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(-) Description

Title :  STRUCTURE OF TAU5 ANTIBODY FAB FRAGMENT
 
Authors :  O. Cehlar, R. Skrabana, M. Novak
Date :  09 Jun 14  (Deposition) - 29 Jul 15  (Release) - 29 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  H,L
Keywords :  Immune System, Monoclonal Antibody (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  O. Cehlar, R. Skrabana, M. Novak
Structure Of Tau5 Antibody Fab Fragment
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - IF KAPPA LIGHT CHAIN
    Chains: L
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: FAB LIGHT CHAIN
 
Molecule 2 - 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  (7, 16)

Asymmetric/Biological Unit (7, 16)
No.NameCountTypeFull Name
133O1Ligand/Ion3,6,9,12,15,18,21,24,27,30,33,36-DODECAOXAOCTATRIACONTANE-1,38-DIOL
2CL5Ligand/IonCHLORIDE ION
3NA1Ligand/IonSODIUM ION
4PEG5Ligand/IonDI(HYDROXYETHYL)ETHER
5PG42Ligand/IonTETRAETHYLENE GLYCOL
6PGE1Ligand/IonTRIETHYLENE GLYCOL
7TRS1Ligand/Ion2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

(-) Sites  (16, 16)

Asymmetric Unit (16, 16)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLN H:43 , LEU L:9 , TYR L:92 , GLY L:105 , LYS L:147 , PG4 L:302 , HOH L:545 , HOH L:561binding site for residue PG4 L 301
02AC2SOFTWAREGLU H:42 , LYS L:147 , ILE L:149 , TRP L:168 , PG4 L:301 , HOH L:498binding site for residue PG4 L 302
03AC3SOFTWARELEU L:15 , ARG L:82binding site for residue CL L 303
04AC4SOFTWARE33O H:304 , ARG L:113binding site for residue CL L 304
05AC5SOFTWARESER L:70 , LYS L:79binding site for residue PGE L 305
06AC6SOFTWAREHOH H:436 , ALA L:117 , PRO L:118 , THR L:119 , ASN L:142 , ASN L:143binding site for residue NA L 306
07AC7SOFTWAREGLY L:71 , SER L:72 , ASP L:156 , ARG L:193 , ASN L:195 , HOH L:401binding site for residue PEG L 307
08AC8SOFTWARELYS L:50 , GLY L:62 , GLU L:86binding site for residue PEG L 308
09AC9SOFTWAREGLU H:42 , ASN L:166 , SER L:167 , TRP L:168 , HOH L:557binding site for residue PEG L 309
10AD1SOFTWAREHIS L:31 , SER L:32 , SER L:97 , HIS L:98 , VAL L:99 , ARG L:160 , GLN L:161 , ASN L:162 , TRS L:311 , HOH L:402 , HOH L:467binding site for residue PEG L 310
11AD2SOFTWAREASN L:33 , GLY L:96 , PEG L:310 , HOH L:402binding site for residue TRS L 311
12AD3SOFTWARETRP H:47 , PHE L:103binding site for residue CL H 301
13AD4SOFTWARESER H:164 , ASN H:204 , LYS H:213 , HOH H:429binding site for residue CL H 302
14AD5SOFTWARELYS H:151 , GLY H:152 , GLN H:179 , TYR H:183 , THR H:184 , HOH H:542binding site for residue CL H 303
15AD6SOFTWAREMET H:143 , ASN H:163 , SER H:164 , SER H:166 , LEU H:167 , GLY H:170 , THR H:190 , VAL H:191 , THR H:195 , THR H:200 , THR H:202 , LYS H:213 , ASP H:215 , HOH H:416 , HOH H:419 , HOH H:422 , HOH H:436 , HOH H:470 , HOH H:528 , HOH H:530 , ASP L:115 , ALA L:116 , ALA L:117 , ASN L:143 , THR L:205 , SER L:206 , CL L:304 , HOH L:405binding site for residue 33O H 304
16AD7SOFTWAREPRO H:41 , THR H:116 , HOH H:556binding site for residue PEG H 305

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1H:22 -H:96
2H:148 -H:203
3L:23 -L:93
4L:139 -L:199

(-) Cis Peptide Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1Thr L:7 -Pro L:8
2Val L:99 -Pro L:100
3Tyr L:145 -Pro L:146
4Phe H:154 -Pro H:155
5Glu H:156 -Pro H:157
6Trp H:196 -Pro H:197

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4TPR)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4TPR)

(-) Exons   (0, 0)

(no "Exon" information available for 4TPR)

(-) 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:221
                                                                                                                                                                                                                                                             
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeee...eee.....eeeeeeee..hhhhheeeeeee.....eeeeeee......eee.hhhh..eeeeeehhh.eeeeee...hhhhheeeeeeeee.......eeee...eeeee........eeeee..........eeeeeeeeeee.....eeee.hhh....eee...eee..eeeeeeeeeee.........eeeeeehhhheeeeee.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4tpr H   1 EVQLQQSGAEIVRSGASVKLSCAASGFNIKDYYMHWVKQRPEQGLEWIGWIDPENGDIAYAPKFQGKATMTADTSSNTAYLQLSRLTSEDTAVYFCNGRGGMITTDFFDYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSTWPSETVTCNVAHPASSTKVDKKIVPR 221
                                    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:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeee..eeee.....eeeeeee............eeeeee......eeeee...ee.......eeeee...eeeeee...hhhhheeeeeee......ee...eeeee.......eeeee..hhhhhhh.eeeeeeeeeee.....eeeeee..eee...eeeeee........eeeeeeeeeehhhhh...eeeeeee.......eeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4tpr L   1 DVLMTQTPLSLPVSLGDQASISCRSSQSIVHSNGNTYLEWYLQKPGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNE 218
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210
   Legend:   → Mismatch (orange background)
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  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  (0, 0)

(no "SCOP Domain" information available for 4TPR)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4TPR)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4TPR)

(-) Gene Ontology  (0, 0)

Asymmetric/Biological Unit(hide GO term definitions)
    (no "Gene Ontology" information available for 4TPR)

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  Cis Peptide Bonds
    Glu H:156 - Pro H:157   [ RasMol ]  
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    Thr L:7 - Pro L:8   [ RasMol ]  
    Trp H:196 - Pro H:197   [ RasMol ]  
    Tyr L:145 - Pro L:146   [ RasMol ]  
    Val L:99 - Pro L:100   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        A2NHM3_MOUSE | A2NHM3: 4p3d
UniProtKB/TrEMBL
        A2NHM3_MOUSE | A2NHM3: 1cbv 1f3d 1lo0 1m71 1m7d 1m7i 1mnu 1mpa 1nbv 1plg 1pz5 1qfu 1t2q 1zea 2a1w 2dqt 2dqu 2dtm 2ipt 2ipu 2iq9 2iqa 2mpa 2ojz 2ok0 2r0w 2r0z 3bae 3bkc 3bkj 3bkm 3bqu 3eys 3eyu 3uo1 3uyr 3v4u 3v52 3we6 4f37 4hdi 4ocx 4ocy 4q0x 4tqe

(-) Related Entries Specified in the PDB File

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