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(-) Description

Title :  STRUCTURE OF C22Y MUTANT PCNA PROTEIN DEFECTIVE IN DNA MISMATCH REPAIR
 
Authors :  T. Washington, E. Boehm
Date :  12 Jun 13  (Deposition) - 01 Oct 14  (Release) - 27 May 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.68
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Biol. Unit 3:  C  (1x)
Keywords :  Dna Mismatch Repair, Dna Replication, Translesion Synthesis, Ubiquitylation, Sumoylation, Nucleus, Dna Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. M. Dieckman, E. M. Boehm, M. M. Hingorani, M. T. Washington
Distinct Structural Alterations In Proliferating Cell Nuclear Antigen Block Dna Mismatch Repair.
Biochemistry V. 52 5611 2013
PubMed-ID: 23869605  |  Reference-DOI: 10.1021/BI400378E

(-) Compounds

Molecule 1 - PROLIFERATING CELL NUCLEAR ANTIGEN
    Chains: A, B, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: POL30, YBR0811, YBR088C
    Mutation: YES
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE S288C
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: PCNA

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (1x): A  
Biological Unit 2 (1x):  B 
Biological Unit 3 (1x):   C

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1GOL-1Ligand/IonGLYCEROL
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1GOL-1Ligand/IonGLYCEROL
Biological Unit 3 (1, 2)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREARG C:14 , ASN C:84 , HOH C:401BINDING SITE FOR RESIDUE GOL C 301
2AC2SOFTWAREGLN C:58 , LYS C:210BINDING SITE FOR RESIDUE GOL C 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4L6P)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4L6P)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4L6P)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4L6P)

(-) Exons   (0, 0)

(no "Exon" information available for 4L6P)

(-) 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:255
                                                                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.hhhhhhhhhhhhh....eeeeeee..eeeeee......eeeeeeee...eeeeee...eeeeeehhhhhhhhh.....eeeeeee.....eeeeeeee.....eeeeeee.................eeeeeehhhhhhhhhhhh....eeeeeee..eeeeeee....eeeeee.......hhhhh.eeee...eeeeeehhhhhhhhhhhhhh.eeeeee.....eeeeeee..eeeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l6p A   0 HMLEAKFEEASLFKRIIDGFKDYVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYRCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDLKSGFLQFFLAPKF 254
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249     


Chain B from PDB  Type:PROTEIN  Length:254
                                                                                                                                                                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee.hhhhhhhhhhhhh....eeeeeee..eeeeeee.....eeeeeeee.....eeee...eeeeeehhhhhhhhh......eeeeee.....eeeeeee......eeeeeee.................eeeeeehhhhhhhhhhhh....eeeeeee..eeeeeee....eeeeee.............eeee...eeeeeehhhhhhhhhhhhhh.eeeeee.....eeeeeee..eeeeeee... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4l6p B   0 HMLEAKFEEASLFKRIIDGFKDYVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYRCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDADFLKIEELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDLKSGFLQFFLAPK 253
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249    


Chain C from PDB  Type:PROTEIN  Length:252
                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee.hhhhhhhhhhhhhh...eeeeeee..eeeeeee.....eeeeeee.hhhh.eeee...eeeeeehhhhhhhhh......eeeeee.....eeeeeee......eeeeeee............eeeeeehhhhhhhhhhhh....eeeeeee..eeeeeee....eeeeee.......hhhhh.eeee...eeeeeehhhhhhhhhhhhhh.eeeeee.....eeeeeee..eeeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4l6p C  -1 HHMLEAKFEEASLFKRIIDGFKDYVQLVNFQCKEDGIIAQAVDDSRVLLVSLEIGVEAFQEYRCDHPVTLGMDLTSLSKILRCGNNTDTLTLIADNTPDSIILLFEDTKKDRIAEYSLKLMDIDDFELQYDSTLSLPSSEFSKIVRDLSQLSDSINIMITKETIKFVADGDIGSGSVIIKPFVDMEHPETSIKLEMDQPVDLTFGAKYLLDIIKGSSLSDRVGIRLSSEAPALFQFDLKSGFLQFFLAPKFN 255
                                     8        18        28        38        48        58        68        78        88        98       108       118   ||||133       143       153       163       173       183       193       203       213       223       233       243       253  
                                                                                                                                                     122|||                                                                                                                             
                                                                                                                                                      124||                                                                                                                             
                                                                                                                                                       125|                                                                                                                             
                                                                                                                                                        130
   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 4L6P)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4L6P)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4L6P)

(-) Gene Ontology  (27, 27)

Asymmetric Unit(hide GO term definitions)

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  4l6p
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  PCNA_YEAST | P15873
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 Related Entries

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

UniProtKB/Swiss-Prot
        PCNA_YEAST | P15873: 1plq 1plr 1sxj 2od8 3f1w 3gpm 3gpn 3k4x 3l0w 3l0x 3l10 3pge 3v60 3v61 3v62 4l60 4yhr 5jne 5t9d

(-) Related Entries Specified in the PDB File

4l60