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(-) Description

Title :  CRYSTAL STRUCTURE OF VSV-INDIANA (MUDD-SUMMERS STRAIN) GLYCOPROTEIN UNDER ITS ACIDIC CONFORMATION
 
Authors :  S. Roche, S. Bressanelli
Date :  09 Feb 16  (Deposition) - 24 Feb 16  (Release) - 24 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Membrane, Lipoprotein, Glycoprotein, Transmembrane, Envelope Protein, Membrane Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Roche, S. Bressanelli, F. A. Rey, Y. Gaudin
Crystal Structure Of The Low-Ph Form Of The Vesicular Stomatitis Virus Glycoprotein G.
Science V. 313 187 2006
PubMed-ID: 16840692  |  Reference-DOI: 10.1126/SCIENCE.1127683

(-) Compounds

Molecule 1 - GLYCOPROTEIN G
    Chains: A, B, C
    Organism Common: VSIV
    Organism Scientific: VESICULAR STOMATITIS INDIANA VIRUS (STRAIN MUDD-SUMMERS)
    Organism Taxid: 11279
    Strain: MUDD-SUMMERS

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2PE45Ligand/Ion2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:220 , TRP A:227 , PHE A:245 , ALA A:246 , ARG A:249 , PHE A:250 , GLU A:252binding site for residue PE4 A 501
2AC2SOFTWAREGLU A:327 , HOH A:673 , LYS B:220 , TRP B:227 , ALA B:246 , ARG B:249 , PHE B:250 , GLU B:252 , HOH B:658 , HOH B:749binding site for residue PE4 B 501
3AC3SOFTWAREILE B:339 , LEU B:340 , SER B:341 , ARG B:342 , VAL B:344 , ARG B:375 , THR B:376 , SER B:377 , SER B:378 , GLY B:379binding site for residue PE4 B 502
4AC4SOFTWAREPRO B:338 , ILE B:339 , SER B:378 , LYS B:381 , PHE B:382 , HIS C:33binding site for residue PE4 B 503
5AC5SOFTWAREASN C:20 , LYS C:220 , TRP C:227 , PHE C:245 , ALA C:246 , ARG C:249 , PHE C:250 , GLU C:252 , HOH C:645binding site for residue PE4 C 501
6AC6SOFTWAREGLU C:191 , ASP C:192 , GLU C:194 , HOH C:670binding site for residue CA C 502

(-) SS Bonds  (18, 18)

Asymmetric/Biological Unit
No.Residues
1A:24 -A:284
2A:59 -A:92
3A:68 -A:114
4A:153 -A:158
5A:177 -A:224
6A:219 -A:253
7B:24 -B:284
8B:59 -B:92
9B:68 -B:114
10B:153 -B:158
11B:177 -B:224
12B:219 -B:253
13C:24 -C:284
14C:59 -C:92
15C:68 -C:114
16C:153 -C:158
17C:177 -C:224
18C:219 -C:253

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5I2M)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5I2M)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5I2M)

(-) Exons   (0, 0)

(no "Exon" information available for 5I2M)

(-) 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:409
                                                                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.......ee.......hhhhhh.......eeeeeeeeee......ee.eeeeeeeeeeeeeee.....eeeeeeeeee..hhhhhhhhhhhhhh.................eeeeeeeeeeeee..eee......ee...hhh.ee...eee.....eeeee..hhhhhhhh.eeeeeeeeee...hhhhh.....eeee..eeeee....eeeee..eeeee.....eeee.hhhhhhhhh..........ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh....eeeeeeeee..eeeeeeeeeeeeee...ee...eeee.....eee.....eee..eee.hhh.eee..eee.hhhhhhhhhhhhhhhhhh..ee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i2m A   1 KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTALQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITHSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVTDAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMADKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDWAPYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHPH 409
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400         


Chain B from PDB  Type:PROTEIN  Length:410
                                                                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.......ee.......hhhhhh.......eeeeeeeeee......ee.eeeeeeeeeeeeeee.....eeeeeeeeee..hhhhhhhhhhhhhh.................eeeeeeeeeeeee..eeee....eee...hhh.ee...eee......eeee..hhhhhhhh.eeeeeeeeee...hhhhh.....eeee..eeeee....eeeee..eeeee.....eeee.hhhhhhhhh..........ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh....eeeeeeeee..eeeeeeeeeeeeee...ee...eeee.....eee.....eee..eee.hhh.eee..eee.hhhhhhhhhhhhhhhhhh..ee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5i2m B   1 KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTALQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITHSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVTDAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMADKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDWAPYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHPHI 410
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410


Chain C from PDB  Type:PROTEIN  Length:408
                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee.......ee.......hhhhhh.......eeeeeeeeee......ee.eeeeeeeeeeeeeee.....eeeeeeeeee..hhhhhhhhhhhhhh.................eeeeeeeeeeeee..eeee....eee...hhh.ee...eee......eeee..hhhhhhhh.eeeeeeeeee...hhhhh.....eeee..eeeee....eeeee..eeeee.....eeee.hhhhhhhhh..........ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhh....eeeeeeeee..eeeeeeeeeeeeee...ee...eeee.....eee.....eee..eee.hhh.eee..eee.hhhhhhhhhhhhhhhhhh..ee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5i2m C   1 KFTIVFPHNQKGNWKNVPSNYHYCPSSSDLNWHNDLIGTALQVKMPKSHKAIQADGWMCHASKWVTTCDFRWYGPKYITHSIRSFTPSVEQCKESIEQTKQGTWLNPGFPPQSCGYATVTDAEAVIVQVTPHHVLVDEYTGEWVDSQFINGKCSNYICPTVHNSTTWHSDYKVKGLCDSNLISMDITFFSEDGELSSLGKEGTGFRSNYFAYETGGKACKMQYCKHWGVRLPSGVWFEMADKDLFAAARFPECPEGSSISAPSQTSVDVSLIQDVERILDYSLCQETWSKIRAGLPISPVDLSYLAPKNPGTGPAFTIINGTLKYFETRYIRVDIAAPILSRMVGMISGTTTERELWDDWAPYEDVEIGPNGVLRTSSGYKFPLYMIGHGMLDSDLHLSSKAQVFEHP 408
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400
   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 ; only for superseded entry 2CMZ: 2,3)

(no "SCOP Domain" information available for 5I2M, only for superseded entry 2CMZ replaced by 5I2M)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5I2M)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5I2M)

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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        VGLG_VSIVM | P0C2X0: 5i2s

(-) Related Entries Specified in the PDB File

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