3ZXE - JenaLib

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Title :   CRYSTAL STRUCTURE OF HUMAN GALECTIN-7 IN COMPLEX WITH A GALACTOSE-BENZYLPHOSPHATE INHIBITOR

Authors :   G. Masuyer, C. T. Oberg, H. Leffler, U. J. Nilsson, K. R. Acharya

Date :   10 Aug 11 (Deposition) - 30 Nov 11 (Release) - 25 Jan 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.67

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

Keywords :   Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Masuyer, T. Jabeen, C. T. Oberg, H. Leffler, U. J. Nilsson, K. R. Acharya
Inhibition Mechanism Of Human Galectin-7 By A Novel Galactose-Benzylphosphate Inhibitor.
Febs J. V. 279 193 2012
PubMed-ID: 22059385 | Reference-DOI: 10.1111/J.1742-4658.2011.08414.X

Molecule 1 - GALECTIN-7
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Fragment	:	RESIDUES 4-136
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	GAL-7, HKL-14, PI7, P53-INDUCED GENE 1 PROTEIN

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	PGZ	2	Ligand/Ion	METHYL 2-O-[(S)-(BENZYLOXY)(HYDROXY)PHOSPHORYL]-3-DEOXY-3-{[(4-METHYLPHENYL)CARBONYL]AMINO}-1-THIO-BETA-D-GALACTOPYRANOSIDE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	PGZ	1	Ligand/Ion	METHYL 2-O-[(S)-(BENZYLOXY)(HYDROXY)PHOSPHORYL]-3-DEOXY-3-{[(4-METHYLPHENYL)CARBONYL]AMINO}-1-THIO-BETA-D-GALACTOPYRANOSIDE

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	PGZ	1	Ligand/Ion	METHYL 2-O-[(S)-(BENZYLOXY)(HYDROXY)PHOSPHORYL]-3-DEOXY-3-{[(4-METHYLPHENYL)CARBONYL]AMINO}-1-THIO-BETA-D-GALACTOPYRANOSIDE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:33 , HIS A:49 , ASN A:51 , ARG A:53 , ASN A:62 , TRP A:69 , GLU A:72 , PRO A:85 , GLU A:87 , ASP A:130 , HOH A:2001 , HOH A:2003 , HOH A:2004	BINDING SITE FOR RESIDUE PGZ A 1
2	AC2	SOFTWARE	ARG B:31 , HIS B:49 , ASN B:51 , ARG B:53 , ASN B:62 , TRP B:69 , ARG B:71 , GLU B:72 , GLU B:73 , ARG B:74 , HIS B:107 , HOH B:2001 , HOH B:2002 , HOH B:2003 , HOH B:2004 , HOH B:2006 , HOH B:2007 , HOH B:2107	BINDING SITE FOR RESIDUE PGZ B 1

(no "SS Bond" information available for 3ZXE)

(no "Cis Peptide Bond" information available for 3ZXE)

(no "SAP(SNP)/Variant" information available for 3ZXE)

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GALECTIN	PS51304	Galactoside-binding lectin (galectin) domain profile.	LEG7_HUMAN	6-136	2	A:5-135 B:5-135

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GALECTIN	PS51304	Galactoside-binding lectin (galectin) domain profile.	LEG7_HUMAN	6-136	1	A:5-135 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GALECTIN	PS51304	Galactoside-binding lectin (galectin) domain profile.	LEG7_HUMAN	6-136	1	- B:5-135

Asymmetric Unit (3, 6)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000378626	1	ENSE00001687764	chr19:39264157-39264127	31	LEG7_HUMAN	1-2	2	0	-	-
1.2	ENST00000378626	2	ENSE00001770113	chr19:39263743-39263655	89	LEG7_HUMAN	3-32	30	2	A:4-31 B:3-31	28 29
1.3	ENST00000378626	3	ENSE00001677371	chr19:39262670-39262469	202	LEG7_HUMAN	32-99	68	2	A:31-98 B:31-98	68 68
1.4	ENST00000378626	4	ENSE00001687329	chr19:39261779-39261608	172	LEG7_HUMAN	100-136	37	2	A:99-135 B:99-135	37 37

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:132
 aligned with LEG7_HUMAN | P47929 from UniProtKB/Swiss-Prot  Length:136

    Alignment length:132
                                    14        24        34        44        54        64        74        84        94       104       114       124       134  
           LEG7_HUMAN     5 PHKSSLPEGIRPGTVLRIRGLVPPNASRFHVNLLCGEEQGSDAALHFNPRLDTSEVVFNSKEQGSWGREERGPGVPFQRGQPFEVLIIASDDGFKAVVGDAQYHHFRHRLPLARVRLVEVGGDVQLDSVRIF 136
               SCOP domains d3zxea_ A: Galectin-7                                                                                                                SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeee.........eeeeeee.......eeeeee........eeeeeeee....eeeeeeee..ee...ee..........eeeeeeee...eeeeee..eeeeeee...hhhhh.eeeeee..eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -GALECTIN  PDB: A:5-135 UniProt: 6-136                                                                                               PROSITE
           Transcript 1 (1) Exon 1.2  PDB: A:4-31       -------------------------------------------------------------------Exon 1.4  PDB: A:99-135               Transcript 1 (1)
           Transcript 1 (2) ---------------------------Exon 1.3  PDB: A:31-98 UniProt: 32-99                               ------------------------------------- Transcript 1 (2)
                 3zxe A   4 PHKSSLPEGIRPGTVLRIRGLVPPNASRFHVNLLCGEEQGSDAALHFNPRLDTSEVVFNSKEQGSWGREERGPGVPFQRGQPFEVLIIASDDGFKAVVGDAQYHHFRHRLPLARVRLVEVGGDVQLDSVRIF 135
                                    13        23        33        43        53        63        73        83        93       103       113       123       133

Chain B from PDB  Type:PROTEIN  Length:133
 aligned with LEG7_HUMAN | P47929 from UniProtKB/Swiss-Prot  Length:136

    Alignment length:133
                                    13        23        33        43        53        63        73        83        93       103       113       123       133   
           LEG7_HUMAN     4 VPHKSSLPEGIRPGTVLRIRGLVPPNASRFHVNLLCGEEQGSDAALHFNPRLDTSEVVFNSKEQGSWGREERGPGVPFQRGQPFEVLIIASDDGFKAVVGDAQYHHFRHRLPLARVRLVEVGGDVQLDSVRIF 136
               SCOP domains d3zxeb_ B: Galectin-7                                                                                                                 SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee........eeeeeeee.......eeeeee........eeeeeeee....eeeeeeee..ee...ee..........eeeeeeee...eeeeee..eeeeeee...hhhhh.eeeeee..eeeeeeee Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --GALECTIN  PDB: B:5-135 UniProt: 6-136                                                                                               PROSITE
           Transcript 1 (1) Exon 1.2  PDB: B:3-31        -------------------------------------------------------------------Exon 1.4  PDB: B:99-135               Transcript 1 (1)
           Transcript 1 (2) ----------------------------Exon 1.3  PDB: B:31-98 UniProt: 32-99                               ------------------------------------- Transcript 1 (2)
                 3zxe B   3 VPHKSSLPEGIRPGTVLRIRGLVPPNASRFHVNLLCGEEQGSDAALHFNPRLDTSEVVFNSKEQGSWGREERGPGVPFQRGQPFEVLIIASDDGFKAVVGDAQYHHFRHRLPLARVRLVEVGGDVQLDSVRIF 135
                                    12        22        32        42        52        62        72        82        92       102       112       122       132

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Concanavalin A-like lectins/glucanases (797)

Superfamily: Concanavalin A-like lectins/glucanases (797)

Family: Galectin (animal S-lectin) (75)

Protein domain: Galectin-7 (6)

Human (Homo sapiens) [TaxId: 9606] (6)

1a	d3zxea_	A:
1b	d3zxeb_	B:

(no "CATH Domain" information available for 3ZXE)

(no "Pfam Domain" information available for 3ZXE)

Asymmetric Unit(hide GO term definitions)

Chain A,B (LEG7_HUMAN | P47929)

molecular function
	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.
biological process
	GO:0006915	apoptotic process	A programmed cell death process which begins when a cell receives an internal (e.g. DNA damage) or external signal (e.g. an extracellular death ligand), and proceeds through a series of biochemical events (signaling pathway phase) which trigger an execution phase. The execution phase is the last step of an apoptotic process, and is typically characterized by rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.
	GO:0007157	heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules	The attachment of an adhesion molecule in one cell to a nonidentical adhesion molecule in an adjacent cell.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular 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.
	GO:0005615	extracellular space	That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
	GO:0005634	nucleus	A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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	3zxe
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	LEG7_HUMAN \| P47929	:	1bkz 2gal 3gal 3zxf 4gal 4uw3 4uw4 4uw5 4uw6 4xbq 4y26 5gal 5h9q 5h9s

1bkz	CRYSTAL STRUCTURE OF HUMAN GALECTIN-7
2gal	CRYSTAL STRUCTURE OF HUMAN GALECTIN-7 IN COMPLEX WITH GALACTOSE
3gal	CRYSTAL STRUCTURE OF HUMAN GALECTIN-7 IN COMPLEX WITH GALACTOSAMINE
3zxf	HIGH RESOLUTION STRUCTURE OF HUMAN GALECTIN-7
4gal	CRYSTAL STRUCTURE OF HUMAN GALECTIN-7 IN COMPLEX WITH LACTOSE
5gal	CRYSTAL STRUCTURE OF HUMAN GALECTIN-7 IN COMPLEX WITH N-ACETYLLACTOSAMINE

Description

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Ligands, Modified Residues, Ions (1, 2)

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SS Bonds (0, 0)

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Exons (3, 6)

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Gene Ontology (8, 8)

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