4CPB - JenaLib

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Biological Unit 3 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF LECA IN COMPLEX WITH A DIVALENT GALACTOSIDE AT 1.57 ANGSTROM IN MAGNESIUM

Authors :   J. Topin, A. Varrot, A. Imberty, N. Wissinger

Date :   04 Feb 14 (Deposition) - 08 Oct 14 (Release) - 08 Oct 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.57

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

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

Reference :   A. Novoa, T. Eierhoff, J. Topin, A. Varrot, S. Barluenga, A. Imberty, W. Romer, N. Winssinger
A Leca Ligand Identified From A Galactoside-Conjugate Array Inhibits Host Cell Invasion By Pseudomonas Aeruginosa.
Angew. Chem. Int. Ed. Engl. V. 53 8885 2014
PubMed-ID: 25044671 | Reference-DOI: 10.1002/ANIE.201402831

Molecule 1 - PA-I GALACTOPHILIC LECTIN
	Chains	:	A, B, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector	:	PET25B
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	208964
	Strain	:	PAO1
	Synonym	:	PA-IL, GALACTOSE-BINDING LECTIN, LECA

Molecule 2 - PA-I GALACTOPHILIC LECTIN
	Chains	:	D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Vector	:	PET25B
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	PSEUDOMONAS AERUGINOSA
	Organism Taxid	:	208964
	Strain	:	PAO1
	Synonym	:	PA-IL, GALACTOSE-BINDING LECTIN, LECA

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (9, 23)

No.	Name	Count	Type	Full Name
1	2PE	1	Ligand/Ion	NONAETHYLENE GLYCOL
2	CA	4	Ligand/Ion	CALCIUM ION
3	CL	1	Ligand/Ion	CHLORIDE ION
4	CN8	4	Ligand/Ion	(4S)-N-ETHYL-4-{[N-METHYL-3-(1-{2-[(4-SULFANYLBENZOYL)AMINO]ETHYL}-1H-1,2,3-TRIAZOL-4-YL)-L-ALANYL]AMINO}-L-PROLINAMIDE
5	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
6	GAL	4	Ligand/Ion	BETA-D-GALACTOSE
7	OCS	4	Mod. Amino Acid	CYSTEINESULFONIC ACID
8	PEG	1	Ligand/Ion	DI(HYDROXYETHYL)ETHER
9	TRO	3	Mod. Amino Acid	2-HYDROXY-TRYPTOPHAN

Biological Unit 1 (7, 18)

No.	Name	Count	Type	Full Name
1	2PE	1	Ligand/Ion	NONAETHYLENE GLYCOL
2	CA	-1	Ligand/Ion	CALCIUM ION
3	CL	-1	Ligand/Ion	CHLORIDE ION
4	CN8	4	Ligand/Ion	(4S)-N-ETHYL-4-{[N-METHYL-3-(1-{2-[(4-SULFANYLBENZOYL)AMINO]ETHYL}-1H-1,2,3-TRIAZOL-4-YL)-L-ALANYL]AMINO}-L-PROLINAMIDE
5	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
6	GAL	4	Ligand/Ion	BETA-D-GALACTOSE
7	OCS	4	Mod. Amino Acid	CYSTEINESULFONIC ACID
8	PEG	1	Ligand/Ion	DI(HYDROXYETHYL)ETHER
9	TRO	3	Mod. Amino Acid	2-HYDROXY-TRYPTOPHAN

Biological Unit 2 (6, 10)

No.	Name	Count	Type	Full Name
1	2PE	-1	Ligand/Ion	NONAETHYLENE GLYCOL
2	CA	-1	Ligand/Ion	CALCIUM ION
3	CL	-1	Ligand/Ion	CHLORIDE ION
4	CN8	2	Ligand/Ion	(4S)-N-ETHYL-4-{[N-METHYL-3-(1-{2-[(4-SULFANYLBENZOYL)AMINO]ETHYL}-1H-1,2,3-TRIAZOL-4-YL)-L-ALANYL]AMINO}-L-PROLINAMIDE
5	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
6	GAL	2	Ligand/Ion	BETA-D-GALACTOSE
7	OCS	2	Mod. Amino Acid	CYSTEINESULFONIC ACID
8	PEG	1	Ligand/Ion	DI(HYDROXYETHYL)ETHER
9	TRO	2	Mod. Amino Acid	2-HYDROXY-TRYPTOPHAN

Biological Unit 3 (5, 8)

No.	Name	Count	Type	Full Name
1	2PE	1	Ligand/Ion	NONAETHYLENE GLYCOL
2	CA	-1	Ligand/Ion	CALCIUM ION
3	CL	-1	Ligand/Ion	CHLORIDE ION
4	CN8	2	Ligand/Ion	(4S)-N-ETHYL-4-{[N-METHYL-3-(1-{2-[(4-SULFANYLBENZOYL)AMINO]ETHYL}-1H-1,2,3-TRIAZOL-4-YL)-L-ALANYL]AMINO}-L-PROLINAMIDE
5	EDO	-1	Ligand/Ion	1,2-ETHANEDIOL
6	GAL	2	Ligand/Ion	BETA-D-GALACTOSE
7	OCS	2	Mod. Amino Acid	CYSTEINESULFONIC ACID
8	PEG	-1	Ligand/Ion	DI(HYDROXYETHYL)ETHER
9	TRO	1	Mod. Amino Acid	2-HYDROXY-TRYPTOPHAN

Asymmetric Unit (12, 12)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	TYR A:36 , ASP A:100 , THR A:104 , ASN A:107 , ASN A:108 , GAL A:1123	BINDING SITE FOR RESIDUE CA A1122
02	AC2	SOFTWARE	GLU A:11 , ALA A:12 , LYS A:68 , ILE A:97	BINDING SITE FOR RESIDUE PEG A1125
03	AC3	SOFTWARE	TYR B:36 , ASP B:100 , THR B:104 , ASN B:107 , ASN B:108 , GAL B:1123	BINDING SITE FOR RESIDUE CA B1122
04	AC4	SOFTWARE	LYS B:68 , ILE B:97	BINDING SITE FOR RESIDUE EDO B1125
05	AC5	SOFTWARE	ALA C:12 , LYS C:68 , HOH C:2060 , GLU D:11 , ALA D:12 , LYS D:68 , ILE D:97 , HOH D:2085	BINDING SITE FOR RESIDUE 2PE D1122
06	AC6	SOFTWARE	TYR C:36 , ASP C:100 , THR C:104 , ASN C:107 , ASN C:108 , GAL C:1123	BINDING SITE FOR RESIDUE CA C1122
07	AC7	SOFTWARE	TYR D:36 , ASP D:100 , THR D:104 , ASN D:107 , ASN D:108 , GAL D:1124	BINDING SITE FOR RESIDUE CA D1123
08	AC8	SOFTWARE	LEU D:7 , ASN D:10 , HOH D:2009	BINDING SITE FOR RESIDUE CL D1126
09	AC9	SOFTWARE	TYR A:36 , HIS A:50 , PRO A:51 , GLN A:53 , ASP A:100 , VAL A:101 , THR A:104 , ASN A:107 , CA A:1122 , HOH A:2078 , PRO D:51	BINDING SITE FOR POLY-SACCHARIDE RESIDUES GAL A1123 THROUGH CN8 A1124
10	BC1	SOFTWARE	TYR B:36 , HIS B:50 , PRO B:51 , GLN B:53 , ASP B:100 , THR B:104 , ASN B:107 , CA B:1122 , HOH B:2041 , HOH B:2052 , HOH B:2083 , CN8 C:1124 , HOH C:2047	BINDING SITE FOR POLY-SACCHARIDE RESIDUES GAL B1123 THROUGH CN8 B1124
11	BC2	SOFTWARE	PRO B:38 , CN8 B:1124 , HOH B:2041 , HOH B:2044 , TYR C:36 , GLU C:49 , HIS C:50 , GLN C:53 , ASP C:100 , THR C:104 , ASN C:107 , CA C:1122 , HOH C:2057 , HOH C:2096	BINDING SITE FOR POLY-SACCHARIDE RESIDUES GAL C1123 THROUGH CN8 C1124
12	BC3	SOFTWARE	TYR D:36 , HIS D:50 , PRO D:51 , GLN D:53 , ASP D:100 , THR D:104 , ASN D:107 , CA D:1123 , HOH D:2049 , HOH D:2062 , HOH D:2090 , HOH D:2097	BINDING SITE FOR POLY-SACCHARIDE RESIDUES GAL D1124 THROUGH CN8 D1125

(no "SS Bond" information available for 4CPB)

(no "Cis Peptide Bond" information available for 4CPB)

(no "SAP(SNP)/Variant" information available for 4CPB)

(no "PROSITE Motif" information available for 4CPB)

(no "Exon" information available for 4CPB)

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:121
 aligned with PA1L_PSEAE | Q05097 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:121
                                    11        21        31        41        51        61        71        81        91       101       111       121 
           PA1L_PSEAE     2 AWKGEVLANNEAGQVTSIIYNPGDVITIVAAGWASYGPTQKWGPQGDREHPDQGLICHDAFCGALVMKIGNSGTIPVNTGLFRWVAPNNVQGAITLIYNDVPGTYGNNSGSFSVNIGKDQS 122
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee......eeeeeee.....eeeeeeeeee.............................eeeee.....ee...eeeee.......eeeeeee.....hhhhheeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cpb A   1 AWKGEVLANNEAGQVTSIIYNPGDVITIVAAGwASYGPTQKWGPQGDREHPDQGLIcHDAFCGALVMKIGNSGTIPVNTGLFRWVAPNNVQGAITLIYNDVPGTYGNNSGSFSVNIGKDQS 121
                                    10        20        30  |     40        50      | 60        70        80        90       100       110       120 
                                                           33-TRO                  57-OCS

Chain B from PDB  Type:PROTEIN  Length:121
 aligned with PA1L_PSEAE | Q05097 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:121
                                    11        21        31        41        51        61        71        81        91       101       111       121 
           PA1L_PSEAE     2 AWKGEVLANNEAGQVTSIIYNPGDVITIVAAGWASYGPTQKWGPQGDREHPDQGLICHDAFCGALVMKIGNSGTIPVNTGLFRWVAPNNVQGAITLIYNDVPGTYGNNSGSFSVNIGKDQS 122
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee......eeeeeee....eeeeeeeeeee.............................eeeee.....ee...eeeee.......eeeeeee.....hhhhheeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cpb B   1 AWKGEVLANNEAGQVTSIIYNPGDVITIVAAGwASYGPTQKWGPQGDREHPDQGLIcHDAFCGALVMKIGNSGTIPVNTGLFRWVAPNNVQGAITLIYNDVPGTYGNNSGSFSVNIGKDQS 121
                                    10        20        30  |     40        50      | 60        70        80        90       100       110       120 
                                                           33-TRO                  57-OCS

Chain C from PDB  Type:PROTEIN  Length:121
 aligned with PA1L_PSEAE | Q05097 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:121
                                    11        21        31        41        51        61        71        81        91       101       111       121 
           PA1L_PSEAE     2 AWKGEVLANNEAGQVTSIIYNPGDVITIVAAGWASYGPTQKWGPQGDREHPDQGLICHDAFCGALVMKIGNSGTIPVNTGLFRWVAPNNVQGAITLIYNDVPGTYGNNSGSFSVNIGKDQS 122
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .............eeeeeee.....eeeeeeeeee.............................eeeee.....ee...eeeee.......eeeeeee.....hhhhheeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cpb C   1 AWKGEVLANNEAGQVTSIIYNPGDVITIVAAGwASYGPTQKWGPQGDREHPDQGLIcHDAFCGALVMKIGNSGTIPVNTGLFRWVAPNNVQGAITLIYNDVPGTYGNNSGSFSVNIGKDQS 121
                                    10        20        30  |     40        50      | 60        70        80        90       100       110       120 
                                                           33-TRO                  57-OCS

Chain D from PDB  Type:PROTEIN  Length:121
 aligned with PA1L_PSEAE | Q05097 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:121
                                    11        21        31        41        51        61        71        81        91       101       111       121 
           PA1L_PSEAE     2 AWKGEVLANNEAGQVTSIIYNPGDVITIVAAGWASYGPTQKWGPQGDREHPDQGLICHDAFCGALVMKIGNSGTIPVNTGLFRWVAPNNVQGAITLIYNDVPGTYGNNSGSFSVNIGKDQS 122
               SCOP domains ------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee......eeeeeee....eeeeeeeeeee.............................eeeee.....ee...eeeee.......eeeeeee.....hhhhheeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                 4cpb D   1 AWKGEVLANNEAGQVTSIIYNPGDVITIVAAGWASYGPTQKWGPQGDREHPDQGLIcHDAFCGALVMKIGNSGTIPVNTGLFRWVAPNNVQGAITLIYNDVPGTYGNNSGSFSVNIGKDQS 121
                                    10        20        30        40        50      | 60        70        80        90       100       110       120 
                                                                                   57-OCS

Legend:		→ Mismatch	(orange background)
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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

(no "SCOP Domain" information available for 4CPB)

(no "CATH Domain" information available for 4CPB)

(no "Pfam Domain" information available for 4CPB)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (PA1L_PSEAE | Q05097)

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: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:0009986	cell surface	The external part of the cell wall and/or plasma membrane.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0042597	periplasmic space	The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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4cp9	CRYSTAL STRUCTURE OF LECA LECTIN COMPLEXED WITH A DIVALENT GALACTOSIDE AT 1.65 ANSTROM

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (9, 23)

Sites (12, 12)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

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Gene Ontology (5, 5)

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