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(-) Description

Title :  STRUCTURE OF A CELL WALL INVERTASE INHIBITOR FROM TOBACCO IN COMPLEX WITH CD2+
 
Authors :  M. Hothorn, I. D'Angelo, J. A. Marquez, S. Greiner, K. Scheffzek
Date :  18 Nov 03  (Deposition) - 03 Feb 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Biol. Unit 4:  D  (1x)
Keywords :  Four-Helix Bundle, Helical Hairpin, Cadmium Coordination, Bis-Tris Buffer, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Hothorn, I. D'Angelo, J. A. Marquez, S. Greiner, K. Scheffzek
The Invertase Inhibitor Nt-Cif From Tobacco: A Highly Thermostable Four-Helix Bundle With An Unusual N-Terminal Extension
J. Mol. Biol. V. 335 987 2004
PubMed-ID: 14698293  |  Reference-DOI: 10.1016/J.JMB.2003.10.066
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - INVERTASE INHIBITOR
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETM20
    Expression System Strain: ORIGAMI(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: NTINH1
    Organism Common: COMMON TOBACCO
    Organism Scientific: NICOTIANA TABACUM
    Organism Taxid: 4097
    Tissue: CELL WALL

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A   
Biological Unit 2 (1x):  B  
Biological Unit 3 (1x):   C 
Biological Unit 4 (1x):    D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 12)

Asymmetric Unit (2, 12)
No.NameCountTypeFull Name
1BTB4Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2CD8Ligand/IonCADMIUM ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2CD-1Ligand/IonCADMIUM ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2CD-1Ligand/IonCADMIUM ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2CD-1Ligand/IonCADMIUM ION
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
1BTB1Ligand/Ion2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
2CD-1Ligand/IonCADMIUM ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:110 , GLU A:113 , BTB A:156BINDING SITE FOR RESIDUE CD A 148
02AC2SOFTWAREGLU D:113 , BTB D:159BINDING SITE FOR RESIDUE CD D 149
03AC3SOFTWAREGLU B:113 , BTB B:157BINDING SITE FOR RESIDUE CD B 150
04AC4SOFTWAREHIS B:133 , ASP B:137 , HOH B:190 , HOH B:280 , HOH B:321 , HOH B:384BINDING SITE FOR RESIDUE CD B 151
05AC5SOFTWAREHIS A:133 , ASP A:137 , HOH A:334 , HOH B:333BINDING SITE FOR RESIDUE CD A 152
06AC6SOFTWAREGLU C:113 , BTB C:158BINDING SITE FOR RESIDUE CD C 153
07AC7SOFTWAREHIS D:133 , ASP D:137 , HOH D:294 , HOH D:313BINDING SITE FOR RESIDUE CD D 154
08AC8SOFTWAREHIS C:133 , ASP C:137BINDING SITE FOR RESIDUE CD C 155
09AC9SOFTWAREASP A:110 , GLU A:113 , TYR A:117 , CD A:148 , HOH A:161 , HOH A:189 , HOH A:319 , SER C:84 , GLU C:87 , ASP C:110 , BTB C:158BINDING SITE FOR RESIDUE BTB A 156
10BC1SOFTWAREASP B:110 , GLU B:113 , TYR B:117 , CD B:150 , HOH B:177 , HOH B:287 , HOH B:389 , SER D:84 , GLU D:87 , ASP D:102 , ASP D:110 , BTB D:159 , HOH D:165 , HOH D:275BINDING SITE FOR RESIDUE BTB B 157
11BC2SOFTWARESER A:84 , GLU A:87 , ASP A:110 , BTB A:156 , HOH A:226 , ASP C:110 , GLU C:113 , TYR C:117 , CD C:153 , HOH C:357 , HOH C:380BINDING SITE FOR RESIDUE BTB C 158
12BC3SOFTWARESER B:84 , GLU B:87 , ASP B:110 , BTB B:157 , HOH B:160 , HOH B:235 , ASP D:110 , GLU D:113 , TYR D:117 , CD D:149 , HOH D:184 , HOH D:267BINDING SITE FOR RESIDUE BTB D 159

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:8 -A:17
2A:73 -A:114
3B:8 -B:17
4B:73 -B:114
5C:8 -C:17
6C:73 -C:114
7D:8 -D:17
8D:73 -D:114

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1RJ4)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1RJ4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1RJ4)

(-) Exons   (0, 0)

(no "Exon" information available for 1RJ4)

(-) 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 A from PDB  Type:PROTEIN  Length:147
 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 d1rj4a_ A: Invertase inhibitor                                                                                                                      SCOP domains
               CATH domains 1rj4A00 A:1-147 Invertase/pectin methylesterase inhibitor family protein                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhh..hhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rj4 A   1 NNLVETTCKNTPNYQLCLKTLLSDKRSATGDITTLALIMVDAIKAKANQAAVTISKLRHSNPPAAWKGPLKNCAFSYKVILTASLPEAIEALTKGDPKFAEDGMVGSSGDAQECEEYFKGSKSPFSALNIAVHELSDVGRAIVRNLL 147
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       


Chain B 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 d1rj4b_ B: Invertase inhibitor                                                                                                                     SCOP domains
               CATH domains 1rj4B00 B:2-147 Invertase/pectin methylesterase inhibitor family protein                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rj4 B   2 NLVETTCKNTPNYQLCLKTLLSDKRSATGDITTLALIMVDAIKAKANQAAVTISKLRHSNPPAAWKGPLKNCAFSYKVILTASLPEAIEALTKGDPKFAEDGMVGSSGDAQECEEYFKGSKSPFSALNIAVHELSDVGRAIVRNLL 147
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141      


Chain C 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 d1rj4c_ C: Invertase inhibitor                                                                                                                     SCOP domains
               CATH domains 1rj4C00 C:2-147 Invertase/pectin methylesterase inhibitor family protein                                                                           CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh...hhhhhhhhhh.hhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rj4 C   2 NLVETTCKNTPNYQLCLKTLLSDKRSATGDITTLALIMVDAIKAKANQAAVTISKLRHSNPPAAWKGPLKNCAFSYKVILTASLPEAIEALTKGDPKFAEDGMVGSSGDAQECEEYFKGSKSPFSALNIAVHELSDVGRAIVRNLL 147
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141      


Chain D 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 d1rj4d_ D: Invertase inhibitor                                                                                                                     SCOP domains
               CATH domains 1rj4D00 D:2-147 Invertase/pectin methylesterase inhibitor family protein                                                                           CATH domains
           Pfam domains (1) PMEI-1rj4D01 D:2-142                                                                                                                         ----- Pfam domains (1)
           Pfam domains (2) PMEI-1rj4D02 D:2-142                                                                                                                         ----- Pfam domains (2)
           Pfam domains (3) PMEI-1rj4D03 D:2-142                                                                                                                         ----- Pfam domains (3)
           Pfam domains (4) PMEI-1rj4D04 D:2-142                                                                                                                         ----- Pfam domains (4)
         Sec.struct. author hhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rj4 D   2 NLVETTCKNTPNYQLCLKTLLSDKRSATGDITTLALIMVDAIKAKANQAAVTISKLRHSNPPAAWKGPLKNCAFSYKVILTASLPEAIEALTKGDPKFAEDGMVGSSGDAQECEEYFKGSKSPFSALNIAVHELSDVGRAIVRNLL 147
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 '|'

 Classification and Annotation

(-) SCOP Domains  (1, 4)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 4)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (1, 4)

Asymmetric Unit
(-)
Clan: no clan defined [family: PMEI] (6)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (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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  1rj4
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  O49908_TOBAC | O49908
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/TrEMBL
        O49908_TOBAC | O49908: 1rj1 2cj4 2cj5 2cj6 2cj7 2cj8 2xqr

(-) Related Entries Specified in the PDB File

1rj1 CRYSTALS GROWN IN THE ABSENCE OF CDCL2