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(-) Description

Title :  CRYSTAL STRUCTURE OF HUMAN SEPTIN 7 GTPASE DOMAIN
 
Authors :  V. H. B. Serrao, F. Alessandro, H. M. Pereira, O. T Thiemann, R. C. Garra
Date :  21 Sep 11  (Deposition) - 23 Nov 11  (Release) - 21 Dec 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  3.35
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Gtpase, Septins, Cell Cycle (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  V. H. Serrao, F. Alessandro, V. E. Caldas, R. L. Marcal, H. D'Muniz Pereira, O. H. Thiemann, R. C. Garratt
Promiscuous Interactions Of Human Septins: The Gtp Binding Domain Of Sept7 Forms Filaments Within The Crystal.
Febs Lett. V. 585 3868 2011
PubMed-ID: 22064074  |  Reference-DOI: 10.1016/J.FEBSLET.2011.10.043

(-) Compounds

Molecule 1 - SEPTIN-7
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28A
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentUNP RESIDUES 48-318
    GeneSEPT7, CDC10
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCDC10 PROTEIN HOMOLOG

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
1GDP2Ligand/IonGUANOSINE-5'-DIPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:41 , LEU A:42 , GLY A:43 , LYS A:44 , SER A:45 , THR A:46 , LYS A:176 , ASP A:178 , VAL A:230 , GLY A:231 , HIS B:151 , THR B:179 , GLU B:184BINDING SITE FOR RESIDUE GDP A 500
2AC2SOFTWAREHIS A:151 , THR A:179 , GLY B:41 , LEU B:42 , GLY B:43 , LYS B:44 , SER B:45 , THR B:46 , LYS B:176 , ASP B:178 , GLY B:231BINDING SITE FOR RESIDUE GDP B 501

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3TW4)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1Leu A:225 -Pro A:226
2Arg A:272 -Thr A:273
3Val B:102 -Asp B:103
4Leu B:225 -Pro B:226

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3TW4)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3TW4)

(-) Exons   (9, 18)

Asymmetric/Biological Unit (9, 18)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1cENST000003503201cENSE00001745473chr7:35840627-35840882256SEPT7_HUMAN1-21210--
1.5cENST000003503205cENSE00001656934chr7:35872408-35872510103SEPT7_HUMAN22-56352A:30-37
B:30-37
8
8
1.6ENST000003503206ENSE00001751801chr7:35903162-35903268107SEPT7_HUMAN56-91362A:37-57
B:37-72 (gaps)
21
36
1.7ENST000003503207ENSE00001618039chr7:35912276-35912376101SEPT7_HUMAN92-125342A:74-106 (gaps)
B:73-106 (gaps)
33
34
1.8aENST000003503208aENSE00001661190chr7:35913251-35913385135SEPT7_HUMAN125-170462A:106-151
B:106-151
46
46
1.10ENST0000035032010ENSE00001622608chr7:35919433-35919550118SEPT7_HUMAN170-209402A:151-190
B:151-190
40
40
1.11ENST0000035032011ENSE00001263591chr7:35922094-3592218693SEPT7_HUMAN210-240312A:191-221 (gaps)
B:191-221 (gaps)
31
31
1.12ENST0000035032012ENSE00001606979chr7:35923501-3592359797SEPT7_HUMAN241-273332A:222-236
B:222-231
15
10
1.13ENST0000035032013ENSE00001677112chr7:35925438-3592548952SEPT7_HUMAN273-290182A:257-271
B:257-271
15
15
1.14bENST0000035032014bENSE00000832354chr7:35930278-35930403126SEPT7_HUMAN290-332432A:271-297
B:271-297
27
27
1.16bENST0000035032016bENSE00001662836chr7:35937858-35937993136SEPT7_HUMAN332-377460--
1.16fENST0000035032016fENSE00000832356chr7:35942686-35942825140SEPT7_HUMAN378-424470--
1.17aENST0000035032017aENSE00001712469chr7:35943864-359449151052SEPT7_HUMAN424-436130--

(-) 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:218
 aligned with SEPT7_HUMAN | Q16181 from UniProtKB/Swiss-Prot  Length:437

    Alignment length:268
                                    58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308        
          SEPT7_HUMAN    49 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLPLAVVGSNTIIEVNGKRVRGRQYPWGVAEVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLAA 316
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhhh....----------------.ee.....-----....eeee....--.......hhhhhhhhhhhhhhhhhhhh.............eeeeee.......hhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhhhhhh.........-------...hhhhhh.ee........--------------------.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.5c    -----------------------------------Exon 1.7  PDB: A:74-106 (gaps)    --------------------------------------------Exon 1.10  PDB: A:151-190               Exon 1.11  PDB: A:191-221 (gapsExon 1.12  PDB: A:222-236        ----------------Exon 1.14b  PDB: A:271-297  Transcript 1 (1)
           Transcript 1 (2) -------Exon 1.6  PDB: A:37-57 [INCOMPLETE] ---------------------------------Exon 1.8a  PDB: A:106-151 UniProt: 125-170    ------------------------------------------------------------------------------------------------------Exon 1.13         -------------------------- Transcript 1 (2)
                 3tw4 A  30 FEFTLMVVGESGLGKSTLINSLFLTDLY----------------VEQSKVLI-----QLLLTIVDTPGF--AVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPET-------LVKKIKDRLPLAVVGSNTII--------------------NGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLAA 297
                                    39        49       | -         -    |   79 |     |89        |- |     109       119       129       139       149       159       169       179       189       199       209       219       229      |  -         -       259       269       279       289        
                                                      57               74     81    87         98  |                                                                                                         209     217                236                  257                                        
                                                                                                 101                                                                                                                                                                                                    

Chain B from PDB  Type:PROTEIN  Length:212
 aligned with SEPT7_HUMAN | Q16181 from UniProtKB/Swiss-Prot  Length:437

    Alignment length:268
                                    58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308        
          SEPT7_HUMAN    49 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRLPLAVVGSNTIIEVNGKRVRGRQYPWGVAEVENGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLAA 316
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhhh------------------...eeeee..------..eeeee.............hhhhhhhhhhhhhhhhhhhh.............eeeeee.......hhhhhhhhhhhh...eeeeee......hhhhhhhhhhhhhhhhhhhh.........-------...hhhhhh.ee...-------------------------.....hhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) 1.5c    -----------------------------------Exon 1.7  PDB: B:73-106 (gaps)    --------------------------------------------Exon 1.10  PDB: B:151-190               Exon 1.11  PDB: B:191-221 (gapsExon 1.12  PDB: B:222-231        ----------------Exon 1.14b  PDB: B:271-297  Transcript 1 (1)
           Transcript 1 (2) -------Exon 1.6  PDB: B:37-72 (gaps)       ---------------------------------Exon 1.8a  PDB: B:106-151 UniProt: 125-170    ------------------------------------------------------------------------------------------------------Exon 1.13         -------------------------- Transcript 1 (2)
                 3tw4 B  30 FEFTLMVVGESGLGKSTLINSLFL------------------VQVEQSKVLI------LLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHEKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPET-------LVKKIKDRLPLAVVG-------------------------NGEHCDFTILRNMLIRTHMQDLKDVTNNVHYENYRSRKLAA 297
                                    39        49   |     -         -  |     79 |      89        99       109       119       129       139       149       159       169       179       189       199       209       219       229 |       -         -       259       269       279       289        
                                                  53                 72       81     88                                                                                                                      209     217           231                       257                                        

   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 3TW4)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3TW4)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3TW4)

(-) Gene Ontology  (34, 34)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (SEPT7_HUMAN | Q16181)
molecular function
    GO:0005525    GTP binding    Interacting selectively and non-covalently with GTP, guanosine triphosphate.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    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:0005198    structural molecule activity    The action of a molecule that contributes to the structural integrity of a complex or its assembly within or outside a cell.
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:0060271    cilium assembly    The assembly of a cilium, a specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface. Each cilium is bounded by an extrusion of the cytoplasmic membrane, and contains a regular longitudinal array of microtubules, anchored basally in a centriole.
    GO:0000910    cytokinesis    The division of the cytoplasm and the plasma membrane of a cell and its partitioning into two daughter cells.
    GO:1902857    positive regulation of non-motile cilium assembly    Any process that activates or increases the frequency, rate or extent of non-motile cilium assembly.
    GO:0051291    protein heterooligomerization    The process of creating protein oligomers, compounds composed of a small number, usually between three and ten, of component monomers that are not all identical. Oligomers may be formed by the polymerization of a number of monomers or the depolymerization of a large protein polymer.
    GO:0016476    regulation of embryonic cell shape    Any process that modulates the surface configuration of an embryonic cell.
cellular component
    GO:0015629    actin cytoskeleton    The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes.
    GO:0016324    apical plasma membrane    The region of the plasma membrane located at the apical end of the cell.
    GO:0005930    axoneme    The bundle of microtubules and associated proteins that forms the core of cilia (also called flagella) in eukaryotic cells and is responsible for their movements.
    GO:0042995    cell projection    A prolongation or process extending from a cell, e.g. a flagellum or axon.
    GO:0005694    chromosome    A structure composed of a very long molecule of DNA and associated proteins (e.g. histones) that carries hereditary information.
    GO:0000775    chromosome, centromeric region    The region of a chromosome that includes the centromeric DNA and associated proteins. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome.
    GO:0005929    cilium    A specialized eukaryotic organelle that consists of a filiform extrusion of the cell surface and of some cytoplasmic parts. Each cilium is largely bounded by an extrusion of the cytoplasmic (plasma) membrane, and contains a regular longitudinal array of microtubules, anchored to a basal body.
    GO:0032154    cleavage furrow    The cleavage furrow is a plasma membrane invagination at the cell division site. The cleavage furrow begins as a shallow groove and eventually deepens to divide the cytoplasm.
    GO:0000777    condensed chromosome kinetochore    A multisubunit complex that is located at the centromeric region of a condensed chromosome and provides an attachment point for the spindle microtubules.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005856    cytoskeleton    Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
    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: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:0000776    kinetochore    A multisubunit complex that is located at the centromeric region of DNA and provides an attachment point for the spindle microtubules.
    GO:0015630    microtubule cytoskeleton    The part of the cytoskeleton (the internal framework of a cell) composed of microtubules and associated proteins.
    GO:0030496    midbody    A thin cytoplasmic bridge formed between daughter cells at the end of cytokinesis. The midbody forms where the contractile ring constricts, and may persist for some time before finally breaking to complete cytokinesis.
    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.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0031105    septin complex    A protein complex containing septins. Typically, these complexes contain multiple septins and are oligomeric.
    GO:0005819    spindle    The array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during mitosis or meiosis and serves to move the duplicated chromosomes apart.
    GO:0001725    stress fiber    A contractile actin filament bundle that consists of short actin filaments with alternating polarity, cross-linked by alpha-actinin and possibly other actin bundling proteins, and with myosin present in a periodic distribution along the fiber.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SEPT7_HUMAN | Q161812qag 3t5d

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 3TW4)