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(-) Description

Title :  CRYSTAL STRUCTURE OF A PECTIN METHYLESTERASE INHIBITOR FROM ARABIDOPSIS THALIANA
 
Authors :  M. Hothorn, S. Wolf, P. Aloy, S. Greiner, K. Scheffzek
Date :  19 Aug 04  (Deposition) - 28 Dec 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.86
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B,C  (1x)
Biol. Unit 3:  A,B,C  (1x)
Keywords :  Four-Helix Bundle, Alpha Hairpin, Disulfide Bridge, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Hothorn, S. Wolf, P. Aloy, S. Greiner, K. Scheffzek
Structural Insights Into The Target Specificity Of Plant Invertase And Pectin Methylesterase Inhibitory Proteins
Plant Cell V. 16 3437 2004
PubMed-ID: 15528298  |  Reference-DOI: 10.1105/TPC.104.025684
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - INVERTASE/PECTIN METHYLESTERASE INHIBITOR FAMILY PROTEIN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PETM 20
    Expression System Strain: ORIGAMI (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 1-149
    Gene: AT1G48020
    Organism Common: THALE CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: PECTIN METHYLESTERASE INHIBITOR
    Tissue: APOPLAST-CELL WALL

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (2x): A  
Biological Unit 2 (1x):  BC
Biological Unit 3 (1x): ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1X8Z)

(-) Sites  (0, 0)

(no "Site" information available for 1X8Z)

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:8 -A:17
2A:71 -A:111
3B:8 -B:17
4B:71 -B:111
5C:8 -C:17
6C:71 -C:111

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1X8Z)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1X8Z)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1X8Z)

(-) Exons   (0, 0)

(no "Exon" information available for 1X8Z)

(-) 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:151
 aligned with PMEI1_ARATH | Q9LNF2 from UniProtKB/Swiss-Prot  Length:176

    Alignment length:151
                                    35        45        55        65        75        85        95       105       115       125       135       145       155       165       175 
          PMEI1_ARATH    26 ITSSEMSTICDKTLNPSFCLKFLNTKFASPNLQALAKTTLDSTQARATQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGDGMGMNMKVSAALDGADTCLDDVKRLRSVDSSVVNNSKTIKNLCGIALVISNMLPRN 176
               SCOP domains d1x8za_ A: Pectin methylesterase inhibitor 1, PMEI1                                                                                                     SCOP domains
               CATH domains 1x8zA00 A:-1-149 Invertase/pectin methylesterase inhibitor family protein                                                                               CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1x8z A  -1 MDSSEMSTICDKTLNPSFCLKFLNTKFASPNLQALAKTTLDSTQARATQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGDGMGMNMKVSAALDGADTCLDDVKRLRSVDSSVVNNSKTIKNLCGIALVISNMLPRN 149
                                     8        18        28        38        48        58        68        78        88        98       108       118       128       138       148 


Chain B from PDB  Type:PROTEIN  Length:147
 aligned with PMEI1_ARATH | Q9LNF2 from UniProtKB/Swiss-Prot  Length:176

    Alignment length:147
                                    38        48        58        68        78        88        98       108       118       128       138       148       158       168       
          PMEI1_ARATH    29 SEMSTICDKTLNPSFCLKFLNTKFASPNLQALAKTTLDSTQARATQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGDGMGMNMKVSAALDGADTCLDDVKRLRSVDSSVVNNSKTIKNLCGIALVISNMLPR 175
               SCOP domains d1x8zb_ B: Pectin methylesterase inhibitor 1, PMEI1                                                                                                 SCOP domains
               CATH domains 1x8zB00 B:2-148 Invertase/pectin methylesterase inhibitor family protein                                                                            CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1x8z B   2 SEMSTICDKTLNPSFCLKFLNTKFASPNLQALAKTTLDSTQARATQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGDGMGMNMKVSAALDGADTCLDDVKRLRSVDSSVVNNSKTIKNLCGIALVISNMLPR 148
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       


Chain C from PDB  Type:PROTEIN  Length:150
 aligned with PMEI1_ARATH | Q9LNF2 from UniProtKB/Swiss-Prot  Length:176

    Alignment length:150
                                    36        46        56        66        76        86        96       106       116       126       136       146       156       166       176
          PMEI1_ARATH    27 TSSEMSTICDKTLNPSFCLKFLNTKFASPNLQALAKTTLDSTQARATQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGDGMGMNMKVSAALDGADTCLDDVKRLRSVDSSVVNNSKTIKNLCGIALVISNMLPRN 176
               SCOP domains d1x8zc_ C: Pectin methylesterase inhibitor 1, PMEI1                                                                                                    SCOP domains
               CATH domains 1x8zC00 C:0-149 Invertase/pectin methylesterase inhibitor family protein                                                                               CATH domains
           Pfam domains (1) -PMEI-1x8zC01 C:1-142                                                                                                                          ------- Pfam domains (1)
           Pfam domains (2) -PMEI-1x8zC02 C:1-142                                                                                                                          ------- Pfam domains (2)
           Pfam domains (3) -PMEI-1x8zC03 C:1-142                                                                                                                          ------- Pfam domains (3)
         Sec.struct. author ..hhhhhhhh...hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh....... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1x8z C   0 DSSEMSTICDKTLNPSFCLKFLNTKFASPNLQALAKTTLDSTQARATQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGDGMGMNMKVSAALDGADTCLDDVKRLRSVDSSVVNNSKTIKNLCGIALVISNMLPRN 149
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149
   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, 3)

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

(-) CATH Domains  (1, 3)

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

(-) Pfam Domains  (1, 3)

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

(-) Gene Ontology  (6, 6)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (PMEI1_ARATH | Q9LNF2)
molecular function
    GO:0004857    enzyme inhibitor activity    Binds to and stops, prevents or reduces the activity of an enzyme.
    GO:0046910    pectinesterase inhibitor activity    Stops, prevents or reduces the activity of any pectinesterase enzyme.
biological process
    GO:0043086    negative regulation of catalytic activity    Any process that stops or reduces the activity of an enzyme.
    GO:0009860    pollen tube growth    Growth of pollen via tip extension of the intine wall.
cellular component
    GO:0071944    cell periphery    The part of a cell encompassing the cell cortex, the plasma membrane, and any external encapsulating structures.
    GO:0090404    pollen tube tip    The region at growing end of the pollen tube cell, where polarized growth occurs.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PMEI1_ARATH | Q9LNF2: 1x90 1x91

(-) Related Entries Specified in the PDB File

1rj1 STRUCTURALLY RELATED INVERTASE INHIBITOR
1rj4 STRUCTURALLY RELATED INVERTASE INHIBITOR IN COMPLEX WITH CD2+
1x90 PECTIN METHYLESTERASE INHIBITOR MUTANT FORM B STRUCTURE
1x91 PECTIN METHYLESTERASE INHIBITOR MUTANT FORM A STRUCTURE