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(-) Description

Title :  CRYSTAL STRUCTURE OF THE N-TERMINAL DOMAIN OF THE HUMAN PROTO-ONCOGENE NUP214/CAN
 
Authors :  J. Napetschnig, G. Blobel, A. Hoelz
Date :  11 Jan 07  (Deposition) - 06 Feb 07  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.65
Chains :  Asym./Biol. Unit :  A
Keywords :  Nh2 Terminal Domain Of Nup214/Can, X-Ray Crystallography, Beta-Propeller, Structure, Mrna Export, Npc Assembly, Leukemia, Nup214/Can Fusion, Dbp5/Ddx19, Oncoprotein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. Napetschnig, G. Blobel, A. Hoelz
Crystal Structure Of The N-Terminal Domain Of The Human Protooncogene Nup214/Can.
Proc. Natl. Acad. Sci. Usa V. 104 1783 2007
PubMed-ID: 17264208  |  Reference-DOI: 10.1073/PNAS.0610828104
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - NUCLEOPORIN 214KDA
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET28A
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    GeneNUP214
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1MES1Ligand/Ion2-(N-MORPHOLINO)-ETHANESULFONIC ACID

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:11 , LEU A:145 , HOH A:1109 , HOH A:1392BINDING SITE FOR RESIDUE MES A 1000

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OIT)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Asymmetric/Biological Unit (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_035856G424ANU214_HUMANUnclassified  ---AG424A

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (12, 12)

Asymmetric/Biological Unit (12, 12)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003594281aENSE00002184968chr9:134000948-134001136189NU214_HUMAN1-15151A:1-1515
1.4ENST000003594284ENSE00000868176chr9:134002911-134003106196NU214_HUMAN16-81661A:16-8166
1.5ENST000003594285ENSE00000868177chr9:134003719-134003870152NU214_HUMAN81-131511A:81-13151
1.7bENST000003594287bENSE00000868178chr9:134004666-134004864199NU214_HUMAN132-198671A:132-19867
1.8ENST000003594288ENSE00000868179chr9:134006153-13400622371NU214_HUMAN198-221241A:198-22124
1.9aENST000003594289aENSE00000868180chr9:134007983-13400804664NU214_HUMAN222-243221A:222-24322
1.10aENST0000035942810aENSE00000868181chr9:134008493-134008596104NU214_HUMAN243-277351A:243-27735
1.11aENST0000035942811aENSE00000868182chr9:134010285-134010391107NU214_HUMAN278-313361A:278-31336
1.12aENST0000035942812aENSE00000868183chr9:134011327-13401139367NU214_HUMAN313-335231A:313-33523
1.13bENST0000035942813bENSE00000868184chr9:134014668-134014794127NU214_HUMAN336-378431A:336-37843
1.14ENST0000035942814ENSE00000868185chr9:134015936-134016097162NU214_HUMAN378-432551A:378-43255
1.15aENST0000035942815aENSE00000868186chr9:134019667-134020141475NU214_HUMAN432-5901591A:432-4343
1.16bENST0000035942816bENSE00000868187chr9:134021516-134021691176NU214_HUMAN590-649600--
1.17bENST0000035942817bENSE00000868188chr9:134022877-13402297195NU214_HUMAN649-680320--
1.19ENST0000035942819ENSE00000868189chr9:134025711-13402579787NU214_HUMAN681-709290--
1.20ENST0000035942820ENSE00000868190chr9:134026003-134026152150NU214_HUMAN710-759500--
1.21bENST0000035942821bENSE00000868191chr9:134027123-134027281159NU214_HUMAN760-812530--
1.22ENST0000035942822ENSE00000868192chr9:134034770-134034873104NU214_HUMAN813-847350--
1.23aENST0000035942823aENSE00000868193chr9:134038378-134038560183NU214_HUMAN847-908620--
1.24ENST0000035942824ENSE00000868194chr9:134039257-13403934286NU214_HUMAN908-937300--
1.25aENST0000035942825aENSE00000868195chr9:134039448-13403953184NU214_HUMAN937-965290--
1.26aENST0000035942826aENSE00000868196chr9:134049442-134049705264NU214_HUMAN965-1053890--
1.27ENST0000035942827ENSE00000868197chr9:134050847-134051008162NU214_HUMAN1053-1107550--
1.29ENST0000035942829ENSE00001262699chr9:134053698-134053797100NU214_HUMAN1107-1140340--
1.30bENST0000035942830bENSE00000868199chr9:134062676-13406275176NU214_HUMAN1140-1165260--
1.31ENST0000035942831ENSE00000868200chr9:134064440-13406451879NU214_HUMAN1166-1192270--
1.33bENST0000035942833bENSE00000868201chr9:134067595-13406767985NU214_HUMAN1192-1220290--
1.34aENST0000035942834aENSE00000868202chr9:134070620-13407068162NU214_HUMAN1220-1241220--
1.35gENST0000035942835gENSE00000868203chr9:134072603-1340744021800NU214_HUMAN1241-18416010--
1.36ENST0000035942836ENSE00000868204chr9:134077034-13407710471NU214_HUMAN1841-1864240--
1.37ENST0000035942837ENSE00000868205chr9:134090599-134090755157NU214_HUMAN1865-1917530--
1.38bENST0000035942838bENSE00000868206chr9:134098165-134098317153NU214_HUMAN1917-1968520--
1.39bENST0000035942839bENSE00000868207chr9:134103547-134103718172NU214_HUMAN1968-2025580--
1.40cENST0000035942840cENSE00001764120chr9:134106017-134106156140NU214_HUMAN2025-2072480--
1.41aENST0000035942841aENSE00001793037chr9:134107671-13410769525NU214_HUMAN2072-208090--
1.42fENST0000035942842fENSE00001725375chr9:134108841-1341100571217NU214_HUMAN2080-2090110--

(-) 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:434
 aligned with NU214_HUMAN | P35658 from UniProtKB/Swiss-Prot  Length:2090

    Alignment length:434
                                    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       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430    
          NU214_HUMAN     1 MGDEMDAMIPEREMKDFQFRALKKVRIFDSPEELPKERSSLLAVSNKYGLVFAGGASGLQIFPTKNLLIQNKPGDDPNKIVDKVQGLLVPMKFPIHHLALSCDNLTLSACMMSSEYGSIIAFFDVRTFSNEAKQQKRPFAYHKLLKDAGGMVIDMKWNPTVPSMVAVCLADGSIAVLQVTETVKVCATLPSTVAVTSVCWSPKGKQLAVGKQNGTVVQYLPTLQEKKVIPCPPFYESDHPVRVLDVLWIGTYVFAIVYAAADGTLETSPDVVMALLPKKEEKHPEIFVNFMEPCYGSCTERQHHYYLSYIEEWDLVLAASAASTEVSILARQSDQINWESWLLEDSSRAELPVTDKSDDSLPMGVVVDYTNQVEITISDEKTLPPAPVLMLLSTDGVLCPFYMINQNPGVKSLIKTPERLSLEGERQPKSPGST 434
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........eeee..eeeee..eee...............eeee....eeeeee..eeeeeehhhhh...........eee....eee.....eeeeee.....eeeeeeee...eeeeeeeehhhhhh.........eeee...hhhh.eeeeee......eeeeee....eeeeee...eeeeeeehhhh.eeeeee......eeeee....eeee.....eeeee...........eeeeeeeeee..eeeeeeee.........eeeeee..........eeee...............eeeeeehhh.eeeeee......eeeee......eeeeee.hhhh.............eeeeeee......eeee..eee....eeeeee...eeeeeeeee............................. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------A---------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1a      Exon 1.4  PDB: A:16-81 UniProt: 16-81                             --------------------------------------------------Exon 1.7b  PDB: A:132-198 UniProt: 132-198                         --------------------------------------------Exon 1.10a  PDB: A:243-277         Exon 1.11a  PDB: A:278-313          ----------------------Exon 1.13b  PDB: A:336-378 UniProt: 336-378-----------------------------------------------------1.1 Transcript 1 (1)
           Transcript 1 (2) --------------------------------------------------------------------------------Exon 1.5  PDB: A:81-131 UniProt: 81-131            ------------------------------------------------------------------Exon 1.8  PDB: A:198-221Exon 1.9a             ---------------------------------------------------------------------Exon 1.12a             ------------------------------------------Exon 1.14  PDB: A:378-432 UniProt: 378-432             -- Transcript 1 (2)
                 2oit A   1 MGDEMDAMIPEREMKDFQFRALKKVRIFDSPEELPKERSSLLAVSNKYGLVFAGGASGLQIFPTKNLLIQNKPGDDPNKIVDKVQGLLVPMKFPIHHLALSCDNLTLSACMMSSEYGSIIAFFDVRTFSNEAKQQKRPFAYHKLLKDAGGMVIDMKWNPTVPSMVAVCLADGSIAVLQVTETVKVCATLPSTVAVTSVCWSPKGKQLAVGKQNGTVVQYLPTLQEKKVIPCPPFYESDHPVRVLDVLWIGTYVFAIVYAAADGTLETSPDVVMALLPKKEEKHPEIFVNFMEPCYGSCTERQHHYYLSYIEEWDLVLAASAASTEVSILARQSDQINWESWLLEDSSRAELPVTDKSDDSLPMGVVVDYTNQVEITISDEKTLPPAPVLMLLSTDGVLCPFYMINQNPGVKSLIKTPERLSLEGERQPKSPGST 434
                                    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       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430    

   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 2OIT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (NU214_HUMAN | P35658)
molecular function
    GO:0005049    nuclear export signal receptor activity    Combining with a nuclear export signal (NES) to mediate transport of the NES-containing protein through the nuclear pore to the cytoplasm.
    GO:0005487    nucleocytoplasmic transporter activity    Enables the directed movement of substances between the nucleus and the cytoplasm of a cell.
    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:0005215    transporter activity    Enables the directed movement of substances (such as macromolecules, small molecules, ions) into, out of or within a cell, or between cells.
biological process
    GO:0031047    gene silencing by RNA    Any process in which RNA molecules inactivate expression of target genes.
    GO:0075733    intracellular transport of virus    The directed movement of a virus, or part of a virus, within the host cell.
    GO:0006406    mRNA export from nucleus    The directed movement of mRNA from the nucleus to the cytoplasm.
    GO:0051028    mRNA transport    The directed movement of mRNA, messenger ribonucleic acid, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0007077    mitotic nuclear envelope disassembly    The cell cycle process in which the controlled breakdown of the nuclear envelope during mitotic cell division occurs.
    GO:0006611    protein export from nucleus    The directed movement of a protein from the nucleus into the cytoplasm.
    GO:0006606    protein import into nucleus    The directed movement of a protein from the cytoplasm to the nucleus.
    GO:0016925    protein sumoylation    The process in which a SUMO protein (small ubiquitin-related modifier) is conjugated to a target protein via an isopeptide bond between the carboxyl terminus of SUMO with an epsilon-amino group of a lysine residue of the target protein.
    GO:0015031    protein transport    The directed movement of proteins into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0051726    regulation of cell cycle    Any process that modulates the rate or extent of progression through the cell cycle.
    GO:1900034    regulation of cellular response to heat    Any process that modulates the frequency, rate or extent of cellular response to heat.
    GO:0010827    regulation of glucose transport    Any process that modulates the frequency, rate or extent of glucose transport. Glucose transport is the directed movement of the hexose monosaccharide glucose into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0043488    regulation of mRNA stability    Any process that modulates the propensity of mRNA molecules to degradation. Includes processes that both stabilize and destabilize mRNAs.
    GO:0006409    tRNA export from nucleus    The directed movement of tRNA from the nucleus to the cytoplasm.
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019083    viral transcription    The process by which a viral genome, or part of a viral genome, is transcribed within the host cell.
cellular component
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005925    focal adhesion    Small region on the surface of a cell that anchors the cell to the extracellular matrix and that forms a point of termination of actin filaments.
    GO:0043231    intracellular membrane-bounded organelle    Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane.
    GO:0005643    nuclear pore    Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell, where the inner and outer nuclear membranes are joined.
    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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 Related Entries

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

UniProtKB/Swiss-Prot
        NU214_HUMAN | P356583fhc 3fmo 3fmp 5dis

(-) Related Entries Specified in the PDB File

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