1SMB - JenaLib

Title :   CRYSTAL STRUCTURE OF GOLGI-ASSOCIATED PR-1 PROTEIN

Authors :   R. L. Serrano, A. Kuhn, A. Hendricks, J. B. Helms, I. Sinning, M. R. Groves

Date :   08 Mar 04 (Deposition) - 14 Sep 04 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.55

Chains :   Asym./Biol. Unit : A

Keywords :   Alpha-Beta-Alpha, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   R. L. Serrano, A. Kuhn, A. Hendricks, J. B. Helms, I. Sinning, M. R. Groves
Structural Analysis Of The Human Golgi-Associated Plant Pathogenesis Related Protein Gapr-1 Implicates Dimerization As A Regulatory Mechanism
J. Mol. Biol. V. 339 173 2004
PubMed-ID: 15123429 | Reference-DOI: 10.1016/J.JMB.2004.03.015
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (0, 0)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (5, 5)

Asymmetric/Biological Unit (5, 5)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.3c	ENST00000377960	3c	ENSE00001844830	chr9:36136742-36136788	47	GAPR1_HUMAN	1-5	5	1	A:4-5	2
1.6	ENST00000377960	6	ENSE00001150074	chr9:36147783-36147891	109	GAPR1_HUMAN	5-41	37	1	A:5-41	37
1.7	ENST00000377960	7	ENSE00000699585	chr9:36148544-36148647	104	GAPR1_HUMAN	41-76	36	1	A:41-76	36
1.8b	ENST00000377960	8b	ENSE00000699582	chr9:36150869-36150946	78	GAPR1_HUMAN	76-102	27	1	A:76-102	27
1.9d	ENST00000377960	9d	ENSE00001952954	chr9:36162359-36163910	1552	GAPR1_HUMAN	102-154	53	1	A:102-152	51

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
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Chain A from PDB  Type:PROTEIN  Length:149
 aligned with GAPR1_HUMAN | Q9H4G4 from UniProtKB/Swiss-Prot  Length:154

    Alignment length:149
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143         
          GAPR1_HUMAN     4 SASKQFHNEVLKAHNEYRQKHGVPPLKLCKNLNREAQQYSEALASTRILKHSPESSRGQCGENLAWASYDQTGKEVADRWYSEIKNYNFQQPGFTSGTGHFTAMVWKNTKKMGVGKASASDGSSFVVARYFPAGNVVNEGFFEENVLPP 152
               SCOP domains d1smba_ A: Golgi-associated PR-1 protein                                                                                                              SCOP domains
               CATH domains 1smbA00 A:4-152 Pathogenesis-related Protein p14a                                                                                                     CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhhhhhhh....hhhhhh...eeeeeee....hhhhhhhhhhhhhhhh.......hhhhhhhhhhhh....eeeeeeee.....eeeeeeee........hhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------CRISP_1    ---------------------------------------- PROSITE
           Transcript 1 (1) 1.-----------------------------------Exon 1.7  PDB: A:41-76              -------------------------Exon 1.9d  PDB: A:102-152 UniProt: 102-154          Transcript 1 (1)
           Transcript 1 (2) -Exon 1.6  PDB: A:5-41 UniProt: 5-41  ----------------------------------Exon 1.8b  PDB: A:76-102   -------------------------------------------------- Transcript 1 (2)
                 1smb A   4 SASKQFHNEVLKAHNEYRQKHGVPPLKLcKNLNREAQQYSEALASTRILKHSPESSRGQcGENLAWASYDQTGKEVADRWYSEIKNYNFQQPGFTSGTGHFTAMVWKNTKKMGVGKASASDGSSFVVARYFPAGNVVNEGFFEENVLPP 152
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143         
                                                       32-OCS                         63-OCS

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	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)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (GAPR1_HUMAN | Q9H4G4)

molecular function
	GO:0042803	protein homodimerization activity	Interacting selectively and non-covalently with an identical protein to form a homodimer.
biological process
	GO:0070374	positive regulation of ERK1 and ERK2 cascade	Any process that activates or increases the frequency, rate or extent of signal transduction mediated by the ERK1 and ERK2 cascade.
	GO:0010634	positive regulation of epithelial cell migration	Any process that activates or increases the frequency, rate or extent of epithelial cell migration.
	GO:0010718	positive regulation of epithelial to mesenchymal transition	Any process that increases the rate, frequency, or extent of epithelial to mesenchymal transition. Epithelial to mesenchymal transition is where an epithelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell.
cellular component
	GO:0005794	Golgi apparatus	A compound membranous cytoplasmic organelle of eukaryotic cells, consisting of flattened, ribosome-free vesicles arranged in a more or less regular stack. The Golgi apparatus differs from the endoplasmic reticulum in often having slightly thicker membranes, appearing in sections as a characteristic shallow semicircle so that the convex side (cis or entry face) abuts the endoplasmic reticulum, secretory vesicles emerging from the concave side (trans or exit face). In vertebrate cells there is usually one such organelle, while in invertebrates and plants, where they are known usually as dictyosomes, there may be several scattered in the cytoplasm. The Golgi apparatus processes proteins produced on the ribosomes of the rough endoplasmic reticulum; such processing includes modification of the core oligosaccharides of glycoproteins, and the sorting and packaging of proteins for transport to a variety of cellular locations. Three different regions of the Golgi are now recognized both in terms of structure and function: cis, in the vicinity of the cis face, trans, in the vicinity of the trans face, and medial, lying between the cis and trans regions.
	GO:0000139	Golgi membrane	The lipid bilayer surrounding any of the compartments of the Golgi apparatus.
	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:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
	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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