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(-) Description

Title :  STRUCTURE OF THE SECOND EPS15 HOMOLOGY DOMAIN OF HUMAN EPS15, NMR, 20 STRUCTURES
 
Authors :  T. De Beer, R. E. Carter, K. E. Lobel-Rice, A. Sorkin, M. Overduin
Date :  10 Jul 98  (Deposition) - 22 Jul 99  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Calcium Binding, Signaling Domain, Npf Binding, Ef-Hand, Eh Domain (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  T. De Beer, R. E. Carter, K. E. Lobel-Rice, A. Sorkin, M. Overduin
Structure And Asn-Pro-Phe Binding Pocket Of The Eps15 Homology Domain.
Science V. 281 1357 1998
PubMed-ID: 9721102  |  Reference-DOI: 10.1126/SCIENCE.281.5381.1357
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - EPS15
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPRSETA
    Expression System StrainB834 (DE3) PLYSS AND BL21 (DE3) PLYSS
    Expression System Taxid562
    FragmentEPS15 HOMOLOGY (EH) DOMAIN 2, RESIDUES 121-218
    GeneEPS15
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsTHIS DOMAIN CONTAINS A CALCIUM BINDING SITE
    SynonymEH2, EPIDERMAL GROWTH FACTOR RECEPTOR SUBSTRATE 15

 Structural Features

(-) Chains, Units

  
NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (1, 1)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION

(-) Sites  (2, 2)

NMR Structure (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:58 , ASP A:60 , ASP A:62 , MET A:64 , GLU A:69BINDING SITE FOR RESIDUE CA A 107
2NPFUNKNOWNTRP A:54TRP 54 IS POSITIONED WITHIN A BINDING SITE FOR ASN-PRO-PHE PEPTIDES.

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1EH2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1EH2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1EH2)

(-) PROSITE Motifs  (3, 3)

NMR Structure (3, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1EHPS50031 EH domain profile.EPS15_HUMAN15-104
128-216
224-314
  1-
A:13-100
-
2EF_HAND_2PS50222 EF-hand calcium-binding domain profile.EPS15_HUMAN48-83
160-195
223-258
262-292
  1-
A:45-80
-
-
3EF_HAND_1PS00018 EF-hand calcium-binding domain.EPS15_HUMAN173-185
236-248
  1A:58-70
-

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003717331aENSE00001222072chr1:51985000-51984871130EPS15_HUMAN1-11110--
1.2ENST000003717332ENSE00001383670chr1:51946986-5194694542EPS15_HUMAN12-25140--
1.3ENST000003717333ENSE00001064522chr1:51938620-5193853190EPS15_HUMAN26-55300--
1.4ENST000003717334ENSE00001064526chr1:51937409-5193736248EPS15_HUMAN56-71160--
1.5ENST000003717335ENSE00001064523chr1:51934240-5193414596EPS15_HUMAN72-103320--
1.6bENST000003717336bENSE00001064527chr1:51930998-5193093366EPS15_HUMAN104-125221A:6-105
1.7aENST000003717337aENSE00001064524chr1:51929470-51929345126EPS15_HUMAN126-167421A:11-5242
1.8bENST000003717338bENSE00001064531chr1:51926822-5192676360EPS15_HUMAN168-187201A:53-7220
1.11ENST0000037173311ENSE00001064525chr1:51913807-5191371890EPS15_HUMAN188-217301A:73-10028
1.12ENST0000037173312ENSE00001064521chr1:51912777-51912632146EPS15_HUMAN218-266490--
1.13ENST0000037173313ENSE00001064528chr1:51910717-51910561157EPS15_HUMAN266-318530--
1.14ENST0000037173314ENSE00001064520chr1:51906104-5190601986EPS15_HUMAN319-347290--
1.15bENST0000037173315bENSE00001064519chr1:51887530-5188745873EPS15_HUMAN347-371250--
1.16ENST0000037173316ENSE00000547354chr1:51875368-51875207162EPS15_HUMAN372-425540--
1.17ENST0000037173317ENSE00000547355chr1:51874004-51873807198EPS15_HUMAN426-491660--
1.18ENST0000037173318ENSE00000772065chr1:51871780-51871577204EPS15_HUMAN492-559680--
1.19bENST0000037173319bENSE00000772064chr1:51869204-51869091114EPS15_HUMAN560-597380--
1.20ENST0000037173320ENSE00000772063chr1:51868197-5186810791EPS15_HUMAN598-628310--
1.21bENST0000037173321bENSE00000772062chr1:51866625-5186659036EPS15_HUMAN628-640130--
1.22ENST0000037173322ENSE00000772061chr1:51864837-51864704134EPS15_HUMAN640-684450--
1.24bENST0000037173324bENSE00000772060chr1:51860119-5186005367EPS15_HUMAN685-707230--
1.25ENST0000037173325ENSE00000547362chr1:51831701-5183162577EPS15_HUMAN707-732260--
1.26ENST0000037173326ENSE00000547363chr1:51829700-51829538163EPS15_HUMAN733-787550--
1.27ENST0000037173327ENSE00000547364chr1:51827027-51826843185EPS15_HUMAN787-848620--
1.28ENST0000037173328ENSE00001388890chr1:51822518-518199352584EPS15_HUMAN849-896480--

(-) Sequences/Alignments

NMR Structure
   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:95
 aligned with EPS15_HUMAN | P42566 from UniProtKB/Swiss-Prot  Length:896

    Alignment length:95
                                   130       140       150       160       170       180       190       200       210     
          EPS15_HUMAN   121 PWAVKPEDKAKYDAIFDSLSPVNGFLSGDKVKPVLLNSKLPVDILGRVWELSDIDHDGMLDRDEFAVAMFLVYCALEKEPVPMSLPPALVPPSKR 215
               SCOP domains d1eh2a_ A: Eps15                                                                                SCOP domains
               CATH domains 1eh2A00 A:6-100 EF-hand                                                                         CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhh...........hhhhhhhhh.....hhhhhhhhhhh...........hhhhhhhhhhhhhh.................. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -------EH  PDB: A:13-100 UniProt: 128-216                                                       PROSITE (1)
                PROSITE (2) ---------------------------------------EF_HAND_2  PDB: A:45-80             -------------------- PROSITE (2)
                PROSITE (3) ----------------------------------------------------EF_HAND_1    ------------------------------ PROSITE (3)
               Transcript 1 1.6b Exon 1.7a  PDB: A:11-52 UniProt: 126-167  Exon 1.8b           Exon 1.11  PDB: A:73-100     Transcript 1
                 1eh2 A   6 PWAVKPEDKAKYDAIFDSLSPVNGFLSGDKVKPVLLNSKLPVDILGRVWELSDIDHDGMLDRDEFAVAMFLVYCALEKEPVPMSLPPALVPPSKR 100
                                    15        25        35        45        55        65        75        85        95     

   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)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1EH2)

(-) Gene Ontology  (31, 31)

NMR Structure(hide GO term definitions)
Chain A   (EPS15_HUMAN | P42566)
molecular function
    GO:0017124    SH3 domain binding    Interacting selectively and non-covalently with a SH3 domain (Src homology 3) of a protein, small protein modules containing approximately 50 amino acid residues found in a great variety of intracellular or membrane-associated proteins.
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0031593    polyubiquitin modification-dependent protein binding    Interacting selectively and non-covalently with a protein upon poly-ubiquitination of the target protein.
    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:0006895    Golgi to endosome transport    The directed movement of substances from the Golgi to early sorting endosomes. Clathrin vesicles transport substances from the trans-Golgi to endosomes.
    GO:0008283    cell proliferation    The multiplication or reproduction of cells, resulting in the expansion of a cell population.
    GO:0048268    clathrin coat assembly    The process that results in the assembly of clathrin triskelia into the ordered structure known as a clathrin cage.
    GO:0032456    endocytic recycling    The directed movement of membrane-bounded vesicles from recycling endosomes back to the plasma membrane where they are recycled for further rounds of transport.
    GO:0006897    endocytosis    A vesicle-mediated transport process in which cells take up external materials or membrane constituents by the invagination of a small region of the plasma membrane to form a new membrane-bounded vesicle.
    GO:0007173    epidermal growth factor receptor signaling pathway    A series of molecular signals initiated by binding of a ligand to the tyrosine kinase receptor EGFR (ERBB1) on the surface of a cell. The pathway ends with regulation of a downstream cellular process, e.g. transcription.
    GO:0042059    negative regulation of epidermal growth factor receptor signaling pathway    Any process that stops, prevents, or reduces the frequency, rate or extent of epidermal growth factor receptor signaling pathway activity.
    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:0019065    receptor-mediated endocytosis of virus by host cell    Any receptor-mediated endocytosis that is involved in the uptake of a virus into a host cell; successive instances of virus endocytosis result in the accumulation of virus particles within the cell.
    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:0016050    vesicle organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a vesicle.
    GO:0046718    viral entry into host cell    The process that occurs after viral attachment by which a virus, or viral nucleic acid, breaches the plasma membrane or cell envelope and enters the host cell. The process ends when the viral nucleic acid is released into the host cell cytoplasm.
cellular component
    GO:0030122    AP-2 adaptor complex    A heterotetrameric AP-type membrane coat adaptor complex that consists of alpha, beta2, mu2 and sigma2 subunits, and links clathrin to the membrane surface of a vesicle, and the cargo receptors during receptor/clathrin mediated endocytosis. Vesicles with AP-2-containing coats are normally found primarily near the plasma membrane, on endocytic vesicles. In at least humans, the AP-2 complex can be heterogeneric due to the existence of multiple subunit isoforms encoded by different alpha genes (alphaA and alphaC).
    GO:0016235    aggresome    An inclusion body formed by dynein-dependent retrograde transport of an aggregated protein on microtubules.
    GO:0060170    ciliary membrane    The portion of the plasma membrane surrounding a cilium.
    GO:0030132    clathrin coat of coated pit    The coat found on coated pits and the coated vesicles derived from coated pits; comprises clathrin and the AP-2 adaptor complex.
    GO:0005905    clathrin-coated pit    A part of the endomembrane system in the form of an invagination of a membrane upon which a clathrin coat forms, and that can be converted by vesicle budding into a clathrin-coated vesicle. Coated pits form on the plasma membrane, where they are involved in receptor-mediated selective transport of many proteins and other macromolecules across the cell membrane, in the trans-Golgi network, and on some endosomes.
    GO:0030136    clathrin-coated vesicle    A vesicle with a coat formed of clathrin connected to the membrane via one of the clathrin adaptor complexes.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    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:0031901    early endosome membrane    The lipid bilayer surrounding an early endosome.
    GO:0005768    endosome    A vacuole to which materials ingested by endocytosis are delivered.
    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: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.

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 Related Entries

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

UniProtKB/Swiss-Prot
        EPS15_HUMAN | P425661c07 1f8h 1ff1 2iv9 2jxc 4rh5 4rh9 4rhg 4s0g 5awt 5awu 5jp2

(-) Related Entries Specified in the PDB File

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