1CF0 - JenaLib

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Title :   HUMAN PLATELET PROFILIN COMPLEXED WITH AN L-PRO10-IODOTYROSINE PEPTIDE

Authors :   D. A. Rozwarski, N. M. Mahoney, S. C. Almo

Date :   23 Mar 99 (Deposition) - 06 Jul 99 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Complex (Actin-Binding Protein/Peptide), Profilin, Poly-L- Proline, Actin Cytoskeleton (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   N. M. Mahoney, D. A. Rozwarski, E. Fedorov, A. A. Fedorov, S. C. Almo
Profilin Binds Proline-Rich Ligands In Two Distinct Amide Backbone Orientations.
Nat. Struct. Biol. V. 6 666 1999
PubMed-ID: 10404225 | Reference-DOI: 10.1038/10722
(for further references see the PDB file header)

Molecule 1 - PROTEIN (PROFILIN)
	Cellular Location	:	CYTOPLASM
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21(DE3)
	Expression System Plasmid	:	PMW172
	Expression System Strain	:	BL21 (DE3)
	Expression System Taxid	:	469008
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Other Details	:	SYNTHETIC
	Tissue	:	PLATELET

Molecule 2 - PROTEIN (L-PRO10-IODOTYROSINE)
	Chains	:	C
	Engineered	:	YES
	Other Details	:	POLY-PROLINE-PEPTIDE LINKED TO IODO- TYROSINE RESIDUE
	Other Details - Source	:	THE SEQUENCE OCCURS NATURALLY IN HUMAN
	Synthetic	:	YES

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 1)

No.	Name	Count	Type	Full Name
1	IYR	1	Mod. Amino Acid	3-IODO-TYROSINE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	IYR	1	Mod. Amino Acid	3-IODO-TYROSINE

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	IYR	-1	Mod. Amino Acid	3-IODO-TYROSINE

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	PPA	AUTHOR	TRP A:3 , TRP A:31 , TYR A:6 , HIS A:133 , TYR A:139	POLY-L-PROLINE BINDING SITE.
2	PPB	AUTHOR	TRP B:3 , TRP B:31 , TYR B:6 , HIS B:133 , TYR B:139	POLY-L-PROLINE BINDING SITE.

(no "SS Bond" information available for 1CF0)

(no "Cis Peptide Bond" information available for 1CF0)

Asymmetric Unit (4, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_068925	C	71	G	PROF1_HUMAN	Disease (ALS18)	387907264	A/B	C	70	G
2	UniProt	VAR_068926	M	114	T	PROF1_HUMAN	Disease (ALS18)	387907265	A/B	M	113	T
3	UniProt	VAR_068927	E	117	G	PROF1_HUMAN	Unclassified (ALS18)	140547520	A/B	E	116	G
4	UniProt	VAR_068928	G	118	V	PROF1_HUMAN	Disease (ALS18)	387907266	A/B	G	117	V

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

Biological Unit 1 (4, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_068925	C	71	G	PROF1_HUMAN	Disease (ALS18)	387907264	A	C	70	G
2	UniProt	VAR_068926	M	114	T	PROF1_HUMAN	Disease (ALS18)	387907265	A	M	113	T
3	UniProt	VAR_068927	E	117	G	PROF1_HUMAN	Unclassified (ALS18)	140547520	A	E	116	G
4	UniProt	VAR_068928	G	118	V	PROF1_HUMAN	Disease (ALS18)	387907266	A	G	117	V

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

Biological Unit 2 (4, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_068925	C	71	G	PROF1_HUMAN	Disease (ALS18)	387907264	B	C	70	G
2	UniProt	VAR_068926	M	114	T	PROF1_HUMAN	Disease (ALS18)	387907265	B	M	113	T
3	UniProt	VAR_068927	E	117	G	PROF1_HUMAN	Unclassified (ALS18)	140547520	B	E	116	G
4	UniProt	VAR_068928	G	118	V	PROF1_HUMAN	Disease (ALS18)	387907266	B	G	117	V

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

(no "PROSITE Motif" information available for 1CF0)

Asymmetric Unit (3, 6)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000225655	1	ENSE00001324890	chr17:4852309-4851558	752	PROF1_HUMAN	1-44	44	2	A:2-43 B:2-43	42 42
1.2	ENST00000225655	2	ENSE00000676461	chr17:4850115-4849923	193	PROF1_HUMAN	45-109	65	2	A:44-108 B:44-108	65 65
1.3	ENST00000225655	3	ENSE00001488299	chr17:4849292-4848947	346	PROF1_HUMAN	109-140	32	2	A:108-139 B:108-139	32 32

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:138
 aligned with PROF1_HUMAN | P07737 from UniProtKB/Swiss-Prot  Length:140

    Alignment length:138
                                    12        22        32        42        52        62        72        82        92       102       112       122       132        
          PROF1_HUMAN     3 GWNAYIDNLMADGTCQDAAIVGYKDSPSVWAAVPGKTFVNITPAEVGVLVGKDRSSFYVNGLTLGGQKCSVIRDSLLQDGEFSMDLRTKSTGGAPTFNVTVTKTDKTLVLLMGKEGVHGGLINKKCYEMASHLRRSQY 140
               SCOP domains d1cf0a_ A: Profilin (actin-binding protein)                                                                                                SCOP domains
               CATH domains 1cf0A00 A:2-139 Dynein light chain 2a, cytoplasmic                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhh....eeeeeeee.....eeeee.....hhh..hhhhhhh......hhh...eee..eeeeeeee........eeeeee.........eeeeee...eeeeeee.....hhhhhhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------G------------------------------------------T--GV---------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1  PDB: A:2-43 UniProt: 1-44       Exon 1.2  PDB: A:44-108 UniProt: 45-109                          ------------------------------- Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------Exon 1.3  PDB: A:108-139         Transcript 1 (2)
                 1cf0 A   2 GWNAYIDNLMADGTCQDAAIVGYKDSPSVWAAVPGKTFVNITPAEVGVLVGKDRSSFYVNGLTLGGQKCSVIRDSLLQDGEFSMDLRTKSTGGAPTFNVTVTKTDKTLVLLMGKEGVHGGLINKKCYEMASHLRRSQY 139
                                    11        21        31        41        51        61        71        81        91       101       111       121       131

Chain B from PDB  Type:PROTEIN  Length:138
 aligned with PROF1_HUMAN | P07737 from UniProtKB/Swiss-Prot  Length:140

    Alignment length:138
                                    12        22        32        42        52        62        72        82        92       102       112       122       132        
          PROF1_HUMAN     3 GWNAYIDNLMADGTCQDAAIVGYKDSPSVWAAVPGKTFVNITPAEVGVLVGKDRSSFYVNGLTLGGQKCSVIRDSLLQDGEFSMDLRTKSTGGAPTFNVTVTKTDKTLVLLMGKEGVHGGLINKKCYEMASHLRRSQY 140
               SCOP domains d1cf0b_ B: Profilin (actin-binding protein)                                                                                                SCOP domains
               CATH domains 1cf0B00 B:2-139 Dynein light chain 2a, cytoplasmic                                                                                         CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhh....eeeeeeee.....eeeee.....hhh..hhhhhhhh......hhhh.eee..eeeeeeeee.......eeeeee.........eeeeee...eeeeeee.....hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------G------------------------------------------T--GV---------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
           Transcript 1 (1) Exon 1.1  PDB: B:2-43 UniProt: 1-44       Exon 1.2  PDB: B:44-108 UniProt: 45-109                          ------------------------------- Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------------------------Exon 1.3  PDB: B:108-139         Transcript 1 (2)
                 1cf0 B   2 GWNAYIDNLMADGTCQDAAIVGYKDSPSVWAAVPGKTFVNITPAEVGVLVGKDRSSFYVNGLTLGGQKCSVIRDSLLQDGEFSMDLRTKSTGGAPTFNVTVTKTDKTLVLLMGKEGVHGGLINKKCYEMASHLRRSQY 139
                                    11        21        31        41        51        61        71        81        91       101       111       121       131

Chain C from PDB  Type:PROTEIN  Length:9
                                         
               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
                 1cf0 C   3 PPPPPPPPy  11
                                    |
                                   11-IYR

Legend:		→ Mismatch	(orange background)
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		→ 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(

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Folds(

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Superfamilies( (-)

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Families(

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Protein Domains( (-)

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Organisms( (-)

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Class: Alpha and beta proteins (a+b) (23004)

Fold: Profilin-like (304)

Superfamily: Profilin (actin-binding protein) (31)

Family: Profilin (actin-binding protein) (29)

Protein domain: Profilin (actin-binding protein) (23)

Human (Homo sapiens), isoform I [TaxId: 9606] (6)

1a	d1cf0a_	A:
1b	d1cf0b_	B:

Asymmetric Unit

Classes(

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Architectures( (-)

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Topologies( (-)

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Homologous Superfamilies( (-)

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Organisms( (-)

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Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Beta-Lactamase (202)

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

Human (Homo sapiens) (11)

1a	1cf0A00	A:2-139
1b	1cf0B00	B:2-139

(no "Pfam Domain" information available for 1CF0)

Asymmetric Unit(hide GO term definitions)

Chain A,B (PROF1_HUMAN | P07737)

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: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:0070064	proline-rich region binding	Interacting selectively and non-covalently with a proline-rich region, i.e. a region that contains a high proportion of proline residues, in a protein.
	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:0005102	receptor binding	Interacting selectively and non-covalently with one or more specific sites on a receptor molecule, a macromolecule that undergoes combination with a hormone, neurotransmitter, drug or intracellular messenger to initiate a change in cell function.
biological process
	GO:0060071	Wnt signaling pathway, planar cell polarity pathway	The series of molecular signals initiated by binding of a Wnt protein to a receptor on the surface of the target cell where activated receptors signal via downstream effectors including C-Jun N-terminal kinase (JNK) to modulate cytoskeletal elements and control cell polarity.
	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:0071363	cellular response to growth factor stimulus	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 growth factor stimulus.
	GO:0032232	negative regulation of actin filament bundle assembly	Any process that stops, prevents, or reduces the frequency, rate or extent of the assembly of actin filament bundles.
	GO:0030837	negative regulation of actin filament polymerization	Any process that stops, prevents, or reduces the frequency, rate or extent of actin polymerization.
	GO:0051497	negative regulation of stress fiber assembly	Any process that stops, prevents, or reduces the frequency, rate or extent of the assembly a stress fiber, a bundle of microfilaments and other proteins found in fibroblasts.
	GO:0001843	neural tube closure	The last step in the formation of the neural tube, where the paired neural folds are brought together and fuse at the dorsal midline.
	GO:0032781	positive regulation of ATPase activity	Any process that activates or increases the rate of ATP hydrolysis by an ATPase.
	GO:0051054	positive regulation of DNA metabolic process	Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving DNA.
	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:0010634	positive regulation of epithelial cell migration	Any process that activates or increases the frequency, rate or extent of epithelial cell migration.
	GO:1900029	positive regulation of ruffle assembly	Any process that activates or increases the frequency, rate or extent of ruffle assembly.
	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:0045944	positive regulation of transcription from RNA polymerase II promoter	Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	GO:0050434	positive regulation of viral transcription	Any process that activates or increases the frequency, rate or extent of viral transcription.
	GO:0050821	protein stabilization	Any process involved in maintaining the structure and integrity of a protein and preventing it from degradation or aggregation.
	GO:0006357	regulation of transcription from RNA polymerase II promoter	Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter.
	GO:0010033	response to organic substance	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an organic substance stimulus.
cellular component
	GO:0072562	blood microparticle	A phospholipid microvesicle that is derived from any of several cell types, such as platelets, blood cells, endothelial cells, or others, and contains membrane receptors as well as other proteins characteristic of the parental cell. Microparticles are heterogeneous in size, and are characterized as microvesicles free of nucleic acids.
	GO:0005938	cell cortex	The region of a cell that lies just beneath the plasma membrane and often, but not always, contains a network of actin filaments and associated proteins.
	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:0005925	focal adhesion	Small region on the surface of a cell that anchors the cell to the extracellular matrix and that forms a point of termination of actin filaments.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0043005	neuron projection	A prolongation or process extending from a nerve cell, e.g. an axon or dendrite.
	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.
	GO:0045202	synapse	The junction between a nerve fiber of one neuron and another neuron, muscle fiber or glial cell. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.

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	PROF1_HUMAN \| P07737	:	1awi 1cjf 1fik 1fil 1pfl 2pav 2pbd 3chw 4x1l 4x1m 4x25

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Description

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Ligands, Modified Residues, Ions (1, 1)

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