1QBM - JenaLib

Asym./Biol. Unit (Jmol Viewer)

Title :   FAB E8B ANTIBODY, X-RAY STRUCTURE AT 2.37 ANGSTROMS RESOLUTION

Authors :   S. E. Mylvaganam, Y. Paterson, E. D. Getzoff

Date :   01 May 98 (Deposition) - 27 Jan 99 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.37

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

Keywords :   Immunoglobulin, Igg1 Kappa, Antibody, Fab Fragment, Anti- Cytochrome C Antibody (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   S. E. Mylvaganam, Y. Paterson, E. D. Getzoff
Structural Basis For The Binding Of An Anti-Cytochrome C Antibody To Its Antigen: Crystal Structures Of Fabe8-Cytochrome C Complex To 1. 8 A Resolution And Fabe8 To 2. 26 A Resolution.
J. Mol. Biol. V. 281 301 1998
PubMed-ID: 9698550 | Reference-DOI: 10.1006/JMBI.1998.1942
(for further references see the PDB file header)

Molecule 1 - E8B ANTIBODY
	Cell Line	:	P3-X63-AG8.653
	Chains	:	L
	Fragment	:	FAB FRAGMENT
	Organ	:	SPLEEN
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	IGG1 KAPPA MOUSE MONOCLONAL ANTIBODY
	Other Details - Source	:	E8 ANTIBODY PURIFIED FROM ASCITES
	Strain	:	BALB/C
	Synonym	:	FAB E8

Molecule 2 - E8B ANTIBODY
	Cell Line	:	P3-X63-AG8.653
	Chains	:	H
	Fragment	:	FAB FRAGMENT
	Organ	:	SPLEEN
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	IGG1 KAPPA MOUSE MONOCLONAL ANTIBODY
	Other Details - Source	:	E8 ANTIBODY PURIFIED FROM ASCITES
	Strain	:	BALB/C
	Synonym	:	FAB E8

		1	2
Asymmetric/Biological Unit	:	H	L

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 1QBM)

(no "Site" information available for 1QBM)

Asymmetric/Biological Unit

No.	Residues
1	H:22	-	H:96
2	H:144	-	H:199
3	L:23	-	L:88
4	L:134	-	L:194
5	L:214	-	H:219

Asymmetric/Biological Unit

No.	Residues
1	Ser L:7	-	Pro L:8
2	Thr L:94	-	Pro L:95
3	Tyr L:140	-	Pro L:141
4	Phe H:150	-	Pro H:151
5	Glu H:152	-	Pro H:153
6	Trp H:192	-	Pro H:193

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

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

(no "Exon" information available for 1QBM)

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:219
                                                                                                                                                                                                                                                           
               SCOP domains d1qbmh1 H:1-112 Immunoglobulin heavy chain variable domain, VH                                                  d1qbmh2 H:113-219 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                             SCOP domains
               CATH domains 1qbmH01 H:1-117 Immunoglobulins                                                                                      1qbmH02 H:118-216 Immunoglobulins                                                                  --- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee...hhh.eeeeeee.....eeeeeeee....eeee.hhh...eeeeee....eeeeee....hhh.eeeeeeee.....eee...eeeee........eeeee...hhh....eeeeeeeee.......eeeehhh.....eee...eee..eeeeeeeeeee.........eeeeee....eeeeee...... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qbm H   1 EVQLQQSGAELVKPGASVKLSCTASGFNIKDTYMHWVKQRPEKGLEWIGRIDPASGNTKYDPKFQDKATITADTSSNTAYLQLSSLTSEDTAVYYCAGYDYGNFDYWGQGTTLTVSSAETTPPSVYPLAPGTAALKSSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSQTVTCNVAHPASSTKVDKKIVPRNC 219
                                    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
 aligned with KV5A3_MOUSE | P01635 from UniProtKB/Swiss-Prot  Length:115

    Alignment length:214
                                                                                                                        115                                                                                                                       
                                    30        40        50        60        70        80        90       100       110    |    -         -         -         -         -         -         -         -         -         -         -         -    
          KV5A3_MOUSE    21 DIQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTP-----------------------------------------------------------------------------------------------------------------------   -
               SCOP domains d1qbml1 L:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                 d1qbml2 L:108-214 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1qbmL01 L:1-108 Immunoglobulins                                                                             1qbmL02 L:109-211 Immunoglobulins                                                                      --- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.......eeeeee......eeee.............eeeeee..eeeeee....hhh..eeeeee............eeee.......eeeee...hhhhhh.eeeeeeeee......eeeeeee..eee...eeeee...........eeeeeeeehhhhhh..eeeeeeee......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qbm L   1 DIQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 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	1qbmL02	L:109-211
1b	1qbmH02	H:118-216
1c	1qbmH01	H:1-117
1d	1qbmL01	L:1-108

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain L (KV5A3_MOUSE | P01635)

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/Biological Unit
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	Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 1qbm)

	Sites
(no "Sites" information available for 1qbm)

	Cis Peptide Bonds
		Glu H:152 - Pro H:153	[ RasMol ]
		Phe H:150 - Pro H:151	[ RasMol ]
		Ser L:7 - Pro L:8	[ RasMol ]
		Thr L:94 - Pro L:95	[ RasMol ]
		Trp H:192 - Pro H:193	[ RasMol ]
		Tyr L:140 - Pro L:141	[ RasMol ]

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	1qbm
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	KV5A3_MOUSE \| P01635
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UniProtKB/Swiss-Prot
	KV5A3_MOUSE \| P01635	:	1a2y 1a7n 1a7o 1a7p 1a7q 1a7r 1dvf 1kip 1kiq 1qbl 1vfa 1vfb 1wej

(no "Related Entries Specified in the PDB File" available for 1QBM)

Description

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Ligands, Modified Residues, Ions (0, 0)

Sites (0, 0)

SS Bonds (5, 5)

Cis Peptide Bonds (6, 6)

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