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Description

Title :   TRPC STABILITY MUTANT CONTAINING AN ENGINEERED DISULPHIDE BRIDGE AND IN COMPLEX WITH A CDRP-RELATED SUBSTRATE

Authors :   A. Ivens, O. Mayans, H. Szadkowski, M. Wilmanns, K. Kirschner

Date :   10 Jun 01 (Deposition) - 10 Jun 02 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

Chains :   Asym. Unit : P
Biol. Unit 1: P  (1x)
Biol. Unit 2: P  (3x)

Keywords :   Beta-Alpha-Barrel, Disulphide Bridge, Stability Mutant, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Ivens, O. Mayans, H. Szadkowski, C. Jurgens, M. Wilmanns, K. Kirschner
Stabilization Of A (Betaalpha)8-Barrel Protein By An Engineered Disulfide Bridge.
Eur. J. Biochem. V. 269 1145 2002
PubMed-ID: 11856350 | Reference-DOI: 10.1046/J.1432-1033.2002.02745.X

Compounds

Molecule 1 - INDOLE-3-GLYCEROL-PHOSPHATE SYNTHASE
	Anthranilate Isomerase, Igps	:	PRAI
	Chains	:	P
	EC Number	:	4.1.1.48
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PET21A(+)-ECTRPC
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Fragment	:	N-TERMINAL DOMAIN (1-259 AA) OF THE BIFUNCTIONAL ENZYME
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	562
	Synonym	:	IGPS; TRYPTOPHAN BIOSYNTHESIS PROTEIN TRPCF

Structural Features

Chains, Units

		1
Asymmetric Unit	:	P
Biological Unit 1 (1x)	:	P
Biological Unit 2 (3x)	:	P

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (2, 7)

Asymmetric Unit (2, 7)

No.	Name	Count	Type	Full Name
1	137	1	Ligand/Ion	1-(O-CARBOXY-PHENYLAMINO)-1-DEOXY-D-RIBULOSE-5-PHOSPHATE
2	PO4	6	Ligand/Ion	PHOSPHATE ION

Biological Unit 1 (2, 7)

No.	Name	Count	Type	Full Name
1	137	1	Ligand/Ion	1-(O-CARBOXY-PHENYLAMINO)-1-DEOXY-D-RIBULOSE-5-PHOSPHATE
2	PO4	6	Ligand/Ion	PHOSPHATE ION

Biological Unit 2 (2, 21)

No.	Name	Count	Type	Full Name
1	137	3	Ligand/Ion	1-(O-CARBOXY-PHENYLAMINO)-1-DEOXY-D-RIBULOSE-5-PHOSPHATE
2	PO4	18	Ligand/Ion	PHOSPHATE ION

Sites (7, 7)

Asymmetric Unit (7, 7)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LYS P:61 , ARG P:186 , ASN P:218	BINDING SITE FOR RESIDUE PO4 P 701
2	AC2	SOFTWARE	ILE P:14	BINDING SITE FOR RESIDUE PO4 P 705
3	AC3	SOFTWARE	GLU P:90 , SER P:96 , PHE P:97 , ASN P:98	BINDING SITE FOR RESIDUE PO4 P 706
4	AC4	SOFTWARE	ARG P:224 , HIS P:228 , PO4 P:703	BINDING SITE FOR RESIDUE PO4 P 702
5	AC5	SOFTWARE	ARG P:224 , PO4 P:702 , PO4 P:704 , HOH P:808	BINDING SITE FOR RESIDUE PO4 P 703
6	AC6	SOFTWARE	PO4 P:703	BINDING SITE FOR RESIDUE PO4 P 704
7	AC7	SOFTWARE	GLU P:53 , LYS P:55 , SER P:58 , PRO P:59 , SER P:60 , PHE P:93 , LYS P:114 , ARG P:186 , LEU P:188 , LEU P:191 , GLU P:214 , SER P:215 , GLY P:216 , LEU P:234 , ILE P:235 , GLY P:236 , SER P:237 , HOH P:716 , HOH P:745	BINDING SITE FOR RESIDUE 137 P 400

SS Bonds (1, 1)

Asymmetric Unit

No.	Residues
1	P:3	-	P:189

Cis Peptide Bonds (0, 0)

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

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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

PROSITE Motifs (1, 1)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IGPS	PS00614	Indole-3-glycerol phosphate synthase signature.	TRPC_ECOLI	51-69	1	P:50-68

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IGPS	PS00614	Indole-3-glycerol phosphate synthase signature.	TRPC_ECOLI	51-69	1	P:50-68

Biological Unit 2 (1, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IGPS	PS00614	Indole-3-glycerol phosphate synthase signature.	TRPC_ECOLI	51-69	3	P:50-68

Exons (0, 0)

(no "Exon" information available for 1JCM)

Sequences/Alignments

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 P from PDB  Type:PROTEIN  Length:259
 aligned with TRPC_ECOLI | P00909 from UniProtKB/Swiss-Prot  Length:453

    Alignment length:259
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251         
           TRPC_ECOLI     2 MQTVLAKIVADKAIWVEARKQQQPLASFQNEVQPSTRHFYDALQGARTAFILECKKASPSKGVIRDDFDPARIAAIYKHYASAISVLTDEKYFQGSFNFLPIVSQIAPQPILCKDFIIDPYQIYLARYYQADACLLMLSVLDDDQYRQLAAVAHSLEMGVLTEVSNEEEQERAIALGAKVVGINNRDLRDLSIDLNRTRELAPKLGHNVTVISESGINTYAQVRELSHFANGFLIGSALMAHDDLHAAVRRVLLGENKV 260
               SCOP domains d1jcmp_ P: Indole-3-glycerophosphate synthase, IPGS                                                                                                                                                                                                                 SCOP domains
               CATH domains 1jcmP00 P:1-259 Aldolase class I                                                                                                                                                                                                                                    CATH domains
               Pfam domains ---IGPS-1jcmP01 P:4-251                                                                                                                                                                                                                                    ----PRA- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhh..hhhhhhhhh.....hhhhhh.....eeeeee..ee...ee.....hhhhhhhhhh....eeeee.hhhhhh...hhhhhhhhhh...eeee....hhhhhhhhhhh...eeeee....hhhhhhhhhhhhh....eeeeee.hhhhhhhhhhh...eeeee.ee....ee.hhhhhhhhhhhh...eeeee....hhhhhhhhh....eeeehhhhhh..hhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------IGPS  PDB: P:50-68 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jcm P   1 MQCVLAKIVADKAIWVEARKQQQPLASFQNEVQPSTRHFYDALQGARTAFILECKKASPSKGVIRDDFDPARIAAIYKHYASAISVLTDEKYFQGSFNFLPIVSQIAPQPILCKDFIIDPYQIYLARYYQADACLLMLSVLDDDQYRQLAAVAHSLEMGVLTEVSNEEEQERAIALGAKVVGINNRDLCDLSIDLNRTRELAPKLGHNVTVISESGINTYAQVRELSHFANGFLIGSALMAHDDLHAAVRRVLLGENKV 259
                                    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

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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

Asymmetric Unit

Classes(

)

Folds(

)

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: Indole-3-glycerophosphate synthase, IPGS (11)

Escherichia coli [TaxId: 562] (2)

d1jcmp_

CATH Domains (1, 1)

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Aldolase class I (887)

Escherichia coli. Organism_taxid: 562. (44)

1jcmP00

P:1-259

Pfam Domains (2, 2)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: TIM_barrel (694)

Family: IGPS (10)

Escherichia coli (strain K12) (2)

IGPS-1jcmP01

P:4-251

Family: PRAI (6)

Escherichia coli (strain K12) (3)

PRAI-1jcmP02

P:256-258

Gene Ontology (11, 11)

Asymmetric Unit(hide GO term definitions)

Chain P (TRPC_ECOLI | P00909)

molecular function
	GO:0016831	carboxy-lyase activity	Catalysis of the nonhydrolytic addition or removal of a carboxyl group to or from a compound.
	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:0004425	indole-3-glycerol-phosphate synthase activity	Catalysis of the reaction: 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate = 1-(indol-3-yl)glycerol 3-phosphate + CO2 + H2O.
	GO:0016853	isomerase activity	Catalysis of the geometric or structural changes within one molecule. Isomerase is the systematic name for any enzyme of EC class 5.
	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:0004640	phosphoribosylanthranilate isomerase activity	Catalysis of the reaction: N-(5-phospho-beta-D-ribosyl)anthranilate = 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate.
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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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
	TRPC_ECOLI \| P00909	:	1pii 2kzh

Related Entries Specified in the PDB File

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