2V8F - JenaLib

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Asym./Biol. Unit (Jmol Viewer)

Asym./Biol. Unit - sites (Jmol Viewer)

Title :   MOUSE PROFILIN IIA IN COMPLEX WITH A DOUBLE REPEAT FROM THE FH1 DOMAIN OF MDIA1

Authors :   P. Kursula, I. Kursula, J. Downer, W. Witke, M. Wilmanns

Date :   07 Aug 07 (Deposition) - 18 Dec 07 (Release) - 21 Nov 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.10

Chains :   Asym./Biol. Unit : A,B,C

Keywords :   Alternative Splicing, Protein-Binding, Cytoplasm, Acetylation, Cytoskeleton, Actin-Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Kursula, I. Kursula, M. Massimi, Y. H. Song, J. Downer, W. A. Stanley, W. Witke, M. Wilmanns
High-Resolution Structural Analysis Of Mammalian Profilin 2A Complex Formation With Two Physiological Ligands: The Formin Homology 1 Domain Of Mdia1 And The Proline-Rich Domain Of Vasp.
J. Mol. Biol. V. 375 270 2008
PubMed-ID: 18001770 | Reference-DOI: 10.1016/J.JMB.2007.10.050

Molecule 1 - PROFILIN-2
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PMW172
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Synonym	:	PROFILIN IIA

Molecule 2 - PROTEIN DIAPHANOUS HOMOLOG 1
	Chains	:	C
	Fragment	:	FH1 DOMAIN, RESIDUES 635-655
	Organism Common	:	HOUSE MOUSE
	Organism Scientific	:	MUS MUSCULUS
	Organism Taxid	:	10090
	Other Details	:	TWO PROLINE-RICH REPEATS DERIVED FROM THE MOUSE HOMOLOGUE OF DIAPHANOUS 1 (MDIA1).
	Synonym	:	DIAPHANOUS-RELATED FORMIN-1, DRF1, P140MDIA, MDIA1
	Synthetic	:	YES

		1	2	3
Asymmetric/Biological Unit	:	A	B	C

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (5, 10)

No.	Name	Count	Type	Full Name
1	CSX	2	Mod. Amino Acid	S-OXY CYSTEINE
2	GOL	1	Ligand/Ion	GLYCEROL
3	IPA	1	Ligand/Ion	ISOPROPYL ALCOHOL
4	NA	1	Ligand/Ion	SODIUM ION
5	SO4	5	Ligand/Ion	SULFATE ION

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:104 , ARG A:135 , HOH A:2150 , HOH A:2151 , LYS B:90 , SER B:91	BINDING SITE FOR RESIDUE SO4 A1140
2	AC2	SOFTWARE	ARG B:104 , ARG B:135 , HOH B:2185	BINDING SITE FOR RESIDUE SO4 B1140
3	AC3	SOFTWARE	TYR A:24 , VAL A:51 , GLY A:52 , TYR A:78 , HOH A:2033 , SER B:91 , GLY B:94 , GLU B:95 , HOH B:2129 , HOH B:2186 , HOH B:2187	BINDING SITE FOR RESIDUE GOL B1141
4	AC4	SOFTWARE	ASN B:9 , MET B:130 , HOH B:2170 , LEU C:19	BINDING SITE FOR RESIDUE IPA B1142
5	AC5	SOFTWARE	ARG A:74 , ASP A:75 , HOH A:2103	BINDING SITE FOR RESIDUE NA A1141
6	AC6	SOFTWARE	CYS A:25 , ASP A:26 , ALA A:27 , ARG A:107 , HOH A:2152 , HOH A:2153 , HOH A:2154 , ARG B:88	BINDING SITE FOR RESIDUE SO4 A1142
7	AC7	SOFTWARE	CYS B:25 , ASP B:26 , ALA B:27 , TRP B:31 , ARG B:107 , HOH B:2147 , HOH B:2188 , HOH B:2189 , PRO C:14	BINDING SITE FOR RESIDUE SO4 B1143
8	AC8	SOFTWARE	HOH A:2049 , GLN B:4 , THR B:34 , ALA B:35 , HOH B:2006 , HOH B:2190 , HOH B:2191 , HOH B:2192	BINDING SITE FOR RESIDUE SO4 B1144

(no "SS Bond" information available for 2V8F)

Asymmetric/Biological Unit

No.	Residues
1	Gly A:93	-	Gly A:94

(no "SAP(SNP)/Variant" information available for 2V8F)

(no "PROSITE Motif" information available for 2V8F)

(no "Exon" information available for 2V8F)

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
	(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:139
 aligned with PROF2_MOUSE | Q9JJV2 from UniProtKB/Swiss-Prot  Length:140

    Alignment length:139
                                    11        21        31        41        51        61        71        81        91       101       111       121       131         
          PROF2_MOUSE     2 AGWQSYVDNLMCDGCCQEAAIVGYCDAKYVWAATAGGVFQSITPVEIDMIVGKDREGFFTNGLTLGAKKCSVIRDSLYVDGDCTMDIRTKSQGGEPTYNVAVGRAGRVLVFVMGKEGVHGGGLNKKAYSMAKYLRDSGF 140
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2v8fA00 A:1-139 Dynein light chain 2a, cytoplasmic                                                                                          CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhh...eeeeeeee......eeee....hhhhhhhhhhhhhhh...hhhhhhheee..eeeeeeee........eeeeee.........eeeeee...eeeeeee....hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v8f A   1 AGWQSYVDNLMCDGCcQEAAIVGYCDAKYVWAATAGGVFQSITPVEIDMIVGKDREGFFTNGLTLGAKKCSVIRDSLYVDGDCTMDIRTKSQGGEPTYNVAVGRAGRVLVFVMGKEGVHGGGLNKKAYSMAKYLRDSGF 139
                                    10     |  20        30        40        50        60        70        80        90       100       110       120       130         
                                          16-CSX

Chain B from PDB  Type:PROTEIN  Length:139
 aligned with PROF2_MOUSE | Q9JJV2 from UniProtKB/Swiss-Prot  Length:140

    Alignment length:139
                                    11        21        31        41        51        61        71        81        91       101       111       121       131         
          PROF2_MOUSE     2 AGWQSYVDNLMCDGCCQEAAIVGYCDAKYVWAATAGGVFQSITPVEIDMIVGKDREGFFTNGLTLGAKKCSVIRDSLYVDGDCTMDIRTKSQGGEPTYNVAVGRAGRVLVFVMGKEGVHGGGLNKKAYSMAKYLRDSGF 140
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2v8fB00 B:1-139 Dynein light chain 2a, cytoplasmic                                                                                          CATH domains
           Pfam domains (1) -Profilin-2v8fB01 B:2-134                                                                                                             ----- Pfam domains (1)
           Pfam domains (2) -Profilin-2v8fB02 B:2-134                                                                                                             ----- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhhh...eeeeeeee......eeee....hhhhhhhhhhhhhhh...hhhhhhheee..eeeeeeee........eeeeee.........eeeeee...eeeeeee....hhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v8f B   1 AGWQSYVDNLMCDGCcQEAAIVGYCDAKYVWAATAGGVFQSITPVEIDMIVGKDREGFFTNGLTLGAKKCSVIRDSLYVDGDCTMDIRTKSQGGEPTYNVAVGRAGRVLVFVMGKEGVHGGGLNKKAYSMAKYLRDSGF 139
                                    10     |  20        30        40        50        60        70        80        90       100       110       120       130         
                                          16-CSX

Chain C from PDB  Type:PROTEIN  Length:16
 aligned with DIAP1_MOUSE | O08808 from UniProtKB/Swiss-Prot  Length:1255

    Alignment length:21
                                   668       678 
          DIAP1_MOUSE   659 IPPPPPLPGATAIPPPPPLPG 679
               SCOP domains --------------------- SCOP domains
               CATH domains --------------------- CATH domains
               Pfam domains --------------------- Pfam domains
         Sec.struct. author .......-----......... Sec.struct. author
                 SAPs(SNPs) --------------------- SAPs(SNPs)
                    PROSITE --------------------- PROSITE
                 Transcript --------------------- Transcript
                 2v8f C   1 IPPPPPL-----IPPPPPLPG  21
                                  |  -  |     20 
                                  7    13

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 '\|'

(no "SCOP Domain" information available for 2V8F)

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Beta-Lactamase (202)

Homologous Superfamily: Dynein light chain 2a, cytoplasmic (37)

Mouse (Mus musculus) (2)

1a	2v8fA00	A:1-139
1b	2v8fB00	B:1-139

Asymmetric/Biological Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: PF (25)

Family: Profilin (15)

Mus musculus (Mouse) (2)

1a	Profilin-2v8fB01	B:2-134
1b	Profilin-2v8fB02	B:2-134

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (PROF2_MOUSE | Q9JJV2)

molecular function
	GO:0003779	actin binding	Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
	GO:0003785	actin monomer binding	Interacting selectively and non-covalently with monomeric actin, also known as G-actin.
	GO:0000774	adenyl-nucleotide exchange factor activity	Stimulates the hydrolysis and exchange of adenyl nucleotides by other proteins.
	GO:0005546	phosphatidylinositol-4,5-bisphosphate binding	Interacting selectively and non-covalently with phosphatidylinositol-4,5-bisphosphate, a derivative of phosphatidylinositol in which the inositol ring is phosphorylated at the 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:0030036	actin cytoskeleton organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
	GO:0030837	negative regulation of actin filament polymerization	Any process that stops, prevents, or reduces the frequency, rate or extent of actin polymerization.
	GO:0010633	negative regulation of epithelial cell migration	Any process that stops, prevents, or reduces the frequency, rate or extent of epithelial cell migration.
	GO:1900028	negative regulation of ruffle assembly	Any process that stops, prevents or reduces the frequency, rate or extent of ruffle assembly.
	GO:0032781	positive regulation of ATPase activity	Any process that activates or increases the rate of ATP hydrolysis by an ATPase.
	GO:0032233	positive regulation of actin filament bundle assembly	Any process that activates or increases the frequency, rate or extent of the assembly of actin filament bundles.
	GO:0030838	positive regulation of actin filament polymerization	Any process that activates or increases the frequency, rate or extent of actin polymerization.
	GO:0033138	positive regulation of peptidyl-serine phosphorylation	Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-serine.
	GO:0051496	positive regulation of stress fiber assembly	Any process that activates or increases the frequency, rate or extent of the assembly of a stress fiber, a bundle of microfilaments and other proteins found in fibroblasts.
	GO:0050821	protein stabilization	Any process involved in maintaining the structure and integrity of a protein and preventing it from degradation or aggregation.
	GO:0030833	regulation of actin filament polymerization	Any process that modulates the frequency, rate or extent of the assembly of actin filaments by the addition of actin monomers to a filament.
	GO:2000300	regulation of synaptic vesicle exocytosis	Any process that modulates the frequency, rate or extent of synaptic vesicle exocytosis.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005856	cytoskeleton	Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
	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: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:0043195	terminal bouton	Terminal inflated portion of the axon, containing the specialized apparatus necessary to release neurotransmitters. The axon terminus is considered to be the whole region of thickening and the terminal bouton is a specialized region of it.

Chain C (DIAP1_MOUSE | O08808)

molecular function
	GO:0017048	Rho GTPase binding	Interacting selectively and non-covalently with Rho protein, any member of the Rho subfamily of the Ras superfamily of monomeric GTPases. Proteins in the Rho subfamily are involved in relaying signals from cell-surface receptors to the actin cytoskeleton.
	GO:0003779	actin binding	Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0044325	ion channel binding	Interacting selectively and non-covalently with one or more specific sites on an ion channel, a protein complex that spans a membrane and forms a water-filled channel across the phospholipid bilayer allowing selective ion transport down its electrochemical gradient.
	GO:0005522	profilin binding	Interacting selectively and non-covalently with profilin, an actin-binding protein that forms a complex with G-actin and prevents it from polymerizing to form F-actin.
	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:0030036	actin cytoskeleton organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
	GO:0007015	actin filament organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments. Includes processes that control the spatial distribution of actin filaments, such as organizing filaments into meshworks, bundles, or other structures, as by cross-linking.
	GO:0030041	actin filament polymerization	Assembly of actin filaments by the addition of actin monomers to a filament.
	GO:0007420	brain development	The process whose specific outcome is the progression of the brain over time, from its formation to the mature structure. Brain development begins with patterning events in the neural tube and ends with the mature structure that is the center of thought and emotion. The brain is responsible for the coordination and control of bodily activities and the interpretation of information from the senses (sight, hearing, smell, etc.).
	GO:0016043	cellular component organization	A process that results in the assembly, arrangement of constituent parts, or disassembly of a cellular component.
	GO:0071420	cellular response to histamine	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 a histamine stimulus. Histamine, the biogenic amine 2-(1H-imidazol-4-yl)ethanamine, is involved in local immune responses as well as regulating physiological function in the gut and acting as a neurotransmitter.
	GO:0007010	cytoskeleton organization	A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures.
	GO:0031175	neuron projection development	The process whose specific outcome is the progression of a neuron projection over time, from its formation to the mature structure. A neuron projection is any process extending from a neural cell, such as axons or dendrites (collectively called neurites).
	GO:0035372	protein localization to microtubule	A process in which a protein is transported to, or maintained at, a microtubule.
	GO:0008360	regulation of cell shape	Any process that modulates the surface configuration of a cell.
	GO:0032886	regulation of microtubule-based process	Any process that modulates the frequency, rate or extent of any cellular process that depends upon or alters the microtubule cytoskeleton.
	GO:0051279	regulation of release of sequestered calcium ion into cytosol	Any process that modulates the frequency, rate or extent of the release into the cytosolic compartment of calcium ions sequestered in the endoplasmic reticulum or mitochondria.
	GO:0007605	sensory perception of sound	The series of events required for an organism to receive an auditory stimulus, convert it to a molecular signal, and recognize and characterize the signal. Sonic stimuli are detected in the form of vibrations and are processed to form a sound.
cellular component
	GO:0005903	brush border	The dense covering of microvilli on the apical surface of a epithelial cells in tissues such as the intestine, kidney, and choroid plexus; the microvilli aid absorption by increasing the surface area of the cell.
	GO:0042995	cell projection	A prolongation or process extending from a cell, e.g. a flagellum or axon.
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005856	cytoskeleton	Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0005815	microtubule organizing center	An intracellular structure that can catalyze gamma-tubulin-dependent microtubule nucleation and that can anchor microtubules by interacting with their minus ends, plus ends or sides.
	GO:0072686	mitotic spindle	A spindle that forms as part of mitosis. Mitotic and meiotic spindles contain distinctive complements of proteins associated with microtubules.
	GO:0043005	neuron projection	A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
	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:0032587	ruffle membrane	The portion of the plasma membrane surrounding a ruffle.
	GO:0005819	spindle	The array of microtubules and associated molecules that forms between opposite poles of a eukaryotic cell during mitosis or meiosis and serves to move the duplicated chromosomes apart.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
		Gly A:93 - Gly A:94	[ RasMol ]

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	DIAP1_MOUSE \| O08808	:	1v9d 1z2c 2bap 2bnx 2f31 3eg5 3o4x 3obv 4uwx
	PROF2_MOUSE \| Q9JJV2	:	2v8c

2v8c	MOUSE PROFILIN IIA IN COMPLEX WITH THE PROLINE-RICH DOMAIN OF VASP

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 10)

Sites (8, 8)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

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