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Title :   CRYSTAL STRUCTURE OF THE ARCHAEAL ASPARAGINE SYNTHETASE A COMPLEXED WITH L-ASPARTIC ACID AND ADENOSINE TRIPHOSPHATE

Authors :   M. Blaise, M. Frechin, C. Charron, H. Roy, C. Sauter, B. Lorber, V. Olier

Date :   05 Apr 11 (Deposition) - 17 Aug 11 (Release) - 21 Sep 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

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

Keywords :   Atp Binding, Aspartic Acid Binding, 7 Stranded Anti Parallel Beta- Sheet, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Blaise, M. Frechin, V. Olieric, C. Charron, C. Sauter, B. Lorber, H. Roy, D. Kern
Crystal Structure Of The Archaeal Asparagine Synthetase: Interrelation With Aspartyl-Trna And Asparaginyl-Trna Synthetases.
J. Mol. Biol. V. 412 437 2011
PubMed-ID: 21820443 | Reference-DOI: 10.1016/J.JMB.2011.07.050

Molecule 1 - ASNS-LIKE ASPARAGINYL-TRNA SYNTHETASE RELATED PROTEIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Gene	:	ASNS-LIKE, PYRAB02460, PAB2356
	Organism Scientific	:	PYROCOCCUS ABYSSI
	Organism Taxid	:	29292

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (3, 9)

No.	Name	Count	Type	Full Name
1	ASP	1	Mod. Amino Acid	ASPARTIC ACID
2	ATP	2	Ligand/Ion	ADENOSINE-5'-TRIPHOSPHATE
3	MG	6	Ligand/Ion	MAGNESIUM ION

Asymmetric Unit (9, 9)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU A:215 , SER A:218 , MG A:297 , ATP A:298 , HOH A:441 , HOH A:473	BINDING SITE FOR RESIDUE MG A 295
2	AC2	SOFTWARE	ALA A:54 , ATP A:298 , HOH A:383 , HOH A:475 , HOH A:476	BINDING SITE FOR RESIDUE MG A 296
3	AC3	SOFTWARE	ALA A:54 , GLU A:215 , MG A:295 , ATP A:298 , HOH A:441	BINDING SITE FOR RESIDUE MG A 297
4	AC4	SOFTWARE	ALA A:54 , ARG A:99 , GLU A:101 , ARG A:109 , HIS A:110 , SER A:111 , PHE A:114 , GLN A:116 , GLU A:215 , VAL A:216 , SER A:217 , GLY A:264 , ARG A:267 , MG A:295 , MG A:296 , MG A:297 , HOH A:305 , HOH A:309 , HOH A:383 , HOH A:464 , HOH A:473 , HOH A:477	BINDING SITE FOR RESIDUE ATP A 298
5	AC5	SOFTWARE	ASP B:47 , SER B:75 , LYS B:80 , ARG B:99 , GLN B:116 , ASP B:118 , SER B:218 , GLY B:219 , ARG B:222 , ALA B:261 , GLY B:262 , ATP B:299 , HOH B:355 , HOH B:378	BINDING SITE FOR RESIDUE ASP B 295
6	AC6	SOFTWARE	GLU B:215 , SER B:218 , MG B:297 , ATP B:299 , HOH B:354 , HOH B:371	BINDING SITE FOR RESIDUE MG B 296
7	AC7	SOFTWARE	GLU B:215 , MG B:296 , ATP B:299 , HOH B:354 , HOH B:385	BINDING SITE FOR RESIDUE MG B 297
8	AC8	SOFTWARE	ATP B:299 , HOH B:308 , HOH B:381 , HOH B:387 , HOH B:395	BINDING SITE FOR RESIDUE MG B 298
9	AC9	SOFTWARE	ARG B:99 , GLU B:101 , ARG B:109 , HIS B:110 , SER B:111 , PHE B:114 , GLN B:116 , GLU B:215 , VAL B:216 , SER B:217 , SER B:218 , GLY B:264 , ARG B:267 , ASP B:295 , MG B:296 , MG B:297 , MG B:298 , HOH B:303 , HOH B:371 , HOH B:381 , HOH B:385 , HOH B:386 , HOH B:387 , HOH B:403	BINDING SITE FOR RESIDUE ATP B 299

(no "SS Bond" information available for 3REU)

Asymmetric/Biological Unit

No.	Residues
1	Trp A:50	-	Pro A:51
2	Trp B:50	-	Pro B:51

(no "SAP(SNP)/Variant" information available for 3REU)

(no "PROSITE Motif" information available for 3REU)

(no "Exon" information available for 3REU)

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:294
 aligned with Q9V228_PYRAB | Q9V228 from UniProtKB/TrEMBL  Length:294

    Alignment length:294
                                    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       260       270       280       290    
         Q9V228_PYRAB     1 MNAVEIISRDIYKAIDIQTKILDYMTKFFTDRGFKWLLPIMLSPITDPLWPDPAGEGIRPAEVDVYGVRMRLTHSMILHKQLAIAMGLEKIFVLSPNIRLESRRKDDGRHSYEFTQLDFEIEGAKMKDVMRLIEELIYGLFRKAEEWTGREFPRARHFKVYDYKDILEEFGSDEKASMEMEEPFWIVNIPREFYDREENGVWKNYDLILPYGYGEVSSGGEREWEYEKIVAKIRAAGLKEDSFRPYLEIARAGKLKPSAGAGIGVERLVRFIVGAKHIAEVQPFPRVPGIPAVI 294
               SCOP domains d3reua_ A: automated matches                                                                                                                                                                                                                                                                           SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhh..hhhhhhhhhhhhhhhhhhhhh...eee....ee..................eeee..eeeee...hhhhhhhhhhh...eeeeeeeee...hhhhh......eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhh..........eeehhhhhhhhhhhhhhhhhh...eeee.........ee..ee.eeeeee....eeeeeeee...hhhhhhhhhhhh..hhhhhhhhhhhhhh.....eeeeeeehhhhhhhhhh..hhhhhh............ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3reu A   1 MNAVEIISRDIYKAIDIQTKILDYMTKFFTDRGFKWLLPIMLSPITDPLWPDPAGEGIRPAEVDVYGVRMRLTHSMILHKQLAIAMGLEKIFVLSPNIRLESRRKDDGRHSYEFTQLDFEIEGAKMKDVMRLIEELIYGLFRKAEEWTGREFPRARHFKVYDYKDILEEFGSDEKASMEMEEPFWIVNIPREFYDREENGVWKNYDLILPYGYGEVSSGGEREWEYEKIVAKIRAAGLKEDSFRPYLEIARAGKLKPSAGAGIGVERLVRFIVGAKHIAEVQPFPRVPGIPAVI 294
                                    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       260       270       280       290

Chain B from PDB  Type:PROTEIN  Length:290
 aligned with Q9V228_PYRAB | Q9V228 from UniProtKB/TrEMBL  Length:294

    Alignment length:295
                                                                                                                                                                                                                                                                                                                               294 
                                    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       260       270       280       290   | 
         Q9V228_PYRAB     1 MNAVEIISRDIYKAIDIQTKILDYMTKFFTDRGFKWLLPIMLSPITDPLWPDPAGEGIRPAEVDVYGVRMRLTHSMILHKQLAIAMGLEKIFVLSPNIRLESRRKDDGRHSYEFTQLDFEIEGAKMKDVMRLIEELIYGLFRKAEEWTGREFPRARHFKVYDYKDILEEFGSDEKASMEMEEPFWIVNIPREFYDREENGVWKNYDLILPYGYGEVSSGGEREWEYEKIVAKIRAAGLKEDSFRPYLEIARAGKLKPSAGAGIGVERLVRFIVGAKHIAEVQPFPRVPGIPAVI-   -
               SCOP domains d3reub_ B: automated matches                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhh..hhhhhhhhhhhhhhhhhhhhhh..ee.....ee.........-----....eeee..eeeee...hhhhhhhhhhh...eeeeeeeee...hhhhh......eeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhh.........eeeehhhhhhhh.hhhhhhhh....eeee.........ee..ee.eeeeee....eeeeeeee...hhhhhhhhhhhhh.hhhhhhhhhhhhhh.....eeeeeeehhhhhhhhhh..hhhhhh............. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3reu B   1 MNAVEIISRDIYKAIDIQTKILDYMTKFFTDRGFKWLLPIMLSPITDPLWPD-----IRPAEVDVYGVRMRLTHSMILHKQLAIAMGLEKIFVLSPNIRLESRRKDDGRHSYEFTQLDFEIEGAKMKDVMRLIEELIYGLFRKAEEWTGREFPRARHFKVYDYKDILEEFGSDEKASMEMEEPFWIVNIPREFYDREENGVWKNYDLILPYGYGEVSSGGEREWEYEKIVAKIRAAGLKEDSFRPYLEIARAGKLKPSAGAGIGVERLVRFIVGAKHIAEVQPFPRVPGIPAVID 295
                                    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       260       270       280       290     
                                                                              52    58

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) (23004)

Fold: Class II aaRS and biotin synthetases (165)

Superfamily: Class II aaRS and biotin synthetases (165)

Family: Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain (103)

Protein domain: automated matches (14)

Pyrococcus abyssi [TaxId: 29292] (6)

1a	d3reua_	A:
1b	d3reub_	B:

(no "CATH Domain" information available for 3REU)

(no "Pfam Domain" information available for 3REU)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q9V228_PYRAB | Q9V228)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0004812	aminoacyl-tRNA ligase activity	Catalysis of the formation of aminoacyl-tRNA from ATP, amino acid, and tRNA with the release of diphosphate and AMP.
	GO:0016874	ligase activity	Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
	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.
biological process
	GO:0006418	tRNA aminoacylation for protein translation	The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA, to be used in ribosome-mediated polypeptide synthesis.
	GO:0006412	translation	The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Trp A:50 - Pro A:51	[ RasMol ]
		Trp B:50 - Pro B:51	[ RasMol ]

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	Q9V228_PYRAB \| Q9V228	:	3p8t 3p8v 3p8y 3rex 3rl6

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 9)

Sites (9, 9)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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