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(-) Description

Title :  CRYSTAL STRUCTURE OF CALCIUM2+-FREE WILD-TYPE CD23 LECTIN DOMAIN (CRYSTAL FORM A)
 
Authors :  B. Dhaliwal, N. Yahya, B. J. Sutton
Date :  11 Feb 13  (Deposition) - 28 Aug 13  (Release) - 28 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
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 :  Immunoglobulin Fold Lectin, Antibody Receptor, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Dhaliwal, M. O. Pang, D. Yuan, N. Yahya, S. M. Fabiane, J. M. Mcdonnell, H. J. Gould, A. J. Beavil, B. J. Sutton
Conformational Plasticity At The Ige-Binding Site Of The B-Cell Receptor Cd23.
Mol. Immunol. V. 56 693 2013
PubMed-ID: 23933509  |  Reference-DOI: 10.1016/J.MOLIMM.2013.07.005

(-) Compounds

Molecule 1 - LOW AFFINITY IMMUNOGLOBULIN EPSILON FC RECEPTOR
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: SOLUBLE HEAD DOMAIN OF THE B-CELL RECEPTOR CD23 (UNP RESIDUES 156-298)
    Gene: CD23A, CLEC4J, FCE2, FCER2, IGEBF
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BLAST-2, C-TYPE LECTIN DOMAIN FAMILY 4 MEMBER J, FC-EPSILON- RII, IMMUNOGLOBULIN E-BINDING FACTOR, LYMPHOCYTE IGE RECEPTOR, LOW AFFINITY IMMUNOGLOBULIN EPSILON FC RECEPTOR MEMBRANE-BOUND FORM, LOW AFFINITY IMMUNOGLOBULIN EPSILON FC RECEPTOR SOLUBLE FORM

 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  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1SO4-1Ligand/IonSULFATE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1SO4-1Ligand/IonSULFATE ION
Biological Unit 3 (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
Biological Unit 4 (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG A:263 , SER A:265 , ARG A:267 , HOH A:307 , ARG C:253 , SER C:254 , GLN C:255 , LYS D:229BINDING SITE FOR RESIDUE SO4 C 301
2AC2SOFTWAREARG B:263 , SER B:265 , ARG B:267 , ARG D:253 , SER D:254 , GLN D:255BINDING SITE FOR RESIDUE SO4 D 301

(-) SS Bonds  (14, 14)

Asymmetric Unit
No.Residues
1A:160 -A:288
2A:163 -A:174
3A:191 -A:282
4A:259 -A:273
5B:160 -B:288
6B:163 -B:174
7B:191 -B:282
8B:259 -B:273
9C:191 -C:282
10C:259 -C:273
11D:160 -D:288
12D:163 -D:174
13D:191 -D:282
14D:259 -D:273

(-) Cis Peptide Bonds  (5, 5)

Asymmetric Unit
No.Residues
1Glu A:249 -Pro A:250
2Glu B:249 -Pro B:250
3Glu C:249 -Pro C:250
4Ser C:254 -Gln C:255
5Glu D:249 -Pro D:250

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4J6J)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4J6J)

(-) Exons   (0, 0)

(no "Exon" information available for 4J6J)

(-) 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:135
                                                                                                                                                                       
               SCOP domains d4j6ja_ A: Low affinity immunoglobulin epsilon Fc receptor                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....eee..eeeeeeeeeehhhhhhhhhhh...ee....hhhhhhhhhhhh....eeeeee........ee........................eeee.....eeee.....eeeeeeeee.eee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j6j A 157 GFVCNTCPEKWINFQRKCYYFGKGTKQWVHARYACDDMEGQLVSIHSPEEQDFLTKHASHTGSWIGLRNLDLKGEFIWVDGSHVDYSNWAPGEPTSRSQGEDCVMMRGSGRWNDAFCDRKLGAWVCDRLATCTPP 291
                                   166       176       186       196       206       216       226       236       246       256       266       276       286     


Chain B from PDB  Type:PROTEIN  Length:135
                                                                                                                                                                       
               SCOP domains d4j6jb_ B: Low affinity immunoglobulin epsilon Fc receptor                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....eee..eeeeeeeeeehhhhhhhhhhh...ee....hhhhhhhhhhhh....eeeeee........ee........................eeee.....eeee.....eeeeeeeee.eee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j6j B 157 GFVCNTCPEKWINFQRKCYYFGKGTKQWVHARYACDDMEGQLVSIHSPEEQDFLTKHASHTGSWIGLRNLDLKGEFIWVDGSHVDYSNWAPGEPTSRSQGEDCVMMRGSGRWNDAFCDRKLGAWVCDRLATCTPP 291
                                   166       176       186       196       206       216       226       236       246       256       266       276       286     


Chain C from PDB  Type:PROTEIN  Length:135
                                                                                                                                                                       
               SCOP domains d4j6jc_ C: Low affinity immunoglobulin epsilon Fc receptor                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee.....eee..eeeeeeeeeehhhhhhhhhhh...ee....hhhhhhhhhhhh....eeeeeee......eee........................eeee.....eeee.....eeeeeeeee.ee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j6j C 157 GFVCNTCPEKWINFQRKCYYFGKGTKQWVHARYACDDMEGQLVSIHSPEEQDFLTKHASHTGSWIGLRNLDLKGEFIWVDGSHVDYSNWAPGEPTSRSQGEDCVMMRGSGRWNDAFCDRKLGAWVCDRLATCTPP 291
                                   166       176       186       196       206       216       226       236       246       256       266       276       286     


Chain D from PDB  Type:PROTEIN  Length:135
                                                                                                                                                                       
               SCOP domains d4j6jd_ D: Low affinity immunoglobulin epsilon Fc receptor                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....eee..eeeeeeeeeehhhhhhhhhhh...ee....hhhhhhhhhhhh....eeeeeee......eee........................eeee.....eeee.....eeeeeeeee.eee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4j6j D 157 GFVCNTCPEKWINFQRKCYYFGKGTKQWVHARYACDDMEGQLVSIHSPEEQDFLTKHASHTGSWIGLRNLDLKGEFIWVDGSHVDYSNWAPGEPTSRSQGEDCVMMRGSGRWNDAFCDRKLGAWVCDRLATCTPP 291
                                   166       176       186       196       206       216       226       236       246       256       266       276       286
   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, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4J6J)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4J6J)

(-) Gene Ontology  (17, 17)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        FCER2_HUMAN | P06734: 1hli 1kje 1t8c 1t8d 2h2r 2h2t 4ezm 4g96 4g9a 4gi0 4gj0 4gjx 4gk1 4gko 4j6k 4j6l 4j6m 4j6n 4j6p 4j6q 4ki1 5lgk

(-) Related Entries Specified in the PDB File

4g96