3QRX - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   CHLAMYDOMONAS REINHARDTII CENTRIN BOUND TO MELITTIN

Authors :   E. R. Schreiter

Date :   18 Feb 11 (Deposition) - 26 Oct 11 (Release) - 20 Mar 13 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

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

Keywords :   Calcium-Binding, Ef-Hand, Cell Division, Calcium Binding, Metal Binding Protein-Toxin Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. Sosa Ldel, E. Alfaro, J. Santiago, D. Narvaez, M. C. Rosado, A. Rodriguez, A. M. Gomez, E. R. Schreiter, B. Pastrana-Rios
The Structure, Molecular Dynamics, And Energetics Of Centrin-Melittin Complex.
Proteins V. 79 3132 2011
PubMed-ID: 21989934 | Reference-DOI: 10.1002/PROT.23142

Molecule 1 - CENTRIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PT7-5
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	VFL2, CHLREDRAFT_159554
	Organism Scientific	:	CHLAMYDOMONAS REINHARDTII
	Organism Taxid	:	3055

Molecule 2 - MELITTIN
	Chains	:	B
	Engineered	:	YES
	Fragment	:	RESIDUES 44-69
	Organism Common	:	HONEYBEE
	Organism Taxid	:	7460
	Other Details	:	SYNTHESIZED PEPTIDE CORRESPONDING TO AMINO ACIDS 44- 69 OF HONEY BEE MELITTIN
	Synonym	:	ALLERGEN API M 3, ALLERGEN API M III
	Synthetic	:	YES

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 4)

No.	Name	Count	Type	Full Name
1	CA	4	Ligand/Ion	CALCIUM ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 2 (0, 0)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:38 , ASP A:40 , SER A:42 , THR A:44 , GLU A:49	BINDING SITE FOR RESIDUE CA A 170
2	AC2	SOFTWARE	ASP A:74 , ASP A:76 , SER A:78 , THR A:80 , GLU A:85 , HOH A:181	BINDING SITE FOR RESIDUE CA A 171
3	AC3	SOFTWARE	ASP A:111 , ASP A:113 , SER A:115 , THR A:117 , ASP A:122 , HOH A:198	BINDING SITE FOR RESIDUE CA A 172
4	AC4	SOFTWARE	ASP A:147 , ASN A:149 , ASP A:151 , GLU A:153 , GLU A:158	BINDING SITE FOR RESIDUE CA A 173

(no "SS Bond" information available for 3QRX)

(no "Cis Peptide Bond" information available for 3QRX)

Asymmetric Unit (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_MEL_APIME_001 *	T	53	S	MEL_APIME	---	---	B	T	10	S
2	UniProt	VAR_MEL_APIME_002 *	K	64	S	MEL_APIME	---	---	B	K	21	S
	* ID not provided by source

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

Biological Unit 1 (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_MEL_APIME_001 *	T	53	S	MEL_APIME	---	---	B	T	10	S
2	UniProt	VAR_MEL_APIME_002 *	K	64	S	MEL_APIME	---	---	B	K	21	S
	* ID not provided by source

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

Biological Unit 2 (2, 4)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_MEL_APIME_001 *	T	53	S	MEL_APIME	---	---	B	T	10	S
2	UniProt	VAR_MEL_APIME_002 *	K	64	S	MEL_APIME	---	---	B	K	21	S
	* ID not provided by source

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

Asymmetric Unit (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CATR_CHLRE	25-60 61-96 98-133 134-169	4	A:25-60 A:61-96 A:98-133 A:134-164
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CATR_CHLRE	38-50 74-86 111-123 147-159	4	A:38-50 A:74-86 A:111-123 A:147-159

Biological Unit 1 (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CATR_CHLRE	25-60 61-96 98-133 134-169	4	A:25-60 A:61-96 A:98-133 A:134-164
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CATR_CHLRE	38-50 74-86 111-123 147-159	4	A:38-50 A:74-86 A:111-123 A:147-159

Biological Unit 2 (2, 16)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CATR_CHLRE	25-60 61-96 98-133 134-169	8	A:25-60 A:61-96 A:98-133 A:134-164
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CATR_CHLRE	38-50 74-86 111-123 147-159	8	A:38-50 A:74-86 A:111-123 A:147-159

(no "Exon" information available for 3QRX)

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:145
 aligned with A8JC40_CHLRE | A8JC40 from UniProtKB/TrEMBL  Length:169

    Alignment length:145
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159     
         A8JC40_CHLRE    20 VGLTEEQKQEIREAFDLFDTDGSGTIDAKELKVAMRALGFEPKKEEIKKMISEIDKDGSGTIDFEEFLTMMTAKMGERDSREEILKAFRLFDDDNSGTITIKDLRRVAKELGENLTEEELQEMIAEADRNDDNEIDEDEFIRIMK 164
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh.....eehhhhhhhhhhhh....hhhhhhhhhhhhh......eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh....hhhhhhhhhhhhh.......hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qrx A  20 VGLTEEQKQEIREAFDLFDTDGSGTIDAKELKVAMRALGFEPKKEEIKKMISEIDKDGSGTIDFEEFLTMMTAKMGERDSREEILKAFRLFDDDNSGTITIKDLRRVAKELGENLTEEELQEMIAEADRNDDNEIDEDEFIRIMK 164
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159

Chain A from PDB  Type:PROTEIN  Length:145
 aligned with CATR_CHLRE | P05434 from UniProtKB/Swiss-Prot  Length:169

    Alignment length:145
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159     
           CATR_CHLRE    20 VGLTEEQKQEIREAFDLFDTDGSGTIDAKELKVAMRALGFEPKKEEIKKMISEIDKDGSGTIDFEEFLTMMTAKMGERDSREEILKAFRLFDDDNSGTITIKDLRRVAKELGENLTEEELQEMIAEADRNDDNEIDEDEFIRIMK 164
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh.....eehhhhhhhhhhhh....hhhhhhhhhhhhh......eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh....hhhhhhhhhhhhh.......hhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----EF_HAND_2  PDB: A:25-60             EF_HAND_2  PDB: A:61-96             -EF_HAND_2  PDB: A:98-133            EF_HAND_2  PDB: A:134-164       PROSITE (1)
                PROSITE (2) ------------------EF_HAND_1    -----------------------EF_HAND_1    ------------------------EF_HAND_1    -----------------------EF_HAND_1    ----- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3qrx A  20 VGLTEEQKQEIREAFDLFDTDGSGTIDAKELKVAMRALGFEPKKEEIKKMISEIDKDGSGTIDFEEFLTMMTAKMGERDSREEILKAFRLFDDDNSGTITIKDLRRVAKELGENLTEEELQEMIAEADRNDDNEIDEDEFIRIMK 164
                                    29        39        49        59        69        79        89        99       109       119       129       139       149       159

Chain B from PDB  Type:PROTEIN  Length:20
 aligned with MEL_APIME | P01501 from UniProtKB/Swiss-Prot  Length:70

    Alignment length:20
                                    54        64
            MEL_APIME    45 IGAVLKVLTTGLPALISWIK  64
               SCOP domains -------------------- SCOP domains
               CATH domains -------------------- CATH domains
               Pfam domains -------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) --------S----------S SAPs(SNPs)
                    PROSITE -------------------- PROSITE
                 Transcript -------------------- Transcript
                 3qrx B   2 IGAVLKVLTTGLPALISWIK  21
                                    11        21

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 3QRX)

(no "CATH Domain" information available for 3QRX)

(no "Pfam Domain" information available for 3QRX)

Asymmetric Unit(hide GO term definitions)

Chain A (CATR_CHLRE | P05434)

molecular function
	GO:0005509	calcium ion binding	Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0045504	dynein heavy chain binding	Interacting selectively and non-covalently with a heavy chain of the dynein complex.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0007049	cell cycle	The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
	GO:0051301	cell division	The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
cellular component
	GO:0036156	inner dynein arm	Inner arm structure present on the outer doublet microtubules of ciliary and flagellar axonemes. The structure of inner dynein arms is complex and may vary within the axoneme. Inner dynein arms are heteromeric, comprising 8 different heavy chains and various subunits. Inner and outer dynein arms have different functions in the generation of microtubule-based motility.

Chain A (A8JC40_CHLRE | A8JC40)

molecular function
	GO:0005509		calcium ion binding		Interacting selectively and non-covalently with calcium ions (Ca2+).

Chain B (MEL_APIME | P01501)

molecular function
	GO:0004860	protein kinase inhibitor activity	Stops, prevents or reduces the activity of a protein kinase, an enzyme which phosphorylates a protein.
biological process
	GO:0019835	cytolysis	The rupture of cell membranes and the loss of cytoplasm.
	GO:0044179	hemolysis in other organism	The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in one organism by another.
	GO:0006811	ion transport	The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006469	negative regulation of protein kinase activity	Any process that stops, prevents, or reduces the frequency, rate or extent of protein kinase activity.
	GO:0006810	transport	The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
	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:0016021	integral component of membrane	The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
	GO:0016020	membrane	A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
	GO:0044218	other organism cell membrane	The cell membrane of a secondary organism with which the first organism is interacting.
	GO:0044279	other organism membrane	A membrane of a secondary organism with which the first organism is interacting.

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	3qrx
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(no "Related Entries Specified in the PDB File" available for 3QRX)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (2, 2)

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Gene Ontology (18, 19)

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