1FHW - JenaLib

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Biological Unit 3 (Jmol Viewer)

Title :   STRUCTURE OF THE PLECKSTRIN HOMOLOGY DOMAIN FROM GRP1 IN COMPLEX WITH INOSITOL(1,3,4,5,6)PENTAKISPHOSPHATE

Authors :   K. M. Ferguson, J. M. Kavran, V. G. Sankaran, E. Fournier, S. J. Isakoff, E. Y. Skolnik, M. A. Lemmon

Date :   02 Aug 00 (Deposition) - 23 Aug 00 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: A,B  (1x)

Keywords :   Pleckstrin, 3-Phosphoinositides, Inositol Tetrakisphosphate Signal Transduction Protein, Guanine Nucleotide Exchange Factor, Signaling Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. M. Ferguson, J. M. Kavran, V. G. Sankaran, E. Fournier, S. J. Isakoff E. Y. Skolnik, M. A. Lemmon
Structural Basis For Discrimination Of 3-Phosphoinositides By Pleckstrin Homology Domains
Mol. Cell V. 6 373 2000
PubMed-ID: 10983984 | Reference-DOI: 10.1016/S1097-2765(00)00037-X

Molecule 1 - GUANINE NUCLEOTIDE EXCHANGE FACTOR AND INTEGRIN BINDING PROTEIN HOMOLOG GRP1
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET11A
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Fragment	:	PLECKSTRIN HOMOLOGY DOMAIN
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	COMPLEX WITH INOSITOL (1,3,4,5,6)-PENTAKISPHOSPHATE
	Synonym	:	GRP1

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 3)

No.	Name	Count	Type	Full Name
1	I5P	2	Ligand/Ion	INOSITOL-(1,3,4,5,6)-PENTAKISPHOSPHATE
2	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	I5P	1	Ligand/Ion	INOSITOL-(1,3,4,5,6)-PENTAKISPHOSPHATE
2	SO4	-1	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	I5P	1	Ligand/Ion	INOSITOL-(1,3,4,5,6)-PENTAKISPHOSPHATE
2	SO4	1	Ligand/Ion	SULFATE ION

Biological Unit 3 (2, 3)

No.	Name	Count	Type	Full Name
1	I5P	2	Ligand/Ion	INOSITOL-(1,3,4,5,6)-PENTAKISPHOSPHATE
2	SO4	1	Ligand/Ion	SULFATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASN A:312 , ASN A:331 , HOH B:31 , LYS B:340	BINDING SITE FOR RESIDUE SO4 B 2001
2	AC2	SOFTWARE	HOH A:12 , HOH A:46 , HOH A:48 , HOH A:50 , HOH A:121 , HOH A:156 , LYS A:273 , GLY A:276 , ARG A:277 , LYS A:282 , ARG A:284 , TYR A:295 , ARG A:305 , LYS A:343 , HIS A:355	BINDING SITE FOR RESIDUE I5P A 1001
3	AC3	SOFTWARE	HOH B:22 , HOH B:139 , HOH B:140 , HOH B:141 , LYS B:273 , GLY B:275 , GLY B:276 , ARG B:277 , VAL B:278 , ARG B:284 , TYR B:295 , ARG B:305 , LYS B:343 , HIS B:355	BINDING SITE FOR RESIDUE I5P B 1002

Asymmetric Unit

No.	Residues
1	A:342	-	B:342

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

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

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

(no "Exon" information available for 1FHW)

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:122
 aligned with CYH3_MOUSE | O08967 from UniProtKB/Swiss-Prot  Length:399

    Alignment length:122
                                   274       284       294       304       314       324       334       344       354       364       374       384  
           CYH3_MOUSE   265 PDREGWLLKLGGRVKTWKRRWFILTDNCLYYFEYTTDKEPRGIIPLENLSIREVEDPRKPNCFELYNPSHKGQVIKACKTEADGRVVEGNHVVYRISAPSPEEKEEWMKSIKASISRDPFYD 386
               SCOP domains d1fhwa_ A: Grp1                                                                                                            SCOP domains
               CATH domains 1fhwA00 A:265-386 Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)                              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee......eeeeeeeee..eeeee.........eeee....eeee........eeeee...........eee.....eee....eeeee..hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------- Transcript
                 1fhw A 265 PDREGWLLKLGGRVKTWKRRWFILTDNCLYYFEYTTDKEPRGIIPLENLSIREVEDPRKPNCFELYNPSHKGQVIKACKTEADGRVVEGNHVVYRISAPSPEEKEEWMKSIKASISRDPFYD 386
                                   274       284       294       304       314       324       334       344       354       364       374       384

Chain B from PDB  Type:PROTEIN  Length:126
 aligned with CYH3_MOUSE | O08967 from UniProtKB/Swiss-Prot  Length:399

    Alignment length:126
                                   275       285       295       305       315       325       335       345       355       365       375       385      
           CYH3_MOUSE   266 DREGWLLKLGGRVKTWKRRWFILTDNCLYYFEYTTDKEPRGIIPLENLSIREVEDPRKPNCFELYNPSHKGQVIKACKTEADGRVVEGNHVVYRISAPSPEEKEEWMKSIKASISRDPFYDMLATR 391
               SCOP domains d1fhwb_ B: Grp1                                                                                                                SCOP domains
               CATH domains 1fhwB00 B:266-391 Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)                                  CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeeeee......eeeeeeeee..eeeee.........eeee....eeee........eeeee...........eee.....eee....eeeee..hhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1fhw B 266 DREGWLLKLGGRVKTWKRRWFILTDNCLYYFEYTTDKEPRGIIPLENLSIREVEDPRKPNCFELYNPSHKGQVIKACKTEADGRVVEGNHVVYRISAPSPEEKEEWMKSIKASISRDPFYDMLATR 391
                                   275       285       295       305       315       325       335       345       355       365       375       385

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 '\|'

Asymmetric Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: PH domain-like barrel (258)

Superfamily: PH domain-like (257)

Family: Pleckstrin-homology domain (PH domain) (102)

Protein domain: Grp1 (6)

Mouse (Mus musculus) [TaxId: 10090] (6)

1a	d1fhwa_	A:
1b	d1fhwb_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Beta (13760)

Architecture: Roll (1513)

Topology: PH-domain like (150)

Homologous Superfamily: Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) (147)

House mouse (Mus musculus) (39)

1a	1fhwA00	A:265-386
1b	1fhwB00	B:266-391

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

Asymmetric Unit(hide GO term definitions)

Chain A,B (CYH3_MOUSE | O08967)

molecular function
	GO:0005086	ARF guanyl-nucleotide exchange factor activity	Stimulates the exchange of guanyl nucleotides associated with the GTPase ARF. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase.
	GO:0005085	guanyl-nucleotide exchange factor activity	Stimulates the exchange of guanyl nucleotides associated with a GTPase. Under normal cellular physiological conditions, the concentration of GTP is higher than that of GDP, favoring the replacement of GDP by GTP in association with the GTPase.
	GO:0008289	lipid binding	Interacting selectively and non-covalently with a lipid.
	GO:0005547	phosphatidylinositol-3,4,5-trisphosphate binding	Interacting selectively and non-covalently with phosphatidylinositol-3,4,5-trisphosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 3', 4' and 5' positions.
	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:0048193	Golgi vesicle transport	The directed movement of substances into, out of or within the Golgi apparatus, mediated by vesicles.
	GO:0090162	establishment of epithelial cell polarity	The specification and formation of anisotropic intracellular organization of an epithelial cell.
	GO:0043547	positive regulation of GTPase activity	Any process that activates or increases the activity of a GTPase.
	GO:0045785	positive regulation of cell adhesion	Any process that activates or increases the frequency, rate or extent of cell adhesion.
	GO:0032012	regulation of ARF protein signal transduction	Any process that modulates the frequency, rate or extent of ARF protein signal transduction.
cellular component
	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:0031234	extrinsic component of cytoplasmic side of plasma membrane	The component of a plasma membrane consisting of gene products and protein complexes that are loosely bound to its cytoplasmic surface, but not integrated into the hydrophobic region.
	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.
	GO:0001726	ruffle	Projection at the leading edge of a crawling cell; the protrusions are supported by a microfilament meshwork.

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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1fhw)

Biological Units
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	1fhw
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	CYH3_MOUSE \| O08967
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	CYH3_MOUSE \| O08967	:	1fgy 1fgz 1fhx 1u2b 2r09 2r0d

1fhx	STRUCTURE OF THE PLECKSTRIN HOMOLOGY DOMAIN FROM GRP1 IN COMPLEX WITH INOSITOL 1,3,4,5-TETRAKISPHOSPHATE

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 3)

Sites (3, 3)

SS Bonds (1, 1)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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Gene Ontology (16, 16)

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