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(-) Description

Title :  CRYSTAL STRUCTURE OF EXPB1 (ZEA M 1), A BETA-EXPANSIN AND GROUP-1 POLLEN ALLERGEN FROM MAIZE
 
Authors :  N. H. Yennawar, D. J. Cosgrove
Date :  19 Jun 06  (Deposition) - 22 Aug 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.75
Chains :  Asym./Biol. Unit :  X
Keywords :  Domain 1 Is A Beta Barrel And Domain 2 Is A Immunoglobulin Like Beta- Sandwich, Allergen (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  N. H. Yennawar, L. C. Li, D. M. Dudzinski, A. Tabuchi, D. J. Cosgrove
Crystal Structure And Activities Of Expb1 (Zea M 1), A Beta-Expansin And Group-1 Pollen Allergen From Maize.
Proc. Natl. Acad. Sci. Usa V. 103 14664 2006
PubMed-ID: 16984999  |  Reference-DOI: 10.1073/PNAS.0605979103

(-) Compounds

Molecule 1 - BETA-EXPANSIN 1A
    Chains: X
    Organism Scientific: ZEA MAYS
    Organism Taxid: 4577
    Synonym: POLLEN ALLERGEN ZEA M 1, ZEA M I
    Tissue: POLLEN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : X

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 8)

Asymmetric/Biological Unit (5, 8)
No.NameCountTypeFull Name
1FCA1Ligand/IonALPHA-D-FUCOSE
2HYP1Mod. Amino Acid4-HYDROXYPROLINE
3MAN3Ligand/IonALPHA-D-MANNOSE
4NAG2Ligand/IonN-ACETYL-D-GLUCOSAMINE
5XYS1Ligand/IonXYLOPYRANOSE

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN X:10 , LYS X:65 , ASP X:66 , GLY X:120 , NAG X:247 , FCA X:252 , HOH X:258BINDING SITE FOR RESIDUE NAG X 246
2AC2SOFTWAREASP X:66 , NAG X:246 , MAN X:248 , MAN X:249 , FCA X:252BINDING SITE FOR RESIDUE NAG X 247
3AC3SOFTWAREASN X:31 , NAG X:247 , MAN X:249 , XYS X:250 , MAN X:251 , HOH X:267BINDING SITE FOR RESIDUE MAN X 248
4AC4SOFTWARENAG X:247 , MAN X:248 , XYS X:250 , HOH X:267BINDING SITE FOR RESIDUE MAN X 249
5AC5SOFTWAREPRO X:36 , MAN X:248 , MAN X:249BINDING SITE FOR RESIDUE XYS X 250
6AC6SOFTWAREALA X:35 , ASP X:37 , ASP X:95 , MAN X:248BINDING SITE FOR RESIDUE MAN X 251
7AC7SOFTWARENAG X:246 , NAG X:247BINDING SITE FOR RESIDUE FCA X 252

(-) SS Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1X:42 -X:70
2X:73 -X:140
3X:78 -X:84

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Pro X:50 -Pro X:51

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric/Biological Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1EXPANSIN_EG45PS50842 Expansin, family-45 endoglucanase-like domain profile.EXPB1_MAIZE63-169  1X:39-145
2EXPANSIN_CBDPS50843 Expansin, Cellulose-binding-like domain profile.EXPB1_MAIZE183-264  1X:159-240

(-) Exons   (0, 0)

(no "Exon" information available for 2HCZ)

(-) 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 X from PDB  Type:PROTEIN  Length:242
 aligned with EXPB1_MAIZE | P58738 from UniProtKB/Swiss-Prot  Length:269

    Alignment length:242
                                    37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267  
          EXPB1_MAIZE    28 KVPPGPNITTNYNGKWLTARATWYGQPNGAGAPDNGGACGIKNVNLPPYSGMTACGNVPIFKDGKGCGSCYEVRCKEKPECSGNPVTVYITDMNYEPIAPYHFDLSGKAFGSLAKPGLNDKIRHCGIMDVEFRRVRCKYPAGQKIVFHIEKGCNPNYLAVLVKYVADDGDIVLMEIQDKLSAEWKPMKLSWGAIWRMDTAKALKGPFSIRLTSESGKKVIAKDVIPANWRPDAVYTSNVQFY 269
               SCOP domains d2hczx1 X:4-145 automated matches                                                                                                             d2hczx2 X:146-245 automated matches                                                                  SCOP domains
               CATH domains 2hczX01 X:4-141 Barwin-like endoglucanases                                                                                                2hczX02 X:142-245  [code=2.60.40.760, no name defined]                                                   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eeeeeee.............................eeeehhhhhhhhh....eeeee...........eeeeeeee........eeeehhhhhhhh....hhhhhh....eeeeeeee..........eeee..........eeee.......eeeee............eeee..eee............eeeee....eeee............eee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------EXPANSIN_EG45  PDB: X:39-145 UniProt: 63-169                                                               -------------EXPANSIN_CBD  PDB: X:159-240 UniProt: 183-264                                     ----- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2hcz X   4 KVPPGpNITTNYNGKWLTARATWYGQPNGAGAPDNGGACGIKNVNLPPYSGMTACGNVPIFKDGKGCGSCYEVRCKEKPECSGNPVTVYITDMNYEPIAPYHFDLSGKAFGSLAKPGLNDKIRHCGIMDVEFRRVRCKYPAGQKIVFHIEKGCNPNYLAVLVKYVADDGDIVLMEIQDKLSAEWKPMKLSWGAIWRMDTAKALKGPFSIRLTSESGKKVIAKDVIPANWRPDAVYTSNVQFY 245
                                 |  13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243  
                                 9-HYP
   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  (2, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (5, 5)

Asymmetric/Biological Unit(hide GO term definitions)
Chain X   (EXPB1_MAIZE | P58738)
biological process
    GO:0071555    cell wall organization    A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
    GO:0019953    sexual reproduction    A reproduction process that creates a new organism by combining the genetic material of two organisms. It occurs both in eukaryotes and prokaryotes: in multicellular eukaryotic organisms, an individual is created anew; in prokaryotes, the initial cell has additional or transformed genetic material. In a process called genetic recombination, genetic material (DNA) originating from two different individuals (parents) join up so that homologous sequences are aligned with each other, and this is followed by exchange of genetic information. After the new recombinant chromosome is formed, it is passed on to progeny.
cellular component
    GO:0005618    cell wall    The rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal, most prokaryotic cells and some protozoan parasites, maintaining their shape and protecting them from osmotic lysis. In plants it is made of cellulose and, often, lignin; in fungi it is composed largely of polysaccharides; in bacteria it is composed of peptidoglycan; in protozoan parasites such as Giardia species, it's made of carbohydrates and proteins.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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1n10 CRYSTAL STRUCTURE OF PHL P 1, A MAJOR TIMOTHY GRASS POLLEN ALLERGEN