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(-) Description

Title :  L-FICOLIN COMPLEXED TO GALACTOSE
 
Authors :  V. Garlatti, C. Gaboriaud
Date :  23 Aug 06  (Deposition) - 23 Jan 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,C  (1x)
Biol. Unit 2:  D,E,F  (1x)
Keywords :  Lectin, Collagen, Immunology, Glycoprotein, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  V. Garlatti, N. Belloy, L. Martin, M. Lacroix, M. Matsushita, Y. Endo, T. Fujita, J. C. Fontecilla-Camps, G. J. Arlaud, N. M. Thielens, C. Gaboriaud
Structural Insights Into The Innate Immune Recognition Specificities Of L- And H-Ficolins.
Embo J. V. 26 623 2007
PubMed-ID: 17215869  |  Reference-DOI: 10.1038/SJ.EMBOJ.7601500

(-) Compounds

Molecule 1 - FICOLIN-2
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System Vector Type: BACULOVIRUS
    Fragment: BINDING DOMAIN, RESIDUES 97-313
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: COLLAGEN/FIBRINOGEN DOMAIN-CONTAINING PROTEIN 2, FICOLIN-B, FICOLIN B, SERUM LECTIN P35, EBP-37, HUCOLIN, L-FICOLIN
    Tissue: PLASMA

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (1x): ABC   
Biological Unit 2 (1x):    DEF

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (7, 31)

Asymmetric Unit (7, 31)
No.NameCountTypeFull Name
1ACT5Ligand/IonACETATE ION
2CA6Ligand/IonCALCIUM ION
3EPE3Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
4GLA4Ligand/IonALPHA D-GALACTOSE
5MAN2Ligand/IonALPHA-D-MANNOSE
6NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE
7P4C5Ligand/IonO-ACETALDEHYDYL-HEXAETHYLENE GLYCOL
Biological Unit 1 (6, 13)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3EPE2Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
4GLA2Ligand/IonALPHA D-GALACTOSE
5MAN1Ligand/IonALPHA-D-MANNOSE
6NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
7P4C2Ligand/IonO-ACETALDEHYDYL-HEXAETHYLENE GLYCOL
Biological Unit 2 (6, 12)
No.NameCountTypeFull Name
1ACT2Ligand/IonACETATE ION
2CA-1Ligand/IonCALCIUM ION
3EPE1Ligand/Ion4-(2-HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID
4GLA2Ligand/IonALPHA D-GALACTOSE
5MAN1Ligand/IonALPHA-D-MANNOSE
6NAG3Ligand/IonN-ACETYL-D-GLUCOSAMINE
7P4C3Ligand/IonO-ACETALDEHYDYL-HEXAETHYLENE GLYCOL

(-) Sites  (31, 31)

Asymmetric Unit (31, 31)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP B:222 , GLN B:223 , HOH B:2086 , ASP E:222 , GLN E:223 , HOH E:2040BINDING SITE FOR RESIDUE GLA B1291
02AC2SOFTWAREASN B:215 , NAG B:1294 , HOH B:2089 , GLY C:260 , PHE C:262 , ASN C:275BINDING SITE FOR RESIDUE NAG B1293
03AC3SOFTWAREACT B:407 , NAG B:1293 , MAN B:1295 , HOH B:2089 , PHE C:262 , THR E:229BINDING SITE FOR RESIDUE NAG B1294
04AC4SOFTWARENAG B:1294 , PHE C:262 , ACT C:1291BINDING SITE FOR RESIDUE MAN B1295
05AC5SOFTWAREGLY B:142 , SER B:143 , SER C:91 , ASP C:109 , ASP C:111 , ARG C:122 , GLU C:282 , LYS C:284 , HOH C:2059BINDING SITE FOR RESIDUE GLA C1290
06AC6SOFTWAREASN C:215BINDING SITE FOR RESIDUE NAG C1293
07AC7SOFTWAREARG E:132 , ASP E:133 , THR E:136 , LYS E:221 , HOH E:2015BINDING SITE FOR RESIDUE GLA E1289
08AC8SOFTWAREASN E:215 , NAG E:1293 , HOH E:2063 , GLY F:260 , PHE F:262 , ASN F:275BINDING SITE FOR RESIDUE NAG E1292
09AC9SOFTWARENAG E:1292 , MAN E:1294 , HOH E:2064 , PHE F:262BINDING SITE FOR RESIDUE NAG E1293
10BC1SOFTWARENAG E:1293 , ASN F:244 , PHE F:262 , ACT F:1291BINDING SITE FOR RESIDUE MAN E1294
11BC2SOFTWARESER E:143 , SER F:91 , ASP F:109 , ASP F:111 , THR F:112 , ARG F:122 , GLU F:282 , LYS F:284BINDING SITE FOR RESIDUE GLA F1290
12BC3SOFTWAREASN F:215BINDING SITE FOR RESIDUE NAG F1293
13BC4SOFTWAREASP A:224 , ASP A:226 , ASN A:228 , GLY A:230BINDING SITE FOR RESIDUE CA A1289
14BC5SOFTWARENAG B:1294BINDING SITE FOR RESIDUE ACT B 407
15BC6SOFTWARECYS B:245 , HIS B:246 , TYR B:274 , HOH B:2064 , HOH B:2084BINDING SITE FOR RESIDUE ACT B1290
16BC7SOFTWAREASP B:224 , ASP B:226 , ASN B:228 , GLY B:230 , HOH B:2055 , HOH B:2056BINDING SITE FOR RESIDUE CA B1292
17BC8SOFTWAREMAN B:1295 , CYS C:245 , HIS C:246 , PHE C:262BINDING SITE FOR RESIDUE ACT C1291
18BC9SOFTWAREASP C:224 , ASP C:226 , ASN C:228 , GLY C:230BINDING SITE FOR RESIDUE CA C1292
19CC1SOFTWAREASP D:224 , ASP D:226 , ASN D:228 , GLY D:230BINDING SITE FOR RESIDUE CA D1289
20CC2SOFTWAREPHE E:236 , CYS E:245 , HIS E:246BINDING SITE FOR RESIDUE ACT E1290
21CC3SOFTWAREASP E:224 , ASP E:226 , ASN E:228 , GLY E:230 , HOH E:2042 , HOH E:2046BINDING SITE FOR RESIDUE CA E1291
22CC4SOFTWAREMAN E:1294 , PHE F:236 , CYS F:245 , HIS F:246 , PHE F:262 , ALA F:263BINDING SITE FOR RESIDUE ACT F1291
23CC5SOFTWAREASP F:224 , ASP F:226 , ASN F:228 , GLY F:230 , HOH F:2045BINDING SITE FOR RESIDUE CA F1292
24CC6SOFTWAREARG B:132 , ASP B:133 , THR B:136 , LYS B:221 , HOH B:2081 , HOH B:2082 , HOH B:2083BINDING SITE FOR RESIDUE EPE B1289
25CC7SOFTWAREASP A:125 , VAL B:124 , ASP B:125 , ASP B:172 , PHE B:173 , ASP B:175 , LYS B:279 , VAL B:280BINDING SITE FOR RESIDUE P4C B1296
26CC8SOFTWAREARG C:132 , ASP C:133 , THR C:136 , LYS C:221 , SER E:261BINDING SITE FOR RESIDUE EPE C1289
27CC9SOFTWAREASP B:125 , GLY B:126 , ARG B:256 , ASP C:175 , ASN C:176 , TYR C:177 , LYS C:279 , HOH C:2033 , GLU D:203BINDING SITE FOR RESIDUE P4C C1294
28DC1SOFTWAREASP D:125 , SER D:127 , ARG D:256 , VAL E:124 , PHE E:173 , ASP E:175 , LYS E:279BINDING SITE FOR RESIDUE P4C E1295
29DC2SOFTWAREGLU E:174 , ASN E:176 , GLY E:257 , THR E:258 , GLY E:271 , LYS E:272 , TYR E:276 , HOH E:2054BINDING SITE FOR RESIDUE P4C E1296
30DC3SOFTWAREARG F:132 , ASP F:133 , THR F:136 , LYS F:221BINDING SITE FOR RESIDUE EPE F1289
31DC4SOFTWAREGLU A:203 , ASP E:125 , GLY E:126 , SER E:127 , GLN E:161 , GLU F:174 , ASP F:175 , ASN F:176 , TYR F:177 , LYS F:279BINDING SITE FOR RESIDUE P4C F1294

(-) SS Bonds  (14, 14)

Asymmetric Unit
No.Residues
1A:80 -A:108
2A:232 -A:245
3B:73 -B:101
4B:80 -B:108
5B:232 -B:245
6C:80 -C:108
7C:232 -C:245
8D:80 -D:108
9D:232 -D:245
10E:73 -E:101
11E:80 -E:108
12E:232 -E:245
13F:80 -F:108
14F:232 -F:245

(-) Cis Peptide Bonds  (8, 8)

Asymmetric Unit
No.Residues
1Asn B:244 -Cys B:245
2Asn C:244 -Cys C:245
3Cys D:101 -Arg D:102
4Asn D:244 -Cys D:245
5Asn E:244 -Cys E:245
6Cys F:73 -Leu F:74
7Leu F:74 -Thr F:75
8Asn F:244 -Cys F:245

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (4, 24)

Asymmetric Unit (4, 24)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_049072H113YFCN2_HUMANPolymorphism17549179A/B/C/D/E/FH88Y
2UniProtVAR_049073G117SFCN2_HUMANPolymorphism12684476A/B/C/D/E/FG92S
3UniProtVAR_049074T236MFCN2_HUMANPolymorphism17549193A/B/C/D/E/FT211M
4UniProtVAR_049075A258SFCN2_HUMANPolymorphism7851696A/B/C/D/E/FA233S
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (4, 12)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_049072H113YFCN2_HUMANPolymorphism17549179A/B/CH88Y
2UniProtVAR_049073G117SFCN2_HUMANPolymorphism12684476A/B/CG92S
3UniProtVAR_049074T236MFCN2_HUMANPolymorphism17549193A/B/CT211M
4UniProtVAR_049075A258SFCN2_HUMANPolymorphism7851696A/B/CA233S
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (4, 12)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_049072H113YFCN2_HUMANPolymorphism17549179D/E/FH88Y
2UniProtVAR_049073G117SFCN2_HUMANPolymorphism12684476D/E/FG92S
3UniProtVAR_049074T236MFCN2_HUMANPolymorphism17549193D/E/FT211M
4UniProtVAR_049075A258SFCN2_HUMANPolymorphism7851696D/E/FA233S
  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (2, 8)

Asymmetric Unit (2, 8)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FIBRINOGEN_C_2PS51406 Fibrinogen C-terminal domain profile.FCN2_HUMAN96-313
 		  2B:72-288
E:72-288
2FIBRINOGEN_C_1PS00514 Fibrinogen C-terminal domain signature.FCN2_HUMAN265-277
 
 
 
 
 		  6A:240-252
B:240-252
C:240-252
D:240-252
E:240-252
F:240-252
Biological Unit 1 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FIBRINOGEN_C_2PS51406 Fibrinogen C-terminal domain profile.FCN2_HUMAN96-313
 		  1B:72-288
-
2FIBRINOGEN_C_1PS00514 Fibrinogen C-terminal domain signature.FCN2_HUMAN265-277
 
 
 
 
 		  3A:240-252
B:240-252
C:240-252
-
-
-
Biological Unit 2 (2, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FIBRINOGEN_C_2PS51406 Fibrinogen C-terminal domain profile.FCN2_HUMAN96-313
 		  1-
E:72-288
2FIBRINOGEN_C_1PS00514 Fibrinogen C-terminal domain signature.FCN2_HUMAN265-277
 
 
 
 
 		  3-
-
-
D:240-252
E:240-252
F:240-252

(-) Exons   (5, 30)

Asymmetric Unit (5, 30)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1bENST000002917441bENSE00001890733chr9:137772658-137772767110FCN2_HUMAN1-34340--
1.2ENST000002917442ENSE00001051605chr9:137774372-137774485114FCN2_HUMAN34-72390--
1.3aENST000002917443aENSE00001051599chr9:137775148-13777520154FCN2_HUMAN72-90190--
1.4ENST000002917444ENSE00001247525chr9:137776586-13777661833FCN2_HUMAN90-101126A:72-76
B:71-76
C:75-76
D:73-76
E:71-76
F:72-76		5
6
2
4
6
5
1.5ENST000002917445ENSE00001643405chr9:137777085-137777212128FCN2_HUMAN101-143436A:76-118
B:76-118
C:76-118
D:76-118
E:76-118
F:76-118		43
43
43
43
43
43
1.6ENST000002917446ENSE00001786911chr9:137777614-137777743130FCN2_HUMAN144-187446A:119-162
B:119-162
C:119-162
D:119-162
E:119-162
F:119-162		44
44
44
44
44
44
1.7ENST000002917447ENSE00001656900chr9:137778276-137778410135FCN2_HUMAN187-232466A:162-207
B:162-207
C:162-207
D:162-207
E:162-207
F:162-207		46
46
46
46
46
46
1.8aENST000002917448aENSE00001941356chr9:137779014-137779366353FCN2_HUMAN232-313826A:207-288
B:207-288
C:207-288
D:207-288
E:207-288
F:207-288		82
82
82
82
82
82

(-) 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:217
 aligned with FCN2_HUMAN | Q15485 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:217
                                   106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       
           FCN2_HUMAN    97 PCLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRVDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHVSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 313
               SCOP domains d2j3ua_ A: automated matches                                                                                                                                                                                              SCOP domains
               CATH domains 2j3uA01 A:72-206,A:280-288 Gamma Fibrinogen, chain A, domain 1                                                                         2j3uA02 A:207-279 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2  2j3uA01   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhh.....eeeeee.....eeeeeee.hhhhh.eeeeeee.........hhhhhhhhee.....ee.hhhhhhhhhh...eeeeeeee.....eeeeeeeeeee......................hhhhh................hhhhhh...........................................eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------Y---S----------------------------------------------------------------------------------------------------------------------M---------------------S------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) FIBRINOGEN_C_2  PDB: - UniProt: 96-313                                                                                                                                                                                    PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------FIBRINOGEN_C_------------------------------------ PROSITE (2)
           Transcript 1 (1) 1.4  ------------------------------------------Exon 1.6  PDB: A:119-162 UniProt: 144-187   --------------------------------------------Exon 1.8a  PDB: A:207-288 UniProt: 232-313                                         Transcript 1 (1)
           Transcript 1 (2) ----Exon 1.5  PDB: A:76-118 UniProt: 101-143   -------------------------------------------Exon 1.7  PDB: A:162-207 UniProt: 187-232     --------------------------------------------------------------------------------- Transcript 1 (2)
                 2j3u A  72 PCLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRTDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHTSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 288
                                    81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       


Chain B from PDB  Type:PROTEIN  Length:218
 aligned with FCN2_HUMAN | Q15485 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:218
                                   105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305        
           FCN2_HUMAN    96 QPCLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRVDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHVSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 313
               SCOP domains d2j3ub_ B: automated matches                                                                                                                                                                                               SCOP domains
               CATH domains 2j3uB01 B:71-206,B:280-288 Gamma Fibrinogen, chain A, domain 1                                                                          2j3uB02 B:207-279 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2  2j3uB01   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh..hhhhhhhh.....eeeeee.....eeeeeee.......eeeeeee.........hhhhhhhhee.....ee.hhhhhhhhhh..eeeeeeeee.....eeeeee..eee.hhhhh..eee..eee......hhhhh................hhhhhh...........ee.......ee........ee.......ee..eeeeeeeee Sec.struct. author
                 SAPs(SNPs) -----------------Y---S----------------------------------------------------------------------------------------------------------------------M---------------------S------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) FIBRINOGEN_C_2  PDB: B:72-288 UniProt: 96-313                                                                                                                                                                              PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------FIBRINOGEN_C_------------------------------------ PROSITE (2)
           Transcript 1 (1) 1.4   ------------------------------------------Exon 1.6  PDB: B:119-162 UniProt: 144-187   --------------------------------------------Exon 1.8a  PDB: B:207-288 UniProt: 232-313                                         Transcript 1 (1)
           Transcript 1 (2) -----Exon 1.5  PDB: B:76-118 UniProt: 101-143   -------------------------------------------Exon 1.7  PDB: B:162-207 UniProt: 187-232     --------------------------------------------------------------------------------- Transcript 1 (2)
                 2j3u B  71 NPCLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRTDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHTSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 288
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280        


Chain C from PDB  Type:PROTEIN  Length:214
 aligned with FCN2_HUMAN | Q15485 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:214
                                   109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309    
           FCN2_HUMAN   100 TGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRVDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHVSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 313
               SCOP domains d2j3uc_ C: automated matches                                                                                                                                                                                           SCOP domains
               CATH domains 2j3uC01 C:75-206,C:280-288 Gamma Fibrinogen, chain A, domain 1                                                                      2j3uC02 C:207-279 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2  2j3uC01   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhh.....eeeeee.....eeeeeee.hhhhh.eeeeeee.........hhhhhhhhee.....ee.hhhhhhhhhh...eeeeeeee.....eeeeee..eee.hhhhh..eee..eee......hhhhh................hhhhhh...........ee.......ee........ee.......ee..eeeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------Y---S----------------------------------------------------------------------------------------------------------------------M---------------------S------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) FIBRINOGEN_C_2  PDB: - UniProt: 96-313                                                                                                                                                                                 PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------FIBRINOGEN_C_------------------------------------ PROSITE (2)
           Transcript 1 (1) 1.------------------------------------------Exon 1.6  PDB: C:119-162 UniProt: 144-187   --------------------------------------------Exon 1.8a  PDB: C:207-288 UniProt: 232-313                                         Transcript 1 (1)
           Transcript 1 (2) -Exon 1.5  PDB: C:76-118 UniProt: 101-143   -------------------------------------------Exon 1.7  PDB: C:162-207 UniProt: 187-232     --------------------------------------------------------------------------------- Transcript 1 (2)
                 2j3u C  75 TGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRTDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHTSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 288
                                    84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284    


Chain D from PDB  Type:PROTEIN  Length:216
 aligned with FCN2_HUMAN | Q15485 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:216
                                   107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307      
           FCN2_HUMAN    98 CLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRVDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHVSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 313
               SCOP domains d2j3ud_ D: automated matches                                                                                                                                                                                             SCOP domains
               CATH domains 2j3uD01 D:73-206,D:280-288 Gamma Fibrinogen, chain A, domain 1                                                                        2j3uD02 D:207-279 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2  2j3uD01   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ......hhhhhhhh.....eeeeee.....eeeeeee.......eeeeeee.........hhhhhhhhee.....ee.hhhhhhhhhh...eeeeeeee.......eeee..eee.hhhhh..eee..eee......hhhhh................hhhhhh...........ee.......ee........ee.......ee..eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ---------------Y---S----------------------------------------------------------------------------------------------------------------------M---------------------S------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) FIBRINOGEN_C_2  PDB: - UniProt: 96-313                                                                                                                                                                                   PROSITE (1)
                PROSITE (2) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------FIBRINOGEN_C_------------------------------------ PROSITE (2)
           Transcript 1 (1) 1.4 ------------------------------------------Exon 1.6  PDB: D:119-162 UniProt: 144-187   --------------------------------------------Exon 1.8a  PDB: D:207-288 UniProt: 232-313                                         Transcript 1 (1)
           Transcript 1 (2) ---Exon 1.5  PDB: D:76-118 UniProt: 101-143   -------------------------------------------Exon 1.7  PDB: D:162-207 UniProt: 187-232     --------------------------------------------------------------------------------- Transcript 1 (2)
                 2j3u D  73 CLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRTDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHTSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 288
                                    82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282      


Chain E from PDB  Type:PROTEIN  Length:218
 aligned with FCN2_HUMAN | Q15485 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:218
                                   105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305        
           FCN2_HUMAN    96 QPCLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRVDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHVSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 313
               SCOP domains d2j3ue_ E: automated matches                                                                                                                                                                                               SCOP domains
               CATH domains 2j3uE01 E:71-206,E:280-288 Gamma Fibrinogen, chain A, domain 1                                                                          2j3uE02 E:207-279 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2  2j3uE01   CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh..hhhhhhhh.....eeeeee.....eeeeeee.......eeeeeee.........hhhhhhhhee.....ee.hhhhhhhhhh...eeeeeeee.....eeeeee..eee.hhhhh..eee..eee......hhhhh................hhhhhh...........ee.......ee........ee.......ee..eeeeeeee. Sec.struct. author
                 SAPs(SNPs) -----------------Y---S----------------------------------------------------------------------------------------------------------------------M---------------------S------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) FIBRINOGEN_C_2  PDB: E:72-288 UniProt: 96-313                                                                                                                                                                              PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------FIBRINOGEN_C_------------------------------------ PROSITE (2)
           Transcript 1 (1) 1.4   ------------------------------------------Exon 1.6  PDB: E:119-162 UniProt: 144-187   --------------------------------------------Exon 1.8a  PDB: E:207-288 UniProt: 232-313                                         Transcript 1 (1)
           Transcript 1 (2) -----Exon 1.5  PDB: E:76-118 UniProt: 101-143   -------------------------------------------Exon 1.7  PDB: E:162-207 UniProt: 187-232     --------------------------------------------------------------------------------- Transcript 1 (2)
                 2j3u E  71 NPCLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRTDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHTSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 288
                                    80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280        


Chain F from PDB  Type:PROTEIN  Length:217
 aligned with FCN2_HUMAN | Q15485 from UniProtKB/Swiss-Prot  Length:313

    Alignment length:217
                                   106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       
           FCN2_HUMAN    97 PCLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRVDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHVSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 313
               SCOP domains d2j3uf_ F: automated matches                                                                                                                                                                                              SCOP domains
               CATH domains 2j3uF01 F:72-206,F:280-288 Gamma Fibrinogen, chain A, domain 1                                                                         2j3uF02 F:207-279 Gamma-fibrinogen Carboxyl Terminal Fragment, domain 2  2j3uF01   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhhhh.....eeeeee.....eeeeeee.......eeeeeee.........hhhhhhhhee.....ee.hhhhhhhhhh...eeeeeeee.....eeeeee..eee.hhhhh..eee..eee......hhhhh................hhhhhh....................ee.................ee..eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------Y---S----------------------------------------------------------------------------------------------------------------------M---------------------S------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) FIBRINOGEN_C_2  PDB: - UniProt: 96-313                                                                                                                                                                                    PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------FIBRINOGEN_C_------------------------------------ PROSITE (2)
           Transcript 1 (1) 1.4  ------------------------------------------Exon 1.6  PDB: F:119-162 UniProt: 144-187   --------------------------------------------Exon 1.8a  PDB: F:207-288 UniProt: 232-313                                         Transcript 1 (1)
           Transcript 1 (2) ----Exon 1.5  PDB: F:76-118 UniProt: 101-143   -------------------------------------------Exon 1.7  PDB: F:162-207 UniProt: 187-232     --------------------------------------------------------------------------------- Transcript 1 (2)
                 2j3u F  72 PCLTGPRTCKDLLDRGHFLSGWHTIYLPDCRPLTVLCDMDTDGGGWTVFQRRVDGSVDFYRDWATYKQGFGSRLGEFWLGNDNIHALTAQGTSELRTDLVDFEDNYQFAKYRSFKVADEAEKYNLVLGAFVEGSAGDSLTFHNNQSFSTKDQDNDLNTGNCAVMFQGAWWYKNCHTSNLNGRYLRGTHGSFANGINWKSGKGYNYSYKVSEMKVRPA 288
                                    81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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, 6)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (2, 12)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)
(-)
Architecture: Alpha-Beta Complex (3881)
(-)
Topology: Gamma Fibrinogen; Chain A, domain 1 (58)
(-)
Homologous Superfamily: Gamma Fibrinogen, chain A, domain 1 (58)
(-)
Human (Homo sapiens) (53)
1a2j3uB01B:71-206,B:280-288
1b2j3uE01E:71-206,E:280-288
1c2j3uA01A:72-206,A:280-288
1d2j3uF01F:72-206,F:280-288
1e2j3uD01D:73-206,D:280-288
1f2j3uC01C:75-206,C:280-288
(-)
Class: Few Secondary Structures (1120)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2J3U)

(-) Gene Ontology  (21, 21)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (FCN2_HUMAN | Q15485)
molecular function
    GO:0003823    antigen binding    Interacting selectively and non-covalently with an antigen, any substance which is capable of inducing a specific immune response and of reacting with the products of that response, the specific antibody or specifically sensitized T-lymphocytes, or both. Binding may counteract the biological activity of the antigen.
    GO:0048306    calcium-dependent protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules), in the presence of calcium.
    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:2001065    mannan binding    Interacting selectively and non-covalently with mannan.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0043394    proteoglycan binding    Interacting selectively and non-covalently with a proteoglycan, any glycoprotein in which the carbohydrate units are glycosaminoglycans.
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0006956    complement activation    Any process involved in the activation of any of the steps of the complement cascade, which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes; the initial steps of complement activation involve one of three pathways, the classical pathway, the alternative pathway, and the lectin pathway, all of which lead to the terminal complement pathway.
    GO:0001867    complement activation, lectin pathway    Any process involved in the activation of any of the steps of the lectin pathway of the complement cascade which allows for the direct killing of microbes and the regulation of other immune processes.
    GO:0050829    defense response to Gram-negative bacterium    Reactions triggered in response to the presence of a Gram-negative bacterium that act to protect the cell or organism.
    GO:0050830    defense response to Gram-positive bacterium    Reactions triggered in response to the presence of a Gram-positive bacterium that act to protect the cell or organism.
    GO:0002376    immune system process    Any process involved in the development or functioning of the immune system, an organismal system for calibrated responses to potential internal or invasive threats.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
    GO:0008228    opsonization    The process in which a microorganism (or other particulate material) is rendered more susceptible to phagocytosis by coating with an opsonin, a blood serum protein such as a complement component or antibody.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0043654    recognition of apoptotic cell    The process in which a cell interprets signals (in the form of specific proteins and lipids) on the surface of a dying cell which it will engulf and remove by phagocytosis.
cellular component
    GO:0072562    blood microparticle    A phospholipid microvesicle that is derived from any of several cell types, such as platelets, blood cells, endothelial cells, or others, and contains membrane receptors as well as other proteins characteristic of the parental cell. Microparticles are heterogeneous in size, and are characterized as microvesicles free of nucleic acids.
    GO:0005581    collagen trimer    A protein complex consisting of three collagen chains assembled into a left-handed triple helix. These trimers typically assemble into higher order structures.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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  2j3u
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  FCN2_HUMAN | Q15485
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 Related Entries

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

UniProtKB/Swiss-Prot
        FCN2_HUMAN | Q15485: 2j0g 2j0h 2j0y 2j1g 2j2p 2j3f 2j3g 2j3o 2j61 4nyt 4r9j 4r9t

(-) Related Entries Specified in the PDB File

2j0g L-FICOLIN COMPLEXED TO N-ACETYL-MANNOSAMINE
2j0h L-FICOLIN COMPLEXED TO ACETYL-CHOLINE
2j0y L-FICOLIN COMPLEXED TO B-1,3-D-GLUCAN
2j1g L-FICOLIN COMPLEXED TO N-ACETYL-CYSTEIN
2j2p L-FICOLIN COMPLEXED TO N-ACETYL-CYSTEIN ( 150MM)
2j3f L-FICOLIN COMPLEXED TO N-ACETYL-D- GALACTOSAMIN
2j3g L-FICOLIN
2j3o L-FICOLIN COMPLEXED TO N-ACETYL-D- GLUCOSAMIN
2j61 L-FICOLIN COMPLEXED TO N-ACETYLGLUCOSAMINE ( FORME C)