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(-) Description

Title :  CRYSTAL STRUCTURE OF THE HUMAN SLIDING CLAMP AT 2.0 ANGSTROM RESOLUTION
 
Authors :  A. J. Kroker, J. B. Bruning
Date :  09 Oct 14  (Deposition) - 26 Aug 15  (Release) - 26 Aug 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.01
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B  (3x)
Biol. Unit 2:  C,D  (3x)
Biol. Unit 3:  E,F  (3x)
Keywords :  Sliding Clamp, Processivity Factor, P21, Dna Polymerase, Nucleus, Replication (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. J. Kroker, J. B. Bruning
P21 Exploits Residue Tyr151 As A Tether For High-Affinity Pcna Binding.
Biochemistry V. 54 3483 2015
PubMed-ID: 25972089  |  Reference-DOI: 10.1021/ACS.BIOCHEM.5B00241

(-) Compounds

Molecule 1 - PROLIFERATING CELL NUCLEAR ANTIGEN
    Chains: A, C, E
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMCSG19
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PCNA
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: PCNA, CYCLIN
 
Molecule 2 - CYCLIN-DEPENDENT KINASE INHIBITOR 1
    Chains: B, D, F
    Engineered: YES
    Fragment: 22 C TERMINAL RESIDUES (139 - 160)
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: P21 PEPTIDE CHEMICALLY SYNTHESIZED
    Synonym: CDK-INTERACTING PROTEIN 1, MELANOMA DIFFERENTIATION- ASSOCIATED PROTEIN 6, MDA-6, P21
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (3x): AB    
Biological Unit 2 (3x):   CD  
Biological Unit 3 (3x):     EF

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 4RJF)

(-) Sites  (0, 0)

(no "Site" information available for 4RJF)

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1E:135 -E:162

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asn A:107 -Gln A:108

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4RJF)

(-) 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..hhhhhhhhhh......eeeeeee..eeeeeee.....eeeeeeee.hhh.eeee...eeeeeehhhhhhhhh......eeeeee.....eeeeeee......eeeeeee...eeeeeee.......eeeeeehhhhhhhhhhhh....eeeeee...eeeeeeee..eeeeeeee............eeee...eeeeeehhhhhhhhhhhhhh.eeeeee.....eeeeeee...eeeeeee..ee Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rjf A   1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTYRCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMDLDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIKLSQTSNVDKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYKIADMGHLKYYLAPKI 255
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250     


Chain B from PDB  Type:PROTEIN  Length:21
                                                     
               SCOP domains --------------------- SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author ...ee.hhhhh.eeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                 4rjf B 140 RKRRQTSMTDFFHSKRRLIFS 160
                                   149       159 


Chain C from PDB  Type:PROTEIN  Length:253
                                                                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhh......eeeeeee..eeeeeee.....eeeeeeee.hhh.eeee...eeeeeehhhhhhhhh......eeeeee.....eeeeeee......eeeeeee...eeeeeee.......eeeeeehhhhhhhhhhhh....eeeeeee..eeeeeeee..eeeeeeee..........eeee...eeeeeehhhhhhhhhhhhhh.eeeeee.....eeeeeee...eeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rjf C   1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTYRCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPNQEKVSDYEMKLMDLDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIKLSQTSNKEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYKIADMGHLKYYLAPKI 255
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180      |192       202       212       222       232       242       252   
                                                                                                                                                                                                                    187|                                                                 
                                                                                                                                                                                                                     190                                                                 


Chain D from PDB  Type:PROTEIN  Length:20
                                                    
               SCOP domains -------------------- SCOP domains
               CATH domains -------------------- CATH domains
               Pfam domains -------------------- Pfam domains
         Sec.struct. author .....hhhhh.eeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------- SAPs(SNPs)
                    PROSITE -------------------- PROSITE
                 Transcript -------------------- Transcript
                 4rjf D 141 KRRQTSMTDFFHSKRRLIFS 160
                                   150       160


Chain E from PDB  Type:PROTEIN  Length:249
                                                                                                                                                                                                                                                                                         
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeee..hhhhhhhhhh......eeeeee...eeeeeee.....eeeeeeee.....eeee...eeeeeehhhhhhhhh......eeeeee.....eeeeeee....eeeeeee....eeeee........eeeeeehhhhhhhhhhhh....eeeeee...eeeeeeee..eeeeeeee........eeee...eeeeeehhhhhhhhhhhhhh.eeeeee.....eeeeeee...eeeeeee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4rjf E   1 MFEARLVQGSILKKVLEALKDLINEACWDISSSGVNLQSMDSSHVSLVQLTLRSEGFDTYRCDRNLAMGVNLTSMSKILKCAGNEDIITLRAEDNADTLALVFEAPEKVSDYEMKLMDLDVEQLGIPEQEYSCVVKMPSGEFARICRDLSHIGDAVVISCAKDGVKFSASGELGNGNIKLSQTSEEEAVTIEMNEPVQLTFALRYLNFFTKATPLSSTVTLSMSADVPLVVEYKIADMGHLKYYLAPKI 255
                                    10        20        30        40        50        60        70        80        90       100     ||112       122       132       142       152       162       172       182   ||  196       206       216       226       236       246         
                                                                                                                                   106|                                                                          186|                                                                
                                                                                                                                    109                                                                           191                                                                


Chain F from PDB  Type:PROTEIN  Length:18
                                                  
               SCOP domains ------------------ SCOP domains
               CATH domains ------------------ CATH domains
               Pfam domains ------------------ Pfam domains
         Sec.struct. author ...hhhhh..eeeee... Sec.struct. author
                 SAPs(SNPs) ------------------ SAPs(SNPs)
                    PROSITE ------------------ PROSITE
                 Transcript ------------------ Transcript
                 4rjf F 143 RQTSMTDFFHSKRRLIFS 160
                                   152
   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 4RJF)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (115, 123)

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  Cis Peptide Bonds
    Asn A:107 - Gln A:108   [ RasMol ]  
 
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  PCNA_HUMAN | P12004
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 Related Entries

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

UniProtKB/Swiss-Prot
        CDN1A_HUMAN | P38936: 1axc 2zvv 2zvw 5e0u
        PCNA_HUMAN | P12004: 1axc 1u76 1u7b 1ul1 1vyj 1vym 1w60 2zvk 2zvl 2zvm 3ja9 3p87 3tbl 3vkx 3wgw 4d2g 4ztd 5e0t 5e0u 5e0v 5iy4 5l7c 5mlo 5mlw 5mom

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4RJF)