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(-) Description

Title :  CRYSTAL STRUCTURE OF MICROTUBULE BINDING DOMAIN OF HUMAN EB3
 
Authors :  C. O. De Groot, S. Honnappa, M. O. Steinmetz
Date :  27 Mar 08  (Deposition) - 17 Mar 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.40
Chains :  Asym./Biol. Unit :  A
Keywords :  Rp/Eb Family, Ch Domain, Microtubule-Binding, +Tip Protein, Cell Cycle, Cell Division, Mitosis, Phosphoprotein, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Y. Komarova, C. O. De Groot, I. Grigoriev, S. M. Gouveia, E. L. Munteanu, J. M. Schober, S. Honnappa, R. M. Buey, C. C. Hoogenraad M. Dogterom, G. G. Borisy, M. O. Steinmetz, A. Akhmanova
Mammalian End Binding Proteins Control Persistent Microtubule Growth.
J. Cell Biol. 2009
PubMed-ID: 19255245  |  Reference-DOI: 10.1083/JCB.200807179

(-) Compounds

Molecule 1 - MICROTUBULE-ASSOCIATED PROTEIN RP/EB FAMILY MEMBER 3
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21 DE(3)
    Expression System Taxid: 562
    Fragment: CH DOMAIN
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Other Details: INVITROGEN GATEWAY
    Synonym: END-BINDING PROTEIN 3, EB3, EB1 PROTEIN FAMILY MEMBER 3, EBF3, RP3

 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 3CO1)

(-) Sites  (0, 0)

(no "Site" information available for 3CO1)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3CO1)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3CO1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3CO1)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CHPS50021 Calponin homology domain profile.MARE3_HUMAN14-116  1A:14-116

(-) Exons   (3, 3)

Asymmetric/Biological Unit (3, 3)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000002331211aENSE00001872228chr2:27193480-27193670191MARE3_HUMAN-00--
1.5aENST000002331215aENSE00002189996chr2:27245080-27245207128MARE3_HUMAN1-41411A:1-4141
1.7aENST000002331217aENSE00000731657chr2:27246200-27246345146MARE3_HUMAN41-89491A:41-8949
1.7fENST000002331217fENSE00000731724chr2:27246964-27247165202MARE3_HUMAN90-157681A:90-13041
1.8ENST000002331218ENSE00000731725chr2:27248451-27248605155MARE3_HUMAN157-208520--
1.9bENST000002331219bENSE00000809043chr2:27248748-27248900153MARE3_HUMAN209-259510--
1.10bENST0000023312110bENSE00001136297chr2:27249148-27250064917MARE3_HUMAN260-281220--

(-) 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:132
 aligned with MARE3_HUMAN | Q9UPY8 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:132
                              1                                                                                                                                 
                              |      8        18        28        38        48        58        68        78        88        98       108       118       128  
          MARE3_HUMAN     - --MAVNVYSTSVTSENLSRHDMLAWVNDSLHLNYTKIEQLCSGAAYCQFMDMLFPGCVHLRKVKFQAKLEHEYIHNFKVLQAAFKKMGVDKIIPVEKLVKGKFQDNFEFIQWFKKFFDANYDGKDYNPLLAR 130
               SCOP domains d3co1a_ A: automated matches                                                                                                         SCOP domains
               CATH domains 3co1A00 A:-1-130 Actin-binding Protein, T-fimbrin; domain 1                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .................hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh....hhhhh.....hhhhhhhhhhhhhhhhhhhh.....hhhhhhh.hhhhhhhhhhhhhhhhhhhh........... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---------------CH  PDB: A:14-116 UniProt: 14-116                                                                      -------------- PROSITE
           Transcript 1 (1) --Exon 1.5a  PDB: A:1-41 UniProt: 1-41     ------------------------------------------------Exon 1.7f  PDB: A:90-130 UniProt: 90-157  Transcript 1 (1)
           Transcript 1 (2) ------------------------------------------Exon 1.7a  PDB: A:41-89 UniProt: 41-89           ----------------------------------------- Transcript 1 (2)
                 3co1 A  -1 GSMAVNVYSTSVTSENLSRHDMLAWVNDSLHLNYTKIEQLCSGAAYCQFMDMLFPGCVHLRKVKFQAKLEHEYIHNFKVLQAAFKKMGVDKIIPVEKLVKGKFQDNFEFIQWFKKFFDANYDGKDYNPLLAR 130
                                     8        18        28        38        48        58        68        78        88        98       108       118       128
   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
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3CO1)

(-) Gene Ontology  (15, 15)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MARE3_HUMAN | Q9UPY8)
molecular function
    GO:0008017    microtubule binding    Interacting selectively and non-covalently with microtubules, filaments composed of tubulin monomers.
    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).
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:0045737    positive regulation of cyclin-dependent protein serine/threonine kinase activity    Any process that activates or increases the frequency, rate or extent of CDK activity.
    GO:1903033    positive regulation of microtubule plus-end binding    Any process that activates or increases the frequency, rate or extent of microtubule plus-end binding.
    GO:0045893    positive regulation of transcription, DNA-templated    Any process that activates or increases the frequency, rate or extent of cellular DNA-templated transcription.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005881    cytoplasmic microtubule    Any microtubule in the cytoplasm of a cell.
    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:0005874    microtubule    Any of the long, generally straight, hollow tubes of internal diameter 12-15 nm and external diameter 24 nm found in a wide variety of eukaryotic cells; each consists (usually) of 13 protofilaments of polymeric tubulin, staggered in such a manner that the tubulin monomers are arranged in a helical pattern on the microtubular surface, and with the alpha/beta axes of the tubulin subunits parallel to the long axis of the tubule; exist in equilibrium with pool of tubulin monomers and can be rapidly assembled or disassembled in response to physiological stimuli; concerned with force generation, e.g. in the spindle.
    GO:0015630    microtubule cytoskeleton    The part of the cytoskeleton (the internal framework of a cell) composed of microtubules and associated proteins.
    GO:0035371    microtubule plus-end    The growing (plus) end of a microtubule. In vitro, microtubules polymerize more quickly at the plus end than at the minus end. In vivo, microtubule growth occurs only at the plus end, and the plus end switches between periods of growth and shortening, a behavior known as dynamic instability.
    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:0048471    perinuclear region of cytoplasm    Cytoplasm situated near, or occurring around, the nucleus.

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 Related Entries

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

UniProtKB/Swiss-Prot
        MARE3_HUMAN | Q9UPY8: 1wyo 3jak 3jal 3jar 3tq7

(-) Related Entries Specified in the PDB File

1pa7 CRYSTAL STRUCTURE OF AMINO-TERMINAL MICROTUBULE BINDING DOMAIN OF EB1
1wyo SOLUTION STRUCTURE OF THE CH DOMAIN OF HUMAN MICROTUBULE- ASSOCIATED PROTEIN RP/EB FAMILY MEMBER 3