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(-) Description

Title :  CRYSTAL STRUCTURE OF THE N-TERMINAL REGION OF ALPHAII-SPECTRIN TETRAMERIZATION DOMAIN
 
Authors :  S. Mehboob, B. D. Santarsiero, F. Long, M. Witek, L. W. Fung
Date :  30 Oct 08  (Deposition) - 13 Oct 09  (Release) - 19 May 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A  (1x)
Biol. Unit 3:  B  (1x)
Keywords :  Lone Helix Followed By A Triple Helical Bundle, Actin Capping, Actin- Binding, Alternative Splicing, Calcium, Calmodulin-Binding, Cytoplasm, Cytoskeleton, Phosphoprotein, Polymorphism, Sh3 Domain, Spectrin, Actin Binding, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Mehboob, Y. Song, M. Witek, F. Long, B. D. Santarsiero, M. E. Johnson, L. W. Fung
Crystal Structure Of The Nonerythroid Alpha-Spectrin Tetramerization Site Reveals Differences Between Erythroid And Nonerythroid Spectrin Tetramer Formation.
J. Biol. Chem. V. 285 14572 2010
PubMed-ID: 20228407  |  Reference-DOI: 10.1074/JBC.M109.080028

(-) Compounds

Molecule 1 - SPECTRIN ALPHA CHAIN, BRAIN
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX-2T
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneSPTAN1, SPTA2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymSPECTRIN, NON-ERYTHROID ALPHA CHAIN, ALPHA-II SPECTRIN, FODRIN ALPHA CHAIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)AB
Biological Unit 2 (1x)A 
Biological Unit 3 (1x) B

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 3F31)

(-) Sites  (0, 0)

(no "Site" information available for 3F31)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3F31)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3F31)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3F31)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3F31)

(-) Exons   (3, 6)

Asymmetric Unit (3, 6)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003727311aENSE00001362268chr9:131314869-131314975107SPTN1_HUMAN-00--
1.3ENST000003727313ENSE00002152626chr9:131329017-131329256240SPTN1_HUMAN1-79792A:11-79
B:8-79
69
72
1.4ENST000003727314ENSE00001783994chr9:131331051-131331176126SPTN1_HUMAN80-121422A:80-121
B:80-121
42
42
1.5ENST000003727315ENSE00001627456chr9:131336954-131337094141SPTN1_HUMAN122-168472A:122-147
B:122-147
26
26
1.6ENST000003727316ENSE00001767008chr9:131337478-131337624147SPTN1_HUMAN169-217490--
1.7ENST000003727317ENSE00001750205chr9:131339102-131339235134SPTN1_HUMAN218-262450--
1.8ENST000003727318ENSE00001693277chr9:131339408-131339552145SPTN1_HUMAN262-310490--
1.9ENST000003727319ENSE00001796301chr9:131339631-131339785155SPTN1_HUMAN311-362520--
1.10ENST0000037273110ENSE00001679538chr9:131340389-131340524136SPTN1_HUMAN362-407460--
1.11ENST0000037273111ENSE00001597357chr9:131341916-131342017102SPTN1_HUMAN408-441340--
1.12aENST0000037273112aENSE00001740794chr9:131343201-131343338138SPTN1_HUMAN442-487460--
1.13aENST0000037273113aENSE00001651430chr9:131344061-131344171111SPTN1_HUMAN488-524370--
1.14ENST0000037273114ENSE00001613637chr9:131344758-13134483578SPTN1_HUMAN525-550260--
1.15ENST0000037273115ENSE00001790966chr9:131344973-131345128156SPTN1_HUMAN551-602520--
1.16ENST0000037273116ENSE00001683382chr9:131345356-131345560205SPTN1_HUMAN603-671690--
1.17ENST0000037273117ENSE00001704186chr9:131346067-131346248182SPTN1_HUMAN671-731610--
1.18ENST0000037273118ENSE00001611067chr9:131346561-131346804244SPTN1_HUMAN732-813820--
1.19ENST0000037273119ENSE00001612670chr9:131347000-131347122123SPTN1_HUMAN813-854420--
1.20ENST0000037273120ENSE00001777576chr9:131348027-131348244218SPTN1_HUMAN854-926730--
1.21ENST0000037273121ENSE00001776409chr9:131349885-13134997793SPTN1_HUMAN927-957310--
1.22ENST0000037273122ENSE00001627979chr9:131351088-131351222135SPTN1_HUMAN958-1002450--
1.23ENST0000037273123ENSE00001768241chr9:131353756-131353904149SPTN1_HUMAN1003-1052500--
1.24aENST0000037273124aENSE00001628507chr9:131355262-13135532160SPTN1_HUMAN1052-1072210--
1.24cENST0000037273124cENSE00001697865chr9:131356454-131356652199SPTN1_HUMAN1072-1138670--
1.25ENST0000037273125ENSE00001643835chr9:131360679-131360783105SPTN1_HUMAN1139-1173350--
1.26aENST0000037273126aENSE00001742935chr9:131361242-13136126524SPTN1_HUMAN1174-118180--
1.27bENST0000037273127bENSE00001636184chr9:131362359-13136239436SPTN1_HUMAN1182-1193120--
1.28ENST0000037273128ENSE00001614825chr9:131365822-13136586948SPTN1_HUMAN1194-1209160--
1.29ENST0000037273129ENSE00001614795chr9:131366605-13136669692SPTN1_HUMAN1210-1240310--
1.30ENST0000037273130ENSE00001724801chr9:131367313-131367457145SPTN1_HUMAN1240-1288490--
1.31ENST0000037273131ENSE00001693184chr9:131367575-131367756182SPTN1_HUMAN1289-1349610--
1.32ENST0000037273132ENSE00001599564chr9:131369883-131369982100SPTN1_HUMAN1349-1382340--
1.33bENST0000037273133bENSE00001749734chr9:131370131-131370328198SPTN1_HUMAN1383-1448660--
1.34ENST0000037273134ENSE00001720104chr9:131370409-131370555147SPTN1_HUMAN1449-1497490--
1.35ENST0000037273135ENSE00001654893chr9:131371153-131371256104SPTN1_HUMAN1498-1532350--
1.36aENST0000037273136aENSE00001729156chr9:131371401-131371563163SPTN1_HUMAN1532-1586550--
1.39ENST0000037273139ENSE00001644730chr9:131373993-131374124132SPTN1_HUMAN1587-1630440--
1.40bENST0000037273140bENSE00001771137chr9:131374388-131374525138SPTN1_HUMAN1631-1676460--
1.41ENST0000037273141ENSE00001695986chr9:131375660-131375764105SPTN1_HUMAN1677-1711350--
1.42bENST0000037273142bENSE00001697185chr9:131377911-131378119209SPTN1_HUMAN1712-1781700--
1.43ENST0000037273143ENSE00000806992chr9:131379919-131380039121SPTN1_HUMAN1781-1821410--
1.44ENST0000037273144ENSE00000730702chr9:131380266-131380387122SPTN1_HUMAN1822-1862410--
1.45ENST0000037273145ENSE00000730706chr9:131381150-131381282133SPTN1_HUMAN1862-1906450--
1.46aENST0000037273146aENSE00000806993chr9:131383437-13138353599SPTN1_HUMAN1907-1939330--
1.47aENST0000037273147aENSE00000730597chr9:131386607-131386766160SPTN1_HUMAN1940-1993540--
1.47cENST0000037273147cENSE00000730575chr9:131387382-13138745877SPTN1_HUMAN1993-2018260--
1.48bENST0000037273148bENSE00000730564chr9:131388048-131388257210SPTN1_HUMAN2019-2088700--
1.49ENST0000037273149ENSE00000730551chr9:131388670-131388966297SPTN1_HUMAN2089-2187990--
1.50aENST0000037273150aENSE00001215160chr9:131389665-131389777113SPTN1_HUMAN2188-2225380--
1.51ENST0000037273151ENSE00001752389chr9:131390204-13139022118SPTN1_HUMAN2225-223170--
1.53aENST0000037273153aENSE00000730520chr9:131392600-13139265455SPTN1_HUMAN2231-2249190--
1.54ENST0000037273154ENSE00000730509chr9:131394406-131394602197SPTN1_HUMAN2250-2315660--
1.55ENST0000037273155ENSE00000730493chr9:131394710-13139476354SPTN1_HUMAN2315-2333190--
1.56ENST0000037273156ENSE00000730476chr9:131394851-131394997147SPTN1_HUMAN2333-2382500--
1.57ENST0000037273157ENSE00000806994chr9:131395087-131395234148SPTN1_HUMAN2382-2431500--
1.58bENST0000037273158bENSE00001412968chr9:131395488-131395941454SPTN1_HUMAN2432-2472410--

(-) 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:137
 aligned with SPTN1_HUMAN | Q13813 from UniProtKB/Swiss-Prot  Length:2472

    Alignment length:137
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       
          SPTN1_HUMAN    11 TAEDIQERRQQVLDRYHRFKELSTLRRQKLEDSYRFQFFQRDAEELEKWIQEKLQIASDENYKDPTNLQGKLQKHQAFEAEVQANSGAIVKLDETGNLMISEGHFASETIRTRLMELHRQWELLLEKMREKGIKLLQ 147
               SCOP domains d3f31a_ A: automated matches                                                                                                              SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.3  PDB: A:11-79 UniProt: 1-79 [INCOMPLETE]                    Exon 1.4  PDB: A:80-121 UniProt: 80-121   Exon 1.5  PDB: A:122-147   Transcript 1
                 3f31 A  11 TAEDIQERRQQVLDRYHRFKELSTLRRQKLEDSYRFQFFQRDAEELEKWIQEKLQIASDENYKDPTNLQGKLQKHQAFEAEVQANSGAIVKLDETGNLMISEGHFASETIRTRLMELHRQWELLLEKMREKGIKLLQ 147
                                    20        30        40        50        60        70        80        90       100       110       120       130       140       

Chain B from PDB  Type:PROTEIN  Length:140
 aligned with SPTN1_HUMAN | Q13813 from UniProtKB/Swiss-Prot  Length:2472

    Alignment length:140
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147
          SPTN1_HUMAN     8 VLETAEDIQERRQQVLDRYHRFKELSTLRRQKLEDSYRFQFFQRDAEELEKWIQEKLQIASDENYKDPTNLQGKLQKHQAFEAEVQANSGAIVKLDETGNLMISEGHFASETIRTRLMELHRQWELLLEKMREKGIKLLQ 147
               SCOP domains d3f31b_ B: automated matches                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
               Transcript 1 Exon 1.3  PDB: B:8-79 UniProt: 1-79 [INCOMPLETE]                        Exon 1.4  PDB: B:80-121 UniProt: 80-121   Exon 1.5  PDB: B:122-147   Transcript 1
                 3f31 B   8 VLETAEDIQERRQQVLDRYHRFKELSTLRRQKLEDSYRFQFFQRDAEELEKWIQEKLQIASDENYKDPTNLQGKLQKHQAFEAEVQANSGAIVKLDETGNLMISEGHFASETIRTRLMELHRQWELLLEKMREKGIKLLQ 147
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147

   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, 2)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3F31)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3F31)

(-) Gene Ontology  (28, 28)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (SPTN1_HUMAN | Q13813)
molecular function
    GO:0005088    Ras guanyl-nucleotide exchange factor activity    Stimulates the exchange of guanyl nucleotides associated with a GTPase of the Ras superfamily. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase.
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0005516    calmodulin binding    Interacting selectively and non-covalently with calmodulin, a calcium-binding protein with many roles, both in the calcium-bound and calcium-free states.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0047485    protein N-terminus binding    Interacting selectively and non-covalently with a protein N-terminus, the end of any peptide chain at which the 2-amino (or 2-imino) function of a constituent amino acid is not attached in peptide linkage to another amino-acid residue.
    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:0032403    protein complex binding    Interacting selectively and non-covalently with any protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0005200    structural constituent of cytoskeleton    The action of a molecule that contributes to the structural integrity of a cytoskeletal structure.
    GO:0019905    syntaxin binding    Interacting selectively and non-covalently with a syntaxin, a SNAP receptor involved in the docking of synaptic vesicles at the presynaptic zone of a synapse.
biological process
    GO:0006888    ER to Golgi vesicle-mediated transport    The directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi.
    GO:0000165    MAPK cascade    An intracellular protein kinase cascade containing at least a MAPK, a MAPKK and a MAP3K. The cascade can also contain two additional tiers: the upstream MAP4K and the downstream MAP Kinase-activated kinase (MAPKAPK). The kinases in each tier phosphorylate and activate the kinases in the downstream tier to transmit a signal within a cell.
    GO:0031532    actin cytoskeleton reorganization    A process that is carried out at the cellular level which results in dynamic structural changes to the arrangement of constituent parts of cytoskeletal structures comprising actin filaments and their associated proteins.
    GO:0051693    actin filament capping    The binding of a protein or protein complex to the end of an actin filament, thus preventing the addition, exchange or removal of further actin subunits.
    GO:0007411    axon guidance    The chemotaxis process that directs the migration of an axon growth cone to a specific target site in response to a combination of attractive and repulsive cues.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
cellular component
    GO:0005938    cell cortex    The region of a cell that lies just beneath the plasma membrane and often, but not always, contains a network of actin filaments and associated proteins.
    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:1903561    extracellular vesicle    Any vesicle that is part of the extracellular region.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0015630    microtubule cytoskeleton    The part of the cytoskeleton (the internal framework of a cell) composed of microtubules and associated proteins.
    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:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.
    GO:0008091    spectrin    Membrane associated dimeric protein (240 and 220 kDa) of erythrocytes. Forms a complex with ankyrin, actin and probably other components of the membrane cytoskeleton, so that there is a mesh of proteins underlying the plasma membrane, potentially restricting the lateral mobility of integral proteins.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SPTN1_HUMAN | Q138132fot 3fb2 5fw9 5fwb 5fwc

(-) Related Entries Specified in the PDB File

1owa HUMAN ERYTHROCYTE ALPHA SPECTRIN N TERMINAL TETRAMERIZATION DOMAIN