1UZ8 - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Title :   ANTI-LEWIS X FAB FRAGMENT IN COMPLEX WITH LEWIS X

Authors :   A. M. M. Van Roon, N. S. Pannu, J. P. M. De Vrind, C. H. Hokke, A. M. Deelde G. A. Van Der Marel, J. H. Van Boom, J. P. Abrahams

Date :   05 Mar 04 (Deposition) - 29 Jun 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym. Unit : A,B,H,L
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: H,L  (1x)
Biol. Unit 3: A,B,H,L  (1x)

Keywords :   Immune System, Antibody, Anti-Carbohydrate (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. M. M. Van Roon, N. S. Pannu, J. P. M. De Vrind, G. A. Van Der Marel, J. H. Van Boom, C. H. Hokke, A. M. Deelder, J. P. Abrahams
Structure Of An Anti-Lewis X Fab Fragment In Complex With Its Lewis X Antigen
Structure V. 12 1227 2004
PubMed-ID: 15242599 | Reference-DOI: 10.1016/J.STR.2004.05.008

Molecule 1 - IGG FAB (IGG3, KAPPA) LIGHT CHAIN 291-2G3-A
	Cell Line	:	MURINE HYBRIDOMA
	Chains	:	A, L
	Fragment	:	FAB FRAGMENT LIGHT CHAIN, RESIDUES 1-212
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

Molecule 2 - IGG FAB (IGG3, KAPPA) HEAVY CHAIN 291-2G3-A
	Cell Line	:	MURINE HYBRIDOMA
	Chains	:	B, H
	Fragment	:	FAB FRAGMENT HEAVY CHAIN, RESIDUES 1-213
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

		1	2	3	4
Asymmetric Unit	:	A	B	H	L
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			H	L
Biological Unit 3 (1x)	:	A	B	H	L

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 6)

No.	Name	Count	Type	Full Name
1	FUC	2	Ligand/Ion	ALPHA-L-FUCOSE
2	GAL	2	Ligand/Ion	BETA-D-GALACTOSE
3	MAG	2	Ligand/Ion	BETA-METHYL-N-ACETYL-D-GLUCOSAMINE

Biological Unit 1 (3, 3)

No.	Name	Count	Type	Full Name
1	FUC	1	Ligand/Ion	ALPHA-L-FUCOSE
2	GAL	1	Ligand/Ion	BETA-D-GALACTOSE
3	MAG	1	Ligand/Ion	BETA-METHYL-N-ACETYL-D-GLUCOSAMINE

Biological Unit 2 (3, 3)

No.	Name	Count	Type	Full Name
1	FUC	1	Ligand/Ion	ALPHA-L-FUCOSE
2	GAL	1	Ligand/Ion	BETA-D-GALACTOSE
3	MAG	1	Ligand/Ion	BETA-METHYL-N-ACETYL-D-GLUCOSAMINE

Biological Unit 3 (3, 6)

No.	Name	Count	Type	Full Name
1	FUC	2	Ligand/Ion	ALPHA-L-FUCOSE
2	GAL	2	Ligand/Ion	BETA-D-GALACTOSE
3	MAG	2	Ligand/Ion	BETA-METHYL-N-ACETYL-D-GLUCOSAMINE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:34 , GLN A:50 , ASN A:91 , LEU A:92 , VAL A:94 , TRP A:96 , GLU B:50 , THR B:96 , GLY B:97 , TYR L:27D , SER L:27E , ASN L:28	BINDING SITE FOR CHAIN A OF POLYSACCHARIDE RESIDUES 1213 TO 1215
2	AC2	SOFTWARE	TYR A:27D , GLU H:50 , GLU H:95 , THR H:96 , GLY H:97 , HOH H:2014 , HOH H:2038 , TYR L:34 , GLN L:50 , ASN L:91 , LEU L:92 , GLU L:93 , TRP L:96	BINDING SITE FOR CHAIN H OF POLYSACCHARIDE RESIDUES 1213 TO 1215

Asymmetric Unit

No.	Residues
1	A:23	-	A:88
2	A:133	-	A:193
3	B:22	-	B:92
4	B:140	-	B:195
5	B:140	-	B:195
6	H:22	-	H:92
7	H:140	-	H:195
8	H:140	-	H:195
9	L:23	-	L:88
10	L:133	-	L:193

Asymmetric Unit

No.	Residues
1	Val A:94	-	Pro A:95
2	Tyr A:139	-	Pro A:140
3	Phe B:146	-	Pro B:147
4	Glu B:148	-	Pro B:149
5	Trp B:188	-	Pro B:189
6	Phe H:146	-	Pro H:147
7	Glu H:148	-	Pro H:149
8	Trp H:188	-	Pro H:189
9	Val L:94	-	Pro L:95
10	Tyr L:139	-	Pro L:140

(no "SAP(SNP)/Variant" information available for 1UZ8)

(no "PROSITE Motif" information available for 1UZ8)

(no "Exon" information available for 1UZ8)

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:218
                                                                                                                                                                                                                                                           
               SCOP domains d1uz8a1 A:1-106 Immunoglobulin light chain kappa variable domain, VL-kappa                                     -d1uz8a2 A:107-210 Immunoglobulin light chain kappa constant domain, CL-kappa                            -- SCOP domains
               CATH domains 1uz8A01 A:1-107 Immunoglobulins                                                                                  1uz8A02 A:108-210 Immunoglobulins                                                                      -- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.......ee....eeeeeee............eeeeee......eeeee...ee.......eeeee...eeeeee...hhhhheeeeeee......ee...eee.ee......eeeee..hhhhhhh....eeeeeeee.....eeeeee..eee...eeeee.........eeeeeee..hhhhhh...eeeeeee.......eeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1uz8 A    1 DIVMTQAAFSNPVTLGTSASISCRSSKSLLYSNGITYLYWYLQKPGQSPQLLIYQMSNLASGVPDRFSSSGSGTDFTLRISRVEAEDVGVYYCAQNLEVPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNE  212
                                    10        20       27C||      35        45        55        65        75        85        95       105 |     114       124       134       144       154       164       174       184       194       204        
                                                     27A||||                                                                            106A                                                                                                          
                                                      27B|||                                                                                                                                                                                          
                                                       27C||                                                                                                                                                                                          
                                                        27D|                                                                                                                                                                                          
                                                         27E

Chain B from PDB  Type:PROTEIN  Length:212
 aligned with HVM41_MOUSE | P01811 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:212
                                                                                                                                              117                                                                                               
                                    10        20        30        40        50        60        70        80        90       100       110      |  -         -         -         -         -         -         -         -         -         -  
         HVM41_MOUSE      1 EVKLLESGGGLVQPGGSLKLSCAASGFDFSGYWMSWVRQAPGKGLEWIGEINPDSSTINYTPFLKDKFIISRDNAKNTLFLQMSKVRSEDTALYFCARNWDVGFDYWGQVTTLTVSS-----------------------------------------------------------------------------------------------    -
               SCOP domains d1uz8b1 B:1-113 Immunoglobulin heavy chain variable domain, VH                                                       d1uz8b2 B:114-212 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma               - SCOP domains
               CATH domains 1uz8B01 B:1-112 Immunoglobulins                                                                                     -1uz8B02 B:114-213 Immunoglobulins                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeee.......ee...eeeee........eeeee.....eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee.........eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1uz8 B    1 EVKLLESGGGLVQPGGSQKLSCAASGFDFSGYWMSWVRQAPGKGLEWIGEINPDSSTINYTPSLKDKFIISRDNAKNTLYLQMSKVRSEDTALYYCARETGTRFDYWGQGTTLTVSSATTTAPSVYPLVPGGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSGFYSLSSLVTVPSSTWPSQTVICNVAHPASKTELIKRIEPR  213
                                    10        20        30        40        50  |     59        69        79   |||  86        96       106       116       126||     141       151       161       171       181       191       201       211  
                                                                              52A                            82A||                                          127|                                                                                
                                                                                                              82B|                                           133                                                                                
                                                                                                               82C

Chain H from PDB  Type:PROTEIN  Length:212
 aligned with HVM41_MOUSE | P01811 from UniProtKB/Swiss-Prot  Length:117

    Alignment length:212
                                                                                                                                              117                                                                                               
                                    10        20        30        40        50        60        70        80        90       100       110      |  -         -         -         -         -         -         -         -         -         -  
         HVM41_MOUSE      1 EVKLLESGGGLVQPGGSLKLSCAASGFDFSGYWMSWVRQAPGKGLEWIGEINPDSSTINYTPFLKDKFIISRDNAKNTLFLQMSKVRSEDTALYFCARNWDVGFDYWGQVTTLTVSS-----------------------------------------------------------------------------------------------    -
               SCOP domains d1uz8h1 H:1-113 Immunoglobulin heavy chain variable domain, VH                                                       d1uz8h2 H:114-212 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma               - SCOP domains
               CATH domains 1uz8H01 H:1-112 Immunoglobulins                                                                                     -1uz8H02 H:114-213 Immunoglobulins                                                               CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee..hhhhh.eeeeee.....eeeeeee......eee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeee.......ee...eeeee........eeeee.....eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee.........eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1uz8 H    1 EVKLLESGGGLVQPGGSQKLSCAASGFDFSGYWMSWVRQAPGKGLEWIGEINPDSSTINYTPSLKDKFIISRDNAKNTLYLQMSKVRSEDTALYYCARETGTRFDYWGQGTTLTVSSATTTAPSVYPLVPGGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSGFYSLSSLVTVPSSTWPSQTVICNVAHPASKTELIKRIEPR  213
                                    10        20        30        40        50  |     59        69        79   |||  86        96       106       116       126||     141       151       161       171       181       191       201       211  
                                                                              52A                            82A||                                          127|                                                                                
                                                                                                              82B|                                           133                                                                                
                                                                                                               82C

Chain L from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                           
               SCOP domains d1uz8l1 L:1-106 Immunoglobulin light chain kappa variable domain, VL-kappa                                     -d1uz8l2 L:107-210 Immunoglobulin light chain kappa constant domain, CL-kappa                            -- SCOP domains
               CATH domains 1uz8L01 L:1-107 Immunoglobulins                                                                                  1uz8L02 L:108-210 Immunoglobulins                                                                      -- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...ee.......ee....eeeeeee............eeeeee......eeeee...ee.......eeeee...eeeeee...hhhhheeeeeee......ee...eee.ee......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeee.......eeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1uz8 L    1 DIVMTQAAFSNPVTLGTSASISCRSSKSLLYSNGITYLYWYLQKPGQSPQLLIYQMSNLASGVPDRFSSSGSGTDFTLRISRVEAEDVGVYYCAQNLEVPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNE  212
                                    10        20       27C||      35        45        55        65        75        85        95       105 |     114       124       134       144       154       164       174       184       194       204        
                                                     27A||||                                                                            106A                                                                                                          
                                                      27B|||                                                                                                                                                                                          
                                                       27C||                                                                                                                                                                                          
                                                        27D|                                                                                                                                                                                          
                                                         27E

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(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Sandwich (5577)

Topology: Immunoglobulin-like (3897)

Homologous Superfamily: Immunoglobulins (2282)

Mouse (Mus musculus) (152)

1a	1uz8A02	A:108-210
1b	1uz8B02	B:114-213
1c	1uz8H02	H:114-213
1d	1uz8A01	A:1-107
1e	1uz8L01	L:1-107
1f	1uz8B01	B:1-112
1g	1uz8H01	H:1-112
1h	1uz8L02	L:108-210

(no "Pfam Domain" information available for 1UZ8)

Asymmetric Unit(hide GO term definitions)

Chain B,H (HVM41_MOUSE | P01811)

molecular function
	GO:0003823		antigen binding		Interacting selectively and non-covalently with an antigen, any substance which is capable of inducing a specific immune response and of reacting with the products of that response, the specific antibody or specifically sensitized T-lymphocytes, or both. Binding may counteract the biological activity of the antigen.

Asymmetric Unit
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	Cis Peptide Bonds
		Glu B:148 - Pro B:149	[ RasMol ]
		Glu H:148 - Pro H:149	[ RasMol ]
		Phe B:146 - Pro B:147	[ RasMol ]
		Phe H:146 - Pro H:147	[ RasMol ]
		Trp B:188 - Pro B:189	[ RasMol ]
		Trp H:188 - Pro H:189	[ RasMol ]
		Tyr A:139 - Pro A:140	[ RasMol ]
		Tyr L:139 - Pro L:140	[ RasMol ]
		Val A:94 - Pro A:95	[ RasMol ]
		Val L:94 - Pro L:95	[ RasMol ]

Biological Units
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		Biological Unit 3	[ Jena3D ]

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	1uz8
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	HVM41_MOUSE \| P01811	:	1uz6

1uz6	ANTI-LEWIS X FAB FRAGMENT UNCOMPLEXED

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 6)

Sites (2, 2)

SS Bonds (10, 10)

Cis Peptide Bonds (10, 10)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (4, 8)

CATH Domains (1, 8)

Pfam Domains (0, 0)

Gene Ontology (1, 1)

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