The University of Texas Medical Branch
Department of Biochemistry and Molecular Biology Sealy Center for Structural Biology Computational Biology



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                SDAP - Structural Database of Allergenic Proteins
Go to: SDAP All allergens       Go to: SDAP Food allergens
Send a comment to Werner Braun      Submit new allergen information to SDAP
  
Alphabetical listing of allergens: A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
Access to SDAP is available free of charge for Academic and non-profit use.
Licenses for commercial use can be obtained by contacting W. Braun (webraun@utmb.edu).
Secure access to SDAP is available from https://fermi.utmb.edu/SDAP
Allergen Info Description
Allergen ID 300
Allergen Scientific Name Api g 4
Allergen Species - Systematic Name Apium graveolens
Allergen Species - Common Name celery
Allergen Common source foods
Allergen Common name
Allergen Keywords profilin
Allergen IUIS (Yes=1, No=0) 1
ID Allergen Name
Api g 4 - References
ID Reference
Pubmed ID: 11419723
Scheurer S, Wangorsch A, Nerkamp J, Skov PS, Ballmer-Weber B, Wuthrich B, Haustein D, Vieths S, Cross-reactivity within the profilin panallergen family investigated by comparison of recombinant profilins from pear (Pyr c 4), cherry (Pru av 4) and celery (Api g 4) with birch pollen profilin Bet v 2. J Chromatogr B Biomed Sci Appl. 2001 May 25;756(1-2):315-25.
Pubmed ID: 10848918
Scheurer S, Wangorsch A, Haustein D, Vieths S, Comment in: Clin Exp Allergy. 2000 Jul;30(7):905-7. Cloning of the minor allergen Api g 4 profilin from celery (Apium graveolens) and its cross-reactivity with birch pollen profilin Bet v 2. Clin Exp Allergy. 2000 Jul;30(7):962-71.
Api g 4 - Protein Sequences
Source Link to source
SwissProt Q9XF37
Api g 4 - Theoretical Model Structure
Model ID PDB file PDB Snapshot PDB Snapshot 90 PDB Snapshot 180 PDB Snapshot 270 3D PDB View
30 GetModel Model Pic Model Pic Model Pic Model Pic Click here
Api g 4 - Sequence Search
Sequence Header Sequence
Api g 4
SDAP Sequence ID: 30
SDAP Allergen ID: 300
MSWQAYVDDHLMCEVEGNPGQTLTAAAIIGHDGSVWAQSSTFPQIKPEEIAGIMKDFDEPGHLAPTGLYLGGAKYMVIQGEPNAVIRGKKGSGGVTIKKTGQALVFGVYDEPVTPGQCNVIVERLGDYLIDQGL
View 3D Structure Click here to view 3D model structure of allergen
Fasta Search in SDAP
Blast Swissprot database search at NCBI
Blast PDB database search at NCBI
Blast NR database search at NCBI
Expasy Blast Search
Api g 4 - Statistics from Alphafold ( SI is sequence id, Best template format: PDB_ChainID)
Allergen Name pLDDT Score pTM Score Best PDB template %Seq ID Align length Seq length Query Range Sequence Range E-Value Bit Score Download Model
Api g 4 96.4 0.88 1CQA_A 80.597 134 134 1 - 134 1 - 133 0 232 Download (SI: 30)
Api g 4 - Alphafold Theoretical Model Structure
Model Structure
30_relaxed_rank_1_model_2.pdb


Coverage Plddt
Api g 4 - Protein Sequence Properties!
Protein Sequence Protease cleavage sites PeptideCutter at ExPASy
Q9XF37 Click here to process the data
Api g 4 - PFAM Information
SeqID Aller ID AlnS AlnE EnvS EnvE PFAM ID Family Type Clan Description
30 300 1 133 1 134 PF00235 Profilin Domain CL0431 Profilin
Where: AlnS= Alignment start position, AlnE= Alignment end position, EnvS= Envelope start position, EnvE= Envelope end position.

Welcome

Predicted B-Cell epitope using BCEP method for Api g 4

Probe radius : 1.400

POLAR area/energy = 2563.52

APOLAR area/energy = 4087.17

Total area/energy = 6650.69

Number of surface atoms = 562

Number of buried atoms = 441

Residues Predicted with high probability (in top five patches) are: 43,44,45,46,71,112,114,115,116,117,69,72,73,74,75 , and medium probability (next top five patches) are : 75,76,90,36,31,32,33,54,101,102,78,87,89,91,49 . Predicted residues are shown in red and green color stick representation.

Original PDB file 3900.test.pdb
Original PDB file with surface residue only. All amino acid residue are replaced by their CB atom, in case of GLY CA atom is used. Solvent accessible surface area of each residue is stored in last column of the PDB file. 13900.test.txt
Patch drawn around the residues by patch analysis are stored in this file
How to read: Col 1: Patch No. Col 2: Center Res Name. Col 3: Sum(Pint*Area), Col 4: Sum(Psur*Area), Col 5: Total Residue, Col 6: Interface score, Col 7: Surface Score, Col 8: Max Interface Score, Col 9: Minimum Interface Score
3900.test.tmppat
Residues predicted by patch analysis are stored in this file.
How to read: Col 1: Patch No. Col 2: Center Res Name. Col 3: Res Number Col 4: Neigbouring Res Name, Col 5: Sum(Pint*Area). Col 6: Sum(PSur*Area), Col 7: Sum(Area), Col 8: Similar no of residue in patch (e.g CYS, CYS = 2)
3900.test.res
All residues scored by patch analysis are stored in this file.
How to read: Col 1: Patch No. Col 2: Center Res Name. Col 3: Sum(Pint*Area)/sum(Area), Col 4: Sum(Psur*Area)/sum(Area), Col 5: Total Residue
3900.test.resALL

[For BCEP predicted results, please cite our websites http://fermi.utmb.edu/ http://curie.utmb.edu/ for your future publications (Negi et al., Bioinformatics, 23, 3397-3399, 2007 , Negi et al., J. Mol. Model., 13, 1157-1167, 2007; Negi et al., J. Mol. Model., 12, 921-929, 2006)]



List of B-cell epitopes predicted by BepiPred method using a window size of 9 amino acids
Peptides predicted from BepiPred method can be used to search related peptides in SDAP using PD search and Cross-React method.
Please note: BepiPred Epitopes are predicted using BepiPred webserver implemented in IEDB Analysis Resource at http://tools.iedb.org/main/bcell/
Cleck here for epitopes predicted by BepiPred method

Api g 4 - Epitope Information from published data
No. Position Epitope Sequence Epitope Type View epitope Search epitope in SDAP PD search in SDAP Cross-React search
No epitope information found!
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