1Q8O - JenaLib

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Title :   PTEROCARTPUS ANGOLENSIS LECTIN PAL IN COMPLEX WITH THE DIMMANOSIDE MAN(ALPHA1-2)MAN

Authors :   R. Loris, I. Van Walle, H. De Greve, S. Beeckmans, F. Deboeck, L. Wyns, J. Bouckaert

Date :   22 Aug 03 (Deposition) - 10 Feb 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym./Biol. Unit : A,B

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

Reference :   R. Loris, I. Van Walle, H. De Greve, S. Beeckmans, F. Deboeck, L. Wyns, J. Bouckaert
Structural Basis Of Oligomannose Recognition By The Pterocarpus Angolensis Seed Lectin
J. Mol. Biol. V. 335 1227 2004
PubMed-ID: 14729339 | Reference-DOI: 10.1016/J.JMB.2003.11.043
(for further references see the PDB file header)

Molecule 1 - LECTIN
	Chains	:	A, B
	Organism Scientific	:	PTEROCARPUS ANGOLENSIS
	Organism Taxid	:	182271
	Synonym	:	LECTIN PAL

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (5, 10)

No.	Name	Count	Type	Full Name
1	CA	2	Ligand/Ion	CALCIUM ION
2	MAN	2	Ligand/Ion	ALPHA-D-MANNOSE
3	MMA	2	Ligand/Ion	O1-METHYL-MANNOSE
4	MN	2	Ligand/Ion	MANGANESE (II) ION
5	PCA	2	Mod. Amino Acid	PYROGLUTAMIC ACID

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	SER A:45 , GLY A:104 , GLY A:105 , MMA A:254 , HOH A:311 , HOH A:314	BINDING SITE FOR RESIDUE MAN A 253
2	AC2	SOFTWARE	ALA A:85 , ASP A:86 , GLY A:105 , GLY A:106 , PHE A:132 , ASN A:138 , GLY A:220 , GLU A:221 , GLN A:222 , MAN A:253 , HOH A:292	BINDING SITE FOR RESIDUE MMA A 254
3	AC3	SOFTWARE	SER B:45 , GLY B:104 , GLY B:105 , MMA B:254 , HOH B:1300 , HOH B:1310	BINDING SITE FOR RESIDUE MAN B 253
4	AC4	SOFTWARE	ALA B:85 , ASP B:86 , GLY B:105 , GLY B:106 , PHE B:132 , ASN B:138 , GLY B:220 , GLU B:221 , GLN B:222 , MAN B:253	BINDING SITE FOR RESIDUE MMA B 254
5	AC5	SOFTWARE	GLU A:128 , ASP A:130 , ASP A:141 , HIS A:146 , HOH A:263 , HOH A:266	BINDING SITE FOR RESIDUE MN A 261
6	AC6	SOFTWARE	ASP A:130 , PHE A:132 , ASN A:138 , ASP A:141 , HOH A:265 , HOH A:271	BINDING SITE FOR RESIDUE CA A 262
7	AC7	SOFTWARE	GLU B:128 , ASP B:130 , ASP B:141 , HIS B:146 , HOH B:1263 , HOH B:1265	BINDING SITE FOR RESIDUE MN B 261
8	AC8	SOFTWARE	ASP B:130 , PHE B:132 , ASN B:138 , ASP B:141 , HOH B:1270 , HOH B:1273	BINDING SITE FOR RESIDUE CA B 1262

(no "SS Bond" information available for 1Q8O)

Asymmetric/Biological Unit

No.	Residues
1	Ala A:85	-	Asp A:86
2	Ala B:85	-	Asp B:86

(no "SAP(SNP)/Variant" information available for 1Q8O)

(no "PROSITE Motif" information available for 1Q8O)

(no "Exon" information available for 1Q8O)

Asymmetric/Biological 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:241
 aligned with Q8GSD2_PTEAG | Q8GSD2 from UniProtKB/TrEMBL  Length:260

    Alignment length:241
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248 
         Q8GSD2_PTEAG     9 QDSLSFGFPTFPSDQKNLIFQGDAQIKNNAVQLTKTDSNGNPVASTVGRILFSAQVHLWEKSSSRVANFQSQFSFSLKSPLSNGADGIAFFIAPPDTTIPSGSGGGLLGLFAPGTAQNTSANQVIAVEFDTFYAQDSNTWDPNYPHIGIDVNSIRSVKTVKWDRRDGQSLNVLVTFNPSTRNLDVVATYSDGTRYEVSYEVDVRSVLPEWVRVGFSAASGEQYQTHTLESWSFTSTLLYTA 249
               SCOP domains d1q8oa_ A: Legume lectin                                                                                                                                                                                                                          SCOP domains
               CATH domains -1q8oA00 A:2-241  [code=2.60.120.200, no name defined]                                                                                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee.........eeeee..eee..eee.............eeeeeee...ee.ee....eeeeeeeeeeeeee........eeeeeee..........hhhhh...hhhhh.hhhhh..eeeeee...............eeeeee......eeee........eeeeeeee....eeeeeeee....eeeeeee.hhhhh...eeeeeeeeee.....eeeeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q8o A   1 xDSLSFGFPTFPSDQKNLIFQGDAQIKNNAVQLTKTDSNGNPVASTVGRILFSAQVHLWEKSSSRVANFQSQFSFSLKSPLSNGADGIAFFIAPPDTTIPSGSGGGLLGLFAPGTAQNTSANQVIAVEFDTFYAQDSNTWDPNYPHIGIDVNSIRSVKTVKWDRRDGQSLNVLVTFNPSTRNLDVVATYSDGTRYEVSYEVDVRSVLPEWVRVGFSAASGEQYQTHTLESWSFTSTLLYTA 241
                            |       10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
                            |                                                                                                                                                                                                                                                
                            1-PCA

Chain B from PDB  Type:PROTEIN  Length:241
 aligned with Q8GSD2_PTEAG | Q8GSD2 from UniProtKB/TrEMBL  Length:260

    Alignment length:241
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248 
         Q8GSD2_PTEAG     9 QDSLSFGFPTFPSDQKNLIFQGDAQIKNNAVQLTKTDSNGNPVASTVGRILFSAQVHLWEKSSSRVANFQSQFSFSLKSPLSNGADGIAFFIAPPDTTIPSGSGGGLLGLFAPGTAQNTSANQVIAVEFDTFYAQDSNTWDPNYPHIGIDVNSIRSVKTVKWDRRDGQSLNVLVTFNPSTRNLDVVATYSDGTRYEVSYEVDVRSVLPEWVRVGFSAASGEQYQTHTLESWSFTSTLLYTA 249
               SCOP domains d1q8ob_ B: Legume lectin                                                                                                                                                                                                                          SCOP domains
               CATH domains -1q8oB00 B:2-241  [code=2.60.120.200, no name defined]                                                                                                                                                                                            CATH domains
           Pfam domains (1) -Lectin_legB-1q8oB01 B:2-234                                                                                                                                                                                                              ------- Pfam domains (1)
           Pfam domains (2) -Lectin_legB-1q8oB02 B:2-234                                                                                                                                                                                                              ------- Pfam domains (2)
         Sec.struct. author ..eeeeee.........eeeee..eee..eee.............eeeeeee...ee.ee....eeeeeeeeeeeeee........eeeeeee..........hhhhh...hhhhh........eeeeee...............eeeeee......eeee........eeeeeeee....eeeeeeee....eeeeeee.hhhhh...eeeeeeeeee.....eeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q8o B   1 xDSLSFGFPTFPSDQKNLIFQGDAQIKNNAVQLTKTDSNGNPVASTVGRILFSAQVHLWEKSSSRVANFQSQFSFSLKSPLSNGADGIAFFIAPPDTTIPSGSGGGLLGLFAPGTAQNTSANQVIAVEFDTFYAQDSNTWDPNYPHIGIDVNSIRSVKTVKWDRRDGQSLNVLVTFNPSTRNLDVVATYSDGTRYEVSYEVDVRSVLPEWVRVGFSAASGEQYQTHTLESWSFTSTLLYTA 241
                            |       10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240 
                            1-PCA

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/Biological Unit

Classes(

)

Folds(

)

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: Legume lectins (238)

Protein domain: Legume lectin (110)

Bloodwood tree (Pterocarpus angolensis) [TaxId: 182271] (9)

1a	d1q8oa_	A:
1b	d1q8ob_	B:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Jelly Rolls (1293)

Homologous Superfamily: [code=2.60.120.200, no name defined] (421)

Pterocarpus angolensis. Organism_taxid: 182271 (16)

1a	1q8oA00	A:2-241
1b	1q8oB00	B:2-241

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Concanavalin (293)

Family: Lectin_legB (93)

Pterocarpus angolensis (Kiaat tree) (Bleedwood tree) (15)

1a	Lectin_legB-1q8oB01	B:2-234
1b	Lectin_legB-1q8oB02	B:2-234

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (Q8GSD2_PTEAG | Q8GSD2)

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.
	GO:0046872		metal ion binding		Interacting selectively and non-covalently with any metal ion.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
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	Cis Peptide Bonds
		Ala A:85 - Asp A:86	[ RasMol ]
		Ala B:85 - Asp B:86	[ RasMol ]

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1n3o
1n3p
1n3q
1q8p	THE SAME PROTEIN COMPLEXED WITH THE DIMANNOSIDE MAN(ALPHA1- 3)MAN
1q8q	THE SEME PROTEIN COMPLEXED WITH THE DIMANNOSIDE MAN(ALPHA1- 4)MAN
1q8s	THE SEME PROTEIN COMPLEXED WITH THE DIMANNOSIDE MAN(ALPHA1- 6)MAN
1q8v	THE SEME PROTEIN COMPLEXED WITH THE TRIMANNOSIDE [MAN(ALPHA1-3)]MAN(ALPHA1-6)MAN
1ukg	THE SAME PROTEIN COMPLEXED WITH METHYL-ALPHA-MANNOSE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 10)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (1, 2)

CATH Domains (1, 2)

Pfam Domains (1, 2)

Gene Ontology (2, 2)

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