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Title :   ENTROPIC STABILIZATION OF THE TRYPTOPHAN SYNTHASE A-SUBUNIT FROM A HYPERTHERMOPHILE, PYROCOCCUS FURIOSUS: X-RAY ANALYSIS AND CALORIMETRY

Authors :   K. Yutani, Y. Yamagata

Date :   21 Nov 00 (Deposition) - 13 Dec 00 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   Tryptophan Synthase Alpha-Subunit, Hyperthermophile, Pyrococcus Furiosus, X-Ray Analysis, Stability, Calorimetry, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Yamagata, K. Ogasahara, Y. Hioki, S. J. Lee, A. Nakagawa, H. Nakamura, M. Ishida, S. Kuramitsu, K. Yutani
Entropic Stabilization Of The Tryptophan Synthase Alpha-Subunit From A Hyperthermophile, Pyrococcus Furiosus. X-Ray Analysis And Calorimetry.
J. Biol. Chem. V. 276 11062 2001
PubMed-ID: 11118452 | Reference-DOI: 10.1074/JBC.M009987200

Molecule 1 - TRYPTOPHAN SYNTHASE ALPHA-SUBUNIT
	Chains	:	A, B
	EC Number	:	4.2.1.20
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PA1974
	Expression System Strain	:	E.COLI-109
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	PYROCOCCUS FURIOSUS
	Organism Taxid	:	2261

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

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1GEQ)

(no "Site" information available for 1GEQ)

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

Asymmetric Unit

No.	Residues
1	Asp A:15	-	Pro A:16
2	Asp B:15	-	Pro B:16

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TRP_SYNTHASE_ALPHA	PS00167	Tryptophan synthase alpha chain signature.	TRPA_PYRFU	35-48	2	A:35-48 B:35-48

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TRP_SYNTHASE_ALPHA	PS00167	Tryptophan synthase alpha chain signature.	TRPA_PYRFU	35-48	1	A:35-48 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	TRP_SYNTHASE_ALPHA	PS00167	Tryptophan synthase alpha chain signature.	TRPA_PYRFU	35-48	1	- B:35-48

(no "Exon" information available for 1GEQ)

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
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Chain A from PDB  Type:PROTEIN  Length:241
 aligned with TRPA_PYRFU | Q8U094 from UniProtKB/Swiss-Prot  Length:248

    Alignment length:248
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240        
           TRPA_PYRFU     1 MFKDGSLIPYLTAGDPDKQSTLNFLLALDEYAGAIELGIPFSDPIADGKTIQESHYRALKNGFKLREAFWIVKEFRRHSSTPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHAKEFTEIAREEGIKTVFLAAPNTPDERLKVIDDMTTGFVYLVSLYGTTGAREEIPKTAYDLLRRAKRICRNKVAVGFGVSKREHVVSLLKEGANGVVVGSALVKIIGEKGREATEFLKKKVEELLGI 248
               SCOP domains d1geqa_ A: Trp synthase alpha-subunit                                                                                                                                                                                                                    SCOP domains
               CATH domains 1geqA00 A:1-248 Aldolase class I                                                                                                                                                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee....hhhhhhhhhhhhh.....eeee.........hhhhhhhhhhhhhh..hhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhhh.eeeeee....hhhhhhhhhhhh..eeeee...-------..hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhh...eeeehhhhhhhhhhhh..hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------TRP_SYNTHASE_A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1geq A   1 MFKDGSLIPYLTAGDPDKQSTLNFLLALDEYAGAIELGIPFSDPIADGKTIQESHYRALKNGFKLREAFWIVKEFRRHSSTPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHAKEFTEIAREEGIKTVFLAAPNTPDERLKVIDDMTTGFVYLVSLY-------EIPKTAYDLLRRAKRICRNKVAVGFGVSKREHVVSLLKEGANGVVVGSALVKIIGEKGREATEFLKKKVEELLGI 248
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160     |   -   |   180       190       200       210       220       230       240        
                                                                                                                                                                                               166     174

Chain B from PDB  Type:PROTEIN  Length:245
 aligned with TRPA_PYRFU | Q8U094 from UniProtKB/Swiss-Prot  Length:248

    Alignment length:248
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240        
           TRPA_PYRFU     1 MFKDGSLIPYLTAGDPDKQSTLNFLLALDEYAGAIELGIPFSDPIADGKTIQESHYRALKNGFKLREAFWIVKEFRRHSSTPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHAKEFTEIAREEGIKTVFLAAPNTPDERLKVIDDMTTGFVYLVSLYGTTGAREEIPKTAYDLLRRAKRICRNKVAVGFGVSKREHVVSLLKEGANGVVVGSALVKIIGEKGREATEFLKKKVEELLGI 248
               SCOP domains d1geqb_ B: Trp synthase alpha-subunit                                                                                                                                                                                                                    SCOP domains
               CATH domains 1geqB00 B:1-248 Aldolase class I                                                                                                                                                                                                                         CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eeeeeee....hhhhhhhhhhhhh.....eeee.........hhhhhhhhhhhhhh..hhhhhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhhhh..eeee...hhhhhhhhhhhhhhh..eeeeee....hhhhhhhhhhhh..eeeee......---...hhhhhhhhhhhhhhh...eeee....hhhhhhhhhhh...eeeehhhhhhhhhhhh..hhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------TRP_SYNTHASE_A-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1geq B   1 MFKDGSLIPYLTAGDPDKQSTLNFLLALDEYAGAIELGIPFSDPIADGKTIQESHYRALKNGFKLREAFWIVKEFRRHSSTPIVLMTYYNPIYRAGVRNFLAEAKASGVDGILVVDLPVFHAKEFTEIAREEGIKTVFLAAPNTPDERLKVIDDMTTGFVYLVSLYGTT---EEIPKTAYDLLRRAKRICRNKVAVGFGVSKREHVVSLLKEGANGVVVGSALVKIIGEKGREATEFLKKKVEELLGI 248
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160        |-  |    180       190       200       210       220       230       240        
                                                                                                                                                                                                  169 173

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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( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

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

Fold: TIM beta/alpha-barrel (3956)

Superfamily: Ribulose-phoshate binding barrel (356)

Family: Tryptophan biosynthesis enzymes (108)

Protein domain: Trp synthase alpha-subunit (62)

Pyrococcus furiosus [TaxId: 2261] (10)

1a	d1geqa_	A:
1b	d1geqb_	B:

Asymmetric Unit

Classes(

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Architectures( (-)

)

Topologies( (-)

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Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Aldolase class I (887)

Pyrococcus furiosus. Organism_taxid: 2261. (2)

1a	1geqB00	B:1-248
1b	1geqA00	A:1-248

(no "Pfam Domain" information available for 1GEQ)

Asymmetric Unit(hide GO term definitions)

Chain A,B (TRPA_PYRFU | Q8U094)

molecular function
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0004834	tryptophan synthase activity	Catalysis of the reaction: L-serine + (1S,2R)-1-C-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O.
biological process
	GO:0009073	aromatic amino acid family biosynthetic process	The chemical reactions and pathways resulting in the formation of aromatic amino acid family, amino acids with aromatic ring (phenylalanine, tyrosine, tryptophan).
	GO:0008652	cellular amino acid biosynthetic process	The chemical reactions and pathways resulting in the formation of amino acids, organic acids containing one or more amino substituents.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0000162	tryptophan biosynthetic process	The chemical reactions and pathways resulting in the formation of tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid; tryptophan is synthesized from chorismate via anthranilate.
	GO:0006568	tryptophan metabolic process	The chemical reactions and pathways involving tryptophan, the chiral amino acid 2-amino-3-(1H-indol-3-yl)propanoic acid.

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	Cis Peptide Bonds
		Asp A:15 - Pro A:16	[ RasMol ]
		Asp B:15 - Pro B:16	[ RasMol ]

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	TRPA_PYRFU \| Q8U094	:	1wdw 2dzp 2dzs 2dzt 2dzu 2dzv 2dzw 2dzx 2e09 5e0k

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