1CLZ - JenaLib

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Title :   IGG FAB (IGG3, KAPPA) FRAGMENT (MBR96) COMPLEXED WITH LEWIS Y NONOATE METHYL ESTER

Authors :   S. Sheriff, J. Bajorath

Date :   15 Mar 95 (Deposition) - 01 Aug 96 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.80

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

Keywords :   Immunoglobulin C Region, Glycoprotein, Transmembrane, Immunoglobulin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. D. Jeffrey, J. Bajorath, C. Y. Chang, D. Yelton, I. Hellstrom, K. E. Hellstrom, S. Sheriff
The X-Ray Structure Of An Anti-Tumour Antibody In Complex With Antigen.
Nat. Struct. Biol. V. 2 466 1995
PubMed-ID: 7664109 | Reference-DOI: 10.1038/NSB0695-466
(for further references see the PDB file header)

Molecule 1 - IGG FAB (IGG3, KAPPA)
	Chains	:	L
	Fragment	:	FRAGMENT (MBR96)
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	COMPLEXED WITH LEWIS Y NONOATE METHYL ESTER
	Other Details - Source	:	HYBRIDIZED WITH P2X63-AG MOUSE
	Strain	:	BALB/C
	Synonym	:	MBR96 FAB (IMMUNOGLOBULIN)

Molecule 2 - IGG FAB (IGG3, KAPPA)
	Chains	:	H
	Fragment	:	FRAGMENT (MBR96)
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	COMPLEXED WITH LEWIS Y NONOATE METHYL ESTER
	Other Details - Source	:	HYBRIDIZED WITH P2X63-AG MOUSE
	Strain	:	BALB/C
	Synonym	:	MBR96 FAB (IMMUNOGLOBULIN)

		1	2
Asymmetric Unit	:	H	L
Biological Unit 1 (1x)	:	H	L
Biological Unit 2 (1x)	:	H	L

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 5)

No.	Name	Count	Type	Full Name
1	FUC	2	Ligand/Ion	ALPHA-L-FUCOSE
2	GAL	1	Ligand/Ion	BETA-D-GALACTOSE
3	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NON	1	Ligand/Ion	METHYL NONANOATE (ESTER)

Biological Unit 1 (4, 5)

No.	Name	Count	Type	Full Name
1	FUC	2	Ligand/Ion	ALPHA-L-FUCOSE
2	GAL	1	Ligand/Ion	BETA-D-GALACTOSE
3	NAG	1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NON	1	Ligand/Ion	METHYL NONANOATE (ESTER)

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	FUC	-1	Ligand/Ion	ALPHA-L-FUCOSE
2	GAL	-1	Ligand/Ion	BETA-D-GALACTOSE
3	NAG	-1	Ligand/Ion	N-ACETYL-D-GLUCOSAMINE
4	NON	-1	Ligand/Ion	METHYL NONANOATE (ESTER)

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GAL H:233 , NAG H:234 , HIS L:27D , LYS L:169	BINDING SITE FOR RESIDUE FUC H 232
2	AC2	SOFTWARE	TYR H:33 , TYR H:35 , TRP H:100A , FUC H:232 , NAG H:234 , FUC H:235 , HIS L:27D	BINDING SITE FOR RESIDUE GAL H 233
3	AC3	SOFTWARE	ASP H:31 , TYR H:32 , TYR H:33 , GLN H:52A , FUC H:232 , GAL H:233 , FUC H:235 , NON H:236 , LYS L:169	BINDING SITE FOR RESIDUE NAG H 234
4	AC4	SOFTWARE	TYR H:35 , LEU H:96 , GLY H:99 , ALA H:100 , TRP H:100A , GAL H:233 , NAG H:234 , TYR L:32	BINDING SITE FOR RESIDUE FUC H 235
5	AC5	SOFTWARE	ASP H:31 , TYR H:32 , GLN H:52A , ASP H:97 , NAG H:234 , LEU L:15 , ARG L:108	BINDING SITE FOR RESIDUE NON H 236

Asymmetric Unit

No.	Residues
1	H:22	-	H:92
2	H:142	-	H:208
3	L:23	-	L:88
4	L:134	-	L:194

Asymmetric Unit

No.	Residues
1	Ile L:7	-	Pro L:8
2	Val L:94	-	Pro L:95
3	Tyr L:140	-	Pro L:141
4	Phe H:148	-	Pro H:149
5	Glu H:150	-	Pro H:151
6	Trp H:199	-	Pro H:200

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

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

(no "Exon" information available for 1CLZ)

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 H from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                           
               SCOP domains d1clzh1 H:1-113 Immunoglobulin heavy chain variable domain, VH                                                         d1clzh2 H:115-231 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                     SCOP domains
               CATH domains 1clzH01 H:1-113 Immunoglobulins                                                                                        1clzH02 H:115-230 Immunoglobulins                                                                 - CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee..eee.....eeeeeeee...hhh..eeeeeee...eeeeeeee......eee.......eeeeee....eeeeee....hhh.eeeeeee................eee.......eeeee..........eeeeeeeeeee....eeeee........eee...eee..eeeeeeeeeee........eeeeeeehhh.eeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1clz H    1 EVNLVESGGGLVQPGGSLKVSCVTSGFTFSDYYMYWVRQTPEKRLEWVAYISQGGDITDYPDTVKGRFTISRDNAKNSLYLQMSRLKSEDTAMYYCARGLDDGAWFAYWGQGTLVTVSVTTTAPSVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSGFYSLSSLVTVPSSTWPSQTVICNVAHPASKTELIKRIEPR  231
                                    10        20        30        40        50  |     59        69        79   |||  86        96    || 104       115       125    || 137       147      |162      |173      |185       195|| ||  208       218    ||  
                                                                              52A                            82A||               100A|          113|            130|                  154|||    169|      180|          196| || 206|            223|  
                                                                                                              82B|                100B           115             133                   156||     171       183           198 ||  208             229  
                                                                                                               82C                                                                      157|                               200|                       
                                                                                                                                                                                         162                                202

Chain L from PDB  Type:PROTEIN  Length:219
                                                                                                                                                                                                                                                            
               SCOP domains d1clzl1 L:1-108 Immunoglobulin light chain kappa variable domain, VL-kappa                                       d1clzl2 L:109-214 Immunoglobulin light chain kappa constant domain, CL-kappa                               SCOP domains
               CATH domains 1clzL01 L:1-108 Immunoglobulins                                                                                  1clzL02 L:109-211 Immunoglobulins                                                                      --- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeeee....eeeeeee............eeeeee.....eeeee.............eeeeee..eeeeee....hhh.eeeeeee...........eeeeee......eeeee...hhhhh..eeeeeeeee........eeeee........eeeee...........eeeeeeeehhhh....eeeeee........eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1clz L    1 DVLMTQIPVSLPVSLGDQASISCRSSQIIVHNNGNTYLEWYLQKPGQSPQLLIYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC  214
                                    10        20       27C||      35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205         
                                                     27A||||                                                                                                                                                                                           
                                                      27B|||                                                                                                                                                                                           
                                                       27C||                                                                                                                                                                                           
                                                        27D|                                                                                                                                                                                           
                                                         27E

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	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)

House mouse (Mus musculus) (616)

1a	1clzL02	L:109-211
1b	1clzH02	H:115-230
1c	1clzL01	L:1-108
1d	1clzH01	H:1-113

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

Asymmetric Unit(hide GO term definitions)

Asymmetric Unit
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	Cis Peptide Bonds
		Glu H:150 - Pro H:151	[ RasMol ]
		Ile L:7 - Pro L:8	[ RasMol ]
		Phe H:148 - Pro H:149	[ RasMol ]
		Trp H:199 - Pro H:200	[ RasMol ]
		Tyr L:140 - Pro L:141	[ RasMol ]
		Val L:94 - Pro L:95	[ RasMol ]

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Ligands, Modified Residues, Ions (4, 5)

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SS Bonds (4, 4)

Cis Peptide Bonds (6, 6)

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