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(-) Description

Title :  ARCELIN-1 FROM PHASEOLUS VULGARIS L
 
Authors :  L. Mourey, J. D. Pedelacq, C. Fabre, P. Rouge, J. P. Samama
Date :  15 Sep 97  (Deposition) - 14 Oct 98  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Lectin-Like Glycoprotein, Plant Defense, Insecticidal Activity, Lectin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Mourey, J. D. Pedelacq, C. Birck, C. Fabre, P. Rouge, J. P. Samama
Crystal Structure Of The Arcelin-1 Dimer From Phaseolus Vulgaris At 1. 9-A Resolution.
J. Biol. Chem. V. 273 12914 1998
PubMed-ID: 9582323  |  Reference-DOI: 10.1074/JBC.273.21.12914
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ARCELIN-1
    Chains: A, B
    Organ: SEED
    Organism Scientific: PHASEOLUS VULGARIS
    Organism Taxid: 3885
    Strain: CV. RAZ-2

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 10)

Asymmetric/Biological Unit (2, 10)
No.NameCountTypeFull Name
1NAG8Ligand/IonN-ACETYL-D-GLUCOSAMINE
2SO42Ligand/IonSULFATE ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREPHE A:11 , ASN A:12 , SER A:25 , NAG A:301 , HOH A:524 , HOH A:612 , ASP B:194 , TRP B:195BINDING SITE FOR RESIDUE NAG A 300
02AC2SOFTWARENAG A:300 , HOH B:507BINDING SITE FOR RESIDUE NAG A 301
03AC3SOFTWARESER A:66 , ASN A:68 , SER A:220BINDING SITE FOR RESIDUE NAG A 400
04AC4SOFTWAREASN A:107BINDING SITE FOR RESIDUE NAG A 500
05AC5SOFTWAREASP A:194 , TRP A:195 , ASN B:12 , SER B:25 , NAG B:301 , HOH B:506 , HOH B:531 , HOH B:608 , HOH B:611BINDING SITE FOR RESIDUE NAG B 300
06AC6SOFTWAREHOH A:613 , NAG B:300BINDING SITE FOR RESIDUE NAG B 301
07AC7SOFTWARESER B:66 , ASN B:68 , SER B:220 , PHE B:221BINDING SITE FOR RESIDUE NAG B 400
08AC8SOFTWAREASN B:107BINDING SITE FOR RESIDUE NAG B 500
09AC9SOFTWAREHIS A:29 , ARG A:72 , ASN A:215 , HOH A:504 , HOH A:538 , HOH A:539 , THR B:185BINDING SITE FOR RESIDUE SO4 A 501
10BC1SOFTWARETHR A:185 , HOH A:513 , HIS B:29 , ARG B:72 , ASN B:215 , HOH B:511 , HOH B:545BINDING SITE FOR RESIDUE SO4 B 501

(-) SS Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1A:144 -A:180
2B:144 -B:180

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ala A:82 -Tyr A:83
2Ala B:82 -Tyr B:83

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 4)

Asymmetric/Biological Unit (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.ARC1_PHAVU139-145
 		  2A:118-124
B:118-124
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.ARC1_PHAVU213-222
 		  2A:192-201
B:192-201

(-) Exons   (0, 0)

(no "Exon" information available for 1AVB)

(-) 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:226
 aligned with ARC1_PHAVU | P19329 from UniProtKB/Swiss-Prot  Length:265

    Alignment length:226
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241      
           ARC1_PHAVU    22 SNDASFNVETFNKTNLILQGDATVSSEGHLLLTNVKGNEEDSMGRAFYSAPIQINDRTIDNLASFSTNFTFRINAKNIENSAYGLAFALVPVGSRPKLKGRYLGLFNTTNYDRDAHTVAVVFDTVSNRIEIDVNSIRPIATESCNFGHNNGEKAEVRITYDSPKNDLRVSLLYPSSEEKCHVSATVPLEKEVEDWVSVGFSATSGSKKETTETHNVLSWSFSSNFI 247
               SCOP domains d1avba_ A: Phytohemagglutinin-L, PHA-L, also arcelin                                                                                                                                                                               SCOP domains
               CATH domains 1avbA00 A:1-226  [code=2.60.120.200, no name defined]                                                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee....hhheeeee......................eeeeee........hhh...eeeeeeeeeeeee.......eeeeeeeee........hhh..........hhh..eeeeee....eeeeee......eeee...hhh...eeeeeeeeehhh.eeeeeeee....eeeeeeee..hhhh....eeeeeeeee...hhh.eeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------LECTIN_-------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1avb A   1 SNDASFNVETFNKTNLILQGDATVSSEGHLLLTNVKGNEEDSMGRAFYSAPIQINDRTIDNLASFSTNFTFRINAKNIENSAYGLAFALVPVGSRPKLKGRYLGLFNTTNYDRDAHTVAVVFDTVSNRIEIDVNSIRPIATESCNFGHNNGEKAEVRITYDSPKNDLRVSLLYPSSEEKCHVSATVPLEKEVEDWVSVGFSATSGSKKETTETHNVLSWSFSSNFI 226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220      


Chain B from PDB  Type:PROTEIN  Length:226
 aligned with ARC1_PHAVU | P19329 from UniProtKB/Swiss-Prot  Length:265

    Alignment length:226
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241      
           ARC1_PHAVU    22 SNDASFNVETFNKTNLILQGDATVSSEGHLLLTNVKGNEEDSMGRAFYSAPIQINDRTIDNLASFSTNFTFRINAKNIENSAYGLAFALVPVGSRPKLKGRYLGLFNTTNYDRDAHTVAVVFDTVSNRIEIDVNSIRPIATESCNFGHNNGEKAEVRITYDSPKNDLRVSLLYPSSEEKCHVSATVPLEKEVEDWVSVGFSATSGSKKETTETHNVLSWSFSSNFI 247
               SCOP domains d1avbb_ B: Phytohemagglutinin-L, PHA-L, also arcelin                                                                                                                                                                               SCOP domains
               CATH domains 1avbB00 B:1-226  [code=2.60.120.200, no name defined]                                                                                                                                                                              CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee....hhheeeee......................eeeeee........hhh...eeeeeeeeeeeee.......eeeeeeeee........hhh..........hhh..eeeeee....eeeeee......eeee...hhh...eeeeeeeeehhh.eeeeeeee....eeeeeeee..hhhh....eeeeeeeee...hhh.eeeeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------LECTIN_-------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1avb B   1 SNDASFNVETFNKTNLILQGDATVSSEGHLLLTNVKGNEEDSMGRAFYSAPIQINDRTIDNLASFSTNFTFRINAKNIENSAYGLAFALVPVGSRPKLKGRYLGLFNTTNYDRDAHTVAVVFDTVSNRIEIDVNSIRPIATESCNFGHNNGEKAEVRITYDSPKNDLRVSLLYPSSEEKCHVSATVPLEKEVEDWVSVGFSATSGSKKETTETHNVLSWSFSSNFI 226
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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  (0, 0)

(no "Pfam Domain" information available for 1AVB)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (ARC1_PHAVU | P19329)
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.
    GO:0045735    nutrient reservoir activity    Functions in the storage of nutritious substrates.
biological process
    GO:0006952    defense response    Reactions, triggered in response to the presence of a foreign body or the occurrence of an injury, which result in restriction of damage to the organism attacked or prevention/recovery from the infection caused by the attack.

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