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(-) Description

Title :  HUMAN METAVINCULIN MVT Q971R, R975D, T978R MUTANT (RESIDUES 959-1134) IN COMPLEX WITH PIP2
 
Authors :  K. Chinthalapudi, T. Izard
Date :  27 Jul 16  (Deposition) - 31 Aug 16  (Release) - 07 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.40
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A (1x),B (1x)
Biol. Unit 2:  C (1x),D (1x)
Keywords :  5-Helix Bundle, Cytoskelatal Protein, Phospholipids, Cell Adhesion, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Chinthalapudi, E. S. Rangarajan, D. T. Brown, T. Izard
Differential Lipid Binding Of Vinculin Isoforms Promotes Quasi-Equivalent Dimerization.
Proc. Natl. Acad. Sci. Usa V. 113 9539 2016
PubMed-ID: 27503891  |  Reference-DOI: 10.1073/PNAS.1600702113

(-) Compounds

Molecule 1 - VINCULIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET28
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 959-1134
    Gene: VCL
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: METAVINCULIN,MV

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A (1x)B (1x)  
Biological Unit 2 (1x):   C (1x)D (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1PIO2Ligand/Ion[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL] OCTANOATE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1PIO1Ligand/Ion[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL] OCTANOATE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1PIO1Ligand/Ion[(2R)-2-OCTANOYLOXY-3-[OXIDANYL-[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIS(OXIDANYL)-4,5-DIPHOSPHONOOXY-CYCLOHEXYL]OXY-PHOSPHORYL]OXY-PROPYL] OCTANOATE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:983 , SER B:982 , LYS B:983 , LYS B:992 , LYS B:1129 , ARG D:1013binding site for residue PIO B 1201
2AC2SOFTWAREARG B:1076 , SER C:981 , SER C:982 , LYS C:983 , LYS C:992 , LYS C:1129 , SER D:982 , LYS D:983binding site for residue PIO C 1201
3AC3SOFTWAREASN C:985 , ASP C:986 , ILE C:987 , ALA C:989 , ALA C:990 , ALA C:991 , LYS C:992 , TRP C:1126binding site for Ligand ILE C 988 bound to ASN C 985
4AC4SOFTWARESER B:982 , ASN B:985 , ASP B:986 , ILE B:987 , ILE B:988 , ALA B:990 , ALA B:991 , LYS B:992 , ARG B:993 , THR B:1011 , LYS B:1012 , ALA B:1014 , LEU B:1015 , ILE B:1016 , GLN B:1017 , LYS B:1020 , PIO B:1201 , ASN D:985 , ASP D:986 , ILE D:987 , ILE D:988 , ALA D:990 , ALA D:991 , LYS D:992 , ARG D:993 , THR D:1011 , LYS D:1012 , ALA D:1014 , LEU D:1015 , GLN D:1017 , PHE D:1122 , THR D:1123binding site for Di-peptide ALA B 989 and ARG D 1013

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5L0G)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5L0G)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5L0G)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5L0G)

(-) Exons   (0, 0)

(no "Exon" information available for 5L0G)

(-) 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:172
                                                                                                                                                                                                             
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5l0g A  960 QPVNQPILAAARSLHDEARKWSSKGNDIIAAAKRMALLMAEMSRLVRGGSGTKRALIQCAKDIAKASDEVTRLAKEVAKQCTDKRIRTNLLQVCERIPTISTQLKILSTVKATMLGTNISDEESEQATEMLVHNAQNLMQSVKETVREAEAASIKIRTDAGFTLRWVRKTPW 1132
                                   969       979       989       999      1009      1019      1029      1039      1049      1059      1069     |1080      1090      1100      1110      1120      1130  
                                                                                                                                            1075|                                                       
                                                                                                                                             1077                                                       


Chain B from PDB  Type:PROTEIN  Length:172
                                                                                                                                                                                                             
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5l0g B  959 NQPVNQPILAAARSLHDEARKWSSKGNDIIAAAKRMALLMAEMSRLVRGGSGTKRALIQCAKDIAKASDEVTRLAKEVAKQCTDKRIRTNLLQVCERIPTISTQLKILSTVKATMLGRTNISDEESEQATEMLVHNAQNLMQSVKETVREAEAASIKIRTGFTLRWVRKTPW 1132
                                   968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108      1118|     1130  
                                                                                                                                                                                        1118|           
                                                                                                                                                                                         1121           


Chain C from PDB  Type:PROTEIN  Length:171
                                                                                                                                                                                                            
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5l0g C  959 NQPVNQPILAAARSLHDEARKWSSKGNDIIAAAKRMALLMAEMSRLVRGGSGTKRALIQCAKDIAKASDEVTRLAKEVAKQCTDKRIRTNLLQVCERIPTISTQLKILSTVKATMLGRTNISDEESEQATEMLVHNAQNLMQSVKETVREAEAASIKIRTFTLRWVRKTPW 1132
                                   968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108      1118|     1131 
                                                                                                                                                                                        1118|          
                                                                                                                                                                                         1122          


Chain D from PDB  Type:PROTEIN  Length:170
                                                                                                                                                                                                           
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                5l0g D  959 NQPVNQPILAAARSLHDEARKWSSKGNDIIAAAKRMALLMAEMSRLVRGGSGTKRALIQCAKDIAKASDEVTRLAKEVAKQCTDKRIRTNLLQVCERIPTISTQLKILSTVKATMLGNISDEESEQATEMLVHNAQNLMQSVKETVREAEAASIKIRTFTLRWVRKTPWY 1133
                                   968       978       988       998      1008      1018      1028      1038      1048      1058      1068      1080      1090      1100      1110      1123      1133
                                                                                                                                             1075|                                    1118|           
                                                                                                                                              1078                                     1122
   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 5L0G)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5L0G)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5L0G)

(-) Gene Ontology  (48, 48)

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  5l0g
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  VINC_HUMAN | P18206
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 Related Entries

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

UniProtKB/Swiss-Prot
        VINC_HUMAN | P18206: 1rkc 1rke 1syq 1tr2 1ydi 2gww 2hsq 2ibf 3h2u 3h2v 3jbk 3myi 3rf3 3s90 3tj5 3tj6 3vf0 4dj9 4ehp 4ln2 4lnp 4pr9 5l0c 5l0d 5l0f 5l0h 5l0i 5l0j

(-) Related Entries Specified in the PDB File

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