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(-) Description

Title :  DOMAIN-SWAPPED CYANOVIRIN-N DIMER
 
Authors :  L. G. Barrientos, J. M. Louis, I. Botos, T. Mori, Z. Han, B. R. O'Keefe, M. R. Boyd, A. Wlodawer, A. M. Gronenborn
Date :  06 Mar 02  (Deposition) - 22 May 02  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Cyanovirin-N, Hiv-Inactivating, Domain-Swapping, Gp120, Antiviral Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. G. Barrientos, J. M. Louis, I. Botos, T. Mori, Z. Han, B. R. O'Keefe, M. R. Boyd, A. Wlodawer, A. M. Gronenborn
The Domain-Swapped Dimer Of Cyanovirin-N Is In A Metastable Folded State: Reconciliation Of X-Ray And Nmr Structures.
Structure V. 10 673 2002
PubMed-ID: 12015150  |  Reference-DOI: 10.1016/S0969-2126(02)00758-X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYANOVIRIN-N
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: NOSTOC ELLIPSOSPORUM
    Organism Taxid: 45916
    Synonym: CV-N

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1NA1Ligand/IonSODIUM ION
2NHE1Ligand/Ion2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:38 , GLN A:50 , HOH A:307 , HOH A:311 , SER B:38 , GLN B:50BINDING SITE FOR RESIDUE NA A 302
2AC2SOFTWARELYS A:48 , TRP A:49 , ASN A:53 , THR A:57 , LYS A:74 , THR A:75 , ARG A:76 , HOH A:339 , ASN B:42 , ASP B:44BINDING SITE FOR RESIDUE NHE A 301

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:8 -A:22
2A:58 -A:73
3B:8 -B:22
4B:58 -B:73

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1L5B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1L5B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1L5B)

(-) Exons   (0, 0)

(no "Exon" information available for 1L5B)

(-) 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:101
 aligned with CVN_NOSEL | P81180 from UniProtKB/Swiss-Prot  Length:101

    Alignment length:101
                                    10        20        30        40        50        60        70        80        90       100 
            CVN_NOSEL     1 LGKFSQTCYNSAIQGSVLTSTCERTNGGYNTSSIDLNSVIENVDGSLKWQPSNFIETCRNTQLAGSSELAAECKTRAQQFVSTKINLDDHIANIDGTLKYE 101
               SCOP domains d1l5ba_ A: Cyanovirin-N                                                                               SCOP domains
               CATH domains 1l5bA00 A:1-101 HIV-inactivating Protein,Cyanovirin-n;                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhh.eeeeeee..eeeeeee.....eeeeeee....eeee..eeee...hhhhheeeeeee...eeeeeee.....eeeeeee....eee....eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1l5b A   1 LGKFSQTCYNSAIQGSVLTSTCERTNGGYNTSSIDLNSVIENVDGSLKWQPSNFIETCRNTQLAGSSELAAECKTRAQQFVSTKINLDDHIANIDGTLKYE 101
                                    10        20        30        40        50        60        70        80        90       100 


Chain B from PDB  Type:PROTEIN  Length:101
 aligned with CVN_NOSEL | P81180 from UniProtKB/Swiss-Prot  Length:101

    Alignment length:101
                                    10        20        30        40        50        60        70        80        90       100 
            CVN_NOSEL     1 LGKFSQTCYNSAIQGSVLTSTCERTNGGYNTSSIDLNSVIENVDGSLKWQPSNFIETCRNTQLAGSSELAAECKTRAQQFVSTKINLDDHIANIDGTLKYE 101
               SCOP domains d1l5bb_ B: Cyanovirin-N                                                                               SCOP domains
               CATH domains 1l5bB00 B:1-101 HIV-inactivating Protein,Cyanovirin-n;                                                CATH domains
           Pfam domains (1) --CVNH-1l5bB01 B:3-100                                                                              - Pfam domains (1)
           Pfam domains (2) --CVNH-1l5bB02 B:3-100                                                                              - Pfam domains (2)
         Sec.struct. author ..hhhh.eeeeeee..eeeeeee.....eeeeeee....eeee..eeee........eeeeeee...eeeeeee.....ee..eee....eee....eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------- Transcript
                 1l5b B   1 LGKFSQTCYNSAIQGSVLTSTCERTNGGYNTSSIDLNSVIENVDGSLKWQPSNFIETCRNTQLAGSSELAAECKTRAQQFVSTKINLDDHIANIDGTLKYE 101
                                    10        20        30        40        50        60        70        80        90       100
   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  (1, 2)

Asymmetric/Biological Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: CVNH] (11)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (CVN_NOSEL | P81180)
molecular function
    GO:0030246    carbohydrate binding    Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
biological process
    GO:0050688    regulation of defense response to virus    Any process that modulates the frequency, rate or extent of the antiviral response of a cell or organism.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CVN_NOSEL | P81180: 1iiy 1j4v 1l5e 1lom 1n02 2ezm 2ezn 2pys 2rdk 2rp3 2z21 3czz 3ezm 3gxy 3gxz 3lhc 3s3y 3s3z 4j4c 4j4d 4j4e 4j4f 4j4g

(-) Related Entries Specified in the PDB File

1l5e SOLUTION NMR STRUCTURE OF THE DOMAIN-SWAPPED DIMER CV-N
3ezm DOMAIN-SWAPPED CYANOVIRIN AT LOW PH