5BPQ - JenaLib

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Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE CYSTEINE-RICH DOMAIN OF HUMAN FRIZZLED 4 - CRYSTAL FORM II

Authors :   T. -H. Chang, F. -L. Hsieh, K. Harlos, E. Y. Jones

Date :   28 May 15 (Deposition) - 01 Jul 15 (Release) - 29 Jul 15 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Wnt Signalling Pathway, Glycoprotein, G Protein Coupled Receptor, Receptor For Norrin Recognition, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. H. Chang, F. L. Hsieh, M. Zebisch, K. Harlos, J. Elegheert, E. Y. Jone
Structure And Functional Properties Of Norrin Mimic Wnt For Signalling With Frizzled4, Lrp5/6, And Proteoglycan.
Elife V. 4 06554 2015
PubMed-ID: 26158506 | Reference-DOI: 10.7554/ELIFE.06554

Molecule 1 - FRIZZLED-4
	Chains	:	A, B, C, D
	Engineered	:	YES
	Expression System	:	HOMO SAPIENS
	Expression System Cell Line	:	HEK293T
	Expression System Common	:	HUMAN
	Expression System Plasmid	:	PHLSEC-MVENUS-12H
	Expression System Taxid	:	9606
	Expression System Vector Type	:	PLASMID
	Fragment	:	CYSTEINE-RICH DOMAIN, UNP RESIDUES 42-179
	Gene	:	FZD4
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	HFZ4,FZE4

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 5)

No.	Name	Count	Type	Full Name
1	CL	1	Ligand/Ion	CHLORIDE ION
2	NAG	4	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 3 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Biological Unit 4 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLY D:89	binding site for residue CL A 202
2	AC2	SOFTWARE	GLU A:141 , ASN A:144	binding site for Mono-Saccharide NAG A 201 bound to ASN A 144
3	AC3	SOFTWARE	GLU B:141 , ASN B:144 , SER B:146	binding site for Mono-Saccharide NAG B 201 bound to ASN B 144
4	AC4	SOFTWARE	ASN C:144	binding site for Mono-Saccharide NAG C 201 bound to ASN C 144
5	AC5	SOFTWARE	ASN D:144	binding site for Mono-Saccharide NAG D 201 bound to ASN D 144

Asymmetric Unit

No.	Residues
1	A:45	-	A:106
2	A:53	-	A:99
3	A:90	-	A:128
4	A:117	-	A:158
5	A:121	-	A:145
6	B:45	-	B:106
7	B:53	-	B:99
8	B:90	-	B:128
9	B:117	-	B:158
10	B:121	-	B:145
11	C:45	-	C:106
12	C:53	-	C:99
13	C:90	-	C:128
14	C:117	-	C:158
15	C:121	-	C:145
16	D:45	-	D:106
17	D:53	-	D:99
18	D:90	-	D:128
19	D:117	-	D:158
20	D:121	-	D:145

Asymmetric Unit

No.	Residues
1	Met A:63	-	Pro A:64
2	Met B:63	-	Pro B:64
3	Met C:63	-	Pro C:64
4	Met D:63	-	Pro D:64

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

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

(no "Exon" information available for 5BPQ)

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:119
                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee............ee.........hhhhhhhhhh.hhhhhhhh...hhhhhhhhhhh.eee..eeeee..hhhhhhhhhhhhhhhhhhh....hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 5bpq A  44 RCDPIRISMCQNLGYNVTKMPNLVGHELQTDAELQLTTFTPLIQYGCSSQLQFFLCSVYVPMCTEKINIPIGPCGGMCLSVKRRCEPVLKEFGFAWPESLNCSKFPPQNDHNHMCMEGP 162
                                    53        63        73        83        93       103       113       123       133       143       153

Chain B from PDB  Type:PROTEIN  Length:119
                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..hhhhh.....ee.........hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhh....hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 5bpq B  44 RCDPIRISMCQNLGYNVTKMPNLVGHELQTDAELQLTTFTPLIQYGCSSQLQFFLCSVYVPMCTEKINIPIGPCGGMCLSVKRRCEPVLKEFGFAWPESLNCSKFPPQNDHNHMCMEGP 162
                                    53        63        73        83        93       103       113       123       133       143       153

Chain C from PDB  Type:PROTEIN  Length:118
                                                                                                                                                      
               SCOP domains ---------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee............ee.........hhhhhhhhhh.hhhhhhhh...hhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhh....hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                 5bpq C  45 CDPIRISMCQNLGYNVTKMPNLVGHELQTDAELQLTTFTPLIQYGCSSQLQFFLCSVYVPMCTEKINIPIGPCGGMCLSVKRRCEPVLKEFGFAWPESLNCSKFPPQNDHNHMCMEGP 162
                                    54        64        74        84        94       104       114       124       134       144       154

Chain D from PDB  Type:PROTEIN  Length:119
                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..ee..hhhhh.....ee.........hhhhhhhhhh.hhhhhhhh...hhhhhhhhhhh.............hhhhhhhhhhhhhhhhhhh....hhhhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------- Transcript
                 5bpq D  44 RCDPIRISMCQNLGYNVTKMPNLVGHELQTDAELQLTTFTPLIQYGCSSQLQFFLCSVYVPMCTEKINIPIGPCGGMCLSVKRRCEPVLKEFGFAWPESLNCSKFPPQNDHNHMCMEGP 162
                                    53        63        73        83        93       103       113       123       133       143       153

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 '\|'

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

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

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

Asymmetric Unit(hide GO term definitions)

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	Cis Peptide Bonds
		Met A:63 - Pro A:64	[ RasMol ]
		Met B:63 - Pro B:64	[ RasMol ]
		Met C:63 - Pro C:64	[ RasMol ]
		Met D:63 - Pro D:64	[ RasMol ]

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		Biological Unit 4	[ Jena3D ]

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	FZD4_HUMAN \| Q9ULV1	:	5bpb 5bqc 5bqe 5cl1 5cm4 5uwg

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

Description

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Ligands, Modified Residues, Ions (2, 5)

Sites (5, 5)

SS Bonds (20, 20)

Cis Peptide Bonds (4, 4)

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