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(-) Description

Title :  STRUCTURE OF ANTI-FLAG M2 FAB DOMAIN
 
Authors :  T. P. Roosild
Date :  23 Feb 06  (Deposition) - 12 Sep 06  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Antibody, Fab Domain, Anti-Flag, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. P. Roosild, S. Castronovo, S. Choe
Structure Of Anti-Flag M2 Fab Domain And Its Use In The Stabilization Of Engineered Membrane Proteins.
Acta Crystallogr. , Sect. F V. 62 835 2006
PubMed-ID: 16946459  |  Reference-DOI: 10.1107/S1744309106029125
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ANTI-FLAG M2 FAB LIGHT CHAIN
    Chains: L
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
 
Molecule 2 - ANTI-FLAG M2 FAB HEAVY CHAIN
    Chains: H
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : HL

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2G60)

(-) Sites  (0, 0)

(no "Site" information available for 2G60)

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:92
2H:142 -H:208
3L:23 -L:88
4L:134 -L:194

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Ala L:7 -Pro L:8
2Ala L:94 -Pro L:95
3Tyr L:140 -Pro L:141
4Phe H:148 -Pro H:149
5Glu H:150 -Pro H:151
6Arg H:199 -Pro H:200

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2G60)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2G60)

(-) Exons   (0, 0)

(no "Exon" information available for 2G60)

(-) Sequences/Alignments

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:208
 aligned with Q5BJZ2_RAT | Q5BJZ2 from UniProtKB/TrEMBL  Length:458

    Alignment length:215
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229     
           Q5BJZ2_RAT    20 QVQLQQSGAELVKPGSSVKISCKASGYTFTNYDIHWIKQQPGNGLEWIGWIYPGNGNTKYNQKFNGKATLTADKSSSTAYMQLSSLTSEDSAVYFCARDYFDGYDYWGQGVMVTVSSAETTAPSVYPLAPGTALKSNSMVTLGCLVKGYFPEPVTVTWNSGALSSGVHTFPAVLQSGLYTLTSSVTVPSSTWSSQAVTCNVAHPASSTKVDKKIV 234
               SCOP domains ----------------------------------------------------------------------------------------------------------d2g60h1 H:103-224 Immuno       globulin heavy chain gamma constant domain 1, CH1-gamma                        SCOP domains
               CATH domains 2g60H01 H:1-113 Immunoglobulins                                                                                      2g60H02 H:114       -224 Immunoglobulins                                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee...eeee.....eeeeeeee..hhhhheeeeeee.....eeeeeee......eee.......eeeeeehhh.eeeeee...hhhhheeeeeeee....eeee...eeeee........eeeee..-------..eeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeee..........eeeeeehhhheeeeee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2g60 H   1 EVQLQQSGGELAKPGASVKMSCKSSGYTFTAYAIHWAKQAAGAGLEWIGYIAPAAGAAAYNAAFKGKATLAADKSSSTAYMAAAALTSEDSAVYYCARAAAAGADYWGQGTTLTVSSAKTTPPSVYPLAP-------SMVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVTSSPRPSETVTCNVAHPASSTKVDKKIV 224
                                    10        20        30        40        50  |     59        69        79   |||  86        96       106       116       126       138       148     ||163     ||174     ||186       196| ||   209       219     
                                                                              52A                            82A||                                         126     136               154|||    169|      180|          196| || 206|                
                                                                                                              82B|                                                                    156||     171       183           198 ||  208                
                                                                                                               82C                                                                     157|                               200|                     
                                                                                                                                                                                        162                                202                     


Chain L from PDB  Type:PROTEIN  Length:213
 aligned with Q65ZC0_MOUSE | Q65ZC0 from UniProtKB/TrEMBL  Length:219

    Alignment length:213
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210   
         Q65ZC0_MOUSE     1 ELVMTQSPLSLSVSLGDQASISCRSSQSLVHTNGNTYLHWYLQKPGLSPKLLIYIVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQSTHVPGTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKS 213
               SCOP domains d2g60l1 L:1-108 automated matches                                                                                d2g60l2 L:109-208 automated matches                                                                  SCOP domains
               CATH domains 2g60L01 L:1-108 Immunoglobulins                                                                                  2g60L02 L:109-208 Immunoglobulins                                                                    CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeeee....eeeeeee............eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeeee......eeeee..hhhhhhhheeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh...eeeeee........... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2g60 L   1 DVLMTQAPLTLPVSLGDQASISCRSSQAIVHANGNTYLEWYLQKPGQSPALLIYKVANRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFQGAHAPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKS 208
                                    10        20       27C||      35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205   
                                                     27A||||                                                                                                                                                                                     
                                                      27B|||                                                                                                                                                                                     
                                                       27C||                                                                                                                                                                                     
                                                        27D|                                                                                                                                                                                     
                                                         27E
   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  (3, 3)

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

(-) CATH Domains  (1, 4)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2G60)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 2G60)

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  Cis Peptide Bonds
    Ala L:7 - Pro L:8   [ RasMol ]  
    Ala L:94 - Pro L:95   [ RasMol ]  
    Arg H:199 - Pro H:200   [ RasMol ]  
    Glu H:150 - Pro H:151   [ RasMol ]  
    Phe H:148 - Pro H:149   [ RasMol ]  
    Tyr L:140 - Pro L:141   [ RasMol ]  
 

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  2g60
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 Related Entries

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

UniProtKB/TrEMBL
        Q5BJZ2_RAT | Q5BJZ2: 2op4
        Q65ZC0_MOUSE | Q65ZC0: 1i9i 1i9j 1l7t 1lo2 1lo3 1lo4 1t66 2gjz 2gk0

(-) Related Entries Specified in the PDB File

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