2MCP - JenaLib

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Asym./Biol. Unit (Jmol Viewer)

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Title :   REFINED CRYSTAL STRUCTURE OF THE MC/PC603 FAB-PHOSPHOCHOLINE COMPLEX AT 3.1 ANGSTROMS RESOLUTION

Authors :   E. A. Padlan, G. H. Cohen, D. R. Davies

Date :   15 Oct 84 (Deposition) - 02 Jan 85 (Release) - 08 Feb 17 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   3.10

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

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

Reference :   E. A. Padlan, G. H. Cohen, D. R. Davies
Refined Crystal Structure Of The Mc/Pc603 Fab-Phosphocholin Complex At 3. 1 Angstroms Resolution
To Be Published
PubMed: search
(for further references see the PDB file header)

Molecule 1 - IGA-KAPPA MCPC603 FAB (LIGHT CHAIN)
	Chains	:	L
	Engineered	:	YES
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090

Molecule 2 - IGA-KAPPA MCPC603 FAB (HEAVY CHAIN)
	Chains	:	H
	Engineered	:	YES
	Organism Common	:	HOUSE 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	PC	1	Ligand/Ion	PHOSPHOCHOLINE

Asymmetric Unit (1, 1)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR H:33 , ARG H:52 , TRP H:107 , ASP L:97 , HIS L:98 , TYR L:100 , LEU L:102	BINDING SITE FOR RESIDUE PC H 223

Asymmetric/Biological Unit

No.	Residues
1	H:22	-	H:98
2	H:148	-	H:206
3	H:198	-	H:222
4	L:23	-	L:94
5	L:140	-	L:200

Asymmetric/Biological Unit

No.	Residues
1	Ser L:7	-	Pro L:8
2	Tyr L:100	-	Pro L:101
3	Tyr L:146	-	Pro L:147
4	Asp H:142	-	Pro H:143
5	Phe H:154	-	Pro H:155

(no "SAP(SNP)/Variant" information available for 2MCP)

(no "PROSITE Motif" information available for 2MCP)

(no "Exon" information available for 2MCP)

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:222
 aligned with HVM20_MOUSE | P01789 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:222
                                                                                                                                                   122                                                                                                    
                                    10        20        30        40        50        60        70        80        90       100       110       120 |       -         -         -         -         -         -         -         -         -         -  
          HVM20_MOUSE     1 EVKLVESGGGLVQPGGSLRLSCATSGFTFSDFYMEWVRQPPGKRLEWIAASRNKGNKYTTEYSASVKGRFIVSRDTSQSILYLQMNALRAEDTAIYYCARNYYGSTWYFDVWGAGTTVTVSS----------------------------------------------------------------------------------------------------   -
               SCOP domains d2mcph1 H:1-121 Immunoglobulin heavy chain variable domain, VH                                                           d2mcph2 H:122-222 Immunoglobulin heavy chain alpha constant domain 1, CH1-alpha                       SCOP domains
               CATH domains 2mcpH01 H:1-123 Immunoglobulins                                                                                            2mcpH02 H:124-222 Immunoglobulins                                                                   CATH domains
               Pfam domains -V-set-2mcpH01 H:2-120                                                                                                  ------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeeee...ee....eeeeeeeee..hhhhheeeeeee......eeeee...................eeeeee....eeeeeee..hhhhheeeeeeeeee...eeeeee...eeeee........eeeee..........eeeeeeeeee.....eeeee.......eeee...ee.....eeeeeeeeehhhhh.....eeeeeee.....eeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2mcp H   1 EVKLVESGGGLVQPGGSLRLSCATSGFTFSDFYMEWVRQPPGKRLEWIAASRNKGNKYTTEYSASVKGRFIVSRDTSQSILYLQMNALRAEDTAIYYCARNYYGSTWYFDVWGAGTTVTVSSESARNPTIYPLTLPPALSSDPVIIGCLIHDYFPSGTMNVTWGKSGKDITTVNFPPALASGGRYTMSNQLTLPAVECPEGESVKCSVQHDSNPVQELDVNC 222
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

Chain L from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains d2mcpl1 L:1-114 Immunoglobulin light chain kappa variable domain, VL-kappa                                        d2mcpl2 L:115-220 Immunoglobulin light chain kappa constant domain, CL-kappa                               SCOP domains
               CATH domains 2mcpL01 L:1-114 Immunoglobulins                                                                                   2mcpL02 L:115-217 Immunoglobulins                                                                      --- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.............eeeeee......eeeee...ee.......eeeeee..eeeeee........eeeeeee......ee....eeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeee.........eeeee.........eeeeeeeeeehhhhh...eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2mcp L   1 DIVMTQSPSSLSVSAGERVTMSCKSSQSLLNSGNQKNFLAWYQQKPGQPPKLLIYGASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDHSYPLTFGAGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC 220
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

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	2mcpL02	L:115-217
1b	2mcpL01	L:1-114
1c	2mcpH01	H:1-123
1d	2mcpH02	H:124-222

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Ig (577)

Family: V-set (144)

Mus musculus (Mouse) (63)

V-set-2mcpH01

H:2-120

Asymmetric/Biological Unit(hide GO term definitions)

Chain H (HVM20_MOUSE | P01789)

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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	Cis Peptide Bonds
		Asp H:142 - Pro H:143	[ RasMol ]
		Phe H:154 - Pro H:155	[ RasMol ]
		Ser L:7 - Pro L:8	[ RasMol ]
		Tyr L:100 - Pro L:101	[ RasMol ]
		Tyr L:146 - Pro L:147	[ RasMol ]

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(no "Related Entries Specified in the PDB File" available for 2MCP)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 1)

Sites (1, 1)

SS Bonds (5, 5)

Cis Peptide Bonds (5, 5)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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SCOP Domains (4, 4)

CATH Domains (1, 4)

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