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(-) Description

Title :  CRYSTAL STRUCTURE OF IGG FC WITH A HOMOGENEOUS GLYCOFORM AND ANTIBODY-DEPENDENT CELLULAR CYTOTOXICITY
 
Authors :  C. -L. Chen, J. -C. Hsu, C. -W. Lin, C. -Y. Wu, C. -H. Wong, C. Ma
Date :  17 Aug 16  (Deposition) - 28 Jun 17  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Antibody Fc, Homogeneous N-Glycan, Enhanced Adcc, Di-Sialylation, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. -L. Chen, J. -C. Hsu, C. -W. Lin, C. -H. Wang, M. -H. Tsai, C. -Y. Wu, C. -H. Wong, C. Ma
Crystal Structure Of A Homogeneous Igg-Fc Glycoform With Th N-Glycan Designed To Maximize The Antibody Dependent Cellular Cytotoxicity
Acs Chem. Biol. V. 12 1335 2017
PubMed-ID: 28318221  |  Reference-DOI: 10.1021/ACSCHEMBIO.7B00140

(-) Compounds

Molecule 1 - IG GAMMA-1 CHAIN C REGION
    Chains: A, B, C, D
    Engineered: YES
    Expression System: CRICETULUS GRISEUS
    Expression System Cell Line: OVARY CELL
    Expression System Common: CHINESE HAMSTER
    Expression System Taxid: 10029
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 106-330
    Gene: IGHG1
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 27)

Asymmetric Unit (5, 27)
No.NameCountTypeFull Name
1BMA4Ligand/IonBETA-D-MANNOSE
2GAL3Ligand/IonBETA-D-GALACTOSE
3MAN7Ligand/IonALPHA-D-MANNOSE
4NAG12Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SIA1Ligand/IonO-SIALIC ACID
Biological Unit 1 (4, 14)
No.NameCountTypeFull Name
1BMA2Ligand/IonBETA-D-MANNOSE
2GAL2Ligand/IonBETA-D-GALACTOSE
3MAN4Ligand/IonALPHA-D-MANNOSE
4NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SIA-1Ligand/IonO-SIALIC ACID
Biological Unit 2 (5, 13)
No.NameCountTypeFull Name
1BMA2Ligand/IonBETA-D-MANNOSE
2GAL1Ligand/IonBETA-D-GALACTOSE
3MAN3Ligand/IonALPHA-D-MANNOSE
4NAG6Ligand/IonN-ACETYL-D-GLUCOSAMINE
5SIA1Ligand/IonO-SIALIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:241 , PHE A:243 , PRO A:244 , PRO A:245 , LYS A:246 , GLU A:258 , THR A:260 , VAL A:264 , ASP A:265 , ASN A:297 , ARG A:301 , HOH A:605 , HOH A:608 , HOH A:618 , HOH A:628 , HOH A:636 , HOH A:638 , HOH A:639 , HOH A:641 , HOH A:666 , HOH A:686 , HOH A:699 , HOH A:724 , HOH A:735 , HOH A:764 , HOH A:767 , HOH A:774 , HOH A:785 , NAG B:502 , MAN B:506binding site for Poly-Saccharide residues NAG A 501 through GAL A 507 bound to ASN A 297
2AC2SOFTWAREMAN A:504 , MAN A:506 , HOH A:686 , PHE B:241 , PHE B:243 , PRO B:244 , LYS B:246 , GLU B:258 , THR B:260 , VAL B:264 , ASP B:265 , GLN B:295 , ASN B:297 , THR B:299 , ARG B:301 , HOH B:608 , HOH B:618 , HOH B:632 , HOH B:639 , HOH B:646 , HOH B:650 , HOH B:652 , HOH B:660 , HOH B:684 , HOH B:720 , HOH B:728 , HOH B:729 , HOH B:737 , HOH B:749binding site for Poly-Saccharide residues NAG B 501 through GAL B 507 bound to ASN B 297
3AC3SOFTWAREPHE C:241 , PHE C:243 , PRO C:244 , PRO C:245 , LYS C:246 , GLU C:258 , THR C:260 , VAL C:264 , ASP C:265 , GLN C:295 , ASN C:297 , ARG C:301 , HOH C:603 , HOH C:617 , HOH C:633 , HOH C:641 , HOH C:648 , HOH C:650 , HOH C:652 , HOH C:655 , HOH C:666 , HOH C:682 , HOH C:691 , HOH C:708 , HOH C:715 , HOH C:719binding site for Poly-Saccharide residues NAG C 501 through SIA C 508 bound to ASN C 297
4AC4SOFTWAREPHE D:241 , PHE D:243 , LYS D:246 , GLU D:258 , THR D:260 , VAL D:263 , ASP D:265 , ASN D:297 , THR D:299 , ARG D:301 , HOH D:603 , HOH D:611 , HOH D:691binding site for Poly-Saccharide residues VAL D 264 through NAG D 505 bound to ASN D 290

(-) SS Bonds  (8, 8)

Asymmetric Unit
No.Residues
1A:261 -A:321
2A:367 -A:425
3B:261 -B:321
4B:367 -B:425
5C:261 -C:321
6C:367 -C:425
7D:261 -D:321
8D:367 -D:425

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Tyr A:373 -Pro A:374
2Tyr B:373 -Pro B:374
3Tyr C:373 -Pro C:374
4Tyr D:373 -Pro D:374

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5GSQ)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5GSQ)

(-) Exons   (0, 0)

(no "Exon" information available for 5GSQ)

(-) 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:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..hhhhhhh.....eeeeeeeee......eeeeeee..eee...ee...ee.....eeeeeeee.hhhhhhh...eeeeeee......eeeee..........eeeee...hhhhhh.eeeeeeeeeee.....eeeeee..eee..eee...ee.....eeeeeeeeeehhhhhh...eeeeee...hhh.eeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gsq A 237 GPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLS 444
                                   246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436        


Chain B from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..hhhhhhh.....eeeeeeeee.......eeeeee..eee...ee...ee.....eeeeeeee.hhhhhhh...eeeeee.......eeeee..........eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee...eee...ee.....eeeeeeeeeehhhhhh...eeeeee...hhhhheeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gsq B 237 GPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLS 444
                                   246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436        


Chain C from PDB  Type:PROTEIN  Length:208
                                                                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..hhhhhhh.....eeeeeeeee.......eeeeee..eee...ee...ee.....eeeeeeee.hhhhhhh...eeeeee.......eeeee..........eeeee....hhhhh.eeeeeeeeeee.....eeeeee..eee..eee...ee.....eeeeeeeeeehhhhh....eeeeee...hhhhheeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gsq C 237 GPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLS 444
                                   246       256       266       276       286       296       306       316       326       336       346       356       366       376       386       396       406       416       426       436        


Chain D from PDB  Type:PROTEIN  Length:194
                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eee..hhhhhhh.....eeeeee........eeee..eee...eeeeee....eeeeeee.hhhhhhh...eeeee....eeeee..........eeeee...hhhhhh.eeeeeeeeeee.....eeeeee..eee..eee...ee.....eeeeeeeeeehhhhhh...eeeeee...hhh.eeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5gsq D 240 VFLFPPKPKDTLMISRTPEVTCVVVDDPEVKFNWYVDGVEVHNAKTKPRENSTYRVVSVLTVLHQDWLNGKEYKCKVSPAPIEKTISKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLS 444
                                   249       259     ||273       283       293|      306       316       330       340       350       360       370       380       390       400       410       420       430       440    
                                                   265|                    293|                        324|                                                                                                                   
                                                    270                     297                         329
   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  (0, 0)

(no "SCOP Domain" information available for 5GSQ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5GSQ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5GSQ)

(-) Gene Ontology  (20, 20)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        IGHG1_HUMAN | P01857: 1aj7 1aqk 1axs 1bey 1d5b 1d5i 1d6v 1dfb 1dn2 1e4k 1fc1 1fc2 1fcc 1gaf 1h3t 1h3u 1h3v 1h3w 1h3x 1h3y 1hkl 1hzh 1i7z 1l6x 1n7m 1op3 1oqo 1oqx 1pg7 1t83 1t89 1vge 2dts 2gj7 2i5y 2iwg 2j6e 2jb5 2jb6 2o5x 2o5y 2o5z 2osl 2qad 2ql1 2qqk 2qql 2qqn 2qr0 2r56 2rcj 2rcs 2vxq 2wah 3agv 3ave 3ay4 3b2u 3b2v 3bdy 3be1 3bky 3bn9 3bqu 3c08 3c09 3c2s 3cfj 3cfk 3csy 3d0l 3d0v 3d6g 3d85 3dj9 3dnk 3do3 3dro 3drq 3dvg 3dvn 3eyf 3eyo 3eyq 3fjt 3mcl 3o11 3ry6 3s7g 3sgj 3sgk 3tv3 3twc 3tyg 3u0w 3u7w 3u7y 3v7m 3v8c 3v95 3wjj 3wjl 3wkn 3wn5 4acp 4b7i 4bm7 4bsv 4bsw 4byh 4cdh 4d9q 4d9r 4dag 4dz8 4eow 4hix 4j12 4ku1 4lld 4llm 4llq 4n0u 4nqs 4nqt 4nqu 4nwt 4nwu 4o4y 4o51 4q6y 4q74 4q7d 4w4n 4w4o 4wi2 4wi3 4wi4 4wi5 4wi6 4wi7 4wi8 4wi9 4x4m 4x98 4x99 4xmp 4xny 4xnz 4xxd 4zne 5bw7 5c7k 5d4q 5d6d 5di8 5dj0 5dj2 5dj6 5dj8 5dja 5djc 5djd 5djx 5djy 5djz 5dk0 5dk2 5dvk 5dvl 5dvm 5dvn 5dvo 5hsf 5hy9 5hye 5hyf 5hyi 5iq7 5iq9 5iw3 5iw6 5jih 5jii 5jik 5k33 5k8d 5kwg 5m3v 5v43 5v4e

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