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Description

Title :   CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO (PH 9.0)

Authors :   M. Hothorn, K. Scheffzek

Date :   29 Mar 06 (Deposition) - 03 Apr 06 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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, 32)

Asymmetric/Biological Unit (1, 32)

No.	Name	Count	Type	Full Name
1	IOD	32	Ligand/Ion	IODIDE ION

Sites (24, 24)

Asymmetric Unit (24, 24)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	LYS A:12 , IOD A:1162	BINDING SITE FOR RESIDUE IOD A1151
02	AC2	SOFTWARE	GLU A:8	BINDING SITE FOR RESIDUE IOD A1154
03	AC3	SOFTWARE	GLU A:137 , IOD A:1167	BINDING SITE FOR RESIDUE IOD A1156
04	AC4	SOFTWARE	GLU A:137 , ASP A:140 , HOH A:2010 , HOH A:2098	BINDING SITE FOR RESIDUE IOD A1158
05	AC5	SOFTWARE	ASN A:5 , ALA A:54 , ILE A:57 , SER A:58 , ALA A:77 , IOD A:1162	BINDING SITE FOR RESIDUE IOD A1159
06	AC6	SOFTWARE	HOH A:2064	BINDING SITE FOR RESIDUE IOD A1160
07	AC7	SOFTWARE	THR A:96	BINDING SITE FOR RESIDUE IOD A1161
08	AC8	SOFTWARE	ASN A:5 , ALA A:77 , LYS A:81 , IOD A:1151 , IOD A:1159	BINDING SITE FOR RESIDUE IOD A1162
09	AC9	SOFTWARE	HOH A:2055	BINDING SITE FOR RESIDUE IOD A1163
10	BC1	SOFTWARE	SER A:30 , GLY A:33 , HOH A:2001	BINDING SITE FOR RESIDUE IOD A1164
11	BC2	SOFTWARE	THR A:10 , ASN A:13 , THR A:14 , ILE A:145 , ASN A:148	BINDING SITE FOR RESIDUE IOD A1165
12	BC3	SOFTWARE	ASN A:75 , SER A:79 , TYR A:120 , HOH A:2032	BINDING SITE FOR RESIDUE IOD A1166
13	BC4	SOFTWARE	ALA A:130 , ALA A:134 , IOD A:1156	BINDING SITE FOR RESIDUE IOD A1167
14	BC5	SOFTWARE	LYS A:12 , LYS A:81 , THR A:85	BINDING SITE FOR RESIDUE IOD A1168
15	BC6	SOFTWARE	ASP A:99 , PRO A:100 , LYS A:101 , LEU A:150	BINDING SITE FOR RESIDUE IOD A1169
16	BC7	SOFTWARE	LYS A:47 , ILE A:92 , HOH A:2038 , HOH A:2067	BINDING SITE FOR RESIDUE IOD A1170
17	BC8	SOFTWARE	PRO A:15 , ASP A:140 , IOD A:1179	BINDING SITE FOR RESIDUE IOD A1171
18	BC9	SOFTWARE	HOH A:2008	BINDING SITE FOR RESIDUE IOD A1172
19	CC1	SOFTWARE	THR A:14 , PRO A:15	BINDING SITE FOR RESIDUE IOD A1173
20	CC2	SOFTWARE	ASP A:27 , ILE A:41 , ASP A:44 , ALA A:45 , IOD A:1175 , HOH A:2044	BINDING SITE FOR RESIDUE IOD A1174
21	CC3	SOFTWARE	THR A:23 , IOD A:1174	BINDING SITE FOR RESIDUE IOD A1175
22	CC4	SOFTWARE	HOH A:2061	BINDING SITE FOR RESIDUE IOD A1176
23	CC5	SOFTWARE	IOD A:1171	BINDING SITE FOR RESIDUE IOD A1179
24	CC6	SOFTWARE	LYS A:12 , ASN A:51 , HOH A:2003 , HOH A:2067	BINDING SITE FOR RESIDUE IOD A1180

SS Bonds (0, 0)

(no "SS Bond" information available for 2CJ7)

Cis Peptide Bonds (0, 0)

(no "Cis Peptide Bond" information available for 2CJ7)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 2CJ7)

PROSITE Motifs (0, 0)

(no "PROSITE Motif" information available for 2CJ7)

Exons (0, 0)

(no "Exon" information available for 2CJ7)

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:144
 aligned with O49908_TOBAC | O49908 from UniProtKB/TrEMBL  Length:166

    Alignment length:147
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       
         O49908_TOBAC    20 NNLVETTCKNTPNYQLCLKTLLSDKRSATGDITTLALIMVDAIKAKANQAAVTISKLRHSNPPAAWKGPLKNCAFSYKVILTASLPEAIEALTKGDPKFAEDGMVGSSGDAQECEEYFKGSKSPFSALNIAVHELSDVGRAIVRNLL 166
               SCOP domains d2cj7a_ A: automated matches                                                                                                                        SCOP domains
               CATH domains 2cj7A00 A:4-150 Invertase/pectin methylesterase inhibitor family protein                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh---...hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2cj7 A   4 NNLVETTCKNTPNYQLCLKTLLSDKRSATGDITTLALIMVDAIKAKANQAAVTISKLRHSNPPAAWKGPLKNCAFSYKVILTASLPEAIEALTKGDPKFAEDGMVGSSGDAQECEEYF---KSPFSALNIAVHELSDVGRAIVRNLL 150
                                    13        23        33        43        53        63        73        83        93       103       113       | - |     133       143       
                                                                                                                                               121 125

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)

d2cj7a_

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)

2cj7A00

A:4-150

Pfam Domains (0, 0)

(no "Pfam Domain" information available for 2CJ7)

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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	Cis Peptide Bonds
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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
	O49908_TOBAC \| O49908	:	1rj1 1rj4 2cj4 2cj5 2cj6 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)
2cj6	CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO (PH 7.5)
2cj8	CRYSTAL STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO (PH 9.5)