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Description

Title :   CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO (PH 7.5)

Authors :   M. Hothorn, K. Scheffzek

Date :   29 Mar 06 (Deposition) - 30 Mar 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

Chains :   Asym./Biol. Unit : A

Keywords :   Inhibitor, Protein Binding, Four-Helix Bundle, Helical Hairpin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Hothorn, K. Scheffzek
Multiple Crystal Forms Of The Cell-Wall Invertase Inhibitor From Tobacco Support High Conformational Rigidity Over A Broad Ph-Range
Acta Crystallogr. , Sect. D V. 62 665 2006
PubMed-ID: 16699194 | Reference-DOI: 10.1107/S0907444906011693

Compounds

Molecule 1 - INVERTASE INHIBITOR
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PETM20
	Expression System Strain	:	ORIGAMI DE3
	Expression System Taxid	:	562
	Organism Common	:	COMMON TOBACCO
	Organism Scientific	:	NICOTIANA TABACUM
	Organism Taxid	:	4097
	Tissue	:	CELL WALL

Structural Features

Chains, Units

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (1, 24)

Asymmetric/Biological Unit (1, 24)

No.	Name	Count	Type	Full Name
1	IOD	24	Ligand/Ion	IODIDE ION

Sites (19, 19)

Asymmetric Unit (19, 19)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	ASN A:75 , SER A:79 , TYR A:120	BINDING SITE FOR RESIDUE IOD A1151
02	AC2	SOFTWARE	LYS A:47 , ILE A:92	BINDING SITE FOR RESIDUE IOD A1152
03	AC3	SOFTWARE	THR A:36 , LEU A:95	BINDING SITE FOR RESIDUE IOD A1153
04	AC4	SOFTWARE	PHE A:128 , ALA A:130 , IOD A:1172	BINDING SITE FOR RESIDUE IOD A1154
05	AC5	SOFTWARE	ALA A:54 , ASN A:148 , HOH A:2045 , HOH A:2059	BINDING SITE FOR RESIDUE IOD A1155
06	AC6	SOFTWARE	TYR A:120 , PRO A:127 , IOD A:1167 , IOD A:1171	BINDING SITE FOR RESIDUE IOD A1158
07	AC7	SOFTWARE	LYS A:49	BINDING SITE FOR RESIDUE IOD A1161
08	AC8	SOFTWARE	PHE A:78 , LYS A:125	BINDING SITE FOR RESIDUE IOD A1162
09	AC9	SOFTWARE	ALA A:67 , ALA A:68 , LYS A:70 , GLY A:71 , PRO A:72 , ALA A:130 , ILE A:133	BINDING SITE FOR RESIDUE IOD A1163
10	BC1	SOFTWARE	PHE A:121 , SER A:126 , PRO A:127 , PHE A:128 , SER A:129 , ASN A:132	BINDING SITE FOR RESIDUE IOD A1164
11	BC2	SOFTWARE	LEU A:19 , HOH A:2016	BINDING SITE FOR RESIDUE IOD A1165
12	BC3	SOFTWARE	SER A:63	BINDING SITE FOR RESIDUE IOD A1166
13	BC4	SOFTWARE	TRP A:69 , GLU A:116 , TYR A:120 , IOD A:1158 , IOD A:1173	BINDING SITE FOR RESIDUE IOD A1167
14	BC5	SOFTWARE	ALA A:94 , LYS A:97 , ASP A:99 , HOH A:2069	BINDING SITE FOR RESIDUE IOD A1169
15	BC6	SOFTWARE	IOD A:1174 , HOH A:2096	BINDING SITE FOR RESIDUE IOD A1170
16	BC7	SOFTWARE	TYR A:120 , IOD A:1158 , HOH A:2083	BINDING SITE FOR RESIDUE IOD A1171
17	BC8	SOFTWARE	ALA A:130 , IOD A:1154 , IOD A:1174	BINDING SITE FOR RESIDUE IOD A1172
18	BC9	SOFTWARE	GLU A:116 , IOD A:1167	BINDING SITE FOR RESIDUE IOD A1173
19	CC1	SOFTWARE	LYS A:49 , LEU A:131 , IOD A:1170 , IOD A:1172	BINDING SITE FOR RESIDUE IOD A1174

SS Bonds (2, 2)

Asymmetric/Biological Unit

No.	Residues
1	A:11	-	A:20
2	A:76	-	A:117

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 2CJ6)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 2CJ6)

PROSITE Motifs (0, 0)

(no "PROSITE Motif" information available for 2CJ6)

Exons (0, 0)

(no "Exon" information available for 2CJ6)

Sequences/Alignments

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:146
 aligned with O49908_TOBAC | O49908 from UniProtKB/TrEMBL  Length:166

    Alignment length:146
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160      
         O49908_TOBAC    21 NLVETTCKNTPNYQLCLKTLLSDKRSATGDITTLALIMVDAIKAKANQAAVTISKLRHSNPPAAWKGPLKNCAFSYKVILTASLPEAIEALTKGDPKFAEDGMVGSSGDAQECEEYFKGSKSPFSALNIAVHELSDVGRAIVRNLL 166
               SCOP domains d2cj6a_ A: automated matches                                                                                                                       SCOP domains
               CATH domains 2cj6A00 A:5-150 Invertase/pectin methylesterase inhibitor family protein                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cj6 A   5 NLVETTCKNTPNYQLCLKTLLSDKRSATGDITTLALIMVDAIKAKANQAAVTISKLRHSNPPAAWKGPLKNCAFSYKVILTASLPEAIEALTKGDPKFAEDGMVGSSGDAQECEEYFKGSKSPFSALNIAVHELSDVGRAIVRNLL 150
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Bromodomain-like (339)

Superfamily: Plant invertase/pectin methylesterase inhibitor (12)

Family: Plant invertase/pectin methylesterase inhibitor (11)

Protein domain: automated matches (6)

Tobacco (Nicotiana tabacum) [TaxId: 4097] (6)

d2cj6a_

CATH Domains (1, 1)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Butyryl-CoA Dehydrogenase, subunit A; domain 3 (76)

Homologous Superfamily: Invertase/pectin methylesterase inhibitor family protein (9)

Common tobacco (Nicotiana tabacum) (7)

2cj6A00

A:5-150

Pfam Domains (0, 0)

(no "Pfam Domain" information available for 2CJ6)

Gene Ontology (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (O49908_TOBAC | O49908)

molecular function
	GO:0004857	enzyme inhibitor activity	Binds to and stops, prevents or reduces the activity of an enzyme.
biological process
	GO:0043086	negative regulation of catalytic activity	Any process that stops or reduces the activity of an enzyme.

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
	O49908_TOBAC \| O49908	:	1rj1 1rj4 2cj4 2cj5 2cj7 2cj8 2xqr

Related Entries Specified in the PDB File

1rj1	CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROMTOBACCO
1rj4	STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCOIN COMPLEX WITH CD2+
2cj4	CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO AT PH 4.6
2cj5	CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO (PH 5.0)
2cj7	CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO (PH 9.0)
2cj8	CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO (PH 9.5)