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(-) Description

Title :  CRYSTAL STRUCTURE OF A DESIGNED CYANOVIRIN-N HOMOLOG LECTIN; LKAMG, BOUND TO SUCROSE
 
Authors :  L. M. I. Koharudin, W. Furey, A. M. Gronenborn
Date :  03 Jun 09  (Deposition) - 23 Jun 09  (Release) - 03 Nov 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Cyanovirin-N, Cvnh, Lectin, Carbohydrate, Sucrose, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. M. Koharudin, W. Furey, A. M. Gronenborn
A Designed Chimeric Cyanovirin-N Homolog Lectin: Structure And Molecular Basis Of Sucrose Binding.
Proteins V. 77 904 2009
PubMed-ID: 19639634  |  Reference-DOI: 10.1002/PROT.22514
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CYANOVIRIN-N-LIKE PROTEIN
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: TUBER BORCHII,NEUROSPORA CRASSA,TUBER BORCHII
    Organism Taxid: 42251,5141,42251

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (2, 6)
No.NameCountTypeFull Name
1DTT2Ligand/Ion2,3-DIHYDROXY-1,4-DITHIOBUTANE
2SUC4Ligand/IonSUCROSE
Biological Unit 1 (2, 3)
No.NameCountTypeFull Name
1DTT1Ligand/Ion2,3-DIHYDROXY-1,4-DITHIOBUTANE
2SUC2Ligand/IonSUCROSE
Biological Unit 2 (2, 3)
No.NameCountTypeFull Name
1DTT1Ligand/Ion2,3-DIHYDROXY-1,4-DITHIOBUTANE
2SUC2Ligand/IonSUCROSE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:42 , ASN A:43 , ASN A:44 , ASP A:45 , GLY A:46 , GLN A:53 , ASN A:54 , ARG A:81 , ASP A:82 , CYS A:83 , HOH A:111 , HOH A:131 , HOH A:159 , HOH A:176 , HOH A:246BINDING SITE FOR RESIDUE SUC A 108
2AC2SOFTWARESER A:2 , TYR A:3 , SER A:6 , ARG A:24 , ASN A:25 , ALA A:26 , GLN A:98 , ASN A:99 , VAL A:100 , ASN A:101 , HOH A:149 , HOH A:194BINDING SITE FOR RESIDUE SUC A 109
3AC3SOFTWARECYS A:83 , HOH A:228 , HOH A:251BINDING SITE FOR RESIDUE DTT A 110
4AC4SOFTWAREASN B:43 , ASN B:44 , ASP B:45 , GLY B:46 , GLN B:53 , ASN B:54 , ARG B:81 , ASP B:82 , CYS B:83 , DTT B:110 , HOH B:111 , HOH B:113 , HOH B:114 , HOH B:120BINDING SITE FOR RESIDUE SUC B 108
5AC5SOFTWARESER B:2 , TYR B:3 , ASP B:5 , SER B:6 , ARG B:24 , ASN B:25 , ALA B:26 , GLN B:98 , ASN B:99 , VAL B:100 , ASN B:101BINDING SITE FOR RESIDUE SUC B 109
6AC6SOFTWARECYS B:83 , SUC B:108 , HOH B:126 , HOH B:188BINDING SITE FOR RESIDUE DTT B 110

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3HP8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3HP8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3HP8)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3HP8)

(-) Exons   (0, 0)

(no "Exon" information available for 3HP8)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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  UniProt sequence: complete  aligned part    
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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:107
                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhh.eeeeeee....eeeeeee.....eeeeeee....eeee..eeee.........eeeeeeeee....eeeeeeeee.....eeeeeee...eeee..eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 3hp8 A   1 MSYADSSRNAVLTNGGRTLRAECRNADGNWVTSELDLDTIIGNNDGHFQWGGQNFTETAEDIRFHPKEGAAEQPILRARLRDCNGEFHDRDVNLNRIQNVNGRLVFQ 107
                                    10        20        30        40        50        60        70        80        90       100       


Chain B from PDB  Type:PROTEIN  Length:107
                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhh.eeeeeee....eeeeeee.....eeeeeee....eeee..eeee.........eeeeeeeee....eeeeeeeee.....eeeeeee...eeee..eeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------- Transcript
                 3hp8 B   1 MSYADSSRNAVLTNGGRTLRAECRNADGNWVTSELDLDTIIGNNDGHFQWGGQNFTETAEDIRFHPKEGAAEQPILRARLRDCNGEFHDRDVNLNRIQNVNGRLVFQ 107
                                    10        20        30        40        50        60        70        80        90       100
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  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 3HP8)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3HP8)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3HP8)

(-) Gene Ontology  (1, 2)

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 Related Entries

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

UniProtKB/Swiss-Prot
        CVNH_NEUCR | Q7S6U4: 2jzl 2kjl 3hnu 3hnx
        CVNH_TUBBO | Q5MK11: 2jzk 2kjl 3hnu 3hnx

(-) Related Entries Specified in the PDB File

2kjl NMR STRUCTURES OF A DESIGNED CYANOVIRIN-N HOMOLOG LECTIN; LKAMG
3hnu CRYSTAL STRUCTURE OF A DESIGNED CYANOVIRIN-N HOMOLOG LECTIN; LKAMG IN P21 SPACE GROUP
3hnx CRYSTAL STRUCTURE OF A DESIGNED CYANOVIRIN-N HOMOLOG LECTIN; LKAMG IN P212121 SPACE GROUP