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(-) Description

Title :  C-TERMINAL CYSTEINE RICH DOMAIN OF HUMAN CHFR BOUND TO AMP
 
Authors :  J. Oberoi, R. Bayliss
Date :  24 Aug 10  (Deposition) - 29 Sep 10  (Release) - 07 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.37
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Ligase, Zinc-Binding, Pbz, Poly(Adp-Ribose) Binding, Mitosis, Antephase Checkpoint (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Oberoi, M. W. Richards, S. Crumpler, N. Brown, J. Blagg, R. Bayliss
Structural Basis Of Poly(Adp-Ribose) Recognition By The Multizinc Binding Domain Of Checkpoint With Forkhead-Associated And Ring Domains (Chfr).
J. Biol. Chem. V. 285 39348 2010
PubMed-ID: 20880844  |  Reference-DOI: 10.1074/JBC.M110.159855

(-) Compounds

Molecule 1 - E3 UBIQUITIN-PROTEIN LIGASE CHFR
    ChainsA, B
    EC Number6.3.2.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System VariantCODONPLUS RIL
    FragmentCYSTEINE-RICH REGION, RESIDUES 407-664
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCHFR, CHECKPOINT WITH FORKHEAD AND RING FINGER DOMAINS PROTEIN, RING FINGER PROTEIN 196

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 12)

Asymmetric Unit (2, 12)
No.NameCountTypeFull Name
1AMP2Ligand/IonADENOSINE MONOPHOSPHATE
2ZN10Ligand/IonZINC ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1AMP-1Ligand/IonADENOSINE MONOPHOSPHATE
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 2)
No.NameCountTypeFull Name
1AMP2Ligand/IonADENOSINE MONOPHOSPHATE
2ZN-1Ligand/IonZINC ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWARECYS A:428 , CYS A:431 , CYS A:476 , HIS A:482BINDING SITE FOR RESIDUE ZN A 991
02AC2SOFTWARECYS A:485 , CYS A:488 , CYS A:518 , CYS A:524BINDING SITE FOR RESIDUE ZN A 992
03AC3SOFTWARECYS A:487 , CYS A:524 , CYS A:529 , CYS A:532BINDING SITE FOR RESIDUE ZN A 993
04AC4SOFTWARECYS A:510 , CYS A:513 , CYS A:601 , CYS A:604BINDING SITE FOR RESIDUE ZN A 994
05AC5SOFTWARECYS A:635 , CYS A:641 , HIS A:649 , HIS A:655BINDING SITE FOR RESIDUE ZN A 995
06AC6SOFTWARECYS B:428 , CYS B:431 , CYS B:476 , HIS B:482BINDING SITE FOR RESIDUE ZN B 991
07AC7SOFTWARECYS B:485 , CYS B:488 , CYS B:518 , CYS B:524BINDING SITE FOR RESIDUE ZN B 992
08AC8SOFTWARECYS B:487 , CYS B:524 , CYS B:529 , CYS B:532BINDING SITE FOR RESIDUE ZN B 993
09AC9SOFTWARECYS B:510 , CYS B:513 , CYS B:601 , CYS B:604BINDING SITE FOR RESIDUE ZN B 994
10BC1SOFTWARECYS B:635 , CYS B:641 , HIS B:649 , HIS B:655BINDING SITE FOR RESIDUE ZN B 995
11BC2SOFTWAREASP B:634 , CYS B:635 , TYR B:636 , PHE B:653BINDING SITE FOR RESIDUE AMP B1664
12BC3SOFTWARELEU A:588 , TRP B:637 , CYS B:641 , ARG B:642 , THR B:643 , HOH B:2108BINDING SITE FOR RESIDUE AMP B1665

(-) SS Bonds  (2, 2)

Asymmetric Unit
No.Residues
1A:444 -B:603
2A:603 -B:444

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2XOZ)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (3, 6)

Asymmetric Unit (3, 6)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_017585A497VCHFR_HUMANPolymorphism2306541A/BV497V
2UniProtVAR_017586F536SCHFR_HUMANUnclassified  ---A/BF536S
3UniProtVAR_017587V580MCHFR_HUMANPolymorphism2306536A/BV580M

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (3, 3)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_017585A497VCHFR_HUMANPolymorphism2306541AV497V
2UniProtVAR_017586F536SCHFR_HUMANUnclassified  ---AF536S
3UniProtVAR_017587V580MCHFR_HUMANPolymorphism2306536AV580M

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 2 (3, 3)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_017585A497VCHFR_HUMANPolymorphism2306541BV497V
2UniProtVAR_017586F536SCHFR_HUMANUnclassified  ---BF536S
3UniProtVAR_017587V580MCHFR_HUMANPolymorphism2306536BV580M

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2XOZ)

(-) Exons   (0, 0)

(no "Exon" information available for 2XOZ)

(-) 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:213
 aligned with CHFR_HUMAN | Q96EP1 from UniProtKB/Swiss-Prot  Length:664

    Alignment length:240
                                   433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663
           CHFR_HUMAN   424 PYVVCRQCPEYRRQAAQPPHCPAPEGEPGAPQALGDAPSTSVSLTTAVQDYVCPLQGSHALCTCCFQPMPDRRAEREQDPRVAPQQCAVCLQPFCHLYWGCTRTGCYGCLAPFCELNLGDKCLDGVLNNNSYESDILKNYLATRGLTWKNMLTESLVALQRGVFLLSDYRVTGDTVLCYCCGLRSFRELTYQYRQNIPASELPVAVTSRPDCYWGRNCRTQVKAHHAMKFNHICEQTRFK 663
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ........hhhhhhh.......---------------------------.........eee......eee.hhhhhhh................hhhhhh.........eee.hhh.............hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..............eeehhhhhhhhhhhhhhhhhh.hhhhhhhhhhh.....hhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------V--------------------------------------S-------------------------------------------M----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2xoz A 424 PYVVCRQCPEYRRQAAQPPHCP---------------------------DYVCPLQGSHALCTCCFQPMPDRRVEREQDPRVAPQQCAVCLQPFCHLYWGCTRTGCYGCLAPFCELNLGDKCLDGVLNNNSYESDILKNYLATRGLTWKNMLTESLVALQRGVFLLSDYRVTGDTVLCYCCGLRSFRELTYQYRQNIPASELPVAVTSRPDCYWGRNCRTQVKAHHAMKFNHICEQTRFK 663
                                   433       443 |       -         -       473       483       493       503       513       523       533       543       553       563       573       583       593       603       613       623       633       643       653       663
                                               445                         473                                                                                                                                                                                              

Chain B from PDB  Type:PROTEIN  Length:212
 aligned with CHFR_HUMAN | Q96EP1 from UniProtKB/Swiss-Prot  Length:664

    Alignment length:239
                                   434       444       454       464       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654         
           CHFR_HUMAN   425 YVVCRQCPEYRRQAAQPPHCPAPEGEPGAPQALGDAPSTSVSLTTAVQDYVCPLQGSHALCTCCFQPMPDRRAEREQDPRVAPQQCAVCLQPFCHLYWGCTRTGCYGCLAPFCELNLGDKCLDGVLNNNSYESDILKNYLATRGLTWKNMLTESLVALQRGVFLLSDYRVTGDTVLCYCCGLRSFRELTYQYRQNIPASELPVAVTSRPDCYWGRNCRTQVKAHHAMKFNHICEQTRFK 663
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .......hhhhhh........---------------------------.........eee......eee.hhhhhhhh...............hhhhhh.........eee.hhh.............hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..............eeehhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------V--------------------------------------S-------------------------------------------M----------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2xoz B 425 YVVCRQCPEYRRQAAQPPHCP---------------------------DYVCPLQGSHALCTCCFQPMPDRRVEREQDPRVAPQQCAVCLQPFCHLYWGCTRTGCYGCLAPFCELNLGDKCLDGVLNNNSYESDILKNYLATRGLTWKNMLTESLVALQRGVFLLSDYRVTGDTVLCYCCGLRSFRELTYQYRQNIPASELPVAVTSRPDCYWGRNCRTQVKAHHAMKFNHICEQTRFK 663
                                   434       444|        -         -       474       484       494       504       514       524       534       544       554       564       574       584       594       604       614       624       634       644       654         
                                              445                         473                                                                                                                                                                                              

   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 2XOZ)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2XOZ)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2XOZ)

(-) Gene Ontology  (20, 20)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (CHFR_HUMAN | Q96EP1)
molecular function
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0061630    ubiquitin protein ligase activity    Catalysis of the transfer of ubiquitin to a substrate protein via the reaction X-ubiquitin + S -> X + S-ubiquitin, where X is either an E2 or E3 enzyme, the X-ubiquitin linkage is a thioester bond, and the S-ubiquitin linkage is an amide bond: an isopeptide bond between the C-terminal glycine of ubiquitin and the epsilon-amino group of lysine residues in the substrate or, in the linear extension of ubiquitin chains, a peptide bond the between the C-terminal glycine and N-terminal methionine of ubiquitin residues.
    GO:0004842    ubiquitin-protein transferase activity    Catalysis of the transfer of ubiquitin from one protein to another via the reaction X-Ub + Y --> Y-Ub + X, where both X-Ub and Y-Ub are covalent linkages.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0051301    cell division    The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
    GO:0000278    mitotic cell cycle    Progression through the phases of the mitotic cell cycle, the most common eukaryotic cell cycle, which canonically comprises four successive phases called G1, S, G2, and M and includes replication of the genome and the subsequent segregation of chromosomes into daughter cells. In some variant cell cycles nuclear replication or nuclear division may not be followed by cell division, or G1 and G2 phases may be absent.
    GO:0007093    mitotic cell cycle checkpoint    A cell cycle checkpoint that ensures accurate chromosome replication and segregation by preventing progression through a mitotic cell cycle until conditions are suitable for the cell to proceed to the next stage.
    GO:0019941    modification-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent modification of the target protein.
    GO:0032436    positive regulation of proteasomal ubiquitin-dependent protein catabolic process    Any process that activates or increases the frequency, rate or extent of the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of ubiquitin, and mediated by the proteasome.
    GO:0031398    positive regulation of protein ubiquitination    Any process that activates or increases the frequency, rate or extent of the addition of ubiquitin groups to a protein.
    GO:0031648    protein destabilization    Any process that decreases the stability of a protein, making it more vulnerable to degradative processes or aggregation.
    GO:0000209    protein polyubiquitination    Addition of multiple ubiquitin groups to a protein, forming a ubiquitin chain.
    GO:0016567    protein ubiquitination    The process in which one or more ubiquitin groups are added to a protein.
    GO:0006511    ubiquitin-dependent protein catabolic process    The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of a ubiquitin group, or multiple ubiquitin groups, to the protein.
cellular component
    GO:0016605    PML body    A class of nuclear body; they react against SP100 auto-antibodies (PML, promyelocytic leukemia); cells typically contain 10-30 PML bodies per nucleus; alterations in the localization of PML bodies occurs after viral infection.
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

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 Related Entries

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

UniProtKB/Swiss-Prot
        CHFR_HUMAN | Q96EP11lgp 1lgq 2xoc 2xoy 2xp0

(-) Related Entries Specified in the PDB File

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1lgq CRYSTAL STRUCTURE OF THE FHA DOMAIN OF THE CHFR MITOTIC CHECKPOINT PROTEIN
2xoc C-TERMINAL CYSTEINE-RICH DOMAIN OF HUMAN CHFR BOUND TO MADPR
2xoy C-TERMINAL CYSTEINE-RICH DOMAIN OF HUMAN CHFR BOUND TO P(1),P(2)-DIADENOSINE-5'-PYROPHOSPHATE
2xp0 C-TERMINAL CYSTEINE-RICH DOMAIN OF HUMAN CHFR