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(-) Description

Title :  MYELIN OLIGODENDROCYTE GLYCOPROTEIN-(8-18C5) FAB-COMPLEX
 
Authors :  C. Breithaupt, A. Schubart, H. Zander, A. Skerra, R. Huber, C. Linington, U. Jacob
Date :  06 Jun 03  (Deposition) - 15 Jul 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.00
Chains :  Asym. Unit :  A,B,E,F,G,J
Biol. Unit 1:  A,B,E  (1x)
Biol. Unit 2:  F,G,J  (1x)
Keywords :  Autoantibody, Multiple Sclerosis, Eae, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. Breithaupt, A. Schubart, H. Zander, A. Skerra, R. Huber, C. Linington, U. Jacob
Structural Insights Into The Antigenicity Of Myelin Oligodendrocyte Glycoprotein
Proc. Natl. Acad. Sci. Usa V. 100 9446 2003
PubMed-ID: 12874380  |  Reference-DOI: 10.1073/PNAS.1133443100
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - (8-18C5) CHIMERIC FAB, LIGHT CHAIN
    Chains: A, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PASK107
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: IG LIGHT CHAIN
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - (8-18C5) CHIMERIC FAB, HEAVY CHAIN
    Chains: B, G
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PASK107
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: IG HEAVY CHAIN
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 3 - MYELIN OLIGODENDROCYTE GLYCOPROTEIN
    Chains: E, J
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PQE12
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: N-TERMINAL IG DOMAIN
    Gene: MOG
    Organism Common: NORWAY RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABEFGJ
Biological Unit 1 (1x): ABE   
Biological Unit 2 (1x):    FGJ

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

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

(-) Sites  (0, 0)

(no "Site" information available for 1PKQ)

(-) SS Bonds  (10, 10)

Asymmetric Unit
No.Residues
1A:23 -A:88
2A:134 -A:194
3B:22 -B:92
4B:140 -B:196
5E:24 -E:98
6F:23 -F:88
7F:134 -F:194
8G:22 -G:92
9G:140 -G:196
10J:24 -J:98

(-) Cis Peptide Bonds  (12, 12)

Asymmetric Unit
No.Residues
1Ser A:7 -Pro A:8
2Tyr A:94 -Pro A:95
3Tyr A:140 -Pro A:141
4Phe B:146 -Pro B:147
5Glu B:148 -Pro B:149
6Ser E:27 -Pro E:28
7Ser F:7 -Pro F:8
8Tyr F:94 -Pro F:95
9Tyr F:140 -Pro F:141
10Phe G:146 -Pro G:147
11Glu G:148 -Pro G:149
12Ser J:27 -Pro J:28

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1PKQ)

(-) Sequences/Alignments

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:219
                                                                                                                                                                                                                                                            
               SCOP domains d1pkqa1 A:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                       d1pkqa2 A:108-213 Immunoglobulin light chain kappa constant domain, CL-kappa                               SCOP domains
               CATH domains 1pkqA01 A:1-108 Immunoglobulins                                                                                   1pkqA02 A:109-211 Immunoglobulins                                                                      -- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....ee....ee.eeeeee......eeee.............eeeeee..eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1pkq A    1 DIELTQSPSSLAVSAGEKVTMSCKSSQSLLNSGNQKNYLAWYQQKPGLPPKLLIYGASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDHSYPLTFGAGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGE  213
                                    10        20        30||||||  34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204         
                                                        30A|||||                                                                                                                                                                                       
                                                         30B||||                                                                                                                                                                                       
                                                          30C|||                                                                                                                                                                                       
                                                           30D||                                                                                                                                                                                       
                                                            30E|                                                                                                                                                                                       
                                                             30F                                                                                                                                                                                       


Chain B from PDB  Type:PROTEIN  Length:221
                                                                                                                                                                                                                                                              
               SCOP domains d1pkqb1 B:1-113 Immunoglobulin heavy chain variable domain, VH                                                        d1pkqb2 B:114-216 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                         SCOP domains
               CATH domains 1pkqB01 B:1-113 Immunoglobulins                                                                                       1pkqB02 B:114-213 Immunoglobulins                                                                   --- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee....eeeeeeeee..hhhhh.eeeeee.....eeeeeeee....eeee.hhhh....eeeehhh.eeeeeee..hhhhheeeeeee........ee...eeeee........eeeee......ee..eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhhhh...eeeeeehhhheeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1pkq B    1 EVKLHESGAGLVKPGASVEISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGRGRTNYNEKFKGKATFTAETSSNTAYMQLSSLTSEDSAVYYCATGNTMVNMPYWGQGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC  216
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |  105       115       125       135       145       155       165       175       185       195       205       215 
                                                                              52A                            82A||               100A                                                                                                                    
                                                                                                              82B|                                                                                                                                       
                                                                                                               82C                                                                                                                                       


Chain E from PDB  Type:PROTEIN  Length:121
 aligned with MOG_RAT | Q63345 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:121
                                    35        45        55        65        75        85        95       105       115       125       135       145 
             MOG_RAT     26 YAGQFRVIGPGHPIRALVGDEAELPCRISPGKNATGMEVGWYRSPFSRVVHLYRNGKDQDAEQAPEYRGRTELLKESIGEGKVALRIQNVRFSDEGGYTCFFRDHSYQEEAAVELKVEDPF  146
               SCOP domains d1pkqe_ E: Myelin oligodendrocyte glycoprotein (MOG)                                                                      SCOP domains
               CATH domains 1pkqE00 E:1A-119 Immunoglobulins                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee.....eeee....eeeeeeee........eeeeee....eeeeeee..ee.hhhhhhhhh....ee..hhhh.eeeeee...hhhhheeeeeeeee..eeeeeeeeeeee... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------- Transcript
                1pkq E   1A GSGQFRVIGPGHPIRALVGDEAELPCRISPGKNATGMEVGWYRSPFSRVVHLYRNGKDQDAEQAPEYRGRTELLKESIGEGKVALRIQNVRFSDEGGYTCFFRDHSYQEEAAVELKVEDPF  119
                            |||      8        18        28        38        48        58        68        78        88        98       108       118 
                            |||                                                                                                                      
                           1A||                                                                                                                      
                            1B|                                                                                                                      
                             1C                                                                                                                      


Chain F from PDB  Type:PROTEIN  Length:216
                                                                                                                                                                                                                                                         
               SCOP domains d1pkqf1 F:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                       d1pkqf2 F:108-210 Immunoglobulin light chain kappa constant domain, CL-kappa                            SCOP domains
               CATH domains 1pkqF01 F:1-108 Immunoglobulins                                                                                   1pkqF02 F:109-210 Immunoglobulins                                                                      CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee....ee....ee.eeeeee......eeee.............eeeeee..eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhh....eeeeee.......eeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1pkq F    1 DIELTQSPSSLAVSAGEKVTMSCKSSQSLLNSGNQKNYLAWYQQKPGLPPKLLIYGASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDHSYPLTFGAGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFN  210
                                    10        20        30||||||  34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204      
                                                        30A|||||                                                                                                                                                                                    
                                                         30B||||                                                                                                                                                                                    
                                                          30C|||                                                                                                                                                                                    
                                                           30D||                                                                                                                                                                                    
                                                            30E|                                                                                                                                                                                    
                                                             30F                                                                                                                                                                                    


Chain G from PDB  Type:PROTEIN  Length:214
                                                                                                                                                                                                                                                       
               SCOP domains d1pkqg1 G:1-113 Immunoglobulin heavy chain variable domain, VH                                                        d1pkqg2 G:114-213 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                  SCOP domains
               CATH domains 1pkqG01 G:1-113 Immunoglobulins                                                                                       1pkqG02 G:114-212 Immunoglobulins                                                              - CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee...ee....eeeeeeeee..hhhhh.eeeeeee...eeeeeeeee....eeee.hhhh....eeeehhh.eeeeeee..hhhhheeeeeee........ee...eeeee........eeeee......eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhhhh...eeeeeehhhheeeeee... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1pkq G    1 EVKLHESGAGLVKPGASVEISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGRGRTNYNEKFKGKATFTAETSSNTAYMQLSSLTSEDSAVYYCATGNTMVNMPYWGQGTTVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEP  213
                                    10        20        30        40        50  |     59        69        79   |||  86        96    |  105       115       125  ||   139       149       159       169       179       189       199       209    
                                                                              52A                            82A||               100A                         128|                                                                                
                                                                                                              82B|                                             133                                                                                
                                                                                                               82C                                                                                                                                


Chain J from PDB  Type:PROTEIN  Length:118
 aligned with MOG_RAT | Q63345 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:118
                                    37        47        57        67        77        87        97       107       117       127       137        
             MOG_RAT     28 GQFRVIGPGHPIRALVGDEAELPCRISPGKNATGMEVGWYRSPFSRVVHLYRNGKDQDAEQAPEYRGRTELLKESIGEGKVALRIQNVRFSDEGGYTCFFRDHSYQEEAAVELKVEDP  145
               SCOP domains d1pkqj_ J: Myelin oligodendrocyte glycoprotein (MOG)                                                                   SCOP domains
               CATH domains 1pkqJ00 J:1-118 Immunoglobulins                                                                                        CATH domains
           Pfam domains (1) -V-set-1pkqJ01 J:2-115                                                                                             --- Pfam domains (1)
           Pfam domains (2) -V-set-1pkqJ02 J:2-115                                                                                             --- Pfam domains (2)
         Sec.struct. author ...eee.....eeee....eeeeeeee........eeeeee....eeeeeee..ee.hhhhhhhhh....ee..hhhh.eeeeee...hhhhheeeeeeeee..eeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------- Transcript
                1pkq J    1 GQFRVIGPGHPIRALVGDEAELPCRISPGKNATGMEVGWYRSPFSRVVHLYRNGKDQDAEQAPEYRGRTELLKESIGEGKVALRIQNVRFSDEGGYTCFFRDHSYQEEAAVELKVEDP  118
                                    10        20        30        40        50        60        70        80        90       100       110
   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 '|'

 Classification and Annotation

(-) SCOP Domains  (5, 10)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 10)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)
(-)
Architecture: Sandwich (5577)
(-)
Topology: Immunoglobulin-like (3897)
(-)
Homologous Superfamily: Immunoglobulins (2282)
(-)
House mouse (Mus musculus) (616)
1a1pkqA02A:109-211
1b1pkqB02B:114-213
1c1pkqG02G:114-212
1d1pkqA01A:1-108
1e1pkqF01F:1-108
1f1pkqJ00J:1-118
1g1pkqE00E:1A-119
1h1pkqF02F:109-210
1i1pkqB01B:1-113
1j1pkqG01G:1-113

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Ig (577)

(-) Gene Ontology  (10, 10)

Asymmetric Unit(hide GO term definitions)
Chain E,J   (MOG_RAT | Q63345)
molecular function
    GO:0003674    molecular_function    Elemental activities, such as catalysis or binding, describing the actions of a gene product at the molecular level. A given gene product may exhibit one or more molecular functions.
biological process
    GO:0007568    aging    A developmental process that is a deterioration and loss of function over time. Aging includes loss of functions such as resistance to disease, homeostasis, and fertility, as well as wear and tear. Aging includes cellular senescence, but is more inclusive. May precede death and may succeed developmental maturation (GO:0021700).
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
    GO:0051593    response to folic acid    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a folic acid stimulus.
    GO:0033993    response to lipid    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a lipid stimulus.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0045121    membrane raft    Any of the small (10-200 nm), heterogeneous, highly dynamic, sterol- and sphingolipid-enriched membrane domains that compartmentalize cellular processes. Small rafts can sometimes be stabilized to form larger platforms through protein-protein and protein-lipid interactions.
    GO:0043209    myelin sheath    An electrically insulating fatty layer that surrounds the axons of many neurons. It is an outgrowth of glial cells: Schwann cells supply the myelin for peripheral neurons while oligodendrocytes supply it to those of the central nervous system.

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  1pkq
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  MOG_RAT | Q63345
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        MOG_RAT | Q63345: 1pko 3csp

(-) Related Entries Specified in the PDB File

1pko MYELIN OLIGODENDROCYTE PROTEIN