosynthetic process	The chemical reactions and pathways resulting in the formation of a pyrimidine nucleotide, a compound consisting of nucleoside (a pyrimidine 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:0009347	aspartate carbamoyltransferase complex	A multienzyme complex that catalyzes the formation N-carbamoyl-L-aspartate from carbamoyl phosphate and L-aspartate. It exhibits a variety of architectural organizations, but in all microorganisms the core catalytic component is a homotrimer of approximately 34 kDa polypeptides.

Asymmetric Unit
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	Cis Peptide Bonds
		Leu A:260 - Pro A:261	[ RasMol ]

Biological Unit
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		Biological Unit 1	[ Jena3D ]

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	PYRB_SULAC \| Q55338
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	PYRI_SULAC \| P74766
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	2.1.3.2
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	PYRB_SULAC \| Q55338
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	PYRB_SULAC \| Q55338	:	1pg5
	PYRI_SULAC \| P74766	:	1pg5

Description

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Ligands, Modified Residues, Ions (3, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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