5BW7 - JenaLib

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Title :   CRYSTAL STRUCTURE OF NONFUCOSYLATED FC Y296W MUTANT COMPLEXED WITH BIS-GLYCOSYLATED SOLUBLE FORM OF FC GAMMA RECEPTOR IIIA

Authors :   Y. Isoda, H. Yagi, T. Satoh, M. Shibata-Koyama, K. Masuda, M. Satoh, K. K S. Iida

Date :   06 Jun 15 (Deposition) - 14 Oct 15 (Release) - 11 Nov 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.00

Chains :   Asym. Unit : A,B,C
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C  (1x)

Keywords :   Immune System, Complex, Fc Fragment, Igg, Receptor, Cd16, Gamma (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   Y. Isoda, H. Yagi, T. Satoh, M. Shibata-Koyama, K. Masuda, M. Satoh, K. Kato, S. Iida
Importance Of The Side Chain At Position 296 Of Antibody Fc In Interactions With Fc Gamma Riiia And Other Fc Gamma Receptors
Plos One V. 10 40120 2015
PubMed-ID: 26444434 | Reference-DOI: 10.1371/JOURNAL.PONE.0140120

Molecule 1 - IG GAMMA-1 CHAIN C REGION
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	CRICETULUS GRISEUS
	Expression System Plasmid	:	PKANTEX2160
	Expression System Strain	:	MS704
	Expression System Taxid	:	10029
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 108-330
	Gene	:	IGHG1
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606

Molecule 2 - LOW AFFINITY IMMUNOGLOBULIN GAMMA FC REGION RECEPTOR III-A
	Chains	:	C
	Engineered	:	YES
	Expression System	:	CRICETULUS GRISEUS
	Expression System Plasmid	:	PKANTEX93
	Expression System Taxid	:	10029
	Expression System Vector Type	:	PLASMID
	Fragment	:	UNP RESIDUES 21-193
	Gene	:	FCGR3A, CD16A, FCG3, FCGR3, IGFR3
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	CD16A ANTIGEN,FC-GAMMA RIII-ALPHA,FCRIIIA,FCR-10,IGG FC RECEPTOR III-2

		1	2	3
Asymmetric Unit	:	A	B	C
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (6, 28)

No.	Name	Count	Type	Full Name
1	BMA	4	Ligand/Ion	BETA-D-MANNOSE
2	CL	1	Ligand/Ion	CHLORIDE ION
3	FUC	1	Ligand/Ion	ALPHA-L-FUCOSE
4	GAL	1	Ligand/Ion	BETA-D-GALACTOSE
5	MAN	7	Ligand/Ion	ALPHA-D-MANNOSE
6	NAG	14	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (4, 15)

No.	Name	Count	Type	Full Name
1	BMA	2	Ligand/Ion	BETA-D-MANNOSE
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	FUC	-1	Ligand/Ion	ALPHA-L-FUCOSE
4	GAL	1	Ligand/Ion	BETA-D-GALACTOSE
5	MAN	4	Ligand/Ion	ALPHA-D-MANNOSE
6	NAG	8	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (4, 12)

No.	Name	Count	Type	Full Name
1	BMA	2	Ligand/Ion	BETA-D-MANNOSE
2	CL	-1	Ligand/Ion	CHLORIDE ION
3	FUC	1	Ligand/Ion	ALPHA-L-FUCOSE
4	GAL	-1	Ligand/Ion	BETA-D-GALACTOSE
5	MAN	3	Ligand/Ion	ALPHA-D-MANNOSE
6	NAG	6	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	PHE 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 , THR A:299 , ARG A:301 , LYS A:334 , TYR C:132 , NAG C:1001 , NAG C:1002 , MAN C:1004	binding site for Poly-Saccharide residues NAG A 1001 through GAL A 1008 bound to ASN A 297
2	AC2	SOFTWARE	PHE B:241 , PHE B:243 , THR B:260 , ASP B:265 , GLN B:295 , ASN B:297 , ARG B:301	binding site for Poly-Saccharide residues NAG B 1001 through NAG B 1007 bound to ASN B 297
3	AC3	SOFTWARE	HIS C:44 , ASN C:45 , ASP C:64 , SER C:66	binding site for Poly-Saccharide residues NAG C 1008 through NAG C 1012 bound to ASN C 45
4	AC4	SOFTWARE	TRP A:296 , NAG A:1001 , MAN A:1006 , LYS C:120 , ASN C:126 , ARG C:155 , ASN C:162	binding site for Poly-Saccharide residues NAG C 1001 through FUC C 1007 bound to ASN C 162

Asymmetric Unit

No.	Residues
1	A:261	-	A:321
2	A:367	-	A:425
3	B:261	-	B:321
4	B:367	-	B:425
5	C:29	-	C:71
6	C:110	-	C:154

Asymmetric Unit

No.	Residues
1	Tyr A:373	-	Pro A:374
2	Tyr B:373	-	Pro B:374
3	Glu C:13	-	Pro C:14

(no "SAP(SNP)/Variant" information available for 5BW7)

(no "PROSITE Motif" information available for 5BW7)

(no "Exon" information available for 5BW7)

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
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Chain A from PDB  Type:PROTEIN  Length:212
                                                                                                                                                                                                                                                    
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeeee..hhhhhhh.....eeeeeeeee.......eeeeee..eee...ee...ee.....eeeeeeee.hhhhhhhh..eeeeee.......eeeee..........eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee...eee...ee.....eeeeeeeeeehhhhhh..eeeeeee...hhhhheeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bw7 A 233 ELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQWNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLS 444
                                   242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442

Chain B from PDB  Type:PROTEIN  Length:215
                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeee..hhhhhhh.....eeeeeeeee......eeeeeee..eee...ee...ee.....eeeeeeee.hhhhhhhh..eeeeeee......eeeee..........eeeee..hhhhh...eeeeeeeeeee.....eeeeee..eee..eee...ee.....eeeeeeeeeehhhhhh...eeeeee...hhhhheeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bw7 B 230 PAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQWNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLS 444
                                   239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429       439

Chain C from PDB  Type:PROTEIN  Length:155
                                                                                                                                                                                           
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee.....eee....eeee...eee..........eeee...hhhhheeeee..........eeeeee...eeee....eee....eeeeeee.hhh..eeeeeee..eeeeeeee...eee...hhhhheeeeeeeee..eeee...eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5bw7 C  10 VFLEPQWYRVLEKDSVTLKCQQWFHNESLISSQASSYFIDAATVDDSGEYRCQTQLSTLSDPVQLEVHIGWLLLQAPRWVFKEEDPIHLRCHSWKNTALHKVTYLQNGKGRKYFHHNSDFYIPKATLKDSGSYFCRGLVGSKNVSSETVQITITQ 174
                                    19        29||      49        59        69        79        89        99       109       119       129       139       149       159       169     
                                               30|                                                                                                                                     
                                                41

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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 '\|'

(no "SCOP Domain" information available for 5BW7)

(no "CATH Domain" information available for 5BW7)

(no "Pfam Domain" information available for 5BW7)

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Glu C:13 - Pro C:14	[ RasMol ]
		Tyr A:373 - Pro A:374	[ RasMol ]
		Tyr B:373 - Pro B:374	[ RasMol ]

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		Biological Unit 2	[ Jena3D ]

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(no "Related Entries Specified in the PDB File" available for 5BW7)

Description

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Ligands, Modified Residues, Ions (6, 28)

Sites (4, 4)

SS Bonds (6, 6)

Cis Peptide Bonds (3, 3)

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