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Title :   CRYSTAL STRUCTURE OF GLUTAMYL-TRNA(GLN) AMIDOTRANSFERASE SUBUNIT A (TM1272) FROM THERMOTOGA MARITIMA AT 1.80 A RESOLUTION

Authors :   Joint Center For Structural Genomics (Jcsg)

Date :   28 Mar 06 (Deposition) - 11 Apr 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

Keywords :   Tm1272, Glutamyl-Trna(Gln) Amidotransferase Subunit A (Glu-Adt Subunit A), Structural Genomics, Joint Center For Structural Genomics, Jcsg, Protein Structure Initiative, Psi, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Joint Center For Structural Genomics (Jcsg)
Crystal Structure Of Glutamyl-Trna(Gln) Amidotransferase Subunit A (Tm1272) From Thermotoga Maritima At 1. 80 A Resolution
To Be Published
PubMed: search

Molecule 1 - GLUTAMYL-TRNA(GLN) AMIDOTRANSFERASE SUBUNIT A
	Chains	:	A
	EC Number	:	6.3.5.-
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	GATA
	Organism Scientific	:	THERMOTOGA MARITIMA
	Organism Taxid	:	2336
	Synonym	:	GLU-ADT SUBUNIT A

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 17)

No.	Name	Count	Type	Full Name
1	ACT	3	Ligand/Ion	ACETATE ION
2	MPD	3	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	MSE	11	Mod. Amino Acid	SELENOMETHIONINE

Biological Unit 1 (3, 34)

No.	Name	Count	Type	Full Name
1	ACT	6	Ligand/Ion	ACETATE ION
2	MPD	6	Ligand/Ion	(4S)-2-METHYL-2,4-PENTANEDIOL
3	MSE	22	Mod. Amino Acid	SELENOMETHIONINE

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY A:419 , ARG A:443	BINDING SITE FOR RESIDUE ACT A 476
2	AC2	SOFTWARE	LYS A:57 , ILE A:212 , MPD A:481 , HOH A:780	BINDING SITE FOR RESIDUE ACT A 478
3	AC3	SOFTWARE	ARG A:230 , SER A:379 , GLN A:380 , TYR A:381 , ASP A:382 , ARG A:442 , LYS A:448 , HOH A:627 , HOH A:761	BINDING SITE FOR RESIDUE MPD A 479
4	AC4	SOFTWARE	ARG A:122 , THR A:350 , LYS A:400 , HOH A:742	BINDING SITE FOR RESIDUE MPD A 480
5	AC5	SOFTWARE	LYS A:57 , PHE A:58 , GLU A:215 , LEU A:235 , ACT A:478 , HOH A:779	BINDING SITE FOR RESIDUE MPD A 481

(no "SS Bond" information available for 2GI3)

Asymmetric Unit

No.	Residues
1	Gly A:140	-	Ser A:141

(no "SAP(SNP)/Variant" information available for 2GI3)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AMIDASES	PS00571	Amidases signature.	GATA_THEMA	139-170	1	A:139-170

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	AMIDASES	PS00571	Amidases signature.	GATA_THEMA	139-170	2	A:139-170

(no "Exon" information available for 2GI3)

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

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Chain A from PDB  Type:PROTEIN  Length:452
 aligned with GATA_THEMA | Q9X0Z9 from UniProtKB/Swiss-Prot  Length:475

    Alignment length:476
                             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       319       329       339       349       359       369       379       389       399       409       419       429       439       449       459       469      
           GATA_THEMA     - -MIDLDFRKLTIEECLKLSEEEREKLPQLSLETIKRLDPHVKAFISVRENVSVEKKGKFWGIPVAIKDNILTLGMRTTCASRILENYESVFDATVVKKMKEAGFVVVGKANLDEFAMGSSTERSAFFPTRNPWDLERVPGGSSGGSAAAVSAGMVVAALGSDTGGSVRQPASLCGVVGYKPTYGLVSRYGLVAFASSLDQIGPITKTVRDAAILMEIISGRDENDATTVNRKVDFLSEIEEGVSGMKFAVPEEIYEHDIEEGVSERFEEALKLLERLGAKVERVKIPHIKYSVATYYVIAPAEASSNLARFDGVKYGLRIKEKGLREMYMKTRNVGFGEEVRRRIMIGTFTLSAAYYEAYFNKAMKVRRKISDELNEVLSQYDAILTPTSPVTAFKIGEIKDPLTYYLMDIFTIPANLAGLPAISVPFGFSNNLPVGVQVIGRRFADGKVFRIARAIEKNSPYNENGMFPLPEVKA 475
               SCOP domains -d2gi3a1 A:1-475 Glutamyl-tRNA(Gln) amidotransferase subunit A                                                                                                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh.eeee...............eeeee.............hhhhh.......hhhhhhhhhhh.eeeeee..hhhhh.........................hhhhhhhhhh....eeeeee....hhhhhhhhh.eeee...................eeeeee.hhhhhhhhhhhhh...........................eeeee.hhhhh..hhhhhhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhhhh.------------------------....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeee.............hhhhhhh....hhhhhhhh..eeeeeeeee..eeeeeeee....hhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------AMIDASES  PDB: A:139-170        ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2gi3 A   0 GmIDLDFRKLTIEECLKLSEEEREKLPQLSLETIKRLDPHVKAFISVRENVSVEKKGKFWGIPVAIKDNILTLGmRTTCASRILENYESVFDATVVKKmKEAGFVVVGKANLDEFAmGSSTERSAFFPTRNPWDLERVPGGSSGGSAAAVSAGmVVAALGSDTGGSVRQPASLCGVVGYKPTYGLVSRYGLVAFASSLDQIGPITKTVRDAAILmEIISGRDENDATTVNRKVDFLSEIEEGVSGmKFAVPEEIYEHDIEEGVSERFEEALKLLERLGAKVERVKIPHIKYSVATYYVIAPAEASSN------------------------TRNVGFGEEVRRRImIGTFTLSAAYYEAYFNKAmKVRRKISDELNEVLSQYDAILTPTSPVTAFKIGEIKDPLTYYLmDIFTIPANLAGLPAISVPFGFSNNLPVGVQVIGRRFADGKVFRIARAIEKNSPYNENGmFPLPEVKA 475
                             |       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      |  -         -         - |     339     | 349       359    |  369       379       389       399       409       419       429       439       449       459       469      
                             |                                                                       74-MSE                  98-MSE           116-MSE                              153-MSE                                                      214-MSE                        245-MSE                                                      306                      331           345-MSE            364-MSE                                     408-MSE                                                    467-MSE    
                             1-MSE

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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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Class: Alpha and beta proteins (a/b) (23833)

Fold: Amidase signature (AS) enzymes (41)

Superfamily: Amidase signature (AS) enzymes (41)

Family: Amidase signature (AS) enzymes (41)

Protein domain: Glutamyl-tRNA(Gln) amidotransferase subunit A (7)

Thermotoga maritima [TaxId: 2336] (1)

d2gi3a1

A:1-475

(no "CATH Domain" information available for 2GI3)

(no "Pfam Domain" information available for 2GI3)

Asymmetric Unit(hide GO term definitions)

Chain A (GATA_THEMA | Q9X0Z9)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0016884	carbon-nitrogen ligase activity, with glutamine as amido-N-donor	Catalysis of the transfer of the amide nitrogen of glutamine to a variety of substrates. GATases catalyze two separate reactions at two active sites, which are located either on a single polypeptide chain or on different subunits. In the glutaminase reaction, glutamine is hydrolyzed to glutamate and ammonia, which is added to an acceptor substrate in the synthase reaction.
	GO:0050567	glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity	Catalysis of the reaction: L-glutamine + glutamyl-tRNA(Gln) + ATP = L-glutamate + glutaminyl-tRNA(Gln) + phosphate + ADP.
	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: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.

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	Cis Peptide Bonds
		Gly A:140 - Ser A:141	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (3, 17)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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