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(-) Description

Title :  CRYSTAL STRUCTURE OF THE MOUSE CONDENSIN HINGE DOMAIN
 
Authors :  J. J. Griese, K. -P. Hopfner
Date :  21 Dec 09  (Deposition) - 16 Feb 10  (Release) - 09 Jun 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.51
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Maintenance Of Chromosomes (Smc), Hinge Domain, Cell Cycle, Cell Division, Cytoplasm, Dna Condensation, Mitosis, Nucleus (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. J. Griese, G. Witte, K. -P. Hopfner
Structure And Dna Binding Activity Of The Mouse Condensin Hinge Domain Highlight Common And Diverse Features Of Smc Proteins
Nucleic Acids Res. V. 38 3454 2010
PubMed-ID: 20139420  |  Reference-DOI: 10.1093/NAR/GKQ038

(-) Compounds

Molecule 1 - STRUCTURAL MAINTENANCE OF CHROMOSOMES PROTEIN 2
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET21
    Expression System StrainROSETTA (DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentHINGE DOMAIN, RESIDUES 506-666
    GeneSMC2 (AMINO ACIDS 506-666)
    Organism CommonMOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    SynonymSMC2, CHROMOSOME-ASSOCIATED PROTEIN E, XCAP-E HOMOLOG, FGF- INDUCIBLE PROTEIN 16
 
Molecule 2 - STRUCTURAL MAINTENANCE OF CHROMOSOMES PROTEIN 4
    ChainsB
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET21
    Expression System StrainROSETTA (DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentHINGE DOMAIN, RESIDUES 595-752
    GeneSMC4 (AMINO ACIDS 595-752)
    Organism CommonMOUSE
    Organism ScientificMUS MUSCULUS
    Organism Taxid10090
    SynonymSMC4, CHROMOSOME-ASSOCIATED POLYPEPTIDE C, XCAP-C HOMOLOG

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 12)
No.NameCountTypeFull Name
1GOL6Ligand/IonGLYCEROL
2MSE6Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:565 , HOH B:57 , HOH B:368 , ARG B:729 , GLN B:741 , GLU B:754BINDING SITE FOR RESIDUE GOL B 401
2AC2SOFTWAREGLU A:547 , TYR A:550 , ASN A:551 , ARG A:571 , TYR A:573 , THR A:574BINDING SITE FOR RESIDUE GOL A 402
3AC3SOFTWAREHOH B:250 , HOH B:311 , TYR B:707 , ARG B:711 , ASP B:712 , HIS B:758BINDING SITE FOR RESIDUE GOL B 403
4AC4SOFTWAREHOH A:11 , HOH A:76 , ARG A:584 , CYS A:585 , ILE A:586 , THR A:626 , THR A:647BINDING SITE FOR RESIDUE GOL A 404
5AC5SOFTWAREHOH A:365 , HOH A:366 , ASN A:531 , ASP A:611 , TYR A:612BINDING SITE FOR RESIDUE GOL A 405
6AC6SOFTWAREHOH A:82 , HOH A:365 , LYS A:533 , VAL A:610 , ASP A:611 , TYR A:612BINDING SITE FOR RESIDUE GOL A 406

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3L51)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3L51)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3L51)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3L51)

(-) Exons   (0, 0)

(no "Exon" information available for 3L51)

(-) Sequences/Alignments

Asymmetric/Biological 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:155
 aligned with SMC2_MOUSE | Q8CG48 from UniProtKB/Swiss-Prot  Length:1191

    Alignment length:155
                                   515       525       535       545       555       565       575       585       595       605       615       625       635       645       655     
           SMC2_MOUSE   506 LQFAYKDPEKNWNRNSVKGLVASLINVKDNSTATALEVVAGERLYNVVVDTEVTAKKLLEKGELKRRYTIIPLNKISARCIAPETLRVAQNLVGPDNVHVALSLVDYKPELQKGMEFVFGTTFVCNNMDNAKKVAFDKRIMTRTVTLGGDVFDPH 660
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) SMC_N-3l51A01 A:506-660                                                                                                                                     Pfam domains (1)
           Pfam domains (2) -------------SMC_hinge-3l51A02 A:519-640                                                                                               -------------------- Pfam domains (2)
         Sec.struct. author ............hhh.eeee.hhh.ee.hhhhhhhhhhhhhhhhh.eee.hhhhhhhhhhhh.....eeeee.........hhhhhhhhhhhhh...eee....ee.hhhhhhhhhhhhh..eee.hhhhhhhhhhh......eee....ee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3l51 A 506 LQFAYKDPEKNWNRNSVKGLVASLINVKDNSTATALEVVAGERLYNVVVDTEVTAKKLLEKGELKRRYTIIPLNKISARCIAPETLRVAQNLVGPDNVHVALSLVDYKPELQKGmEFVFGTTFVCNNmDNAKKVAFDKRImTRTVTLGGDVFDPH 660
                                   515       525       535       545       555       565       575       585       595       605       615    |  625       635       645|      655     
                                                                                                                                            620-MSE      633-MSE      646-MSE          

Chain B from PDB  Type:PROTEIN  Length:166
 aligned with SMC4_MOUSE | Q8CG47 from UniProtKB/Swiss-Prot  Length:1286

    Alignment length:194
                                   604       614       624       634       644       654       664       674       684       694       704       714       724       734       744       754       764       774       784    
           SMC4_MOUSE   595 GKVLDAIIQEKKSGRIPGIYGRLGDLGAIDEKYDIAISSCCHALDYIVVDSIDTAQECVNFLKKHNIGIATFIGLDKMTVWAKKMSKIQTPENTPRLFDLVKVKNEEIRQAFYFALRDTLVANNLDQATRVAYQRDRRWRVVTLQGQIIEQSGTMSGGGSKVMRGRMGSSVIDEISVEEVNKMESQLERHSKQA 788
               SCOP domains d3l51b_ B: automated matches                                                                                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) SMC_N-3l51B01 B:595-752                                                                                                                                       ------------------------------------ Pfam domains (1)
           Pfam domains (2) ---------------SMC_hinge-3l51B02 B:610-726                                                                                          -------------------------------------------------------------- Pfam domains (2)
         Sec.struct. author hhhhhhhhhhhhhh....eeee.hhh...hhhhhhhhhhhhhhhh.eee.hhhhhhhhhhhhhhh......eee.hhhhhhh.......hhhhh.hhhhhh...hhhhhhhhhhhhh..eee.hhhhhhhhhh.......eee....ee.....eee.----------------------------hhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3l51 B 595 GKVLDAIIQEKKSGRIPGIYGRLGDLGAIDEKYDIAISSCCHALDYIVVDSIDTAQECVNFLKKHNIGIATFIGLDKmTVWAKKmSKIQTPENTPRLFDLVKVKNEEIRQAFYFALRDTLVANNLDQATRVAYQRDRRWRVVTLQGQIIEQSGTmSGG----------------------------LEHHHHHH 760
                                   604       614       624       634       644       654       664       674    |  684       694       704       714       724       734       744    |  | -         -         -      |756    
                                                                                                       672-MSE  |                                                                   749-MSE                         753       
                                                                                                              679-MSE                                                                  752                                    

   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, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3L51)

(-) Pfam Domains  (2, 4)

Asymmetric/Biological Unit

(-) Gene Ontology  (21, 37)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SMC2_MOUSE | Q8CG48)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    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:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
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:0030261    chromosome condensation    The progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells.
    GO:0051276    chromosome organization    A process that is carried out at the cellular level that results in the assembly, arrangement of constituent parts, or disassembly of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information. This term covers covalent modifications at the molecular level as well as spatial relationships among the major components of a chromosome.
    GO:0051383    kinetochore organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the kinetochore, a multisubunit complex that is located at the centromeric region of DNA and provides an attachment point for the spindle microtubules.
    GO:0010032    meiotic chromosome condensation    Compaction of chromatin structure prior to meiosis in eukaryotic cells.
    GO:0045132    meiotic chromosome segregation    The process in which genetic material, in the form of chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets during M phase of the meiotic cell cycle.
    GO:0007076    mitotic chromosome condensation    The cell cycle process in which chromatin structure is compacted prior to and during mitosis in eukaryotic cells.
cellular component
    GO:0005694    chromosome    A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
    GO:0000793    condensed chromosome    A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure.
    GO:0000796    condensin complex    A multisubunit protein complex that plays a central role in chromosome condensation.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0000228    nuclear chromosome    A chromosome that encodes the nuclear genome and is found in the nucleus of a eukaryotic cell during the cell cycle phases when the nucleus is intact.
    GO:0005730    nucleolus    A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome.
    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.

Chain B   (SMC4_MOUSE | Q8CG47)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    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:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
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:0030261    chromosome condensation    The progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells.
    GO:0051276    chromosome organization    A process that is carried out at the cellular level that results in the assembly, arrangement of constituent parts, or disassembly of chromosomes, structures composed of a very long molecule of DNA and associated proteins that carries hereditary information. This term covers covalent modifications at the molecular level as well as spatial relationships among the major components of a chromosome.
    GO:0051383    kinetochore organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the kinetochore, a multisubunit complex that is located at the centromeric region of DNA and provides an attachment point for the spindle microtubules.
    GO:0010032    meiotic chromosome condensation    Compaction of chromatin structure prior to meiosis in eukaryotic cells.
    GO:0045132    meiotic chromosome segregation    The process in which genetic material, in the form of chromosomes, is organized into specific structures and then physically separated and apportioned to two or more sets during M phase of the meiotic cell cycle.
    GO:0007076    mitotic chromosome condensation    The cell cycle process in which chromatin structure is compacted prior to and during mitosis in eukaryotic cells.
cellular component
    GO:0005694    chromosome    A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
    GO:0000796    condensin complex    A multisubunit protein complex that plays a central role in chromosome condensation.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    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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