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(-) Description

Title :  PEANUT LECTIN COMPLEXED WITH C-LACTOSE
 
Authors :  R. Ravishankar, A. Surolia, M. Vijayan, S. Lim, Y. Kishi
Date :  05 Nov 98  (Deposition) - 11 Nov 98  (Release) - 01 Sep 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Lectin, Legume Lectin, Water Bridges, Carbohydrate Specificity, C-Lactose, Protein Crystallography, Agglutinin, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  R. Ravishankar, A. Surolia, M. Vijayan, S. Lim, Y. Kishi
Preferred Conformation Of C-Lactose At The Free And Peanut Lectin Bound States
J. Am. Chem. Soc. V. 120 11297 1998
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PROTEIN (PEANUT LECTIN)
    Chains: A, B, C, D
    Organism Common: PEANUT
    Organism Scientific: ARACHIS HYPOGAEA
    Organism Taxid: 3818
    Synonym: PEANUT AGGLUTININ-C-LACTOSE COMPLEX

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 16)

Asymmetric/Biological Unit (5, 16)
No.NameCountTypeFull Name
1BGC1Ligand/IonBETA-D-GLUCOSE
2CA4Ligand/IonCALCIUM ION
3GAL4Ligand/IonBETA-D-GALACTOSE
4GLC3Ligand/IonALPHA-D-GLUCOSE
5MN4Ligand/IonMANGANESE (II) ION

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:80 , ASP A:83 , GLY A:104 , TYR A:125 , ASN A:127 , SER A:211 , GLC A:401 , HOH A:470 , HOH A:483BINDING SITE FOR RESIDUE GAL A 400
02AC2SOFTWARESER A:211 , LEU A:212 , GLY A:213 , GAL A:400BINDING SITE FOR RESIDUE GLC A 401
03AC3SOFTWAREASP A:123 , TYR A:125 , ASN A:127 , ASP A:132 , HOH A:485 , HOH A:486BINDING SITE FOR RESIDUE CA A 408
04AC4SOFTWAREGLU A:121 , ASP A:123 , ASP A:132 , HIS A:137 , HOH A:487 , HOH A:488BINDING SITE FOR RESIDUE MN A 409
05AC5SOFTWAREASP B:80 , ALA B:82 , ASP B:83 , GLY B:103 , GLY B:104 , TYR B:125 , ASN B:127 , SER B:211 , GLC B:403 , HOH B:434 , HOH B:478BINDING SITE FOR RESIDUE GAL B 402
06AC6SOFTWARESER B:211 , LEU B:212 , GLY B:213 , GLY B:214 , GAL B:402BINDING SITE FOR RESIDUE GLC B 403
07AC7SOFTWAREASP B:123 , TYR B:125 , ASN B:127 , ASP B:132 , HOH B:509 , HOH B:510BINDING SITE FOR RESIDUE CA B 410
08AC8SOFTWAREGLU B:121 , ASP B:123 , ASP B:132 , HIS B:137 , HOH B:511 , HOH B:512BINDING SITE FOR RESIDUE MN B 411
09AC9SOFTWAREASP C:80 , ASP C:83 , GLY C:103 , GLY C:104 , TYR C:125 , ASN C:127 , SER C:211 , BGC C:405 , HOH C:463 , HOH C:481BINDING SITE FOR RESIDUE GAL C 404
10BC1SOFTWARESER C:211 , LEU C:212 , GLY C:213 , GAL C:404BINDING SITE FOR RESIDUE BGC C 405
11BC2SOFTWAREASP C:123 , TYR C:125 , ASN C:127 , ASP C:132 , HOH C:486 , HOH C:487BINDING SITE FOR RESIDUE CA C 412
12BC3SOFTWAREGLU C:121 , ASP C:123 , ASP C:132 , HIS C:137 , HOH C:488 , HOH C:489BINDING SITE FOR RESIDUE MN C 413
13BC4SOFTWAREASP D:80 , ASP D:83 , GLY D:103 , GLY D:104 , TYR D:125 , ASN D:127 , SER D:211 , GLC D:407 , HOH D:446BINDING SITE FOR RESIDUE GAL D 406
14BC5SOFTWARESER D:211 , LEU D:212 , GLY D:213 , GAL D:406 , HOH D:483BINDING SITE FOR RESIDUE GLC D 407
15BC6SOFTWAREASP D:123 , TYR D:125 , ASN D:127 , ASP D:132 , HOH D:486 , HOH D:487BINDING SITE FOR RESIDUE CA D 414
16BC7SOFTWAREGLU D:121 , ASP D:123 , ASP D:132 , HIS D:137 , HOH D:488 , HOH D:489BINDING SITE FOR RESIDUE MN D 415

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1BZW)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Ala A:82 -Asp A:83
2Ala B:82 -Asp B:83
3Ala C:82 -Asp C:83
4Ala D:82 -Asp D:83

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (3, 12)

Asymmetric/Biological Unit (3, 12)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_LECG_ARAHY_001 *E115VLECG_ARAHY  ---  ---A/B/C/DE92V
2UniProtVAR_LECG_ARAHY_002 *K172ALECG_ARAHY  ---  ---A/B/C/DK149A
3UniProtVAR_LECG_ARAHY_003 *K185ILECG_ARAHY  ---  ---A/B/C/DK162I
   * ID not provided by source
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (2, 8)

Asymmetric/Biological Unit (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LECTIN_LEGUME_BETAPS00307 Legume lectins beta-chain signature.LECG_ARAHY141-147
 
 
 		  4A:118-124
B:118-124
C:118-124
D:118-124
2LECTIN_LEGUME_ALPHAPS00308 Legume lectins alpha-chain signature.LECG_ARAHY221-230
 
 
 		  4A:198-207
B:198-207
C:198-207
D:198-207

(-) Exons   (0, 0)

(no "Exon" information available for 1BZW)

(-) 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:232
 aligned with LECG_ARAHY | P02872 from UniProtKB/Swiss-Prot  Length:273

    Alignment length:232
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253  
           LECG_ARAHY    24 AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAMPVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGSIGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKTVPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPERVKFGFSASGSLGGRQIHLIRSWSFTSTLITT 255
               SCOP domains d1bzwa_ A: Legume lectin                                                                                                                                                                                                                 SCOP domains
               CATH domains 1bzwA00 A:1-232  [code=2.60.120.200, no name defined]                                                                                                                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.........eeeee....................eeeeee...............eeeeeeeeeee.........eeeeeeee...........hhh............eeeeee....hhh......eeeeee......eeee......eeeeeeeeee....eeeeeee.....eeeeeee..hhhh....eeeeeeee.......eeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------V--------------------------------------------------------A------------I---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------LECTIN_-------------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1bzw A   1 AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAMPVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGSIGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKTVPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPERVKFGFSASGSLGGRQIHLIRSWSFTSTLITT 232
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230  


Chain B from PDB  Type:PROTEIN  Length:232
 aligned with LECG_ARAHY | P02872 from UniProtKB/Swiss-Prot  Length:273

    Alignment length:232
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253  
           LECG_ARAHY    24 AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAMPVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGSIGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKTVPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPERVKFGFSASGSLGGRQIHLIRSWSFTSTLITT 255
               SCOP domains d1bzwb_ B: Legume lectin                                                                                                                                                                                                                 SCOP domains
               CATH domains 1bzwB00 B:1-232  [code=2.60.120.200, no name defined]                                                                                                                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.........eeeee....................eeeeee...............eeeeeeeeeeee........eeeeeeee...........hhh............eeeeee....hhh......eeeeee......eeee.......eeeeeeeee....eeeeeee.....eeeeeee..hhhh....eeeeeeee......eeeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------V--------------------------------------------------------A------------I---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------LECTIN_-------------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1bzw B   1 AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAMPVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGSIGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKTVPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPERVKFGFSASGSLGGRQIHLIRSWSFTSTLITT 232
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230  


Chain C from PDB  Type:PROTEIN  Length:232
 aligned with LECG_ARAHY | P02872 from UniProtKB/Swiss-Prot  Length:273

    Alignment length:232
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253  
           LECG_ARAHY    24 AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAMPVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGSIGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKTVPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPERVKFGFSASGSLGGRQIHLIRSWSFTSTLITT 255
               SCOP domains d1bzwc_ C: Legume lectin                                                                                                                                                                                                                 SCOP domains
               CATH domains 1bzwC00 C:1-232  [code=2.60.120.200, no name defined]                                                                                                                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.........eeeee....................eeeeee...............eeeeeeeeeee.........eeeeeeee...........hhh............eeeeee....hhh......eeeeee......eeee......eeeeeeeeee....eeeeeee.....eeeeeee..hhhh....eeeeeeee.......eeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------V--------------------------------------------------------A------------I---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------LECTIN_-------------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1bzw C   1 AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAMPVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGSIGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKTVPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPERVKFGFSASGSLGGRQIHLIRSWSFTSTLITT 232
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230  


Chain D from PDB  Type:PROTEIN  Length:232
 aligned with LECG_ARAHY | P02872 from UniProtKB/Swiss-Prot  Length:273

    Alignment length:232
                                    33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253  
           LECG_ARAHY    24 AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAMPVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGSIGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKTVPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPERVKFGFSASGSLGGRQIHLIRSWSFTSTLITT 255
               SCOP domains d1bzwd_ D: Legume lectin                                                                                                                                                                                                                 SCOP domains
               CATH domains 1bzwD00 D:1-232  [code=2.60.120.200, no name defined]                                                                                                                                                                                    CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.........eeeee....................eeeeee...............eeeeeeeeeeee........eeeeeeee...........hhh............eeeeee....hhh......eeeeee......eeee......eeeeeeeeee....eeeeeee.....eeeeeee..hhhh....eeeeeeee......eeeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------V--------------------------------------------------------A------------I---------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------LECTIN_-------------------------------------------------------------------------LECTIN_LEG------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1bzw D   1 AETVSFNFNSFSEGNPAINFQGDVTVLSNGNIQLTNLNKVNSVGRVLYAMPVRIWSSATGNVASFLTSFSFEMKDIKDYDPADGIIFFIAPEDTQIPAGSIGGGTLGVSDTKGAGHFVGVEFDTYSNSEYNDPPTDHVGIDVNSVDSVKTVPWNSVSGAVVKVTVIYDSSTKTLSVAVTNDNGDITTIAQVVDLKAKLPERVKFGFSASGSLGGRQIHLIRSWSFTSTLITT 232
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230
   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, 4)

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

(-) CATH Domains  (1, 4)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B,C,D   (LECG_ARAHY | P02872)
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:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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  Cis Peptide Bonds
    Ala A:82 - Asp A:83   [ RasMol ]  
    Ala B:82 - Asp B:83   [ RasMol ]  
    Ala C:82 - Asp C:83   [ RasMol ]  
    Ala D:82 - Asp D:83   [ RasMol ]  
 

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  1bzw
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 Related Entries

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

UniProtKB/Swiss-Prot
        LECG_ARAHY | P02872: 1ciw 1cq9 1cr7 1qf3 1rir 1rit 1v6i 1v6j 1v6k 1v6l 1v6m 1v6n 1v6o 2dh1 2dv9 2dva 2dvb 2dvd 2dvf 2dvg 2pel 2tep

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 1BZW)