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(-) Description

Title :  CALPONIN HOMOLOGY (CH) DOMAIN FROM HUMAN BETA-SPECTRIN AT 1.1 ANGSTROM RESOLUTION
 
Authors :  K. Djinovic Carugo, S. Banuelos, M. Saraste
Date :  10 Jul 98  (Deposition) - 15 Jul 98  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Filamentous Actin-Binding Domain, Cytoskeleton (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. Banuelos, M. Saraste, K. D. Carugo
Structural Comparisons Of Calponin Homology Domains: Implications For Actin Binding.
Structure V. 6 1419 1998
PubMed-ID: 9817844  |  Reference-DOI: 10.1016/S0969-2126(98)00141-5
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - SPECTRIN BETA CHAIN
    CellNON-ERYTHROCYTE
    Cellular LocationCYTOSKELETAL PROTEIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21
    Expression System PlasmidPBAT4
    Expression System StrainBL21
    Expression System Taxid511693
    Expression System Vector TypePLASMID
    FragmentF-ACTIN BINDING DOMAIN RESIDUES 173 - 281
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymCALPONIN HOMOLOGY (CH) DOMAIN

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1BKR)

(-) Sites  (0, 0)

(no "Site" information available for 1BKR)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1BKR)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1BKR)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1BKR)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CHPS50021 Calponin homology domain profile.SPTB2_HUMAN54-158
173-275
  1-
A:2-104

(-) Exons   (4, 4)

Asymmetric/Biological Unit (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003568051ENSE00001404051chr2:54683422-54683655234SPTB2_HUMAN-00--
1.3ENST000003568053ENSE00001324724chr2:54753509-54753703195SPTB2_HUMAN1-50500--
1.5ENST000003568055ENSE00001622258chr2:54826229-54826380152SPTB2_HUMAN50-100510--
1.6ENST000003568056ENSE00001602301chr2:54839298-54839471174SPTB2_HUMAN101-158580--
1.7ENST000003568057ENSE00001795679chr2:54843344-5484343592SPTB2_HUMAN159-189311A:2-1817
1.8ENST000003568058ENSE00001070394chr2:54844745-5484482581SPTB2_HUMAN189-216281A:18-4528
1.9ENST000003568059ENSE00001070405chr2:54845215-54845330116SPTB2_HUMAN216-255401A:45-8440
1.10ENST0000035680510ENSE00001688809chr2:54848537-54848649113SPTB2_HUMAN255-292381A:84-10926
1.11ENST0000035680511ENSE00001036019chr2:54849437-54849624188SPTB2_HUMAN293-355630--
1.12ENST0000035680512ENSE00001036026chr2:54850616-54850733118SPTB2_HUMAN355-394400--
1.13ENST0000035680513ENSE00001036038chr2:54851941-54852099159SPTB2_HUMAN395-447530--
1.14ENST0000035680514ENSE00001070402chr2:54853069-54853371303SPTB2_HUMAN448-5481010--
1.15ENST0000035680515ENSE00001070397chr2:54855234-54855387154SPTB2_HUMAN549-600520--
1.16bENST0000035680516bENSE00001070404chr2:54856070-54856940871SPTB2_HUMAN600-8902910--
1.17ENST0000035680517ENSE00001070403chr2:54857029-54857166138SPTB2_HUMAN890-936470--
1.18ENST0000035680518ENSE00001070398chr2:54857992-54858748757SPTB2_HUMAN936-11882530--
1.19ENST0000035680519ENSE00001070390chr2:54859703-54859905203SPTB2_HUMAN1189-1256680--
1.20ENST0000035680520ENSE00001036013chr2:54864850-5486494091SPTB2_HUMAN1256-1286310--
1.21ENST0000035680521ENSE00001756075chr2:54870120-54870266147SPTB2_HUMAN1287-1335490--
1.22ENST0000035680522ENSE00001507426chr2:54871460-54871723264SPTB2_HUMAN1336-1423880--
1.23ENST0000035680523ENSE00001036016chr2:54872366-54872590225SPTB2_HUMAN1424-1498750--
1.24ENST0000035680524ENSE00001036040chr2:54873065-5487315490SPTB2_HUMAN1499-1528300--
1.25ENST0000035680525ENSE00001036008chr2:54873331-54873612282SPTB2_HUMAN1529-1622940--
1.26ENST0000035680526ENSE00001036039chr2:54874268-54874398131SPTB2_HUMAN1623-1666440--
1.27ENST0000035680527ENSE00001507425chr2:54876123-54876327205SPTB2_HUMAN1666-1734690--
1.28ENST0000035680528ENSE00001036020chr2:54876752-54877126375SPTB2_HUMAN1735-18591250--
1.29bENST0000035680529bENSE00001070399chr2:54880746-54880990245SPTB2_HUMAN1860-1941820--
1.30ENST0000035680530ENSE00001070400chr2:54882207-54882345139SPTB2_HUMAN1941-1987470--
1.31ENST0000035680531ENSE00001070393chr2:54883051-5488313585SPTB2_HUMAN1988-2016290--
1.32ENST0000035680532ENSE00001070408chr2:54884987-54885183197SPTB2_HUMAN2016-2081660--
1.33ENST0000035680533ENSE00001303035chr2:54886291-54886403113SPTB2_HUMAN2082-2119380--
1.34aENST0000035680534aENSE00001289535chr2:54887073-5488713664SPTB2_HUMAN2119-2140220--
1.35bENST0000035680535bENSE00001306451chr2:54891590-54891828239SPTB2_HUMAN2141-2220800--
1.36ENST0000035680536ENSE00001328576chr2:54893052-54893225174SPTB2_HUMAN2220-2278590--
1.37ENST0000035680537ENSE00001304810chr2:54894741-5489478343SPTB2_HUMAN2278-2292150--
1.38bENST0000035680538bENSE00001332209chr2:54895488-548968121325SPTB2_HUMAN2293-2364720--

(-) 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:108
 aligned with SPTB2_HUMAN | Q01082 from UniProtKB/Swiss-Prot  Length:2364

    Alignment length:108
                                   182       192       202       212       222       232       242       252       262       272        
          SPTB2_HUMAN   173 KSAKDALLLWCQMKTAGYPNVNIHNFTTSWRDGMAFNALIHKHRPDLIDFDKLKKSNAHYNLQNAFNLAEQHLGLTKLLDPEDISVDHPDEKSIITYVVTYYHYFSKM 280
               SCOP domains d1bkra_ A: beta-spectrin                                                                                     SCOP domains
               CATH domains 1bkrA00 A:2-109 Actin-binding Protein, T-fimbrin; domain 1                                                   CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh.............hhh...hhhhhhhhhh.hhh..hhh.....hhhhhhhhhhhhhhhh.......hhhh......hhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE CH  PDB: A:2-104 UniProt: 173-275                                                                      ----- PROSITE
           Transcript 1 (1) Exon 1.7         -----------------------------------------------------------------Exon 1.10  PDB: A:84-109   Transcript 1 (1)
           Transcript 1 (2) ----------------Exon 1.8  PDB: A:18-45      ---------------------------------------------------------------- Transcript 1 (2)
           Transcript 1 (3) -------------------------------------------Exon 1.9  PDB: A:45-84 UniProt: 216-255 ------------------------- Transcript 1 (3)
                 1bkr A   2 KSAKDALLLWCQMKTAGYPNVNIHNFTTSWRDGMAFNALIHKHRPDLIDFDKLKKSNAHYNLQNAFNLAEQHLGLTKLLDPEDISVDHPDEKSIITYVVTYYHYFSKM 109
                                    11        21        31        41        51        61        71        81        91       101        

   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  (1, 1)

Asymmetric/Biological Unit

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1BKR)

(-) Gene Ontology  (37, 37)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (SPTB2_HUMAN | Q01082)
molecular function
    GO:0051020    GTPase binding    Interacting selectively and non-covalently with a GTPase, any enzyme that catalyzes the hydrolysis of GTP.
    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:0030506    ankyrin binding    Interacting selectively and non-covalently with ankyrin, a 200 kDa cytoskeletal protein that attaches other cytoskeletal proteins to integral membrane proteins.
    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:0005543    phospholipid binding    Interacting selectively and non-covalently with phospholipids, a class of lipids containing phosphoric acid as a mono- or diester.
    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:0005200    structural constituent of cytoskeleton    The action of a molecule that contributes to the structural integrity of a cytoskeletal structure.
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:0043001    Golgi to plasma membrane protein transport    The directed movement of proteins from the Golgi to the plasma membrane in transport vesicles that move from the trans-Golgi network to the plasma membrane.
    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:0007184    SMAD protein import into nucleus    The directed movement of a SMAD proteins from the cytoplasm into the nucleus. Pathway-restricted SMAD proteins and common-partner SMAD proteins are involved in the transforming growth factor beta receptor signaling pathways.
    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:0007182    common-partner SMAD protein phosphorylation    The process of introducing a phosphate group on to a common-partner SMAD protein. A common partner SMAD protein binds to pathway-restricted SMAD proteins forming a complex that translocates to the nucleus.
    GO:0071709    membrane assembly    The aggregation, arrangement and bonding together of a set of components to form a membrane.
    GO:0000281    mitotic cytokinesis    A cell cycle process that results in the division of the cytoplasm of a cell after mitosis, resulting in the separation of the original cell into two daughter cells.
    GO:0007009    plasma membrane organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of the plasma membrane.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:1900042    positive regulation of interleukin-2 secretion    Any process that activates or increases the frequency, rate or extent of interleukin-2 secretion.
    GO:1903078    positive regulation of protein localization to plasma membrane    Any process that activates or increases the frequency, rate or extent of protein localization to plasma membrane.
    GO:0072661    protein targeting to plasma membrane    The process of directing proteins towards the plasma membrane; usually uses signals contained within the protein.
    GO:1903076    regulation of protein localization to plasma membrane    Any process that modulates the frequency, rate or extent of protein localization to plasma membrane.
cellular component
    GO:0031430    M band    The midline of aligned thick filaments in a sarcomere; location of specific proteins that link thick filaments. Depending on muscle type the M band consists of different numbers of M lines.
    GO:0030673    axolemma    The portion of the plasma membrane surrounding an axon; it is a specialized trilaminar random mosaic of protein molecules floating within a fluid matrix of highly mobile phospholipid molecules, 7-8 nm in thickness.
    GO:0030863    cortical cytoskeleton    The portion of the cytoskeleton that lies just beneath the plasma membrane.
    GO:0032437    cuticular plate    A dense network of actin filaments found beneath the apical cell surface of hair cells, and into which stereocilia are inserted.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    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: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.
    GO:0014731    spectrin-associated cytoskeleton    The part of the cytoskeleton composed of spectrin, protein 4.1 and ankyrin. Spectrin-associated cytoskeleton is associated with the plasma membrane.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SPTB2_HUMAN | Q010821aa2 3edv

(-) Related Entries Specified in the PDB File

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