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(-) Description

Title :  SOLUTION STRUCTURE OF MULTI-FUNCTIONAL PEPTIDE MOTIF-1 PRESENT IN HUMAN GLUTAMYL-PROLYL TRNA SYNTHETASE (EPRS).
 
Authors :  E. -J. Jeong, G. -S. Hwang, K. H. Kim, M. J. Kim, S. Kim, K. -S. Kim
Date :  02 Oct 00  (Deposition) - 14 Mar 01  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Helix-Turn-Helix, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  E. J. Jeong, G. S. Hwang, K. H. Kim, M. J. Kim, S. Kim, K. S. Kim
Structural Analysis Of Multifunctional Peptide Motifs In Human Bifunctional Trna Synthetase: Identification Of Rna-Binding Residues And Functional Implications For Tandem Repeats.
Biochemistry V. 39 15775 2000
PubMed-ID: 11123902  |  Reference-DOI: 10.1021/BI001393H
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - MULTIFUNCTIONAL AMINOACYL-TRNA SYNTHETASE
    ChainsA
    EC Number6.1.1.17
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPET28A
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentRESIDUES 677-733
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606

 Structural Features

(-) Chains, Units

  
NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1FYJ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1WHEP_TRS_2PS51185 WHEP-TRS domain profile.SYEP_HUMAN749-805
822-878
900-956
  1A:1-57
-
-
2WHEP_TRS_1PS00762 WHEP-TRS domain signature.SYEP_HUMAN760-788
833-861
911-939
  1A:12-40
-
-

(-) Exons   (1, 1)

NMR Structure (1, 1)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003669231aENSE00001443000chr1:220220000-220219685316SYEP_HUMAN1-16160--
1.2ENST000003669232ENSE00001127556chr1:220213611-22021352785SYEP_HUMAN16-44290--
1.3ENST000003669233ENSE00001068863chr1:220208355-220208256100SYEP_HUMAN44-77340--
1.4bENST000003669234bENSE00001129041chr1:220207000-220206844157SYEP_HUMAN78-130530--
1.5aENST000003669235aENSE00001127104chr1:220205868-220205729140SYEP_HUMAN130-176470--
1.6ENST000003669236ENSE00001127099chr1:220203822-22020372895SYEP_HUMAN177-208320--
1.7aENST000003669237aENSE00001127090chr1:220198600-220198474127SYEP_HUMAN208-250430--
1.9ENST000003669239ENSE00000925599chr1:220197798-220197606193SYEP_HUMAN251-315650--
1.10ENST0000036692310ENSE00000925598chr1:220195860-220195689172SYEP_HUMAN315-372580--
1.11ENST0000036692311ENSE00000925597chr1:220193563-220193330234SYEP_HUMAN372-450790--
1.12ENST0000036692312ENSE00000925596chr1:220192421-22019233785SYEP_HUMAN450-478290--
1.13ENST0000036692313ENSE00000925595chr1:220191850-22019179160SYEP_HUMAN479-498200--
1.14ENST0000036692314ENSE00000925594chr1:220184398-220184288111SYEP_HUMAN499-535370--
1.15bENST0000036692315bENSE00001127050chr1:220180680-220180544137SYEP_HUMAN536-581460--
1.16ENST0000036692316ENSE00001127045chr1:220179655-220179448208SYEP_HUMAN581-650700--
1.17ENST0000036692317ENSE00001127038chr1:220178702-220178590113SYEP_HUMAN651-688380--
1.18ENST0000036692318ENSE00001127034chr1:220174597-220174480118SYEP_HUMAN688-727400--
1.19bENST0000036692319bENSE00000925589chr1:220170684-220170325360SYEP_HUMAN728-8471201A:1-5757
1.20ENST0000036692320ENSE00000925588chr1:220162165-220161932234SYEP_HUMAN848-925780--
1.21ENST0000036692321ENSE00002175163chr1:220160746-220160484263SYEP_HUMAN926-1013880--
1.22bENST0000036692322bENSE00001730008chr1:220157599-22015754852SYEP_HUMAN1013-1030180--
1.23ENST0000036692323ENSE00001791317chr1:220156740-220156531210SYEP_HUMAN1031-1100700--
1.24aENST0000036692324aENSE00001801224chr1:220156186-22015611473SYEP_HUMAN1101-1125250--
1.25ENST0000036692325ENSE00001757159chr1:220154799-22015472080SYEP_HUMAN1125-1151270--
1.26ENST0000036692326ENSE00001622751chr1:220154199-220154098102SYEP_HUMAN1152-1185340--
1.27ENST0000036692327ENSE00001774612chr1:220153582-220153427156SYEP_HUMAN1186-1237520--
1.28ENST0000036692328ENSE00001710118chr1:220152957-220152760198SYEP_HUMAN1238-1303660--
1.29ENST0000036692329ENSE00001617755chr1:220152061-220151888174SYEP_HUMAN1304-1361580--
1.30ENST0000036692330ENSE00001661118chr1:220146740-220146580161SYEP_HUMAN1362-1415540--
1.31ENST0000036692331ENSE00001745189chr1:220145489-22014541179SYEP_HUMAN1415-1441270--
1.32bENST0000036692332bENSE00001599829chr1:220142464-22014240065SYEP_HUMAN1442-1463220--
1.33cENST0000036692333cENSE00001710859chr1:220142298-220141943356SYEP_HUMAN1463-1512500--

(-) 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:57
 aligned with SYEP_HUMAN | P07814 from UniProtKB/Swiss-Prot  Length:1512

    Alignment length:57
                                   758       768       778       788       798       
           SYEP_HUMAN   749 DSLVLYNRVAVQGDVVRELKAKKAPKEDVDAAVKQLLSLKAEYKEKTGQEYKPGNPP 805
               SCOP domains d1fyja_ A:                                                SCOP domains
               CATH domains 1fyjA00 A:1-57  [code=1.10.287.10, no name defined]       CATH domains
               Pfam domains --------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) WHEP_TRS_2  PDB: A:1-57 UniProt: 749-805                  PROSITE (1)
                PROSITE (2) -----------WHEP_TRS_1  PDB: A:12-40     ----------------- PROSITE (2)
               Transcript 1 Exon 1.19b  PDB: A:1-57 UniProt: 728-847 [INCOMPLETE]     Transcript 1
                 1fyj A   1 DSLVLYNRVAVQGDVVRELKAKKAPKEDVDAAVKQLLSLKAEYKEKTGQEYKPGNPP  57
                                    10        20        30        40        50       

   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 1FYJ)

(-) Gene Ontology  (28, 28)

NMR Structure(hide GO term definitions)
Chain A   (SYEP_HUMAN | P07814)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0051020    GTPase binding    Interacting selectively and non-covalently with a GTPase, any enzyme that catalyzes the hydrolysis of GTP.
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0035613    RNA stem-loop binding    Interacting selectively and non-covalently with a stem-loop in an RNA molecule. An RNA stem-loop is a secondary RNA structure consisting of a double-stranded RNA (dsRNA) stem and a terminal loop.
    GO:0004812    aminoacyl-tRNA ligase activity    Catalysis of the formation of aminoacyl-tRNA from ATP, amino acid, and tRNA with the release of diphosphate and AMP.
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0004818    glutamate-tRNA ligase activity    Catalysis of the reaction: ATP + L-glutamate + tRNA(Glu) = AMP + diphosphate + L-glutamyl-tRNA(Glu).
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0016876    ligase activity, forming aminoacyl-tRNA and related compounds    Catalysis of the joining of an amino acid and a nucleic acid (usually tRNA) or poly(ribitol phosphate), with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate. The reaction forms an aminoacyl-tRNA or a related compound.
    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:0004827    proline-tRNA ligase activity    Catalysis of the reaction: ATP + L-proline + tRNA(Pro) = AMP + diphosphate + L-prolyl-tRNA(Pro).
    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:0071346    cellular response to interferon-gamma    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an interferon-gamma stimulus. Interferon gamma is the only member of the type II interferon found so far.
    GO:0006424    glutamyl-tRNA aminoacylation    The process of coupling glutamate to glutamyl-tRNA, catalyzed by glutamyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'- adenosine residue of the tRNA.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    GO:0017148    negative regulation of translation    Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
    GO:0006433    prolyl-tRNA aminoacylation    The process of coupling proline to prolyl-tRNA, catalyzed by prolyl-tRNA synthetase. In tRNA aminoacylation, the amino acid is first activated by linkage to AMP and then transferred to either the 2'- or the 3'-hydroxyl group of the 3'-adenosine residue of the tRNA.
    GO:0006461    protein complex assembly    The aggregation, arrangement and bonding together of a set of components to form a protein complex.
    GO:0006417    regulation of translation    Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of proteins by the translation of mRNA or circRNA.
    GO:0043039    tRNA aminoacylation    The chemical reactions and pathways by which the various amino acids become bonded to their corresponding tRNAs. The most common route for synthesis of aminoacyl tRNA is by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA, usually catalyzed by the cognate aminoacyl-tRNA ligase. A given aminoacyl-tRNA ligase aminoacylates all species of an isoaccepting group of tRNA molecules.
    GO:0006418    tRNA aminoacylation for protein translation    The synthesis of aminoacyl tRNA by the formation of an ester bond between the 3'-hydroxyl group of the most 3' adenosine of the tRNA, to be used in ribosome-mediated polypeptide synthesis.
    GO:0006412    translation    The cellular metabolic process in which a protein is formed, using the sequence of a mature mRNA or circRNA molecule to specify the sequence of amino acids in a polypeptide chain. Translation is mediated by the ribosome, and begins with the formation of a ternary complex between aminoacylated initiator methionine tRNA, GTP, and initiation factor 2, which subsequently associates with the small subunit of the ribosome and an mRNA or circRNA. Translation ends with the release of a polypeptide chain from the ribosome.
cellular component
    GO:0097452    GAIT complex    A protein complex which mediates interferon-gamma-induced transcript-selective translation inhibition in inflammation processes. The complex binds to stem loop-containing GAIT elements in the 3'-UTR of diverse inflammatory mRNAs and suppresses their translation by blocking the recruitment of the 43S ribosomal complex to m7G cap-bound eIF4G. In humans it includes RPL13A, EPRS, SYNCRIP and GAPDH; mouse complexes lack SYNCRIP.
    GO:0017101    aminoacyl-tRNA synthetase multienzyme complex    A multienzyme complex found in all multicellular eukaryotes composed of eight proteins with aminoacyl-tRNA synthetase activities (abbreviated as: ArgRS, AspRS, GluProRS, GlnRS, IleRS, LeuRS, LysRS, MetRS where RS is the enzyme, preceded by the amino acid it uses as a substrate) as well as three non-synthetase proteins (p43, p38, and p18) with diverse functions. Several of these subunits are known dimers, so the total polypeptide count in the multisynthetase complex is at least fifteen. All of the enzymes in this assembly catalyze the same reaction, the covalent attachment of an amino acid to either the 2'- or 3'-hydroxyl of the 3'-terminal adenosine of tRNA, but using different substrates.
    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:0030529    intracellular ribonucleoprotein complex    An intracellular macromolecular complex containing both protein and RNA molecules.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SYEP_HUMAN | P078144hvc 4k86 4k87 4k88 5a1n 5a34 5a5h 5bmu 5vad

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