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(-) Description

Title :  CARP FISHELECTIN, HOLO FORM
 
Authors :  S. Capaldi, B. Faggion, M. E. Carrizo, L. Destefanis, M. C. Gonzalez, M. M. Bovi, M. Galliano, H. L. Monaco
Date :  21 Nov 14  (Deposition) - 08 Apr 15  (Release) - 20 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F  (1x)
Keywords :  Six-Blade Beta Propeller, Lectin, Eggs, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Capaldi, B. Faggion, M. E. Carrizo, L. Destefanis, M. C. Gonzalez, M. Perduca, M. Bovi, M. Galliano, H. L. Monaco
Three-Dimensional Structure And Ligand-Binding Site Of Carp Fishelectin (Fel).
Acta Crystallogr. , Sect. D V. 71 1123 2015
PubMed-ID: 25945578  |  Reference-DOI: 10.1107/S1399004715004174

(-) Compounds

Molecule 1 - FISH-EGG LECTIN
    Chains: A, B, C, D, E, F
    Organism Common: CARP,FANCY CARP,KOI,MIRROR CARP
    Organism Scientific: CYPRINUS CARPIO
    Organism Taxid: 7962
    Other Details: EGGS
    Synonym: FEL

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): AB    
Biological Unit 2 (1x):   CD  
Biological Unit 3 (1x):     EF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 33)

Asymmetric Unit (5, 33)
No.NameCountTypeFull Name
11PE2Ligand/IonPENTAETHYLENE GLYCOL
2CA6Ligand/IonCALCIUM ION
3MG4Ligand/IonMAGNESIUM ION
4NAG15Ligand/IonN-ACETYL-D-GLUCOSAMINE
5NDG6Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
11PE1Ligand/IonPENTAETHYLENE GLYCOL
2CA-1Ligand/IonCALCIUM ION
3MG-1Ligand/IonMAGNESIUM ION
4NAG4Ligand/IonN-ACETYL-D-GLUCOSAMINE
5NDG3Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
Biological Unit 2 (2, 7)
No.NameCountTypeFull Name
11PE-1Ligand/IonPENTAETHYLENE GLYCOL
2CA-1Ligand/IonCALCIUM ION
3MG-1Ligand/IonMAGNESIUM ION
4NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE
5NDG1Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
Biological Unit 3 (3, 8)
No.NameCountTypeFull Name
11PE1Ligand/IonPENTAETHYLENE GLYCOL
2CA-1Ligand/IonCALCIUM ION
3MG-1Ligand/IonMAGNESIUM ION
4NAG5Ligand/IonN-ACETYL-D-GLUCOSAMINE
5NDG2Ligand/Ion2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE

(-) Sites  (33, 33)

Asymmetric Unit (33, 33)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:11 , ASN A:27 , LYS A:45 , THR A:59 , NAG A:302 , HOH A:470 , HOH A:549BINDING SITE FOR RESIDUE NAG A 301
02AC2SOFTWARETHR A:59 , NAG A:301BINDING SITE FOR RESIDUE NAG A 302
03AC3SOFTWAREASP A:14 , ASP A:82 , GLU A:170 , HOH A:401 , HOH A:402 , HOH A:403BINDING SITE FOR RESIDUE CA A 303
04AC4SOFTWAREGLY A:164 , LEU A:165 , TYR A:187 , TRP A:202 , HOH A:497BINDING SITE FOR RESIDUE NDG A 304
05AC5SOFTWAREGLY A:76 , LEU A:77 , LEU A:78 , TRP A:116 , HOH A:419 , GLY D:76 , LEU D:77 , LEU D:78 , ASN D:93 , ASP D:97 , TYR D:99 , TRP D:116 , HOH D:450BINDING SITE FOR RESIDUE 1PE A 305
06AC6SOFTWAREASP A:7 , HOH A:462 , ASP D:7 , HOH D:439 , ASP E:7 , HOH E:418BINDING SITE FOR RESIDUE MG A 306
07AC7SOFTWAREASP A:86 , SER A:150 , HOH A:565 , ASP B:86 , SER B:150 , HOH B:522BINDING SITE FOR RESIDUE MG A 307
08AC8SOFTWARELYS B:11 , ASN B:25 , ASN B:27 , LYS B:45 , THR B:59 , NAG B:302 , HOH B:449 , HOH B:463 , ASP F:7 , GLY F:8BINDING SITE FOR RESIDUE NAG B 301
09AC9SOFTWARENAG B:301 , HOH B:449 , VAL F:5BINDING SITE FOR RESIDUE NAG B 302
10BC1SOFTWAREASP B:14 , ASP B:82 , GLU B:170 , HOH B:401 , HOH B:402 , HOH B:403BINDING SITE FOR RESIDUE CA B 303
11BC2SOFTWAREGLY B:76 , LEU B:77 , LEU B:78 , TYR B:99 , TRP B:116 , HOH B:418 , HOH B:469BINDING SITE FOR RESIDUE NDG B 304
12BC3SOFTWAREGLY B:164 , LEU B:165 , TYR B:187 , TRP B:202 , HOH B:471BINDING SITE FOR RESIDUE NDG B 305
13BC4SOFTWAREASP B:7 , GLY B:8 , LYS C:11 , ASN C:25 , ASN C:27 , LYS C:45 , THR C:59 , NAG C:302 , HOH C:411 , HOH C:432BINDING SITE FOR RESIDUE NAG C 301
14BC5SOFTWAREVAL B:5 , NAG C:301 , HOH C:411BINDING SITE FOR RESIDUE NAG C 302
15BC6SOFTWAREASP C:14 , ASP C:82 , GLU C:170 , HOH C:401 , HOH C:402 , HOH C:403BINDING SITE FOR RESIDUE CA C 303
16BC7SOFTWAREGLY C:76 , LEU C:77 , TYR C:99 , TRP C:116 , HOH C:441 , HOH C:459BINDING SITE FOR RESIDUE NAG C 304
17BC8SOFTWAREGLY C:164 , LEU C:165 , TYR C:187 , TRP C:202 , HOH C:492 , NDG D:304BINDING SITE FOR RESIDUE NAG C 305
18BC9SOFTWAREASP C:86 , SER C:150 , HOH C:507 , ASP D:86 , SER D:150 , HOH D:524BINDING SITE FOR RESIDUE MG C 306
19CC1SOFTWARELYS D:11 , ASN D:25 , ASN D:27 , THR D:59 , NAG D:302 , HOH D:428 , ASP E:2BINDING SITE FOR RESIDUE NAG D 301
20CC2SOFTWARETHR D:59 , NAG D:301BINDING SITE FOR RESIDUE NAG D 302
21CC3SOFTWAREASP D:14 , ASP D:82 , GLU D:170 , HOH D:401 , HOH D:402 , HOH D:403BINDING SITE FOR RESIDUE CA D 303
22CC4SOFTWAREASN C:181 , GLN C:183 , ASN C:185 , NAG C:305 , HOH C:492 , GLY D:164 , LEU D:165 , TYR D:187 , TRP D:202 , HOH D:446BINDING SITE FOR RESIDUE NDG D 304
23CC5SOFTWAREASP A:2 , LYS E:11 , ASN E:25 , ASN E:27 , THR E:59 , NAG E:302 , HOH E:461BINDING SITE FOR RESIDUE NAG E 301
24CC6SOFTWARENAG E:301BINDING SITE FOR RESIDUE NAG E 302
25CC7SOFTWAREASP E:14 , ASP E:82 , GLU E:170 , HOH E:401 , HOH E:402 , HOH E:403BINDING SITE FOR RESIDUE CA E 303
26CC8SOFTWAREGLY E:164 , LEU E:165 , TYR E:187 , TRP E:202 , HOH E:459 , GLN F:141BINDING SITE FOR RESIDUE NAG E 304
27CC9SOFTWAREGLY E:76 , LEU E:77 , LEU E:78 , ASN E:93 , TYR E:99 , TRP E:116 , HOH E:504BINDING SITE FOR RESIDUE 1PE E 305
28DC1SOFTWAREASP E:86 , HOH E:514 , HOH E:519 , ASP F:86 , HOH F:427BINDING SITE FOR RESIDUE MG E 306
29DC2SOFTWAREASP C:7 , GLY C:8 , LYS F:11 , ASN F:25 , ASN F:27 , THR F:59 , NAG F:302 , HOH F:500BINDING SITE FOR RESIDUE NAG F 301
30DC3SOFTWAREVAL C:5 , NAG F:301BINDING SITE FOR RESIDUE NAG F 302
31DC4SOFTWAREASP F:14 , ASP F:82 , GLU F:170 , HOH F:401 , HOH F:402 , HOH F:403BINDING SITE FOR RESIDUE CA F 303
32DC5SOFTWAREGLY F:76 , LEU F:77 , TYR F:99 , HOH F:406BINDING SITE FOR RESIDUE NDG F 304
33DC6SOFTWAREASN E:139 , GLY F:164 , LEU F:165 , TYR F:187 , TRP F:202 , HOH F:493 , HOH F:502BINDING SITE FOR RESIDUE NDG F 305

(-) SS Bonds  (24, 24)

Asymmetric Unit
No.Residues
1A:3 -A:234
2A:100 -A:153
3A:128 -A:133
4A:208 -A:226
5B:3 -B:234
6B:100 -B:153
7B:128 -B:133
8B:208 -B:226
9C:3 -C:234
10C:100 -C:153
11C:128 -C:133
12C:208 -C:226
13D:3 -D:234
14D:100 -D:153
15D:128 -D:133
16D:208 -D:226
17E:3 -E:234
18E:100 -E:153
19E:128 -E:133
20E:208 -E:226
21F:3 -F:234
22F:100 -F:153
23F:128 -F:133
24F:208 -F:226

(-) Cis Peptide Bonds  (6, 6)

Asymmetric Unit
No.Residues
1Trp A:109 -Pro A:110
2Trp B:109 -Pro B:110
3Trp C:109 -Pro C:110
4Trp D:109 -Pro D:110
5Trp E:109 -Pro E:110
6Trp F:109 -Pro F:110

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4RUS)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4RUS)

(-) Exons   (0, 0)

(no "Exon" information available for 4RUS)

(-) Sequences/Alignments

Asymmetric 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:237
                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....eeeee..eeeee....eeeeee..eeeeeeee..eeeee..eeeee....eeeeee..eeeeeeee..eee......eeee.....eeeehhhhhh.........eee.....eeee....eeee....eeeee..............eeeeee..eeee.....eeee.....eeeee..........eeeee......eeeeeee..eeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rus A   1 LDCTVIDGNLKQIDAGSGSVVGVNNLNETFVLIDNVFTKISGSLKHFSVGPAGQLGVNTANNIFKYQSGGFVQLAGLLKQVDAGGDQIIAGVNMYDDIYCLNMDANNKWPSSNTPWVQLNGKLKYYSCGPYSCWGVNSNDQIFIMKDVSSNVCSGSGSFINIPGLLSMIEVATDGSVFGVNSQGNLYQRTGVTRSKPDGTDWISMVACPNGHKHVSFDLGVLWLVCVDGSIRKCILT 237
                                    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:235
                                                                                                                                                                                                                                                                           
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....eeeee..eeeee....eeeeee..eeeeeeee..eeeee..eeeee....eeeeee..eeeeeeee..eee......eeee.....eeeehhhhhh.........eee.....eeee....eeee....eeeee..............eeeeee..eeee.....eeee.....eeeee..........eeeee......eeeeeee..eeeeee....eeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rus B   1 LDCTVIDGNLKQIDAGSGSVVGVNNLNETFVLIDNVFTKISGSLKHFSVGPAGQLGVNTANNIFKYQSGGFVQLAGLLKQVDAGGDQIIAGVNMYDDIYCLNMDANNKWPSSNTPWVQLNGKLKYYSCGPYSCWGVNSNDQIFIMKDVSSNVCSGSGSFINIPGLLSMIEVATDGSVFGVNSQGNLYQRTGVTRSKPDGTDWISMVACPNGHKHVSFDLGVLWLVCVDGSIRKCI 235
                                    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:236
                                                                                                                                                                                                                                                                            
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee.....eeeee..eeeee....eeeeee..eeeeeeee..eeeee..eeeee....eeeeee..eeeeeeee..eee......eeee.....eeeehhhhhh.........eee.....eeee....eeee....eeeee..............eeeeee..eeee.....eeee.....eeeee..........eeeee......eeeeeee..eeeeee....eeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rus C   1 LDCTVIDGNLKQIDAGSGSVVGVNNLNETFVLIDNVFTKISGSLKHFSVGPAGQLGVNTANNIFKYQSGGFVQLAGLLKQVDAGGDQIIAGVNMYDDIYCLNMDANNKWPSSNTPWVQLNGKLKYYSCGPYSCWGVNSNDQIFIMKDVSSNVCSGSGSFINIPGLLSMIEVATDGSVFGVNSQGNLYQRTGVTRSKPDGTDWISMVACPNGHKHVSFDLGVLWLVCVDGSIRKCIL 236
                                    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:237
                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....eeeee..eeeee....eeeeee..eeeeeeee..eeeee..eeeee....eeeeee..eeeeeeee..eee......eeee.....eeeehhhhhh.........eee.....eeee....eeee....eeeee..............eeeeee..eeee.....eeee.....eeeee..........eeeee......eeeeeee..eeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rus D   1 LDCTVIDGNLKQIDAGSGSVVGVNNLNETFVLIDNVFTKISGSLKHFSVGPAGQLGVNTANNIFKYQSGGFVQLAGLLKQVDAGGDQIIAGVNMYDDIYCLNMDANNKWPSSNTPWVQLNGKLKYYSCGPYSCWGVNSNDQIFIMKDVSSNVCSGSGSFINIPGLLSMIEVATDGSVFGVNSQGNLYQRTGVTRSKPDGTDWISMVACPNGHKHVSFDLGVLWLVCVDGSIRKCILT 237
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       


Chain E from PDB  Type:PROTEIN  Length:237
                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....eeeee..eeeee....eeeeee..eeeeeeee..eeeee..eeeee....eeeeee..eeeeeeee..eee......eeee.....eeeehhhhhh.........eee.....eeee....eeee....eeeee..............eeeeee..eeee.....eeee.....eeeee..........eeeee......eeeeeee..eeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rus E   1 LDCTVIDGNLKQIDAGSGSVVGVNNLNETFVLIDNVFTKISGSLKHFSVGPAGQLGVNTANNIFKYQSGGFVQLAGLLKQVDAGGDQIIAGVNMYDDIYCLNMDANNKWPSSNTPWVQLNGKLKYYSCGPYSCWGVNSNDQIFIMKDVSSNVCSGSGSFINIPGLLSMIEVATDGSVFGVNSQGNLYQRTGVTRSKPDGTDWISMVACPNGHKHVSFDLGVLWLVCVDGSIRKCILT 237
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       


Chain F from PDB  Type:PROTEIN  Length:237
                                                                                                                                                                                                                                                                             
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee.....eeeee..eeeee.....eeeee..eeeee.....eeeee..eeeee....eeeeee..eeeeeeee..eee......eeee.....eeeehhhhhh.........ee......eeee...eeeee....eeeeee............eeeeeee..eeee.....eeee.....eeeee..........eeeee......eeeeeee..eeeeee....eeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rus F   1 LDCTVIDGNLKQIDAGSGSVVGVNNLNETFVLIDNVFTKISGSLKHFSVGPAGQLGVNTANNIFKYQSGGFVQLAGLLKQVDAGGDQIIAGVNMYDDIYCLNMDANNKWPSSNTPWVQLNGKLKYYSCGPYSCWGVNSNDQIFIMKDVSSNVCSGSGSFINIPGLLSMIEVATDGSVFGVNSQGNLYQRTGVTRSKPDGTDWISMVACPNGHKHVSFDLGVLWLVCVDGSIRKCILT 237
                                    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  (0, 0)

(no "SCOP Domain" information available for 4RUS)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4RUS)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4RUS)

(-) Gene Ontology  (2, 2)

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  4rus
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 Related Entries

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        FEL_CYPCA | P68512: 4ruq

(-) Related Entries Specified in the PDB File

4ruq CARP FISHELECTIN, APO FORM