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(-) Description

Title :  CRYSTAL STRUCTURE OF A BROADLY NEUTRALIZING ANTI-HIV-1 ANTIBODY IN COMPLEX WITH A PEPTIDE MIMOTOPE
 
Authors :  E. O. Saphire, M. Montero, A. Menendez, M. B. Irving, M. B. Zwick, P. W. H. D. R. Burton, J. K. Scott, I. A. Wilson
Date :  15 Oct 02  (Deposition) - 13 Apr 04  (Release) - 21 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  H,K,L,M,P,R
Keywords :  Antibody-Peptide Complex, Peptide Dimer, Immune System (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. O. Saphire, M. Montero, A. Menendez, M. B. Irving, M. B. Zwick, P. W. H. I. Parren, D. R. Burton, J. K. Scott, I. A. Wilson
Crystal Structure Of A Broadly Neutralizing Anti-Hiv-1 Antibody In Complex With A Peptide Mimotope
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - IMMUNOGLOBULIN LIGHT CHAIN
    ChainsL, M
    EngineeredYES
    Expression SystemCRICETULUS GRISEUS
    Expression System CellOVARY CELLS
    Expression System CommonCHINESE HAMSTER
    Expression System StrainCHO K1
    Expression System Taxid10029
    FragmentUNP RESIDUES 132-239
    Organism CommonHUMAN, HUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymIGG
 
Molecule 2 - IMMUNOGLOBULIN HEAVY CHAIN
    ChainsH, K
    EngineeredYES
    Expression SystemCRICETULUS GRISEUS
    Expression System CellOVARY CELLS
    Expression System CommonCHINESE HAMSTER
    Expression System StrainCHO K1
    Expression System Taxid10029
    FragmentUNP RESIDUES 117-222
    Organism CommonHUMAN, HUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymIGG,IMMUNOGLOBULIN GAMMA-1 HEAVY CHAIN NIE
 
Molecule 3 - B2.1 PEPTIDE
    ChainsP, R
    EngineeredYES
    Organism ScientificSYNTHETIC CONSTRUCT
    Organism Taxid32630
    Other DetailsSELECTED FROM PHAGE DISPLAY PEPTIDE LIBRARY, THEN CHEMICALLY SYNTHESIZED.
    SyntheticYES

 Structural Features

(-) Chains, Units

  123456
Asymmetric/Biological Unit HKLMPR

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (5, 16)

Asymmetric/Biological Unit (5, 16)
No.NameCountTypeFull Name
1CXS1Ligand/Ion3-CYCLOHEXYL-1-PROPYLSULFONIC ACID
2GOL8Ligand/IonGLYCEROL
3K1Ligand/IonPOTASSIUM ION
4ORN2Mod. Amino AcidL-ORNITHINE
5SO44Ligand/IonSULFATE ION

(-) Sites  (14, 14)

Asymmetric Unit (14, 14)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREHIS P:1 , HOH P:197 , HIS R:1 , GLU R:2 , ARG R:3 , TYR R:5 , HOH R:916BINDING SITE FOR RESIDUE SO4 R 901
02AC2SOFTWARESER L:59 , ASP L:60 , HOH R:917BINDING SITE FOR RESIDUE SO4 R 902
03AC3SOFTWAREARG H:83 , SER H:84 , SER H:195 , SER H:196 , HOH H:1268BINDING SITE FOR RESIDUE SO4 H 903
04AC4SOFTWAREARG K:83 , ALA K:85 , SER K:196 , HOH K:940 , HOH K:988BINDING SITE FOR RESIDUE SO4 K 904
05AC5SOFTWAREHIS P:1 , HIS R:1BINDING SITE FOR RESIDUE K P 1001
06AC6SOFTWARETYR H:98 , TRP H:100 , ASP H:100B , PRO H:100D , HOH H:1387 , SER M:14 , PRO M:15 , GLU M:17 , ARG M:106 , HOH M:892 , HOH M:966 , ARG R:13BINDING SITE FOR RESIDUE CXS H 1201
07AC7SOFTWAREASN K:31 , PHE K:32 , VAL K:33 , VAL K:95 , TYR K:98 , ASN K:100G , TYR K:100HBINDING SITE FOR RESIDUE GOL K 801
08AC8SOFTWARELYS H:228 , SER L:121 , ASP L:122 , GLU L:123BINDING SITE FOR RESIDUE GOL L 803
09AC9SOFTWAREPRO M:8 , GLY M:9 , THR M:10BINDING SITE FOR RESIDUE GOL M 804
10BC1SOFTWARESER K:7 , GLY K:8BINDING SITE FOR RESIDUE GOL K 805
11BC2SOFTWARETYR K:53 , ASN K:54 , HOH K:1064 , ARG L:18 , THR L:76BINDING SITE FOR RESIDUE GOL K 806
12BC3SOFTWARETYR H:98 , SER H:99 , TRP H:100 , GLU M:17BINDING SITE FOR RESIDUE GOL H 808
13BC4SOFTWAREILE H:51 , GLY H:55 , THR H:70 , ALA H:71BINDING SITE FOR RESIDUE GOL H 809
14BC5SOFTWAREASP M:60 , HOH M:970BINDING SITE FOR RESIDUE GOL M 800

(-) SS Bonds  (10, 10)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:92
2H:142 -H:208
3K:22 -K:92
4K:142 -K:208
5L:23 -L:88
6L:134 -L:194
7M:23 -M:88
8M:134 -M:194
9M:214 -K:230
10P:14 -R:14

(-) Cis Peptide Bonds  (8, 8)

Asymmetric/Biological Unit
No.Residues
1Ser L:7 -Pro L:8
2Tyr L:140 -Pro L:141
3Phe H:148 -Pro H:149
4Glu H:150 -Pro H:151
5Ser M:7 -Pro M:8
6Tyr M:140 -Pro M:141
7Phe K:148 -Pro K:149
8Glu K:150 -Pro K:151

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (2, 4)

Asymmetric/Biological Unit (2, 4)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_066403W41RIGKC_HUMANDisease (IGKCD)  ---L/MW148R
2UniProtVAR_003897V84LIGKC_HUMANPolymorphism  ---L/MV191L

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 4)

Asymmetric/Biological Unit (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1IG_MHCPS00290 Immunoglobulins and major histocompatibility complex proteins signature.IGKC_HUMAN85-91
 
  2L:192-198
M:192-198
IGG1_HUMAN200-206
 
425-431
  2H:206-212
K:206-212
-

(-) Exons   (0, 0)

(no "Exon" information available for 1N0X)

(-) 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:222
 aligned with IGG1_HUMAN | P0DOX5 from UniProtKB/Swiss-Prot  Length:449

    Alignment length:228
                                                                                                                             100      101                                                                                                                       
                                    10        20        30        40        50        60        70        80        90       100       102       112       122       132       142       152       162       172       182       192       202       212        
          IGG1_HUMAN      1 QVQLVQSGGGVVQPGRSLRLSCAASGFTFSRYTIHWVRQAPGKGLEWVAVMSYBGBBKHYADSVNGRFTISRNDSKNTLYLNMNSLRPEDTAVYYCARIR--------DTAMFFAHWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK  220
               SCOP domains d1n0xh1 H:1-113 Immunoglobulin heavy chain variable domain, VH                                                                 d1n0xh2 H:114-2      28 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                 SCOP domains
               CATH domains 1n0xH01 H:1-109 Immunoglobulins                                                                                            1n0xH02 H:110-228 I      mmunoglobulins                                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhh.eeeeee......eeeeee......eee.......eeeeeehhh.eeeeee...hhhhheeeeeee.................ee...eeeee........eeeee....------.eeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeehhhhh.....eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------IG_MHC -------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1n0x H    1 QVQLVQSGAEVKKPGASVKVSCQASGYRFSNFVIHWVRQAPGQRFEWMGWINPYNGNKEFSAKFQDRVTFTADTSANTAYMELRSLRSADTAVYYCARVGPYSWDDSPQDNYYMDVWGKGTTVIVSSASTKGPSVFPLAPSS------TAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPK  228
                                    10        20        30        40        50  |     59        69        79   |||  86        96    ||100F||||   106       116       126 |     138       148     ||163     ||174     ||185       195    |||208       218   ||   
                                                                              52A                            82A||               100A|||||100J                         128    137              154|||    169|      180|               200||              222|   
                                                                                                              82B|                100B|||||||                                                   156||     171       182                203|               225   
                                                                                                               82C                 100C||||||                                                    157|                                   205                     
                                                                                                                                    100D|||||                                                     162                                                           
                                                                                                                                     100E||||                                                                                                                   
                                                                                                                                      100F|||                                                                                                                   
                                                                                                                                       100G||                                                                                                                   
                                                                                                                                        100H|                                                                                                                   
                                                                                                                                         100I                                                                                                                   

Chain K from PDB  Type:PROTEIN  Length:224
 aligned with IGG1_HUMAN | P0DOX5 from UniProtKB/Swiss-Prot  Length:449

    Alignment length:230
                                                                                                                             100      101                                                                                                                         
                                    10        20        30        40        50        60        70        80        90       100       102       112       122       132       142       152       162       172       182       192       202       212       222
          IGG1_HUMAN      1 QVQLVQSGGGVVQPGRSLRLSCAASGFTFSRYTIHWVRQAPGKGLEWVAVMSYBGBBKHYADSVNGRFTISRNDSKNTLYLNMNSLRPEDTAVYYCARIR--------DTAMFFAHWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC  222
               SCOP domains d1n0xk1 K:1-113 Immunoglobulin heavy chain variable domain, VH                                                                 d1n0xk2 K:114-      230 Immunoglobulin heavy chain gamma constant domain 1, CH1-gamma                   SCOP domains
               CATH domains 1n0xK01 K:1-109 Immunoglobulins                                                                                            1n0xK02 K:110-230       Immunoglobulins                                                                     CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhh.eeeeee......eeeeee......eee.hhhh..eeeeee....eeeeee...hhhhheeeeeee.................ee...eeeee........eeeee...------.eeeeeeeeeee.....eeee.hhh....eee...ee.....eeeeeeeeee.hhh.....eeeeeehhhheeeeee...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------IG_MHC ---------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1n0x K    1 QVQLVQSGAEVKKPGASVKVSCQASGYRFSNFVIHWVRQAPGQRFEWMGWINPYNGNKEFSAKFQDRVTFTADTSANTAYMELRSLRSADTAVYYCARVGPYSWDDSPQDNYYMDVWGKGTTVIVSSASTKGPSVFPLAPS------GTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC  230
                                    10        20        30        40        50  |     59        69        79   |||  86        96    ||100F||||   106       116       126|      138       148     ||163     ||174     ||185       195    |||208       218   ||  230
                                                                              52A                            82A||               100A|||||100J                        127    136               154|||    169|      180|               200||              222|     
                                                                                                              82B|                100B|||||||                                                   156||     171       182                203|               225     
                                                                                                               82C                 100C||||||                                                    157|                                   205                       
                                                                                                                                    100D|||||                                                     162                                                             
                                                                                                                                     100E||||                                                                                                                     
                                                                                                                                      100F|||                                                                                                                     
                                                                                                                                       100G||                                                                                                                     
                                                                                                                                        100H|                                                                                                                     
                                                                                                                                         100I                                                                                                                     

Chain L from PDB  Type:PROTEIN  Length:215
 aligned with IGKC_HUMAN | P01834 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:215
                                                                                                                                        1                                                                                                          
                                     -         -         -         -         -         -         -         -         -         -        |2        12        22        32        42        52        62        72        82        92       102     
          IGKC_HUMAN      - ------------------------------------------------------------------------------------------------------------RTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC  107
               SCOP domains d1n0xl1 L:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                  d1n0xl2 L:108-214 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1n0xL01 L:1-107 Immunoglobulins                                                                             1n0xL02 L:108-211 Immunoglobulins                                                                       --- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee........eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee...........eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------R------------------------------------------L----------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------IG_MHC ---------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1n0x L    1 EIVLTQSPGTLSLSPGERATFSCRSSHSIRSRRVAWYQHKPGQAPRLVIHGVSNRASGISDRFSGSGSGTDFTLTITRVEPEDFALYYCQVYGASSYTFGQGTKLERKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLRSPVTKSFNRGEC  214
                                    10        20        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209     
                                                      28A                                                                                                                                                                                          

Chain L from PDB  Type:PROTEIN  Length:215
 aligned with Q8TCD0_HUMAN | Q8TCD0 from UniProtKB/TrEMBL  Length:239

    Alignment length:219
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230         
        Q8TCD0_HUMAN     21 DVVMTQSPLSLPVTLGQPASISCRSTQSLVYSDGNTYLNWFQQRPGQSPRRLIYKVSNRDSGVPDRFSGSGSGTDFTLKITRVEAEDVGVYFCMQGTHWPSTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC  239
               SCOP domains d1n0xl1 L:1-107 Immunoglobulin     light chain kappa variable domain, VL-kappa                                  d1n0xl2 L:108-214 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1n0xL01 L:1-107 Immunoglobulin    s                                                                             1n0xL02 L:108-211 Immunoglobulins                                                                       --- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.....----...eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee...........eeeee.......eeeee..hhhhhh..eeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------R------------------------------------------L----------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1n0x L    1 EIVLTQSPGTLSLSPGERATFSCRSSHSIR----SRRVAWYQHKPGQAPRLVIHGVSNRASGISDRFSGSGSGTDFTLTITRVEPEDFALYYCQVYGASSYTFGQGTKLERKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLRSPVTKSFNRGEC  214
                                    10        20        29    |   35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205         
                                                      28A|   30                                                                                                                                                                                        
                                                        29                                                                                                                                                                                             

Chain M from PDB  Type:PROTEIN  Length:215
 aligned with IGKC_HUMAN | P01834 from UniProtKB/Swiss-Prot  Length:107

    Alignment length:215
                                                                                                                                        1                                                                                                          
                                     -         -         -         -         -         -         -         -         -         -        |2        12        22        32        42        52        62        72        82        92       102     
          IGKC_HUMAN      - ------------------------------------------------------------------------------------------------------------RTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC  107
               SCOP domains d1n0xm1 M:1-107 Immunoglobulin light chain kappa variable domain, VL-kappa                                  d1n0xm2 M:108-214 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1n0xM01 M:1-107 Immunoglobulins                                                                             1n0xM02 M:108-211 Immunoglobulins                                                                       --- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee........eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhhhheeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------R------------------------------------------L----------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------IG_MHC ---------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1n0x M    1 EIVLTQSPGTLSLSPGERATFSCRSSHSIRSRRVAWYQHKPGQAPRLVIHGVSNRASGISDRFSGSGSGTDFTLTITRVEPEDFALYYCQVYGASSYTFGQGTKLERKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLRSPVTKSFNRGEC  214
                                    10        20        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209     
                                                      28A                                                                                                                                                                                          

Chain M from PDB  Type:PROTEIN  Length:215
 aligned with Q8TCD0_HUMAN | Q8TCD0 from UniProtKB/TrEMBL  Length:239

    Alignment length:219
                                    30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230         
        Q8TCD0_HUMAN     21 DVVMTQSPLSLPVTLGQPASISCRSTQSLVYSDGNTYLNWFQQRPGQSPRRLIYKVSNRDSGVPDRFSGSGSGTDFTLKITRVEAEDVGVYFCMQGTHWPSTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC  239
               SCOP domains d1n0xm1 M:1-107 Immunoglobulin     light chain kappa variable domain, VL-kappa                                  d1n0xm2 M:108-214 Immunoglobulin light chain kappa constant domain, CL-kappa                                SCOP domains
               CATH domains 1n0xM01 M:1-107 Immunoglobulin    s                                                                             1n0xM02 M:108-211 Immunoglobulins                                                                       --- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee.....----...eeeeee......eeeee...ee.......eeeeee..eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhhhheeeeeeeeeee.....eeeeee..ee....eeeee.........eeeeeeeeeehhhhhh..eeeeeee.......eeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------R------------------------------------------L----------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1n0x M    1 EIVLTQSPGTLSLSPGERATFSCRSSHSIR----SRRVAWYQHKPGQAPRLVIHGVSNRASGISDRFSGSGSGTDFTLTITRVEPEDFALYYCQVYGASSYTFGQGTKLERKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLRSPVTKSFNRGEC  214
                                    10        20        29    |   35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205         
                                                      28A|   30                                                                                                                                                                                        
                                                        29                                                                                                                                                                                             

Chain P from PDB  Type:PROTEIN  Length:21
                                                      
               SCOP domains --------------------- SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author ....eeee....eeee..... Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                1n0x P    1 HERSYMFSDLENRCIAAEaKK   21
                                    10        20 
                                             19-ORN

Chain R from PDB  Type:PROTEIN  Length:20
                                                     
               SCOP domains -------------------- SCOP domains
               CATH domains -------------------- CATH domains
               Pfam domains -------------------- Pfam domains
         Sec.struct. author ....eeee....eeee.... Sec.struct. author
                 SAPs(SNPs) -------------------- SAPs(SNPs)
                    PROSITE -------------------- PROSITE
                 Transcript -------------------- Transcript
                1n0x R    1 HERSYMFSDLENRCIAAEaK   20
                                    10        20
                                             19-ORN

   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  (4, 8)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 8)

Asymmetric/Biological Unit
(-)
Class: Mainly Beta (13760)
1a1n0xL02L:108-211
1b1n0xL01L:1-107
1c1n0xM01M:1-107
1d1n0xK02K:110-230
1e1n0xH02H:110-228
1f1n0xH01H:1-109
1g1n0xK01K:1-109
1h1n0xM02M:108-211

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1N0X)

(-) Gene Ontology  (25, 25)

Asymmetric/Biological Unit(hide GO term definitions)
Chain H,K   (IGG1_HUMAN | P0DOX5)

Chain L,M   (IGKC_HUMAN | P01834)
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.
    GO:0034987    immunoglobulin receptor binding    Interacting selectively and non-covalently with one or more specific sites on an immunoglobulin receptor molecule.
    GO:0004252    serine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a catalytic mechanism that involves a catalytic triad consisting of a serine nucleophile that is activated by a proton relay involving an acidic residue (e.g. aspartate or glutamate) and a basic residue (usually histidine).
biological process
    GO:0050853    B cell receptor signaling pathway    A series of molecular signals initiated by the cross-linking of an antigen receptor on a B cell.
    GO:0038095    Fc-epsilon receptor signaling pathway    A series of molecular signals initiated by the binding of the Fc portion of immunoglobulin E (IgE) to an Fc-epsilon receptor on the surface of a signal-receiving cell, and ending with regulation of a downstream cellular process, e.g. transcription. The Fc portion of an immunoglobulin is its C-terminal constant region.
    GO:0038096    Fc-gamma receptor signaling pathway involved in phagocytosis    An Fc-gamma receptor signaling pathway that contributes to the endocytic engulfment of external particulate material by phagocytes.
    GO:0006956    complement activation    Any process involved in the activation of any of the steps of the complement cascade, which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes; the initial steps of complement activation involve one of three pathways, the classical pathway, the alternative pathway, and the lectin pathway, all of which lead to the terminal complement pathway.
    GO:0006958    complement activation, classical pathway    Any process involved in the activation of any of the steps of the classical pathway of the complement cascade which allows for the direct killing of microbes, the disposal of immune complexes, and the regulation of other immune processes.
    GO:0042742    defense response to bacterium    Reactions triggered in response to the presence of a bacterium that act to protect the cell or organism.
    GO:0006955    immune response    Any immune system process that functions in the calibrated response of an organism to a potential internal or invasive threat.
    GO:0045087    innate immune response    Innate immune responses are defense responses mediated by germline encoded components that directly recognize components of potential pathogens.
    GO:0006911    phagocytosis, engulfment    The internalization of bacteria, immune complexes and other particulate matter or of an apoptotic cell by phagocytosis, including the membrane and cytoskeletal processes required, which involves one of three mechanisms: zippering of pseudopods around a target via repeated receptor-ligand interactions, sinking of the target directly into plasma membrane of the phagocytosing cell, or induced uptake via an enhanced membrane ruffling of the phagocytosing cell similar to macropinocytosis.
    GO:0006910    phagocytosis, recognition    The initial step in phagocytosis involving adhesion to bacteria, immune complexes and other particulate matter, or an apoptotic cell and based on recognition of factors such as bacterial cell wall components, opsonins like complement and antibody or protein receptors and lipids like phosphatidyl serine, and leading to intracellular signaling in the phagocytosing cell.
    GO:0050871    positive regulation of B cell activation    Any process that activates or increases the frequency, rate or extent of B cell activation.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0006898    receptor-mediated endocytosis    An endocytosis process in which cell surface receptors ensure specificity of transport. A specific receptor on the cell surface binds tightly to the extracellular macromolecule (the ligand) that it recognizes; the plasma-membrane region containing the receptor-ligand complex then undergoes endocytosis, forming a transport vesicle containing the receptor-ligand complex and excluding most other plasma-membrane proteins. Receptor-mediated endocytosis generally occurs via clathrin-coated pits and vesicles.
    GO:0050776    regulation of immune response    Any process that modulates the frequency, rate or extent of the immune response, the immunological reaction of an organism to an immunogenic stimulus.
    GO:0001895    retina homeostasis    A tissue homeostatic process involved in the maintenance of an internal equilibrium within the retina of the eye, including control of cellular proliferation and death and control of metabolic function.
cellular component
    GO:0072562    blood microparticle    A phospholipid microvesicle that is derived from any of several cell types, such as platelets, blood cells, endothelial cells, or others, and contains membrane receptors as well as other proteins characteristic of the parental cell. Microparticles are heterogeneous in size, and are characterized as microvesicles free of nucleic acids.
    GO:0009897    external side of plasma membrane    The leaflet of the plasma membrane that faces away from the cytoplasm and any proteins embedded or anchored in it or attached to its surface.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    GO:0005615    extracellular space    That part of a multicellular organism outside the cells proper, usually taken to be outside the plasma membranes, and occupied by fluid.
    GO:0042571    immunoglobulin complex, circulating    An immunoglobulin complex that is secreted into extracellular space and found in mucosal areas or other tissues or circulating in the blood or lymph. In its canonical form, a circulating immunoglobulin complex is composed of two identical heavy chains and two identical light chains, held together by disulfide bonds. Some forms of are polymers of the basic structure and contain additional components such as J-chain and the secretory component.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.

Chain L,M   (Q8TCD0_HUMAN | Q8TCD0)

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 Related Entries

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

UniProtKB/Swiss-Prot
        IGG1_HUMAN | P0DOX51d5b 1d5i 1d6v 1hzh 3pgf 4r26 4r2g 5vj6
        IGKC_HUMAN | P018341a4j 1a4k 1cly 1d5b 1d5i 1d6v 1dfb 1gaf 1hez 1hkl 1hzh 1i7z 1mim 1om3 1op3 1op5 1ucb 2ny7 2o5x 2o5y 2o5z 2qqk 2qql 2qqn 2qsc 2r56 2rfx 2vxq 3b2u 3b2v 3bdy 3be1 3bky 3bn9 3bqu 3c08 3c09 3cfj 3cfk 3csy 3d0l 3d85 3dvg 3dvn 3eyf 3eyo 3eyq 3iu3 3o11 3qct 3qcu 3qcv 3ru8 3u0w 3u7w 3u7y 3vh8 3wuw 3x11 3x12 4d3c 4d9r 4hix 4nm4 4nm8 4xmp 4xny 4xnz 4xxd 4ydv 5b38 5b39 5c7k 5esv 5esz 5ewi 5veb 5viy
        Q8TCD0_HUMAN | Q8TCD01hzh 3mnv 3mnw 3mnz 3pgf 4d9q 4nug 4nuj 4nwt 5viy 5vj6 5vod
UniProtKB/TrEMBL
        Q8TCD0_HUMAN | Q8TCD03cfj 3cfk 4nwu

(-) Related Entries Specified in the PDB File

1hzh THE UNCOMPLEXED INTACT IGG OF THIS FAB ENTRY.