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(-) Description

Title :  C-TERMINAL REGION OF FEN-1 BOUND TO A. FULGIDUS PCNA
 
Authors :  B. R. Chapados, D. J. Hosfield, S. Han, J. Qiu, B. Yelent, B. Shen, J. A. Ta
Date :  18 Dec 03  (Deposition) - 27 Jan 04  (Release) - 16 Nov 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.80
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (3x)
Keywords :  Sliding Clamp, Torus, Processivity Factor, Beta-Zipper, Hydrophobic Anchor, Replication (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. R. Chapados, D. J. Hosfield, S. Han, J. Qiu, B. Yelent, B. Shen, J. A. Tainer
Structural Basis For Fen-1 Substrate Specificity And Pcna-Mediated Activation In Dna Replication And Repair
Cell(Cambridge, Mass. ) V. 116 39 2004
PubMed-ID: 14718165  |  Reference-DOI: 10.1016/S0092-8674(03)01036-5

(-) Compounds

Molecule 1 - DNA POLYMERASE SLIDING CLAMP
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PCN, AF0335
    Organism Scientific: ARCHAEOGLOBUS FULGIDUS
    Organism Taxid: 2234
    Synonym: PROLIFERATING CELL NUCLEAR ANTIGEN HOMOLOG, PCNA
 
Molecule 2 - CONSENSUS FEN-1 PEPTIDE
    Chains: B
    Engineered: YES
    Fragment: C-TERMINUS
    Other Details: THE SEQUENCE OF THE SYNTHETIC PEPTIDE IS DERIVED FROM THE CONSENSUS OF A FEN-1 SEQUENCE ALIGNMENT.
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (3x): AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1RXM)

(-) Sites  (0, 0)

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(-) SS Bonds  (0, 0)

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(-) Cis Peptide Bonds  (0, 0)

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 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1RXM)

(-) PROSITE Motifs  (1, 1)

Asymmetric Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PCNA_1PS01251 Proliferating cell nuclear antigen signature 1.PCNA_ARCFU33-56  1A:33-56
Biological Unit 1 (1, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PCNA_1PS01251 Proliferating cell nuclear antigen signature 1.PCNA_ARCFU33-56  3A:33-56

(-) Exons   (0, 0)

(no "Exon" information available for 1RXM)

(-) 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:245
 aligned with PCNA_ARCFU | O29912 from UniProtKB/Swiss-Prot  Length:245

    Alignment length:245
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240     
           PCNA_ARCFU     1 MIDVIMTGELLKTVTRAIVALVSEARIHFLEKGLHSRAVDPANVAMVIVDIPKDSFEVYNIDEEKTIGVDMDRIFDISKSISTKDLVELIVEDESTLKVKFGSVEYKVALIDPSAIRKEPRIPELELPAKIVMDAGEFKKAIAAADKISDQVIFRSDKEGFRIEAKGDVDSIVFHMTETELIEFNGGEARSMFSVDYLKEFCKVAGSGDLLTIHLGTNYPVRLVFELVGGRAKVEYILAPRIESE 245
               SCOP domains d1rxma1 A:1-122 Proliferating cell nuclear antigen (PCNA)                                                                 d1rxma2 A:123-245 Proliferating cell nuclear antigen (PCNA)                                                                 SCOP domains
               CATH domains 1rxmA00 A:1-245  [code=3.70.10.10, no name defined]                                                                                                                                                                                                   CATH domains
               Pfam domains PCNA_N-1rxmA02 A:1-110                                                                                        ----------PCNA_C-1rxmA01 A:121-241                                                                                                 ---- Pfam domains
         Sec.struct. author .eeeeeehhhhhhhhhhhhh...eeeeeee..eeeeeee.....eeeeeeee.hhh.eeee...eeeeeehhhhhhhhh......eeeeee....eeeeee..eeeeee..hhhhh............eeeeeehhhhhhhhhhhhh...eeeeeee..eeeeeee....eeeeee......ee....eeeeeehhhhhhhhh......eeeeee.....eeeeeee....eeeeeee..eee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------PCNA_1  PDB: A:33-56    --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1rxm A   1 MIDVIMTGELLKTVTRAIVALVSEARIHFLEKGLHSRAVDPANVAMVIVDIPKDSFEVYNIDEEKTIGVDMDRIFDISKSISTKDLVELIVEDESTLKVKFGSVEYKVALIDPSAIRKEPRIPELELPAKIVMDAGEFKKAIAAADKISDQVIFRSDKEGFRIEAKGDVDSIVFHMTETELIEFNGGEARSMFSVDYLKEFCKVAGSGDLLTIHLGTNYPVRLVFELVGGRAKVEYILAPRIESE 245
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240     


Chain B from PDB  Type:PROTEIN  Length:12
                                            
               SCOP domains ------------ SCOP domains
               CATH domains ------------ CATH domains
               Pfam domains ------------ Pfam domains
         Sec.struct. author .eee.hhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------ SAPs(SNPs)
                    PROSITE ------------ PROSITE
                 Transcript ------------ Transcript
                 1rxm B   1 KTTQSTLDSFFK  12
                                    10
   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  (1, 2)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (2, 2)

Asymmetric Unit
(-)
Clan: DNA_clamp (33)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A   (PCNA_ARCFU | O29912)
molecular function
    GO:0003677    DNA binding    Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
    GO:0030337    DNA polymerase processivity factor activity    An enzyme regulator activity that increases the processivity of polymerization by DNA polymerase, by allowing the polymerase to move rapidly along DNA while remaining topologically bound to it.
biological process
    GO:0006260    DNA replication    The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by initiation proteins, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.
    GO:0006275    regulation of DNA replication    Any process that modulates the frequency, rate or extent of DNA replication.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PCNA_ARCFU | O29912: 1rwz 1rxz 3p83

(-) Related Entries Specified in the PDB File

1rwz 1rxv 1rxw 1rxz