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Asym./Biol. Unit (Jmol Viewer)

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Title :   2.9 ANGSTROMS RESOLUTION STRUCTURE OF AN ANTI-DINITROPHENYL-SPIN-LABEL MONOCLONAL ANTIBODY FAB FRAGMENT WITH BOUND HAPTEN

Authors :   D. J. Leahy, A. T. Brunger, R. O. Fox, T. R. Hynes

Date :   16 Jan 92 (Deposition) - 31 Jan 94 (Release) - 18 Sep 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.90

Chains :   Asym./Biol. Unit : H,L

Keywords :   Immunoglobulin, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. T. Brunger, D. J. Leahy, T. R. Hynes, R. O. Fox
2. 9 A Resolution Structure Of An Anti-Dinitrophenyl-Spin-Label Monoclonal Antibody Fab Fragment With Bound Hapten.
J. Mol. Biol. V. 221 239 1991
PubMed-ID: 1920408
(for further references see the PDB file header)

Molecule 1 - IGG1-KAPPA AN02 FAB (LIGHT CHAIN)
	Chains	:	L
	Engineered	:	YES
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

Molecule 2 - IGG1-KAPPA AN02 FAB (HEAVY CHAIN)
	Chains	:	H
	Engineered	:	YES
	Organism Common	:	MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

		1	2
Asymmetric/Biological Unit	:	H	L

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 1)

No.	Name	Count	Type	Full Name
1	NPP	1	Ligand/Ion	N-(2-AMINO-ETHYL)-4,6-DINITRO-N'-(2,2,6,6-TETRAMETHYL-1-OXY-PIPERIDIN-4-YL)-BENZENE-1,3-DIAMINE

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TRP H:100 , TYR L:31 , TYR L:33 , ASP L:49 , GLN L:88 , TRP L:90	BINDING SITE FOR RESIDUE NPP L 250

Asymmetric/Biological Unit

No.	Residues
1	H:22	-	H:96
2	H:142	-	H:197
3	L:23	-	L:87
4	L:134	-	L:194
5	L:214	-	H:217

Asymmetric/Biological Unit

No.	Residues
1	Ser L:7	-	Pro L:8
2	Pro L:94	-	Pro L:95
3	Tyr L:140	-	Pro L:141
4	Trp H:100	-	Pro H:101
5	Phe H:148	-	Pro H:149
6	Glu H:150	-	Pro H:151
7	Arg H:190	-	Pro H:191

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

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

(no "Exon" information available for 1BAF)

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 H from PDB  Type:PROTEIN  Length:217
                                                                                                                                                                                                                                                         
               SCOP domains d1bafh1 H:1-115 Immunoglobulin heavy chain variable domain, VH                                                     d1bafh2 H:116-217 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                        SCOP domains
               CATH domains 1bafH01 H:1-115 Immunoglobulins                                                                                    1bafH02 H:116-213 Immunoglobulins                                                                 ---- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee.....ee.....eeeeeeee........eeeeeee.....eeeeeeee....eee.......eeeeee....eeeeee...hhhhheeeeeeee.........eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh....eeeeeeee....eeeeeeeeee.........eeeeee....eeeeee...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1baf H   1 DVQLQESGPGLVKPSQSQSLTCTVTGYSITSDYAWNWIRQFPGNKLEWMGYMSYSGSTRYNPSLRSRISITRDTSKNQFFLQLKSVTTEDTATYFCARGWPLAYWGQGTQVSVSEAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSPRPSETVTCNVAHPASSTKVDKKIVPRDC 217
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

Chain L from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                      
               SCOP domains d1bafl1 L:1-108 Immunoglobulin light chain kappa variable domain, VL-kappa                                  d1bafl2 L:109-214 Immunoglobulin light chain kappa constant domain, CL-kappa                               SCOP domains
               CATH domains 1bafL01 L:1-108 Immunoglobulins                                                                             1bafL02 L:109-211 Immunoglobulins                                                                      --- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.....eeeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeeee......ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee....eeeeeee..eee...eeeee.........eeeeeeeeeehhhhh...eeeeeeee..eeeeeeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1baf L   1 QIVLTQSPAIMSASPGEKVTMTCSASSSVYYMYWYQQKPGSSPRLLIYDTSNLASGVPVRFSGSGSGTSYSLTISRMEAEDAATYYCQQWSSYPPITFGVGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 214
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210

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(

)

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	1bafL02	L:109-211
1b	1bafH02	H:116-213
1c	1bafH01	H:1-115
1d	1bafL01	L:1-108

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

Asymmetric/Biological Unit(hide GO term definitions)

(no "Gene Ontology" information available for 1BAF)

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Arg H:190 - Pro H:191	[ RasMol ]
		Glu H:150 - Pro H:151	[ RasMol ]
		Phe H:148 - Pro H:149	[ RasMol ]
		Pro L:94 - Pro L:95	[ RasMol ]
		Ser L:7 - Pro L:8	[ RasMol ]
		Trp H:100 - Pro H:101	[ RasMol ]
		Tyr L:140 - Pro L:141	[ RasMol ]

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Description

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Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (5, 5)

Cis Peptide Bonds (7, 7)

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