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(-) Description

Title :  LIGAND PA-14 DOCKED TO PHOSPHOLIPASE D (1F0I)
 
Authors :  C. L. Aikens, A. Laederach, P. J. Reilly
Date :  26 Jul 04  (Deposition) - 09 Aug 05  (Release) - 09 Aug 05  (Revision)
Method :  THEORETICAL MODEL
Resolution :  NOT APPLICABLE
Chains :  Theor. Model :  A,_#
( #:   chains that contain no standard or modified protein/DNA/RNA residue)
 
Keywords :  Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. L. Aikens, A. Laederach, P. J. Reilly
Visualizing Complexes Of Phospholipids With Streptomyces Phospholipase D By Automated Docking.
Proteins V. 57 27 2004
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PHOSPHOLIPASE D
    Chains: A
    Organism Common: BACTERIA
    Organism Scientific: STREPTOMYCES SP.
    Strain: PMF

 Structural Features

(-) Chains, Units

  
Theoretical Model : 
( #:   chains that contain no standard or modified protein/DNA/RNA residue)
 

Summary Information (see also Sequences/Alignments below)

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

Theoretical Model (1, 1)
No.NameCountTypeFull Name
1XP41Ligand/Ion1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHATE

(-) Sites  (0, 0)

(no "Site" information available for 1U4W)

(-) SS Bonds  (4, 4)

Theoretical Model
No.Residues
1A:50 -A:56
2A:222 -A:241
3A:293 -A:339
4A:413 -A:502

(-) Cis Peptide Bonds  (4, 4)

Theoretical Model
No.Residues
1Thr A:47 -Pro A:48
2Ala A:86 -Pro A:87
3Cys A:339 -Pro A:340
4Pro A:340 -Pro A:341

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1U4W)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1U4W)

(-) Exons   (0, 0)

(no "Exon" information available for 1U4W)

(-) Sequences/Alignments

Theoretical Model
   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:496
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhh...eeeeeeeee.....hhhh.eeee...........hhhhhhhhhhhhhhhhh...eeeeeee....hhhhhhhhhhhhhhhhhh...eeeeeeee......hhhhhhhhhhhhhhhhhhh.eeeeeeee.............eeee...eeeee....hhhhhh.......eeeeeeehhhhhhhhhhhhhhhhhhhhh......eeeee........hhhhhhh.........eeeeeee.....................................hhhhhhhhhhhhhhhhhhhh...eeeeee.............hhhhhhhhhhhhhh..eeeeee.hhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhheeeee...................eeeee...eeeee...........eeeeeehhhhhhhhhhhhhhhhhhhhhhhh.ee.hhhee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1u4w A   1 AATPHLDAVEQTLRQVSPGLEGDVWERTSGNKLDGSAADPSDWLLQTPGCWGDDKCADRVGTKRLLAKMTENIGNATRTVDISTLAPFPNGAFQDAIVAGLKESAAKGNSLKVRILVGAAPHMNGIPSKYRDKLTAKLGKAAENITLNVASMTTSKTAFSWNHSKILVVDGQSALTGGINSWKDDYLDTTHPVSDVDLALTGPAAGSAGRYLDTLWTWTCKNKSNIASVWFAASGNAGCMPTMHKDTNPKASPATGNVPVIAVGGLGVGIKDVDPKSTFRPDLPTASDTKCVVGLHDNTNADRDYDTVNPEESALRALVASAKGHIEISQQDLNATCPPLPRYDIRLYDALAAKMAAGVKVRIVVSDPANRGYSQIKSLSEISDTLRNRLANITGGQQAAKTAMCSNLQLATFRSSPNGKWADGHPYAQHHKLVSVDSSTFYIGSKNLYPSWLQDFGYIVESPEAAKQLDAKLLDPQWKYSQETATVDYARGICGA 504
                                    10        20        30        40        50        60        70        80        90       100       110       120||     132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372||     388       398       408       418       428       438       448       458       468       478       488       498      
                                                                                                                                                  121|                                                                                                                                                                                                                                                      373|                                                                                                                            
                                                                                                                                                   124                                                                                                                                                                                                                                                       380
   Legend:   → Mismatch (orange background)
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  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 1U4W)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1U4W)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1U4W)

(-) Gene Ontology  (0, 0)

Theoretical Model(hide GO term definitions)
    (no "Gene Ontology" information available for 1U4W)

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  Cis Peptide Bonds
    Ala A:86 - Pro A:87   [ RasMol ]  
    Cys A:339 - Pro A:340   [ RasMol ]  
    Pro A:340 - Pro A:341   [ RasMol ]  
    Thr A:47 - Pro A:48   [ RasMol ]  
 

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  1u4w
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 Related Entries

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

(no "Entries Sharing at Least One Protein Chain" available for 1U4W)

(-) Related Entries Specified in the PDB File

1f0i THE CRYSTAL STRUCTURE USED FOR THE DOCKING SIMULATIONS
1taj LIGAND PC-8 COMPLEXED WITH PHOSPHOLIPASE D (1F0I)
1tak LIGAND PC-10 COMPLEXED WITH PHOSPHOLIPASE D (1F0I)
1tao LIGAND PC-14 COMPLEXED WITH PHOSPHOLIPASE D (1F0I)
1tav LIGAND PI-2 COMPLEXED WITH PHOSPHOLIPASE D (1F0I)
1tb1 LIGAND PS-10 COMPLEXED WITH PHOSPHOLIPASE D (1F0I)
1tb2 LIGAND PG-8 COMPLEXED WITH PHOSPHOLIPASE D (1F0I)
1u4t LIGAND PA-8 DOCKED TO PHOSPHOLIPASE D (1F0I)
1u4u LIGAND PA-10 DOCKED TO PHOSPHOLIPASE D (1F0I)
1u4v LIGAND PA-12 DOCKED TO PHOSPHOLIPASE D (1F0I)
1u4x LIGAND PA-14:1 DOCKED TO PHOSPHOLIPASE D (1F0I)
1u4y LIGAND PA-16 DOCKED TO PHOSPHOLIPASE D (1F0I)
1u4z LIGAND PA-18 DOCKED TO PHOSPHOLIPASE D (1F0I)
1u50 LIGAND PE-6 DOCKED TO PHOSPHOLIPASE D (1F0I)
1u51 LIGAND PA-18:1 DOCKED TO PHOSPHOLIPASE D (1F0I)
1u52 LIGAND PE-10 DOCKED TO PHOSPHOLIPASE D (1F0I)
itai LIGAND PA-2 COMPLEXED WITH PHOSPHOLIPASE D (1F0I)