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Title :   STRUCTURE OF MG2+ BOUND N-TERMINAL DOMAIN OF CALMODULIN IN THE PRESENCE OF ZN2+

Authors :   F. T. Senguen, Z. Grabarek

Date :   27 Oct 11 (Deposition) - 08 Aug 12 (Release) - 03 Oct 12 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

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

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

Reference :   F. T. Senguen, Z. Grabarek
X-Ray Structures Of Magnesium And Manganese Complexes With The N-Terminal Domain Of Calmodulin: Insights Into The Mechanism And Specificity Of Metal Ion Binding To An Ef-Hand.
Biochemistry V. 51 6182 2012
PubMed-ID: 22803592 | Reference-DOI: 10.1021/BI300698H

Molecule 1 - CALMODULIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PAED4
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Fragment	:	N-TERMINAL DOMAIN RESIDUES 2-80
	Gene	:	CALM, CALM1, CALM2, CALM3, CALML2, CAM, CAM1, CAM2, CAM3, CAMB, CAMC, CAMIII
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	CAM

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (4, 5)

No.	Name	Count	Type	Full Name
1	CAC	1	Ligand/Ion	CACODYLATE ION
2	MG	1	Ligand/Ion	MAGNESIUM ION
3	NA	1	Ligand/Ion	SODIUM ION
4	ZN	2	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 2)

No.	Name	Count	Type	Full Name
1	CAC	2	Ligand/Ion	CACODYLATE ION
2	MG	-1	Ligand/Ion	MAGNESIUM ION
3	NA	-1	Ligand/Ion	SODIUM ION
4	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (5, 5)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:20 , ASP A:22 , ASP A:24 , THR A:26 , ZN A:102 , CAC A:200 , HOH A:301	BINDING SITE FOR RESIDUE NA A 100
2	AC2	SOFTWARE	ASP A:56 , ASP A:58 , ASN A:60 , THR A:62 , HOH A:303 , HOH A:319	BINDING SITE FOR RESIDUE MG A 101
3	AC3	SOFTWARE	ASP A:22 , ASP A:24 , NA A:100 , CAC A:200	BINDING SITE FOR RESIDUE ZN A 102
4	AC4	SOFTWARE	GLU A:7 , GLU A:11 , ASP A:64 , GLU A:67 , HOH A:361	BINDING SITE FOR RESIDUE ZN A 103
5	AC5	SOFTWARE	ASP A:22 , ASP A:24 , THR A:26 , ILE A:27 , NA A:100 , ZN A:102 , HOH A:301 , HOH A:320	BINDING SITE FOR RESIDUE CAC A 200

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

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

Asymmetric Unit (1, 1)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_069222	N	54	I	CALM1_HUMAN	Disease (CPVT4)	267607276	A	N	53	I

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

Biological Unit 1 (1, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_069222	N	54	I	CALM1_HUMAN	Disease (CPVT4)	267607276	A	N	53	I

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

Asymmetric Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALM1_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-76 - -
				CALM2_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-76 - -
				CALM3_HUMAN	8-43 44-79 81-116 117-149	2	A:7-42 A:43-76 - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALM1_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -
				CALM2_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -
				CALM3_HUMAN	21-33 57-69 94-106 130-142	2	A:20-32 A:56-68 - -

Biological Unit 1 (2, 24)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALM1_HUMAN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-76 - -
				CALM2_HUMAN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-76 - -
				CALM3_HUMAN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-76 - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALM1_HUMAN	21-33 57-69 94-106 130-142	4	A:20-32 A:56-68 - -
				CALM2_HUMAN	21-33 57-69 94-106 130-142	4	A:20-32 A:56-68 - -
				CALM3_HUMAN	21-33 57-69 94-106 130-142	4	A:20-32 A:56-68 - -

(no "Exon" information available for 3UCY)

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:74
 aligned with CALM1_HUMAN | P0DP23 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:74
                                    13        23        33        43        53        63        73    
           CALM1_HUMAN    4 QLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKM 77
               SCOP domains d3ucya_ A: Calmodulin                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh.......eee..hhhhhhhhh....hhhhhhhhhhhhh.....eeehhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------I----------------------- SAPs(SNPs)
                PROSITE (2) ----EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-76            PROSITE (2)
                PROSITE (3) -------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) -----------------EF_HAND_1    -----------------------EF_HAND_1    -------- PROSITE (5)
                 Transcript -------------------------------------------------------------------------- Transcript
                  3ucy A  3 QLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKM 76
                                    12        22        32        42        52        62        72

Chain A from PDB  Type:PROTEIN  Length:74
 aligned with CALM2_HUMAN | P0DP24 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:74
                                    13        23        33        43        53        63        73    
           CALM2_HUMAN    4 QLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKM 77
               SCOP domains d3ucya_ A: Calmodulin                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh.......eee..hhhhhhhhh....hhhhhhhhhhhhh.....eeehhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------I----------------------- SAPs(SNPs)
                PROSITE (2) -------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ----EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-76            PROSITE (3)
                PROSITE (4) -----------------EF_HAND_1    -----------------------EF_HAND_1    -------- PROSITE (4)
                 Transcript -------------------------------------------------------------------------- Transcript
                  3ucy A  3 QLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKM 76
                                    12        22        32        42        52        62        72

Chain A from PDB  Type:PROTEIN  Length:74
 aligned with CALM3_HUMAN | P0DP25 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:74
                                    13        23        33        43        53        63        73    
           CALM3_HUMAN    4 QLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKM 77
               SCOP domains d3ucya_ A: Calmodulin                                                      SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhh.......eee..hhhhhhhhh....hhhhhhhhhhhhh.....eeehhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------I----------------------- SAPs(SNPs)
                PROSITE (1) ----EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-76            PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) -------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) -------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) -----------------EF_HAND_1    -----------------------EF_HAND_1    -------- PROSITE (6)
                 Transcript -------------------------------------------------------------------------- Transcript
                  3ucy A  3 QLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKM 76
                                    12        22        32        42        52        62        72

Legend:		→ Mismatch	(orange background)
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	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 alpha proteins (14657)

Fold: EF Hand-like (739)

Superfamily: EF-hand (657)

Family: Calmodulin-like (356)

Protein domain: Calmodulin (152)

Human (Homo sapiens) [TaxId: 9606] (74)

d3ucya_

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

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

Asymmetric Unit(hide GO term definitions)

Chain A (CALM1_HUMAN | P0DP23)

Chain A (CALM2_HUMAN | P0DP24)

Chain A (CALM3_HUMAN | P0DP25)

Asymmetric Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3ucy)

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	614916
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Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (1, 1)

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Exons (0, 0)

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Gene Ontology (81, 81)

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Related Entries

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Related Entries Specified in the PDB File