1HQ4 - JenaLib

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Title :   STRUCTURE OF NATIVE CATALYTIC ANTIBODY HA5-19A4

Authors :   C. M. Paschall, J. Hasserodt, R. A. Lerner, K. D. Janda, D. W. Christianson

Date :   14 Dec 00 (Deposition) - 03 Jun 03 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.70

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)

Keywords :   Catalytic Antibody, Terpenoid Synthase, Carbocation, Cyclization Cascade, Immunoglobulin, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. M. Paschall
Polyene Cyclization Reactions
Thesis 2000
PubMed: search
(for further references see the PDB file header)

Molecule 1 - ANTIBODY HA5-19A4 FAB LIGHT CHAIN
	Cell Line	:	129G1X+(MOUSE)-P3X63AG8.653 (MYELOMA)
	Chains	:	A, C
	Fragment	:	VARIABLE REGIONS OF FAB LIGHT AND HEAVY CHAINS
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Strain	:	129G1X+-BOY

Molecule 2 - ANTIBODY HA5-19A4 FAB HEAVY CHAIN
	Cell Line	:	129G1X+(MOUSE)-P3X63AG8.653 (MYELOMA)
	Chains	:	B, D
	Fragment	:	VARIABLE REGIONS OF FAB LIGHT AND HEAVY CHAINS
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Strain	:	129G1X+-BOY

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	CD	2	Ligand/Ion	CADMIUM ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CD	-1	Ligand/Ion	CADMIUM ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CD	-1	Ligand/Ion	CADMIUM ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU A:17	BINDING SITE FOR RESIDUE CD A 2001
2	AC2	SOFTWARE	GLU C:17	BINDING SITE FOR RESIDUE CD C 2002

Asymmetric Unit

No.	Residues
1	A:23	-	A:88
2	A:134	-	A:194
3	B:22	-	B:92
4	B:140	-	B:195
5	C:23	-	C:88
6	C:134	-	C:194
7	D:22	-	D:92
8	D:140	-	D:195

Asymmetric Unit

No.	Residues
1	Ser A:7	-	Pro A:8
2	Phe A:94	-	Pro A:95
3	Tyr A:140	-	Pro A:141
4	Phe B:146	-	Pro B:147
5	Trp B:188	-	Pro B:189
6	Ser C:7	-	Pro C:8
7	Phe C:94	-	Pro C:95
8	Tyr C:140	-	Pro C:141
9	Phe D:146	-	Pro D:147
10	Trp D:188	-	Pro D:189

(no "SAP(SNP)/Variant" information available for 1HQ4)

(no "PROSITE Motif" information available for 1HQ4)

(no "Exon" information available for 1HQ4)

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:215
 aligned with A0A5E3_MOUSE | A0A5E3 from UniProtKB/TrEMBL  Length:237

    Alignment length:215
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232     
         A0A5E3_MOUSE    23 QIVLTQSPAIMSASLGERVTMTCTASSSVTSSYLHWYQQKPGSSPKLWIYSTSNLASGVPTRFSGSGSGTSYSLTISSMEAEDAATYYCHQYHRFPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 237
               SCOP domains d1hq4a1 A:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                  d1hq4a2 A:108-214 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1hq4A01 A:1-108 Immunoglobulins                                                                              1hq4A02 A:109-211 Immunoglobulins                                                                      --- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....hhh.eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hq4 A   1 DIVLTQSPTIMSVSPGEKVTLTCSASSSVSSNYVYWYQQKPGSSPKVWIYSTSNLASGVPARFSGSGSGTSYSLTISSMEAEDAASYFCLQWSSFPYTFGGGTKLELKRADVAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 214
                                    10        20       |29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209     
                                                     27A

Chain B from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains d1hq4b1 B:1-113 Immunoglobulin heavy chain variable domain, VH                                                      d1hq4b2 B:114-213 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                      SCOP domains
               CATH domains 1hq4B01 B:1-113 Immunoglobulins                                                                                     1hq4B02 B:114-212 Immunoglobulins                                                                  - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........ee....eeeeeee..........eeeeeee.....eeeeeeee....eee.......eeeee..............hhhhheeeeeeee....eee...eeeee........eeeee..........eeeeeeeeeee.....eeee........eee...ee....eeeeeeeeee.........eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1hq4 B   1 DVQLQESGPGLVKPSQSLSLTCTVTGYSITSGYAWNWIRQFPGNKLEWMGYIRYSGDTRYNPSLKSRISITRDTSKNQFFLQLNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSGSLSSSVHAFPALLQSGLYTMSSSVTVPSSTWPSQTVTCSVAHPASSTTVDKKLEPK 213
                                    10        20        30     |  39        49        59        69        79   |||  86        96  ||   107       117       127       137       147       157       167       177       187       197       207      
                                                             35A                                             82A||               99|                                                                                                                
                                                                                                              82B|               101                                                                                                                
                                                                                                               82C

Chain C from PDB  Type:PROTEIN  Length:215
 aligned with A0A5E3_MOUSE | A0A5E3 from UniProtKB/TrEMBL  Length:237

    Alignment length:215
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232     
         A0A5E3_MOUSE    23 QIVLTQSPAIMSASLGERVTMTCTASSSVTSSYLHWYQQKPGSSPKLWIYSTSNLASGVPTRFSGSGSGTSYSLTISSMEAEDAATYYCHQYHRFPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 237
               SCOP domains d1hq4c1 C:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                  d1hq4c2 C:108-214 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1hq4C01 C:1-108 Immunoglobulins                                                                              1hq4C02 C:109-211 Immunoglobulins                                                                      --- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....hhh.eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhh.eeeeee......ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1hq4 C   1 DIVLTQSPTIMSVSPGEKVTLTCSASSSVSSNYVYWYQQKPGSSPKVWIYSTSNLASGVPARFSGSGSGTSYSLTISSMEAEDAASYFCLQWSSFPYTFGGGTKLELKRADVAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 214
                                    10        20       |29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209     
                                                     27A

Chain D from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                        
               SCOP domains d1hq4d1 D:1-113 Immunoglobulin heavy chain variable domain, VH                                                      d1hq4d2 D:114-213 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                      SCOP domains
               CATH domains 1hq4D01 D:1-113 Immunoglobulins                                                                                     1hq4D02 D:114-212 Immunoglobulins                                                                  - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..........ee....eeeeeee..........eeeeeee.....eeeeeeee....eee..........ee..............hhhhheeeeeeee....eee...eeeee........eeeee..........eeeeeeeeeee.....eeee........eee...ee....eeeeeeeeee.........eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1hq4 D   1 DVQLQESGPGLVKPSQSLSLTCTVTGYSITSGYAWNWIRQFPGNKLEWMGYIRYSGDTRYNPSLKSRISITRDTSKNQFFLQLNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSGSLSSSVHAFPALLQSGLYTMSSSVTVPSSTWPSQTVTCSVAHPASSTTVDKKLEPK 213
                                    10        20        30     |  39        49        59        69        79   |||  86        96  ||   107       117       127       137       147       157       167       177       187       197       207      
                                                             35A                                             82A||               99|                                                                                                                
                                                                                                              82B|               101                                                                                                                
                                                                                                               82C

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)

House mouse (Mus musculus) (616)

1a	1hq4A02	A:109-211
1b	1hq4B02	B:114-212
1c	1hq4D02	D:114-212
1d	1hq4B01	B:1-113
1e	1hq4D01	D:1-113
1f	1hq4C02	C:109-211
1g	1hq4A01	A:1-108
1h	1hq4C01	C:1-108

(no "Pfam Domain" information available for 1HQ4)

Asymmetric Unit(hide GO term definitions)

Chain A,C (A0A5E3_MOUSE | A0A5E3)

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		Tyr A:140 - Pro A:141	[ RasMol ]
		Tyr C:140 - Pro C:141	[ RasMol ]

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1cf8	FAB-HAPTEN COMPLEX

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (8, 8)

Cis Peptide Bonds (10, 10)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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SCOP Domains (4, 8)

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