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(-) Description

Title :  HUMANISED MONOMERIC RADA IN COMPLEX WITH FHTG TETRAPEPTIDE
 
Authors :  D. E. Scott, M. Marsh, T. L. Blundell, C. Abell, M. Hyvonen
Date :  26 Nov 15  (Deposition) - 30 Mar 16  (Release) - 12 Jul 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.74
Chains :  Asym. Unit :  A,C,E,F
Biol. Unit 1:  A,E  (1x)
Biol. Unit 2:  C,F  (1x)
Keywords :  Hydrolase, Rada, Fxxa Motif, Recombinase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. E. Scott, M. Marsh, T. L. Blundell, C. Abell, M. Hyvonen
Structure Activity Relationship Of The Peptide Binding Moti Mediating The Rad51:Brca2 Protein-Protein Interaction.
Febs Lett. V. 590 1094 2016
PubMed-ID: 26992456  |  Reference-DOI: 10.1002/1873-3468.12139

(-) Compounds

Molecule 1 - DNA REPAIR AND RECOMBINATION PROTEIN RADA
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PBAT4
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: PUBS520
    Expression System Vector Type: PLASMID
    Fragment: ATPASE, UNP RESIDUES 108-349
    Mutation: YES
    Organism Scientific: PYROCOCCUS FURIOSUS
    Organism Taxid: 2261
 
Molecule 2 - FHTG PEPTIDE
    Chains: E, F
    Engineered: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: ACETYLATED AT THE N-TERMINUS AND AMIDATED IN THE C- TERMINUS
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ACEF
Biological Unit 1 (1x): A E 
Biological Unit 2 (1x):  C F

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric Unit (4, 7)
No.NameCountTypeFull Name
1ACE2Mod. Amino AcidACETYL GROUP
2GOL1Ligand/IonGLYCEROL
3NH22Mod. Amino AcidAMINO GROUP
4PO42Ligand/IonPHOSPHATE ION
Biological Unit 1 (3, 3)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2GOL-1Ligand/IonGLYCEROL
3NH21Mod. Amino AcidAMINO GROUP
4PO41Ligand/IonPHOSPHATE ION
Biological Unit 2 (4, 4)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2GOL1Ligand/IonGLYCEROL
3NH21Mod. Amino AcidAMINO GROUP
4PO41Ligand/IonPHOSPHATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:139 , GLY A:141 , SER A:142 , GLY A:143 , LYS A:144 , THR A:145 , HOH A:592 , HOH A:563 , HOH A:673 , HOH A:539BINDING SITE FOR RESIDUE PO4 A 1350
2AC2SOFTWAREGLU C:139 , PHE C:140 , GLY C:141 , SER C:142 , GLY C:143 , LYS C:144 , THR C:145 , HOH C:546 , HOH C:613 , HOH C:575 , HOH C:659 , HOH C:530 , HOH C:550BINDING SITE FOR RESIDUE PO4 C 1350
3AC3SOFTWAREPHE F:1 , HIS F:2BINDING SITE FOR RESIDUE ACE F 0
4AC4SOFTWAREPHE C:177 , ILE C:200 , GLY F:4BINDING SITE FOR RESIDUE NH2 F 5
5AC5SOFTWAREHIS C:243 , SER C:246 , GLU C:247 , HOH C:562 , HOH C:577BINDING SITE FOR RESIDUE GOL C 1352

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Asp A:238 -Ser A:239
2Asp C:238 -Ser C:239

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5FOV)

(-) 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:227
                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee...hhhhhhhh...ee..eeeeeee....hhhhhhhhhhhhh..hhhhh....eeeeee.....hhhhhhhhhhhh..hhhhhhhheeeee..hhhhhhhhhhhhhhhhhhhh.....eeeeeee..hhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee...........eeeeeee.hhh.eeeeee.........eeeeee..eee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fov A 108 ATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVMWIDTENTFRPERIREIAQNRGLDPDEVLKHIAYARAFNSNHQMLLVQQAEDMIKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLHRLANLYDIAVFVTNQVQAHILAHSATLRVYLRKGKGGKRIARLIDAPHLPEGEAVFSITEKGIED 349
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287|      312       322       332       342       
                                                                                                                                                                                                             287|                                              
                                                                                                                                                                                                              303                                              


Chain C from PDB  Type:PROTEIN  Length:220
                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....ee...hhhhhhhh...ee..eeeeeee....hhhhhhhhhhhhh..hhhhh....eeeeee.....hhhhhhhhhhh...hhhhhhhheeeee..hhhhhhhhhhhhhhhhhhhh.....eeeeeee..hhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.eeeeeee....eeeeeee.hhh.eeeeee.........eeeeee..eee. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5fov C 108 ATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVMWIDTENTFRPERIREIAQNRGLDPDEVLKHIAYARAFNSNHQMLLVQQAEDMIKELLNTDRPVKLLIVDSLTSHFRSEYIGRGALAERQQKLAKHLADLHRLANLYDIAVFVTNQVSATLRVYLRKGKGGKRIARLIDAPHLPEGEAVFSITEKGIED 349
                                   117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       309       319       329       339       349
                                                                                                                                                                                                           285|                                         
                                                                                                                                                                                                            308                                         


Chain E from PDB  Type:PROTEIN  Length:6
                                      
               SCOP domains ------ SCOP domains
               CATH domains ------ CATH domains
               Pfam domains ------ Pfam domains
         Sec.struct. author ..ee.. Sec.struct. author
                 SAPs(SNPs) ------ SAPs(SNPs)
                    PROSITE ------ PROSITE
                 Transcript ------ Transcript
                 5fov E   0 xFHTGx   5
                            |    |
                            0-ACE|
                                 5-NH2


Chain F from PDB  Type:PROTEIN  Length:6
                                      
               SCOP domains ------ SCOP domains
               CATH domains ------ CATH domains
               Pfam domains ------ Pfam domains
         Sec.struct. author .ee... Sec.struct. author
                 SAPs(SNPs) ------ SAPs(SNPs)
                    PROSITE ------ PROSITE
                 Transcript ------ Transcript
                 5fov F   1 FHTGxx 102
                               |||
                               4||
                              101-ACE
                               102-NH2
   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  (0, 0)

(no "SCOP Domain" information available for 5FOV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (9, 9)

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  RADA_PYRFU | O74036
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 Related Entries

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

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

(-) Related Entries Specified in the PDB File

5fos HUMANISED MONOMERIC RADA IN COMPLEX WITH OLIGOMERISATION PEPTIDE
5fot HUMANISED MONOMERIC RADA IN COMPLEX WITH FHTU TETRAPEPTIDE
5fou HUMANISED MONOMERIC RADA IN COMPLEX WITH FHPA TETRAPEPTIDE
5fow HUMANISED MONOMERIC RADA IN COMPLEX WITH WHTA TETRAPEPTIDE
5fox HUMANISED MONOMERIC RADA IN COMPLEX WITH FHAA TETRAPEPTIDE