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(-) Description

Title :  X-RAY STRUCTURE OF THE N-TERMINALLY TRUNCATED HUMAN APEP-1
 
Authors :  B. A. Manjasetty, C. Scheich, Y. Roske, F. H. Niesen, F. Gotz, K. Bussow, U. Heinemann
Date :  19 Jul 04  (Deposition) - 05 Jul 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  0.96
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Structural Genomics, Ig-Fold I-Set, Rgd Motif, Homophilic Adhesion, Arterial Smooth Muscle Cells, Atherosclerosis, Contractile Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. A. Manjasetty, F. H. Niesen, C. Scheich, Y. Roske, F. Gotz, J. Behlke, V. Sievert, U. Heinemann, K. Bussow
X-Ray Structure Of Engineered Human Aortic Preferentially Expressed Protein-1 (Apeg-1)
Bmc Struct. Biol. V. 5 21 2005
PubMed-ID: 16354304  |  Reference-DOI: 10.1186/1472-6807-5-21
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - AORTIC PREFERENTIALLY EXPRESSED PROTEIN 1
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPRARE
    Expression System StrainSCS1
    Expression System Taxid562
    Expression System VectorPQTEV
    Expression System Vector TypePLASMID
    FragmentRESIDUES 15-113
    GeneAROTIC PREFERENTIALLY EXPRESSED GENE 1
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsPSF CLONE ID 111408 AND RZPD ID PSFEP250B117
    SynonymAPEG-1

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit A
Biological Unit 1 (2x)A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1U2H)

(-) Sites  (0, 0)

(no "Site" information available for 1U2H)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1U2H)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Glu A:46 -Pro A:47

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Asymmetric Unit (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_041102R934CSPEG_HUMANPolymorphism34398769AR85C

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)
Biological Unit 1 (1, 2)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_041102R934CSPEG_HUMANPolymorphism34398769AR85C

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1U2H)

(-) Exons   (4, 4)

Asymmetric Unit (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1aENST000003123581aENSE00001914206chr2:220299568-220300087520SPEG_HUMAN1-1301300--
1.7aENST000003123587aENSE00001621911chr2:220309375-22030946490SPEG_HUMAN130-160310--
1.8dENST000003123588dENSE00001740379chr2:220309547-220309883337SPEG_HUMAN160-2721130--
1.10gENST0000031235810gENSE00001683185chr2:220312696-2203139931298SPEG_HUMAN272-7054340--
1.11bENST0000031235811bENSE00001652702chr2:220315858-220316001144SPEG_HUMAN705-753490--
1.12bENST0000031235812bENSE00001649463chr2:220316347-220316529183SPEG_HUMAN753-814620--
1.14eENST0000031235814eENSE00001787181chr2:220326604-220326779176SPEG_HUMAN814-872591A:17-237
1.15ENST0000031235815ENSE00000965982chr2:220327020-22032710889SPEG_HUMAN873-902301A:24-5330
1.16aENST0000031235816aENSE00001181966chr2:220329155-220329330176SPEG_HUMAN902-961601A:53-11260
1.17ENST0000031235817ENSE00001141417chr2:220331896-220332156261SPEG_HUMAN961-1048881A:112-1121
1.18ENST0000031235818ENSE00000966028chr2:220333300-220333458159SPEG_HUMAN1048-1101540--
1.19ENST0000031235819ENSE00000966029chr2:220333581-220333770190SPEG_HUMAN1101-1164640--
1.20ENST0000031235820ENSE00000966030chr2:220333878-220334101224SPEG_HUMAN1164-1239760--
1.21bENST0000031235821bENSE00001249952chr2:220336590-220336709120SPEG_HUMAN1239-1279410--
1.21cENST0000031235821cENSE00000966032chr2:220336949-220337053105SPEG_HUMAN1279-1314360--
1.22aENST0000031235822aENSE00001250213chr2:220337612-220337818207SPEG_HUMAN1314-1383700--
1.22cENST0000031235822cENSE00000966034chr2:220338226-220338349124SPEG_HUMAN1383-1424420--
1.22dENST0000031235822dENSE00000966035chr2:220338450-220338625176SPEG_HUMAN1424-1483600--
1.23ENST0000031235823ENSE00000966036chr2:220341592-220341704113SPEG_HUMAN1483-1520380--
1.24ENST0000031235824ENSE00000966037chr2:220341999-220342167169SPEG_HUMAN1521-1577570--
1.25ENST0000031235825ENSE00000966038chr2:220342411-22034250797SPEG_HUMAN1577-1609330--
1.26ENST0000031235826ENSE00000966039chr2:220342627-220342827201SPEG_HUMAN1609-1676680--
1.27ENST0000031235827ENSE00000966040chr2:220343866-22034392358SPEG_HUMAN1676-1695200--
1.28ENST0000031235828ENSE00000966041chr2:220344505-22034458278SPEG_HUMAN1696-1721260--
1.29ENST0000031235829ENSE00000966042chr2:220344684-220344862179SPEG_HUMAN1722-1781600--
1.30ENST0000031235830ENSE00000966043chr2:220345393-22034541927SPEG_HUMAN1781-1790100--
1.31ENST0000031235831ENSE00000966044chr2:220346026-220346178153SPEG_HUMAN1790-1841520--
1.32ENST0000031235832ENSE00000966045chr2:220346360-22034640243SPEG_HUMAN1841-1855150--
1.33ENST0000031235833ENSE00000966046chr2:220347506-22034757469SPEG_HUMAN1856-1878230--
1.34ENST0000031235834ENSE00000966047chr2:220347820-2203497941975SPEG_HUMAN1879-25376590--
1.35ENST0000031235835ENSE00001040074chr2:220350068-220350199132SPEG_HUMAN2537-2581450--
1.36ENST0000031235836ENSE00000966049chr2:220352916-220353032117SPEG_HUMAN2581-2620400--
1.37ENST0000031235837ENSE00000966050chr2:220353220-220353387168SPEG_HUMAN2620-2676570--
1.38ENST0000031235838ENSE00000966051chr2:220353500-220353622123SPEG_HUMAN2676-2717420--
1.39ENST0000031235839ENSE00000966052chr2:220353776-220353943168SPEG_HUMAN2717-2773570--
1.40ENST0000031235840ENSE00001461968chr2:220354058-220354661604SPEG_HUMAN2773-29742020--
1.41ENST0000031235841ENSE00001461964chr2:220355131-220355370240SPEG_HUMAN2974-3054810--
1.42ENST0000031235842ENSE00000843571chr2:220355455-220355678224SPEG_HUMAN3054-3129760--
1.43aENST0000031235843aENSE00000843572chr2:220356516-22035659176SPEG_HUMAN3129-3154260--
1.44ENST0000031235844ENSE00001250209chr2:220356833-220356982150SPEG_HUMAN3154-3204510--
1.45cENST0000031235845cENSE00001407226chr2:220357316-2203583541039SPEG_HUMAN3204-3267640--

(-) 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:96
 aligned with SPEG_HUMAN | Q15772 from UniProtKB/Swiss-Prot  Length:3267

    Alignment length:96
                                   875       885       895       905       915       925       935       945       955      
           SPEG_HUMAN   866 KAPPTFKVSLMDQSVREGQDVIMSIRVQGEPKPVVSWLRNRQPVRPDQRRFAEEAEGGLCRLRILAAERGDAGFYTCKAVNEYGARQCEARLEVRA 961
               SCOP domains d1u2ha_ A: automated matches                                                                     SCOP domains
               CATH domains 1u2hA00 A:17-112 Immunoglobulins                                                                 CATH domains
               Pfam domains ---I-set-1u2hA01 A:20-110                                                                     -- Pfam domains
         Sec.struct. author .eeeeeee....eeee....eeeeeeeeee...eeeeee..ee......eeeee....eeeeee...hhhhheeeeeeeee..eeeeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------C--------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) 1.14e  Exon 1.15  PDB: A:24-53       ----------------------------------------------------------1 Transcript 1 (1)
           Transcript 1 (2) ------------------------------------Exon 1.16a  PDB: A:53-112 UniProt: 902-961                   Transcript 1 (2)
                 1u2h A  17 KAPPTFKVSLMDQSVREGQDVIMSIRVQGEPKPVVSWLRNRQPVRPDQRRFAEEAEGGLCRLRILAAERGDAGFYTCKAVNEYGARQCEARLEVRG 112
                                    26        36        46        56        66        76        86        96       106      

   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 Unit

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: Ig (577)

(-) Gene Ontology  (14, 14)

Asymmetric Unit(hide GO term definitions)
Chain A   (SPEG_HUMAN | Q15772)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    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: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:0004672    protein kinase activity    Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
    GO:0004674    protein serine/threonine kinase activity    Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0030154    cell differentiation    The process in which relatively unspecialized cells, e.g. embryonic or regenerative cells, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history. Differentiation includes the processes involved in commitment of a cell to a specific fate and its subsequent development to the mature state.
    GO:0042692    muscle cell differentiation    The process in which a relatively unspecialized cell acquires specialized features of a muscle cell.
    GO:0007517    muscle organ development    The process whose specific outcome is the progression of the muscle over time, from its formation to the mature structure. The muscle is an organ consisting of a tissue made up of various elongated cells that are specialized to contract and thus to produce movement and mechanical work.
    GO:0008285    negative regulation of cell proliferation    Any process that stops, prevents or reduces the rate or extent of cell proliferation.
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.
cellular component
    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.

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