Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asymmetric Unit
(-)Biological Unit 1
collapse expand < >
Image Asymmetric Unit
Asymmetric Unit  (Jmol Viewer)
Image Biological Unit 1
Biological Unit 1  (Jmol Viewer)

(-) Description

Title :  NEW HIV ENTRY INHIBITOR MTSFT/T23 COMPLEX
 
Authors :  X. Yao, H. H. Chong, S. Waltersperger, M. T. Wang, Y. X. He, S. Cui
Date :  22 Nov 12  (Deposition) - 22 Jan 14  (Release) - 22 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.43
Chains :  Asym. Unit :  C,D
Biol. Unit 1:  C,D  (3x)
Keywords :  6-Helix Bundle, Coiled-Coil, Membrane, Fusion Inhibitor, M-T Hook, 6- Helix-Bundle, Tryptophan-Methionine, Viral Protein-Antiviral Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  X. Yao, H. H. Chong, S. Waltersperger, M. T. Wang, Y. X. He, S. Cui
Potent Antiviral Activity Of The Novel Hiv Entry Inhibitor Mtsft
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - GP41
    Chains: C
    Engineered: YES
    Fragment: N-PEPTIDE T23, UNP RESIDUES 549-589
    Organism Common: HIV-1
    Organism Scientific: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1
    Organism Taxid: 11708
    Other Details: HIV GP41 NHR 550-590 SEQUENCE OCCURS NATURALLY IN HIV-1 VIRUS
    Synonym: TRANSMEMBRANE PROTEIN GP41, TM, GLYCOPROTEIN 41
    Synthetic: YES
 
Molecule 2 - INHIBITOR MTSFT
    Chains: D
    Engineered: YES
    Other Details: SEQUENCE OF MTSFT DOES NOT OCCUR NATURALLY IN HIV-1, BUT DESIGNED BASED ON SEQUENCE OF HIV-1 GP41 CHR
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : CD
Biological Unit 1 (3x): CD

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 2)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2NH21Mod. Amino AcidAMINO GROUP
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1ACE3Mod. Amino AcidACETYL GROUP
2NH23Mod. Amino AcidAMINO GROUP

(-) Sites  (0, 0)

(no "Site" information available for 4I2L)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4I2L)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4I2L)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4I2L)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4I2L)

(-) Exons   (0, 0)

(no "Exon" information available for 4I2L)

(-) 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 C from PDB  Type:PROTEIN  Length:42
                                                                          
               SCOP domains ------------------------------------------ SCOP domains
               CATH domains ------------------------------------------ CATH domains
               Pfam domains ------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------ PROSITE
                 Transcript ------------------------------------------ Transcript
                 4i2l C 550 QQQNNLLRAIEAQQHLLQLTVWGIKQLQARILAVERYLKDQx 591
                                   559       569       579       589 |
                                                                   591-NH2


Chain D from PDB  Type:PROTEIN  Length:37
                                                                     
               SCOP domains ------------------------------------- SCOP domains
               CATH domains ------------------------------------- CATH domains
               Pfam domains ------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------- PROSITE
                 Transcript ------------------------------------- Transcript
                 4i2l D 625 xMTWETWEREIENYTKQIYKILEESQEQQDRNEKDLL 661
                            |      634       644       654       
                            |                                    
                          625-ACE
   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 4I2L)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4I2L)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4I2L)

(-) Gene Ontology  (21, 21)

Asymmetric Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    ACE  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    NH2  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
(no "Sites" information available for 4i2l)
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 4i2l)
 
Biological Unit
  Complete Structure
    Biological Unit 1  [ Jena3D ]

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym. Unit PNG format | Biol. Unit 1 PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4i2l
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  ENV_HV1Z6 | P04580
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  ENV_HV1Z6 | P04580
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        ENV_HV1Z6 | P04580: 1tjh 1tji 2zzo 3f4y 3f50 3g7a 3moa 3mob 3mod

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4I2L)