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(-) Description

Title :  CONJUGATIVE RELAXASE TRWC IN COMPLEX WITH MUTANT ORIT DNA
 
Authors :  G. Moncalian, J. D. Carballeira, F. De La Cruz, B. Gonzalez-Perez
Date :  14 Apr 14  (Deposition) - 17 Sep 14  (Release) - 24 Dec 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Relaxase, Huh Endonuclease, Plasmid Conjugation, Transferase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. D. Carballeira, B. Gonzalez-Perez, G. Moncalian, F. D. La Cruz
A High Security Double Lock And Key Mechanism In Huh Relaxases Controls Orit-Processing For Plasmid Conjugation.
Nucleic Acids Res. V. 42 10632 2014
PubMed-ID: 25123661  |  Reference-DOI: 10.1093/NAR/GKU741

(-) Compounds

Molecule 1 - TRWC
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: TRWC
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
 
Molecule 2 - DNA 5'- D(P*GP*CP*AP*CP*CP*GP*AP*AP*GP*GP*TP*GP*CP*GP*TP*AP*TP*TP*CP*TP*TP*GP - 3')
    Chains: B, D
    Engineered: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 5)

Asymmetric Unit (1, 5)
No.NameCountTypeFull Name
1PO45Ligand/IonPHOSPHATE ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1PO42Ligand/IonPHOSPHATE ION
Biological Unit 2 (1, 3)
No.NameCountTypeFull Name
1PO43Ligand/IonPHOSPHATE ION

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:18 , HIS A:150 , HIS A:161 , HIS A:163 , PO4 A:302 , DG B:25binding site for residue PO4 A 301
2AC2SOFTWAREHIS A:150 , GLU A:151 , THR A:152 , PO4 A:301binding site for residue PO4 A 302
3AC3SOFTWARETYR C:18 , HIS C:150 , THR C:152 , HIS C:161 , HIS C:163 , PO4 C:302 , DG D:25binding site for residue PO4 C 301
4AC4SOFTWAREHIS C:150 , GLU C:151 , THR C:152 , ARG C:274 , PO4 C:301 , HOH C:426 , HOH C:427binding site for residue PO4 C 302
5AC5SOFTWAREDG D:17 , DT D:18 , HOH D:206binding site for residue PO4 D 101

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4PCB)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4PCB)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4PCB)

(-) 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:280
                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhh...eeeehhhhhhh......hhhhhhhhhhh...................eeeeeeeee.hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhh..eeeeee..eeeeee.....eeeeee..........eeeeeee..ee.....ee...hhhhhhhhhhhhhhhhhhhhhhhhhh...eee.....eee...hhhhh...hhhhhhhhhhhhhh.......hhhhhhhhh...........hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pcb A   1 MLSHMVLTRQDIGRAASYYASEWQGKGAEELGLSGEVDSKRFRELLAGNIGEGHRIMRSATRQDSKERIGLDLTFSAPKSVSLQALVAGDAEIIKAHDRAVARTLEQAEARAQARQKIQGKTRIETTGNLVIGKFRHETSRERDPQLHTHAVILNMTKRSDGQWRALKNDEIVKATRYLGAVYNAELAHELQKLGYQLRYGKDGNFDLAHIDRQQIEGFSKRTEQIAEWYAARGLDPNSVSLEQKQAAKVLSRAKKTSVDREALRAEWQATAKELGIDFS 293
                                    10        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293
                                             19|                                                                                                                                                                                                                                                                    
                                              33                                                                                                                                                                                                                                                                    


Chain B from PDB  Type:DNA  Length:22
                                                      
                 4pcb B   3 GCACCGAAGGTGCGTATTCTTG  25
                                   |13        23  
                                  10|             
                                   12             


Chain C from PDB  Type:PROTEIN  Length:280
                                                                                                                                                                                                                                                                                                                        
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee..hhhhhhh...eeeehhhhhhh......hhhhhhhhhhh...................eeeeeeeee.hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh..eeeee....eeeee.....eeeeeeee.....eeeeeeeeee..ee.....ee...hhhhhhhhhhhhhhhhhhhhhhhhhh...eee.....eee....hhhhhh.hhhhhhhhhhhhhh.........hhhhhhhhh.........hhhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4pcb C   1 MLSHMVLTRQDIGRAASYYASEWQGKGAEELGLSGEVDSKRFRELLAGNIGEGHRIMRSATRQDSKERIGLDLTFSAPKSVSLQALVAGDAEIIKAHDRAVARTLEQAEARAQARQKIQGKTRIETTGNLVIGKFRHETSRERDPQLHTHAVILNMTKRSDGQWRALKNDEIVKATRYLGAVYNAELAHELQKLGYQLRYGKDGNFDLAHIDRQQIEGFSKRTEQIAEWYAARGLDPNSVSLEQKQAAKVLSRAKKTSVDREALRAEWQATAKELGIDFS 293
                                    10        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293
                                             19|                                                                                                                                                                                                                                                                    
                                              33                                                                                                                                                                                                                                                                    


Chain D from PDB  Type:DNA  Length:22
                                                      
                 4pcb D   3 GCACCGAAGGTGCGTATTCTTG  25
                                   |13        23  
                                  10|             
                                   12
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 4PCB)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (1, 1)

Asymmetric Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/TrEMBL
        Q47673_ECOLX | Q47673: 1omh 1osb 1qx0 1s6m 1zm5 2cdm

(-) Related Entries Specified in the PDB File

1omh 1OMH CONTAINS THE SAME TRWC-DNA COMPLEX WITH A DIFFERENT DNA MOLECULE