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(-) Description

Title :  APO-STRUCTURE OF HUMANISED RADA-MUTANT HUMRADA22
 
Authors :  G. Fischer, M. Marsh, T. Moschetti, T. Sharpe, D. Scott, M. Morgan, H. Ng J. Skidmore, A. Venkitaraman, C. Abell, T. L. Blundell, M. Hyvonen
Date :  08 Jun 16  (Deposition) - 19 Oct 16  (Release) - 30 Nov 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.99
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Dna Repair, Fragment Based Drug Design, Humanisation, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Moschetti, T. Sharpe, G. Fischer, M. E. Marsh, H. K. Ng, M. Morgan, D. E. Scott, T. L. Blundell, A. R Venkitaraman, J. Skidmore, C. Abell, M. Hyvonen
Engineering Archeal Surrogate Systems For The Development O Protein-Protein Interaction Inhibitors Against Human Rad51.
J. Mol. Biol. V. 428 4589 2016
PubMed-ID: 27725183  |  Reference-DOI: 10.1016/J.JMB.2016.10.009

(-) Compounds

Molecule 1 - DNA REPAIR AND RECOMBINATION PROTEIN RADA
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PBAT4
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: RADA, PF1926
    Mutation: YES
    Organism Scientific: PYROCOCCUS FURIOSUS
    Organism Taxid: 2261

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:139 , PHE A:140 , GLY A:141 , SER A:142 , GLY A:143 , LYS A:144 , THR A:145 , GLN A:284 , HOH A:502 , HOH A:538binding site for residue SO4 A 401
2AC2SOFTWAREARG A:263 , ARG A:266 , ARG A:270 , TYR B:216 , ARG B:263binding site for residue SO4 A 402
3AC3SOFTWAREGLU B:139 , PHE B:140 , GLY B:141 , SER B:142 , GLY B:143 , LYS B:144 , THR B:145binding site for residue SO4 B 401
4AC4SOFTWARETYR A:216 , ARG A:263 , ARG B:263 , ARG B:266 , ARG B:270binding site for residue SO4 B 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5KDD)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5KDD)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5KDD)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KDD)

(-) Exons   (0, 0)

(no "Exon" information available for 5KDD)

(-) 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:217
                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee...hhhhhhhh...ee..eeeeeee....hhhhhhhhhhhhhhhhhhhh....eeeeee.....hhhhhhhhhhhh..hhhhhhhheeeee..hhhhhhhhhhhhhhhhhhh......eeeeeee..hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh..eeeeeee..eeeeee....eeeeeee.......eeeeeeee..eee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5kdd A 108 ATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSAMYIDTENTFRPERLREIAQNRGLDPDEVLDNVAYARAFNSNHQMQLLYQASAMMVESLNTDRPYKLLIVDSLTSHFRSEYIGRGALAERQQKLARFLRMLHRLANEFDIAVFVTNQVLRVYLRKGKGGKRIARLIDAPHLPEGEAVFSITEKGIED 349
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       312       322       332       342       
                                                                                                                                                                                                           285|                                      
                                                                                                                                                                                                            311                                      


Chain B from PDB  Type:PROTEIN  Length:218
                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee...hhhhhhhh...ee..eeeeeee....hhhhhhhhhhhhhhhhhhhh....eeeeee.....hhhhhhhhhhhh..hhhhhhhheeeee..hhhhhhhhhhhhhhhhhhh......eeeeeee..hhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee..eeeeeee.hhh.eeeeee.......eeeeeeee..eee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5kdd B 108 ATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSAMYIDTENTFRPERLREIAQNRGLDPDEVLDNVAYARAFNSNHQMQLLYQASAMMVESLNTDRPYKLLIVDSLTSHFRSEYIGRGALAERQQKLARFLRMLHRLANEFDIAVFVTNQVTLRVYLRKGKGGKRIARLIDAPHLPEGEAVFSITEKGIED 349
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       311       321       331       341        
                                                                                                                                                                                                           285|                                       
                                                                                                                                                                                                            310
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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 5KDD)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KDD)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KDD)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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UniProtKB/Swiss-Prot
        RADA_PYRFU | O74036: 1pzn 4a6p 4a6x 4b2i 4b2l 4b2p 4b32 4b33 4b34 4b35 4b3b 4b3c 4b3d 4d6p 4uqo 5fos 5fot 5fou 5fov 5fow 5fox 5fpk 5j4h 5j4k 5j4l 5jec 5jed 5jee 5jfg 5l8v 5lb2 5lb4 5lbi

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