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(-) Description

Title :  PDLIM4 PDZ IN COMPLEX WITH A PHAGE-DERIVED PEPTIDE
 
Authors :  B. A. Appleton, C. Wiesmann
Date :  09 Apr 14  (Deposition) - 10 Sep 14  (Release) - 26 Nov 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  Pdz, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Ernst, B. A. Appleton, Y. Ivarsson, Y. Zhang, D. Gfeller, C. Wiesmann, S. S. Sidhu
A Structural Portrait Of The Pdz Domain Family.
J. Mol. Biol. V. 426 3509 2014
PubMed-ID: 25158098  |  Reference-DOI: 10.1016/J.JMB.2014.08.012

(-) Compounds

Molecule 1 - PDZ AND LIM DOMAIN PROTEIN 4
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: PDLIM4, RIL
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: LIM PROTEIN RIL, REVERSION-INDUCED LIM PROTEIN

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4Q2O)

(-) Sites  (0, 0)

(no "Site" information available for 4Q2O)

(-) SS Bonds  (5, 5)

Asymmetric Unit
No.Residues
1A:44 -B:44
2A:72 -D:72
3C:44 -D:44
4C:72 -E:72
5E:44 -F:44

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Gly A:9 -Pro A:10
2Ser A:11 -Pro A:12
3Gly B:9 -Pro B:10
4Ser B:11 -Pro B:12
5Gly C:9 -Pro C:10
6Ser C:11 -Pro C:12
7Gly D:9 -Pro D:10
8Ser D:11 -Pro D:12
9Gly E:9 -Pro E:10
10Ser E:11 -Pro E:12
11Gly F:9 -Pro F:10
12Ser F:11 -Pro F:12

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4Q2O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4Q2O)

(-) Exons   (0, 0)

(no "Exon" information available for 4Q2O)

(-) 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:92
                                                                                                                           
               SCOP domains -------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......eeeeeehhhheeeeeeee...hhhhhh......eeeee..ee....hhhhhhhhhh...eeeeeee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                  4q2o A  1 MPHSVTLRGPSPWGFRLVGGRDFSAPLTISRVHAGSKAALAALCPGDLIQAINGESTELMTHLEAQNRIKGCDHLTLSVSRPEGGGVESPWL 95
                                    10        20        30        40        50        60        70 ||     81  ||    93  
                                                                                                  72|        84|        
                                                                                                   74         87        


Chain B from PDB  Type:PROTEIN  Length:89
                                                                                                                        
               SCOP domains ----------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......eeeeeehhhheeeeeeee...hhhhhh......eeeee..ee....hhhhhhhhhhh...eeeeeee........ Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                  4q2o B  1 MPHSVTLRGPSPWGFRLVGGRDFSAPLTISRVHAGSKAALAALCPGDLIQAINGESTELMTHLEAQNRIKGCHDHLTLSVSRPVESPWL 95
                                    10        20        30        40        50        60        70        80  ||     
                                                                                                             83|     
                                                                                                              90     


Chain C from PDB  Type:PROTEIN  Length:88
                                                                                                                       
               SCOP domains ---------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......eeeeee....eeeeeeee...hhhhhh......eeeee..ee....hhhhhhhhhh....eeeeeee....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------- Transcript
                  4q2o C  1 MPHSVTLRGPSPWGFRLVGGRDFSAPLTISRVHAGSKAALAALCPGDLIQAINGESTELMTHLEAQNRIKGCHDHLTLSVSRPESPWL 95
                                    10        20        30        40        50        60        70        80  ||    
                                                                                                             83|    
                                                                                                              91    


Chain D from PDB  Type:PROTEIN  Length:84
                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeeee......eeee....eeeee...hhhhhh......eeeee..ee....hhhhhhhhhhh...eeeeeee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------ Transcript
                  4q2o D  1 MPHSVTLRGPSPWGFRLVGGPLTISRVHAGSKAALAALCPGDLIQAINGESTELMTHLEAQNRIKGCHDHLTLSVSRPVESPWL 95
                                    10        20|       35        45        55        65        75       |91    
                                              20|                                                       83|     
                                               26                                                        90     


Chain E from PDB  Type:PROTEIN  Length:86
                                                                                                                     
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee......eeeeeehhhheeeeeeee...hhhhhh......eeeee..ee....hhhhhhhhhh....eeeeeee....... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------- Transcript
                  4q2o E  3 HSVTLRGPSPWGFRLVGGRDFSAPLTISRVHAGSKAALAALCPGDLIQAINGESTELMTHLEAQNRIKGCHDHLTLSVSRPESPWL 95
                                    12        22        32        42        52        62        72        82||    
                                                                                                           83|    
                                                                                                            91    


Chain F from PDB  Type:PROTEIN  Length:92
                                                                                                                           
               SCOP domains -------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......eeeeeehhhheeeeeeee...hhhhhh......eeeee..ee....hhhhhhhhhh...eeeeeee............ Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------- Transcript
                  4q2o F  1 MPHSVTLRGPSPWGFRLVGGRDFSAPLTISRVHAGSKAALAALCPGDLIQAINGESTELMTHLEAQNRIKGCDHLTLSVSRPEGGGVESPWL 95
                                    10        20        30        40        50        60        70 ||     81  ||    93  
                                                                                                  72|        84|        
                                                                                                   74         87
   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 4Q2O)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4Q2O)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4Q2O)

(-) Gene Ontology  (3, 3)

Asymmetric Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Gly A:9 - Pro A:10   [ RasMol ]  
    Gly B:9 - Pro B:10   [ RasMol ]  
    Gly C:9 - Pro C:10   [ RasMol ]  
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    Gly F:9 - Pro F:10   [ RasMol ]  
    Ser A:11 - Pro A:12   [ RasMol ]  
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    Ser C:11 - Pro C:12   [ RasMol ]  
    Ser D:11 - Pro D:12   [ RasMol ]  
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    Ser F:11 - Pro F:12   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        PDLI4_HUMAN | P50479: 2eeg 2v1w

(-) Related Entries Specified in the PDB File

4q2n 4q2p 4q2q