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(-) Description

Title :  THE CRYSTAL STRUCTURE OF PECAM-1 IGL1-2 TRANS-HOMOPHILIC DIMER
 
Authors :  M. Hu, H. Zhang, Q. Liu, Q. Hao
Date :  21 Jul 16  (Deposition) - 21 Dec 16  (Release) - 01 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.01
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Cell Adhesion Molecule, Immunoglobulin-Like Domain, Trans-Homophilic Dimer, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Hu, H. Zhang, Q. Liu, Q. Hao
Structural Basis For Human Pecam-1-Mediated Trans-Homophili Cell Adhesion
Sci Rep V. 6 38655 2016
PubMed-ID: 27958302  |  Reference-DOI: 10.1038/SREP38655

(-) Compounds

Molecule 1 - PLATELET ENDOTHELIAL CELL ADHESION MOLECULE
    Chains: A, B
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Taxid: 7111
    Expression System Vector Type: BACULOVIRUS
    Fragment: UNP RESIDUES 28-232
    Gene: PECAM1
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PECAM-1,ENDOCAM,GPIIA',PECA1

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 5GNI)

(-) Sites  (0, 0)

(no "Site" information available for 5GNI)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:57 -A:109
2A:152 -A:206
3B:57 -B:109
4B:152 -B:206

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Leu A:42 -Pro A:43
2Ala A:159 -Pro A:160
3Leu B:42 -Pro B:43
4Ala B:159 -Pro B:160

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5GNI)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5GNI)

(-) Exons   (0, 0)

(no "Exon" information available for 5GNI)

(-) 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 A from PDB  Type:PROTEIN  Length:196
                                                                                                                                                                                                                                    
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee..ee...eee....eeeeeeeeeee.....eeeeeee..eeeeeeee...eeeeee...hhhhheeeeeeeee.........eeeeee.....eeee...ee.......eeee.......eeeeeeeee....eeeeeeeeee....eeee.........eeeeeeeeeee...eee....eeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gni A  31 SFTINSVDMKSLPDWTVQNGKQLTLQCFADVSTTSKPQHQMLFYKDDVLFYQISSMKSTESYFIPEVRIYDSGTYKCTVIVNNKEKTTAEYQLLVEGVPSPRVTLDKKEAIQGGIVRVQCSVPEEKAPIHFTIEKLELNEKMVKLKREKNSRDQNFVILEFPVEEQDRVLSFRCQARIISGIHMQTSESTKSELVT 228
                                    40        50        60    ||  72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222      
                                                             65|                                                                                                                                                                
                                                              68                                                                                                                                                                


Chain B from PDB  Type:PROTEIN  Length:198
                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeee..ee...eee....eeeeeeeeeee......eeeeeee..eeeeeeee...eeeeee...hhhhheeeeeeeee.........eeeeee.....eeee...eee...eeeeeee.......eeeeeeeee.......eeeeeee....eeeeeee......eeeeeeeeeee...eee...eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5gni B  31 SFTINSVDMKSLPDWTVQNGKQLTLQCFADVSTTSVKPQHQMLFYKDDVLFYQISSMKSTESYFIPEVRIYDSGTYKCTVIVNNKEKTTAEYQLLVEGVPSPRVTLDKKEAIQGGIVRVQCSVPEEKAPIHFTIEKLELNEKMVKLKREKNSRDQNFVILEFPVEEQDRVLSFRCQARIISGIHMQTSESTKSELVTV 229
                                    40        50        60    ||  71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221        
                                                             65|                                                                                                                                                                  
                                                              67
   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  (0, 0)

(no "SCOP Domain" information available for 5GNI)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5GNI)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5GNI)

(-) Gene Ontology  (18, 18)

Asymmetric/Biological Unit(hide GO term definitions)

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  Ligands, Modified Residues, Ions
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  Sites
(no "Sites" information available for 5gni)
 
  Cis Peptide Bonds
    Ala A:159 - Pro A:160   [ RasMol ]  
    Ala B:159 - Pro B:160   [ RasMol ]  
    Leu A:42 - Pro A:43   [ RasMol ]  
    Leu B:42 - Pro B:43   [ RasMol ]  
 

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  5gni
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  PECA1_HUMAN | P16284
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 Related Entries

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

UniProtKB/Swiss-Prot
        PECA1_HUMAN | P16284: 2ky5 5c14

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5GNI)