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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN ALPHA-DEFENSIN 1 (HNP1) I20A MUTANT
 
Authors :  W. D. Tolbert, X. Wu, M. Pazgier
Date :  20 Jun 13  (Deposition) - 27 Nov 13  (Release) - 27 Nov 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.72
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Antimicrobial Peptide, Human Alpha Defensin 1, Human Neutrophil Peptide 1, Antibiotic, Antiviral Defense, Defensin, Disulfide Bond, Fungicide, Phosphoprotein, Secreted, Antimicrobial Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Zhao, W. D. Tolbert, B. Ericksen, C. Zhan, X. Wu, W. Yuan, X. Li, M. Pazgier, W. Lu
Single, Double And Quadruple Alanine Substitutions At Oligomeric Interfaces Identify Hydrophobicity As The Key Determinant Of Human Neutrophil Alpha Defensin Hnp1 Function.
Plos One V. 8 78937 2013
PubMed-ID: 24236072  |  Reference-DOI: 10.1371/JOURNAL.PONE.0078937

(-) Compounds

Molecule 1 - NEUTROPHIL DEFENSIN 1
    Chains: A, B
    Engineered: YES
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DEFENSIN, ALPHA 1, HNP-1, HP-1, HP1, HP 1-56, NEUTROPHIL DEFENSIN 2, HNP-2, HP-2, HP2
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1CL6Ligand/IonCHLORIDE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:7 , HOH A:208BINDING SITE FOR RESIDUE CL A 101
2AC2SOFTWAREARG A:14 , ARG A:15 , ALA B:11 , HOH B:210BINDING SITE FOR RESIDUE CL B 101
3AC3SOFTWAREARG B:15BINDING SITE FOR RESIDUE CL B 102
4AC4SOFTWARECYS B:2 , HOH B:211BINDING SITE FOR RESIDUE CL B 103
5AC5SOFTWAREHOH A:209BINDING SITE FOR RESIDUE CL B 104
6AC6SOFTWAREGLY A:12 , GLU A:13 , GLY B:12 , GLU B:13BINDING SITE FOR RESIDUE CL B 105

(-) SS Bonds  (6, 6)

Asymmetric Unit
No.Residues
1A:2 -A:30
2A:4 -A:19
3A:9 -A:29
4B:2 -B:30
5B:4 -B:19
6B:9 -B:29

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Ile A:6 -Pro A:7
2Ile B:6 -Pro B:7

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4LBB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4LBB)

(-) Exons   (0, 0)

(no "Exon" information available for 4LBB)

(-) 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:30
                                                             
               SCOP domains ------------------------------ SCOP domains
               CATH domains ------------------------------ CATH domains
               Pfam domains ------------------------------ Pfam domains
         Sec.struct. author ..eee........eeeeeeee..eeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------ PROSITE
                 Transcript ------------------------------ Transcript
                  4lbb A  1 ACYCRIPACIAGERRYGTCAYQGRLWAFCC 30
                                    10        20        30


Chain B from PDB  Type:PROTEIN  Length:30
                                                             
               SCOP domains ------------------------------ SCOP domains
               CATH domains ------------------------------ CATH domains
               Pfam domains ------------------------------ Pfam domains
         Sec.struct. author ..eee........eeeeeeee..eeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------ PROSITE
                 Transcript ------------------------------ Transcript
                  4lbb B  1 ACYCRIPACIAGERRYGTCAYQGRLWAFCC 30
                                    10        20        30
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4LBB)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4LBB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4LBB)

(-) Gene Ontology  (18, 18)

Asymmetric Unit(hide GO term definitions)

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  DEF1_HUMAN | P59665
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 Related Entries

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

UniProtKB/Swiss-Prot
        DEF1_HUMAN | P59665: 1dfn 2kht 2pm1 2pm4 2pm5 3gny 3h6c 3hj2 3hjd 3lo1 3lo2 3lo4 3lo6 3lo9 3loe 3lvx 4du0 4lb1 4lb7 4lbf

(-) Related Entries Specified in the PDB File

3gny WILD TYPE HNP1
4lb1
4lb7
4lbf