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(-) Description

Title :  CRYSTAL STRUCTURE OF THE CONSERVED HERPESVIRUS FUSION REGULATOR COMPLEX GH-GL
 
Authors :  T. K. Chowdary, E. E. Heldwein
Date :  04 Mar 10  (Deposition) - 07 Jul 10  (Release) - 01 Sep 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Glycoprotein H, Glycoprotein L, Gh/Gl, Envelope Protein, Herpes Simplex Virus, Disulfide Bond, Glycoprotein, Host Cell Membrane, Host Endosome, Host Membrane, Membrane, Transmembrane, Virion, Virus Reference Strain, Viral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. K. Chowdary, T. M. Cairns, D. Atanasiu, G. H. Cohen, R. J. Eisenberg, E. E. Heldwein
Crystal Structure Of The Conserved Herpesvirus Fusion Regulator Complex Gh-Gl.
Nat. Struct. Mol. Biol. V. 17 882 2010
PubMed-ID: 20601960  |  Reference-DOI: 10.1038/NSMB.1837

(-) Compounds

Molecule 1 - ENVELOPE GLYCOPROTEIN H
    Chains: A
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Common: FALL ARMYWORM
    Expression System Strain: SF9
    Expression System Taxid: 7108
    Expression System Vector Type: RECOMBINANT BACULOVIRUS
    Fragment: EXTRACELLULAR DOMAIN OF GLYCOPROTEIN H, RESIDUES 48-803
    Gene: ENVELOPE GLYCOPROTEIN H, GH, UL22
    Organism Common: HHV-2
    Organism Scientific: HUMAN HERPESVIRUS 2
    Organism Taxid: 10315
    Strain: HG52
    Synonym: GH
 
Molecule 2 - ENVELOPE GLYCOPROTEIN L
    Chains: B
    Engineered: YES
    Expression System: SPODOPTERA FRUGIPERDA
    Expression System Common: FALL ARMYWORM
    Expression System Strain: SF9
    Expression System Taxid: 7108
    Expression System Vector Type: RECOMBINANT BACULOVIRUS
    Gene: ENVELOPE GLYCOPROTEIN L, GL, UL1
    Organism Common: HHV-2
    Organism Scientific: HUMAN HERPESVIRUS 2
    Organism Taxid: 10315
    Strain: HG52
    Synonym: GL

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 5)

Asymmetric/Biological Unit (2, 5)
No.NameCountTypeFull Name
1NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
2XYL1Ligand/IonD-XYLITOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:71 , ASN A:73BINDING SITE FOR RESIDUE NAG A 810
2AC2SOFTWAREASN A:670 , HOH A:813BINDING SITE FOR RESIDUE NAG A 1670
3AC3SOFTWAREASN A:784 , THR A:786 , NAG A:1785BINDING SITE FOR RESIDUE NAG A 1784
4AC4SOFTWARELEU A:727 , NAG A:1784BINDING SITE FOR RESIDUE NAG A 1785
5AC5SOFTWAREGLU A:647 , HIS A:657 , ASN A:658 , ALA A:659 , LEU A:680 , ARG A:682BINDING SITE FOR RESIDUE XYL A 1

(-) SS Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1A:258 -A:429
2A:554 -A:589
3A:652 -A:706
4B:44 -B:76
5B:149 -B:160

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Phe A:99 -Pro A:100
2Ser A:146 -His A:147
3Asn B:151 -Phe B:152

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3M1C)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3M1C)

(-) Exons   (0, 0)

(no "Exon" information available for 3M1C)

(-) 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:719
 aligned with GH_HHV2H | P89445 from UniProtKB/Swiss-Prot  Length:838

    Alignment length:749
                                    58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718       728       738       748       758       768       778       788         
             GH_HHV2H    49 RLWLPNTPDASDPQRGRLAPPGELNLTTASVPMLRWYAERFCFVLVTTAEFPRDPGQLLYIPKTYLLGRPRNASLPELPEAGPTSRPPAEVTQLKGLSHNPGASALLRSRAWVTFAAAPDREGLTFPRGDDGATERHPDGRRNAPPPGPPAGTPRHPTTNLSIAHLHNASVTWLAARGLLRTPGRYVYLSPSASTWPVGVWTTGGLAFGCDAALVRARYGKGFMGLVISMRDSPPAEIIVVPADKTLARVGNPTDENAPAVLPGPPAGPRYRVFVLGAPTPADNGSALDALRRVAGYPEESTNYAQYMSRAYAEFLGEDPGSGTDARPSLFWRLAGLLASSGFAFVNAAHAHDAIRLSDLLGFLAHSRVLAGLAARGAAGCAADSVFLNVSVLDPAARLRLEARLGHLVAAILEREQSLVAHALGYQLAFVLDSPAAYGAVAPSAARLIDALYAEFLGGRALTAPMVRRALFYATAVLRAPFLAGAPSAEQRERARRGLLITTALCTSDVAAATHADLRAALARTDHQKNLFWLPDHFSPCAASLRFDLAEGGFILDALAMATRSDIPADVMAQQTRGVASVLTRWAHYNALIRAFVPEATHQCSGPSHNAEPRILVPITHNASYVVTHTPLPRGIGYKLTGVDVRRPLFITYLTATCEGHAREIEPKRLVRTENRRDLGLVGAVFLRYTPAGEVMSVLLVDTDATQQQLAQGPVAGTPNVFSSDVPSVALLLFPNGTVIHLLAFDTLP 797
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------                     -----------------------------------Herpes_glycop_H-3m1cA01 A:172-797                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Pfam domains
         Sec.struct. author .............hhhhhh.hhhhh...............eeeeeee.........eeeeee.hhhh---------------------...ee........hhhhhhh.....................................................hhhhhhhhhh.ee.........eeeee.........eeeeeeeeeeeee..eeeeeeee..eeeeeeee..eeeeeeeeee.....ee..........ee.........eeeeee...----hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhh.eehhhhhhhhhhhhhhhhhhhhhh...hhhhheeeee..hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh......hhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.................eee......eeeee......eeeee..........eeeee.....eeee..ee....-----........eeeee.....eeeeee..hhhhhhhhhh................eeeee.....eee.hhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3m1c A  49 RLWLPNTPDASDPQRGRLAPPGELNLTTASVPMLRWYAERFCFVLVTTAEFPRDPGQLLYIPKTYLL---------------------AEVTQLKGLSHNPGASALLRSRAWVTFAAAPDREGLTFPRGDDGATERHPDGRRNAPPPGPPAGTPRHPTTNLSIAHLHNASVTWLAARGLLRTPGRYVYLSPSASTWPVGVWTTGGLAFGCDAALVRARYGKGFMGLVISMRDSPPAEIIVVPADKTLARVGNPTDENAPAVLPGPPAGPRYRVFVLGAP----NGSALDALRRVAGYPEESTNYAQYMSRAYAEFLGEDPGSGTDARPSLFWRLAGLLASSGFAFVNAAHAHDAIRLSDLLGFLAHSRVLAGLAARGAAGCAADSVFLNVSVLDPAARLRLEARLGHLVAAILEREQSLVAHALGYQLAFVLDSPAAYGAVAPSAARLIDALYAEFLGGRALTAPMVRRALFYATAVLRAPFLAGAPSAEQRERARRGLLITTALCTSDVAAATHADLRAALARTDHQKNLFWLPDHFSPCAASLRFDLAEGGFILDALAMATRSDIPADVMAQQTRGVASVLTRWAHYNALIRAFVPEATHQCSGPSHNAEPRILVPITHNASYVVTHTPLPRGIGYKLTGVDVRRPLFITYLTATCEGHAREIEPKRLV-----RDLGLVGAVFLRYTPAGEVMSVLLVDTDATQQQLAQGPVAGTPNVFSSDVPSVALLLFPNGTVIHLLAFDTLP 797
                                    58        68        78        88        98       108      |  -         -       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318        |-   |   338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608       618       628       638       648       658       668       678       688       698       708       718|     |728       738       748       758       768       778       788         
                                                                                            115                   137                                                                                                                                                                                           327  332                                                                                                                                                                                                                                                                                                                                                                                                719   725                                                                        


Chain B from PDB  Type:PROTEIN  Length:146
 aligned with GL_HHV2H | P28278 from UniProtKB/Swiss-Prot  Length:224

    Alignment length:180
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203
             GL_HHV2H    24 TEYVLRSVIAKEVGDILRVPCMRTPADDVSWRYEAPSVIDYARIDGIFLRYHCPGLDTFLWDRHAQRAYLVNPFLFAAGFLEDLSHSVFPADTQETTTRRALYKEIRDALGSRKQAVSHAPVRAGCVNFDYSRTRRCVGRRDLRPANTTSTWEPPVSSDDEASSQSKPLATQPPVLALSN 203
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains -Herpes_UL1-3m1cB02 B:25-137                                                                                      -GlyL_C-3m1cB01 B:139-203                                          Pfam domains
         Sec.struct. author ..eee..ee..hhhhhhh............eee......hhhhh.eeeee.......eeeee....eeeeehhhhhhhhhhhhhhh..---.hhhhhhhhhhhhhhhhhhhh..............................-------------------------------.ee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3m1c B  24 TEYVLRSVIAKEVGDILRVPCMRTPADDVSWRYEAPSVIDYARIDGIFLRYHCPGLDTFLWDRHAQRAYLVNPFLFAAGFLEDLSHSV---DTQETTTRRALYKEIRDALGSRKQAVSHAPVRAGCVNFDYSRTRRCVGRRD-------------------------------PVLALSN 203
                                    33        43        53        63        73        83        93       103       | - |     123       133       143       153       163 |       -         -         -   |   203
                                                                                                                 111 115                                               165                             197
   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 3M1C)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3M1C)

(-) Pfam Domains  (3, 3)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: GlyL_C] (1)
(-)
Clan: no clan defined [family: Herpes_UL1] (1)
(-)
Clan: no clan defined [family: Herpes_glycop_H] (3)

(-) Gene Ontology  (12, 21)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (GH_HHV2H | P89445)
biological process
    GO:0019064    fusion of virus membrane with host plasma membrane    Fusion of a viral membrane with the host cell membrane during viral entry. Results in release of the virion contents into the cytoplasm.
    GO:0039663    membrane fusion involved in viral entry into host cell    Merging of the virion membrane and a host membrane (host plasma membrane or host organelle membrane) that is involved in the uptake of a virus into a host cell.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
cellular component
    GO:0044174    host cell endosome    A membrane-bounded organelle that carries materials newly ingested by endocytosis. It passes many of the materials to host cell lysosomes for degradation.
    GO:0044175    host cell endosome membrane    The lipid bilayer surrounding a host cell endosome.
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0020002    host cell plasma membrane    The plasma membrane surrounding a host cell.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019031    viral envelope    The lipid bilayer of a virion that surrounds the protein capsid. May also contain glycoproteins.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

Chain B   (GL_HHV2H | P28278)
biological process
    GO:0019064    fusion of virus membrane with host plasma membrane    Fusion of a viral membrane with the host cell membrane during viral entry. Results in release of the virion contents into the cytoplasm.
    GO:0039663    membrane fusion involved in viral entry into host cell    Merging of the virion membrane and a host membrane (host plasma membrane or host organelle membrane) that is involved in the uptake of a virus into a host cell.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
cellular component
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0020002    host cell plasma membrane    The plasma membrane surrounding a host cell.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0019031    viral envelope    The lipid bilayer of a virion that surrounds the protein capsid. May also contain glycoproteins.
    GO:0019012    virion    The complete fully infectious extracellular virus particle.
    GO:0055036    virion membrane    The lipid bilayer surrounding a virion.

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 Related Entries

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