4AKR - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF THE CYTOPLASMIC ACTIN CAPPING PROTEIN CAP32_34 FROM DICTYOSTELIUM DISCOIDEUM

Authors :   C. Eckert, A. Goretzki, M. Faberova, M. Kollmar

Date :   28 Feb 12 (Deposition) - 04 Jul 12 (Release) - 04 Jul 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Actin-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   C. Eckert, A. Goretzki, M. Faberova, M. Kollmar
Conservation And Divergence Between Cytoplasmic And Muscle- Specific Actin Capping Proteins: Insights From The Crystal Structure Of Cytoplasmic Cap32/34 From Dictyostelium Discoideum.
Bmc Struct. Biol. V. 12 12 2012
PubMed-ID: 22657106 | Reference-DOI: 10.1186/1472-6807-12-12

Molecule 1 - F-ACTIN-CAPPING PROTEIN SUBUNIT ALPHA
	Chains	:	A, C
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	CODONPLUS
	Expression System Vector	:	PET DUET
	Expression System Vector Type	:	PLASMID
	Organism Common	:	SLIME MOLD
	Organism Scientific	:	DICTYOSTELIUM DISCOIDEUM
	Organism Taxid	:	366501
	Other Details	:	CDNA FROM THE DICTYOSTELIUM CDNA PROJECT IN JAPAN AND THE JAPANESE NATIONAL BIORESOURCE PROJECT
	Strain	:	AX2
	Synonym	:	AGINACTIN SUBUNIT ALPHA, CAP34

Molecule 2 - F-ACTIN-CAPPING PROTEIN SUBUNIT BETA
	Chains	:	B, D
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	469008
	Expression System Variant	:	CODONPLUS
	Expression System Vector	:	PET DUET
	Expression System Vector Type	:	PLASMID
	Fragment	:	RESIDUES 2-272
	Organism Common	:	SLIME MOLD
	Organism Scientific	:	DICTYOSTELIUM DISCOIDEUM
	Organism Taxid	:	366501
	Other Details	:	CDNA FROM THE DICTYOSTELIUM CDNA PROJECT IN JAPAN AND THE JAPANESE NATIONAL BIORESOURCE PROJECT
	Strain	:	AX2
	Synonym	:	AGINACTIN SUBUNIT BETA, CAP32

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 4AKR)

(no "Site" information available for 4AKR)

(no "SS Bond" information available for 4AKR)

Asymmetric Unit

No.	Residues
1	Asp B:80	-	Pro B:81
2	Asp D:80	-	Pro D:81

(no "SAP(SNP)/Variant" information available for 4AKR)

Asymmetric Unit (3, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	F_ACTIN_CAPPING_BETA	PS00231	F-actin capping protein beta subunit signature.	CAPZB_DICDI	62-67	2	B:62-67 D:62-67
2	F_ACTIN_CAPPING_A_1	PS00748	F-actin capping protein alpha subunit signature 1.	CAPZA_DICDI	192-200	2	A:192-200 C:192-200
3	F_ACTIN_CAPPING_A_2	PS00749	F-actin capping protein alpha subunit signature 2.	CAPZA_DICDI	252-262	2	A:252-262 C:252-262

Biological Unit 1 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	F_ACTIN_CAPPING_BETA	PS00231	F-actin capping protein beta subunit signature.	CAPZB_DICDI	62-67	1	B:62-67 -
2	F_ACTIN_CAPPING_A_1	PS00748	F-actin capping protein alpha subunit signature 1.	CAPZA_DICDI	192-200	1	A:192-200 -
3	F_ACTIN_CAPPING_A_2	PS00749	F-actin capping protein alpha subunit signature 2.	CAPZA_DICDI	252-262	1	A:252-262 -

Biological Unit 2 (3, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	F_ACTIN_CAPPING_BETA	PS00231	F-actin capping protein beta subunit signature.	CAPZB_DICDI	62-67	1	- D:62-67
2	F_ACTIN_CAPPING_A_1	PS00748	F-actin capping protein alpha subunit signature 1.	CAPZA_DICDI	192-200	1	- C:192-200
3	F_ACTIN_CAPPING_A_2	PS00749	F-actin capping protein alpha subunit signature 2.	CAPZA_DICDI	252-262	1	- C:252-262

(no "Exon" information available for 4AKR)

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:269
 aligned with CAPZA_DICDI | P13022 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:269
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261         
          CAPZA_DICDI     2 ASNQELVQIATNFLLNAPPCEFMEVVSDVRALLPSESLLNASAGSTFREYNTSQMVSVQTSKGSALITKEGEISNNEYLDPKNKQVITYDHIKQEVTGERSASGEIEQDIEQYRAAFDEEATKYCNEYYPNGVSAVYGTKVSEGIKITVCISTCIYKPNAFYSGRWRSVWTCTFKPGSGNVTSNGKVQVNVHYFEDGNVQLNTVTQKQTTSPSADAQSTAVNAFKAIGKAELNLHTALDNNYSTMGDTTFKALRRALPINRTKINWQKV 270
               SCOP domains d4akra_ A: automated matches                                                                                                                                                                                                                                                  SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh....hhhhhhhhhhh..........hhhhhhhhhhhhhh.eeee..eeee.....eee..eeeehhh.eeeeee....eeeeeee.....hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeeeeeeeeeeeehhh.eeeeeeeeeeeee.....eeeeeeeeeeeeee...eeeeeeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..................... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------F_ACTIN_C---------------------------------------------------F_ACTIN_CAP-------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4akr A   2 ASNQELVQIATNFLLNAPPCEFMEVVSDVRALLPSESLLNASAGSTFREYNTSQMVSVQTSKGSALITKEGEISNNEYLDPKNKQVITYDHIKQEVTGERSASGEIEQDIEQYRAAFDEEATKYCNEYYPNGVSAVYGTKVSEGIKITVCISTCIYKPNAFYSGRWRSVWTCTFKPGSGNVTSNGKVQVNVHYFEDGNVQLNTVTQKQTTSPSADAQSTAVNAFKAIGKAELNLHTALDNNYSTMGDTTFKALRRALPINRTKINWQKV 270
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261

Chain B from PDB  Type:PROTEIN  Length:245
 aligned with CAPZB_DICDI | P13021 from UniProtKB/Swiss-Prot  Length:272

    Alignment length:251
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251 
          CAPZB_DICDI     2 TEKQLSCCLDLMRRLPPSQIEDNLAGLLDLVPDLTEDLLSSIDQPLKVAYDAVSKKDYLLCDYNRDADSYRSPWSNKYDPPLSGACYPSSKLRDIEVQANEIFEIYLNLYFEGGVSSVYCWDLDDNFAAVVLMKKTQDQSKKGQPMRGTWDSIHVVEVKLGKKDKAVYKLTSTVMLSIETDNDNTGKVNLAGSLTRQDEKEYTFNEVDTHCVNIGKMVEDMESKLRQTLETIYFGKTKEVVNTLRNATGNS 252
               SCOP domains d4akrb_ B: automated matches                                                                                                                                                                                                                                SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh....eeeee....eeeeehhh.ee..eee......ee.........hhhhhhhhhhhhhhhhhhhhhhhh..eeeeeeeee..eeeeeeeeeeee.------.eeeeeeeeeeeeeeee...eeeeeeeeeeeeeeeeee...eeeeeeeeeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------F_ACTI----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4akr B   2 TEKQLSCCLDLMRRLPPSQIEDNLAGLLDLVPDLTEDLLSSIDQPLKVAYDAVSKKDYLLCDYNRDADSYRSPWSNKYDPPLSGACYPSSKLRDIEVQANEIFEIYLNLYFEGGVSSVYCWDLDDNFAAVVLMKKTQD------PMRGTWDSIHVVEVKLGKKDKAVYKLTSTVMLSIETDNDNTGKVNLAGSLTRQDEKEYTFNEVDTHCVNIGKMVEDMESKLRQTLETIYFGKTKEVVNTLRNATGNS 252
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       | -    |  151       161       171       181       191       201       211       221       231       241       251 
                                                                                                                                                                   139    146

Chain C from PDB  Type:PROTEIN  Length:271
 aligned with CAPZA_DICDI | P13022 from UniProtKB/Swiss-Prot  Length:281

    Alignment length:271
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271 
          CAPZA_DICDI     2 ASNQELVQIATNFLLNAPPCEFMEVVSDVRALLPSESLLNASAGSTFREYNTSQMVSVQTSKGSALITKEGEISNNEYLDPKNKQVITYDHIKQEVTGERSASGEIEQDIEQYRAAFDEEATKYCNEYYPNGVSAVYGTKVSEGIKITVCISTCIYKPNAFYSGRWRSVWTCTFKPGSGNVTSNGKVQVNVHYFEDGNVQLNTVTQKQTTSPSADAQSTAVNAFKAIGKAELNLHTALDNNYSTMGDTTFKALRRALPINRTKINWQKVKN 272
               SCOP domains d4akrc_ C: automated matches                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhh....hhhhhhhhhhhhh.hhhhhh.hhhhhhhhhhhhhh.eeee..eeee.....eee..eeeehhh.eeeeee....eeeeeee.....hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeeeeeeeeeeeehhh.eeeeeeeeeeeee.....eeeeeeeeeeeeee...eeeeeeeeeeeeeeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh................hhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------F_ACTIN_C---------------------------------------------------F_ACTIN_CAP---------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4akr C   2 ASNQELVQIATNFLLNAPPCEFMEVVSDVRALLPSESLLNASAGSTFREYNTSQMVSVQTSKGSALITKEGEISNNEYLDPKNKQVITYDHIKQEVTGERSASGEIEQDIEQYRAAFDEEATKYCNEYYPNGVSAVYGTKVSEGIKITVCISTCIYKPNAFYSGRWRSVWTCTFKPGSGNVTSNGKVQVNVHYFEDGNVQLNTVTQKQTTSPSADAQSTAVNAFKAIGKAELNLHTALDNNYSTMGDTTFKALRRALPINRTKINWQKVKN 272
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271

Chain D from PDB  Type:PROTEIN  Length:243
 aligned with CAPZB_DICDI | P13021 from UniProtKB/Swiss-Prot  Length:272

    Alignment length:249
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241         
          CAPZB_DICDI     2 TEKQLSCCLDLMRRLPPSQIEDNLAGLLDLVPDLTEDLLSSIDQPLKVAYDAVSKKDYLLCDYNRDADSYRSPWSNKYDPPLSGACYPSSKLRDIEVQANEIFEIYLNLYFEGGVSSVYCWDLDDNFAAVVLMKKTQDQSKKGQPMRGTWDSIHVVEVKLGKKDKAVYKLTSTVMLSIETDNDNTGKVNLAGSLTRQDEKEYTFNEVDTHCVNIGKMVEDMESKLRQTLETIYFGKTKEVVNTLRNATG 250
               SCOP domains d4akrd_ D: automated matches                                                                                                                                                                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhh....eeeee....eeeeehhh.ee..eee......ee.........hhhhhhhhhhhhhhhhhhhhhhh...eeeeeeeee..eeeeeeeeeeee.------.eeeeeeeeeeeeeee....eeeeeeeeeeeeeeeeee...eeeeeeeeeeeeeeeeee.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------F_ACTI--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4akr D   2 TEKQLSCCLDLMRRLPPSQIEDNLAGLLDLVPDLTEDLLSSIDQPLKVAYDAVSKKDYLLCDYNRDADSYRSPWSNKYDPPLSGACYPSSKLRDIEVQANEIFEIYLNLYFEGGVSSVYCWDLDDNFAAVVLMKKTQD------PMRGTWDSIHVVEVKLGKKDKAVYKLTSTVMLSIETDNDNTGKVNLAGSLTRQDEKEYTFNEVDTHCVNIGKMVEDMESKLRQTLETIYFGKTKEVVNTLRNATG 250
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       | -    |  151       161       171       181       191       201       211       221       231       241         
                                                                                                                                                                   139    146

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 "CATH Domain" information available for 4AKR)

(no "Pfam Domain" information available for 4AKR)

Asymmetric Unit(hide GO term definitions)

Chain A,C (CAPZA_DICDI | P13022)

molecular function
	GO:0003779	actin binding	Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
	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:0051693	actin filament capping	The binding of a protein or protein complex to the end of an actin filament, thus preventing the addition, exchange or removal of further actin subunits.
	GO:0051016	barbed-end actin filament capping	The binding of a protein or protein complex to the barbed (or plus) end of an actin filament, thus preventing the addition, exchange or removal of further actin subunits.
	GO:0044351	macropinocytosis	An endocytosis process that results in the uptake of liquid material by cells from their external environment by the 'ruffling' of the cell membrane to form heterogeneously sized intracellular vesicles called macropinosomes, which can be up to 5 micrometers in size.
	GO:0009617	response to bacterium	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 a stimulus from a bacterium.
cellular component
	GO:0008290	F-actin capping protein complex	A heterodimer consisting of alpha and beta subunits that binds to and caps the barbed ends of actin filaments, thereby regulating the polymerization of actin monomers but not severing actin filaments.
	GO:0045335	phagocytic vesicle	A membrane-bounded intracellular vesicle that arises from the ingestion of particulate material by phagocytosis.

Chain B,D (CAPZB_DICDI | P13021)

molecular function
	GO:0003779	actin binding	Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
	GO:0051015	actin filament binding	Interacting selectively and non-covalently with an actin filament, also known as F-actin, a helical filamentous polymer of globular G-actin subunits.
	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:0051693	actin filament capping	The binding of a protein or protein complex to the end of an actin filament, thus preventing the addition, exchange or removal of further actin subunits.
	GO:0051016	barbed-end actin filament capping	The binding of a protein or protein complex to the barbed (or plus) end of an actin filament, thus preventing the addition, exchange or removal of further actin subunits.
	GO:0000902	cell morphogenesis	The developmental process in which the size or shape of a cell is generated and organized.
	GO:0044351	macropinocytosis	An endocytosis process that results in the uptake of liquid material by cells from their external environment by the 'ruffling' of the cell membrane to form heterogeneously sized intracellular vesicles called macropinosomes, which can be up to 5 micrometers in size.
	GO:0009617	response to bacterium	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 a stimulus from a bacterium.
cellular component
	GO:0008290	F-actin capping protein complex	A heterodimer consisting of alpha and beta subunits that binds to and caps the barbed ends of actin filaments, thereby regulating the polymerization of actin monomers but not severing actin filaments.
	GO:0005884	actin filament	A filamentous structure formed of a two-stranded helical polymer of the protein actin and associated proteins. Actin filaments are a major component of the contractile apparatus of skeletal muscle and the microfilaments of the cytoskeleton of eukaryotic cells. The filaments, comprising polymerized globular actin molecules, appear as flexible structures with a diameter of 5-9 nm. They are organized into a variety of linear bundles, two-dimensional networks, and three dimensional gels. In the cytoskeleton they are most highly concentrated in the cortex of the cell just beneath the plasma membrane.
	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:0045335	phagocytic vesicle	A membrane-bounded intracellular vesicle that arises from the ingestion of particulate material by phagocytosis.

Asymmetric Unit
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(no "Sites" information available for 4akr)

	Cis Peptide Bonds
		Asp B:80 - Pro B:81	[ RasMol ]
		Asp D:80 - Pro D:81	[ RasMol ]

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Ligands, Modified Residues, Ions (0, 0)

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