2V02 - JenaLib

Asym./Biol. Unit (Jmol Viewer)

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

Title :   RECOMBINANT VERTEBRATE CALMODULIN COMPLEXED WITH BA

Authors :   P. Kursula, V. Majava

Date :   04 May 07 (Deposition) - 14 Aug 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.20

Chains :   Asym./Biol. Unit : A

Keywords :   Calcium, Acetylation, Methylation, Phosphorylation, Ubl Conjugation, Metal-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   P. Kursula, V. Majava
A Structural Insight Into Lead Neurotoxicity And Calmodulin Activation By Heavy Metals.
Acta Crystallogr. , Sect. F V. 63 653 2007
PubMed-ID: 17671360 | Reference-DOI: 10.1107/S1744309107034525

Molecule 1 - CALMODULIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PETCM
	Expression System Strain	:	ROSETTA(DE3)PLYSS
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	CAM

		1
Asymmetric/Biological Unit	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 5)

No.	Name	Count	Type	Full Name
1	BA	2	Ligand/Ion	BARIUM ION
2	CA	3	Ligand/Ion	CALCIUM 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 , GLU A:31	BINDING SITE FOR RESIDUE CA A1146
2	AC2	SOFTWARE	ASP A:56 , ASP A:58 , ASN A:60 , THR A:62 , GLU A:67	BINDING SITE FOR RESIDUE BA A1147
3	AC3	SOFTWARE	ASP A:129 , ASP A:131 , ASP A:133 , GLN A:135 , GLU A:140	BINDING SITE FOR RESIDUE CA A1148
4	AC4	SOFTWARE	ASP A:93 , ASP A:95 , ASN A:97 , TYR A:99 , GLU A:104	BINDING SITE FOR RESIDUE CA A1149
5	AC5	SOFTWARE	ASN A:42 , ASP A:58 , ASP A:64	BINDING SITE FOR RESIDUE BA A1150

(no "SS Bond" information available for 2V02)

(no "Cis Peptide Bond" information available for 2V02)

Asymmetric/Biological Unit (15, 15)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
01	UniProt	VAR_069222	N	54	I	CALM1_HUMAN	Disease (CPVT4)	267607276	A	N	53	I
02	UniProt	VAR_073275	F	90	L	CALM1_HUMAN	Disease (LQT14)	730882253	A	F	89	L
03	UniProt	VAR_073276	D	96	V	CALM2_HUMAN	Disease (LQT15)	730882254	A	D	95	V
04	UniProt	VAR_073277	N	98	I	CALM2_HUMAN	Disease (LQT15)	398124647	A	N	97	I
05	UniProt	VAR_078541	N	98	S	CALM1_HUMAN	Disease (CPVT4)	398124647	A	N	97	S
06	UniProt	VAR_078543	N	98	S	CALM2_HUMAN	Disease (LQT15)	398124647	A	N	97	S
07	UniProt	VAR_078261	A	103	V	CALM3_HUMAN	Disease	---	A	A	102	V
08	UniProt	VAR_078542	D	130	G	CALM1_HUMAN	Disease (LQT14)	730882252	A	D	129	G
09	UniProt	VAR_078544	D	130	G	CALM2_HUMAN	Disease (LQT15)	730882252	A	D	129	G
10	UniProt	VAR_078262	D	130	V	CALM2_HUMAN	Disease (LQT15)	---	A	D	129	V
11	UniProt	VAR_073279	D	132	E	CALM2_HUMAN	Disease (LQT15)	398124648	A	D	131	E
12	UniProt	VAR_073280	D	134	H	CALM2_HUMAN	Disease (LQT15)	398124650	A	D	133	H
13	UniProt	VAR_073281	Q	136	P	CALM2_HUMAN	Disease (LQT15)	398124649	A	Q	135	P
14	UniProt	VAR_078263	E	141	G	CALM1_HUMAN	Disease (LQT14)	---	A	E	140	G
15	UniProt	VAR_073282	F	142	L	CALM1_HUMAN	Disease (LQT14)	11551462	A	F	141	L

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

Asymmetric/Biological 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.	CALM1_HUMAN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-78 A:80-115 A:116-145
				CALM2_HUMAN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-78 A:80-115 A:116-145
				CALM3_HUMAN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-78 A:80-115 A:116-145
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 A:93-105 A:129-141
				CALM2_HUMAN	21-33 57-69 94-106 130-142	4	A:20-32 A:56-68 A:93-105 A:129-141
				CALM3_HUMAN	21-33 57-69 94-106 130-142	4	A:20-32 A:56-68 A:93-105 A:129-141

(no "Exon" information available for 2V02)

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:142
 aligned with CALM1_HUMAN | P0DP23 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:142
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144  
          CALM1_HUMAN     5 LTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMM 146
               SCOP domains d2v02a_ A: Calmodulin                                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.....eehhhhhhhhhhhh....hhhhhhhhhhhhh......eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhh...hhhhhhhhhhhhh......eehhhhhhhh Sec.struct. author
             SAPs(SNPs) (1) -------------------------------------------------I-----------------------------------L-----V-I----V--------------------------G-E-H-P----GL---- SAPs(SNPs) (1)
             SAPs(SNPs) (2) ---------------------------------------------------------------------------------------------S-------------------------------G---------------- SAPs(SNPs) (2)
             SAPs(SNPs) (3) ---------------------------------------------------------------------------------------------S-------------------------------V---------------- SAPs(SNPs) (3)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ---EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-78             -EF_HAND_2  PDB: A:80-115            EF_HAND_2  PDB: A:116-145      PROSITE (3)
                PROSITE (4) ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (5)
                PROSITE (6) ----------------EF_HAND_1    -----------------------EF_HAND_1    ------------------------EF_HAND_1    -----------------------EF_HAND_1    ---- PROSITE (6)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v02 A   4 LTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMM 145
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143

Chain A from PDB  Type:PROTEIN  Length:142
 aligned with CALM2_HUMAN | P0DP24 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:142
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144  
          CALM2_HUMAN     5 LTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMM 146
               SCOP domains d2v02a_ A: Calmodulin                                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.....eehhhhhhhhhhhh....hhhhhhhhhhhhh......eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhh...hhhhhhhhhhhhh......eehhhhhhhh Sec.struct. author
             SAPs(SNPs) (1) -------------------------------------------------I-----------------------------------L-----V-I----V--------------------------G-E-H-P----GL---- SAPs(SNPs) (1)
             SAPs(SNPs) (2) ---------------------------------------------------------------------------------------------S-------------------------------G---------------- SAPs(SNPs) (2)
             SAPs(SNPs) (3) ---------------------------------------------------------------------------------------------S-------------------------------V---------------- SAPs(SNPs) (3)
                PROSITE (1) ---EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-78             -EF_HAND_2  PDB: A:80-115            EF_HAND_2  PDB: A:116-145      PROSITE (1)
                PROSITE (2) ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) ----------------EF_HAND_1    -----------------------EF_HAND_1    ------------------------EF_HAND_1    -----------------------EF_HAND_1    ---- PROSITE (5)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v02 A   4 LTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMM 145
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143

Chain A from PDB  Type:PROTEIN  Length:142
 aligned with CALM3_HUMAN | P0DP25 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:142
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144  
          CALM3_HUMAN     5 LTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMM 146
               SCOP domains d2v02a_ A: Calmodulin                                                                                                                          SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhh.....eehhhhhhhhhhhh....hhhhhhhhhhhhh......eehhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhh...hhhhhhhhhhhhh......eehhhhhhhh Sec.struct. author
             SAPs(SNPs) (1) -------------------------------------------------I-----------------------------------L-----V-I----V--------------------------G-E-H-P----GL---- SAPs(SNPs) (1)
             SAPs(SNPs) (2) ---------------------------------------------------------------------------------------------S-------------------------------G---------------- SAPs(SNPs) (2)
             SAPs(SNPs) (3) ---------------------------------------------------------------------------------------------S-------------------------------V---------------- SAPs(SNPs) (3)
                PROSITE (2) ---EF_HAND_2  PDB: A:7-42 UniProt: 8-43EF_HAND_2  PDB: A:43-78             -EF_HAND_2  PDB: A:80-115            EF_HAND_2  PDB: A:116-145      PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) ----------------EF_HAND_1    -----------------------EF_HAND_1    ------------------------EF_HAND_1    -----------------------EF_HAND_1    ---- PROSITE (4)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2v02 A   4 LTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMM 145
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143

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 '\|'

Asymmetric/Biological Unit

Classes(

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Folds(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

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Organisms( (-)

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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)

d2v02a_

(no "CATH Domain" information available for 2V02)

(no "Pfam Domain" information available for 2V02)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (CALM3_HUMAN | P0DP25)

Chain A (CALM2_HUMAN | P0DP24)

Chain A (CALM1_HUMAN | P0DP23)

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2v02)

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Access by PDB/NDB ID
	2v02
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	CALM2_HUMAN \| P0DP24
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	CALM3_HUMAN \| P0DP25
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Access by Disease Identifier (MIM ID)
	614916
		Disease Information	:	OMIM
	616247
		Disease Information	:	OMIM
	616249
		Disease Information	:	OMIM

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		Age Related Information	:	GenAge

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		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
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	CALM1_HUMAN \| P0DP23
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1aji	APO-CALMODULIN IN COMPLEX WITH BRUSH BORDER MYOSIN I IQ MOTIF, THEORETICAL MODEL
1cdl	CALMODULIN COMPLEXED WITH CALMODULIN-BINDING PEPTIDE FROM SMOOTH MUSCLE MYOSIN LIGHT CHAIN KINASE
1cll	CALMODULIN (VERTEBRATE)
1ctr	CALMODULIN COMPLEXED WITH TRIFLUOPERAZINE (1:1 COMPLEX)
1iwq	CRYSTAL STRUCTURE OF MARCKS CALMODULIN BINDING DOMAINPEPTIDE COMPLEXED WITH CA2+/CALMODULIN
1j7o	SOLUTION STRUCTURE OF CALCIUM-CALMODULIN N- TERMINAL DOMAIN
1j7p	SOLUTION STRUCTURE OF CALCIUM CALMODULIN C- TERMINAL DOMAIN
1k90	CRYSTAL STRUCTURE OF THE EDEMA FACTOR WITH CALMODULIN AND3'-DATP
1k93	CRYSTAL STRUCTURE OF EDEMA FACTOR COMPLEXED WITH CALMODULIN
1l7z	CRYSTAL STRUCTURE OF CA2+/CALMODULIN COMPLEXED WITHMYRISTOYLATED CAP-23/NAP-22 PEPTIDE
1lvc	CRYSTAL STRUCTURE OF EF-CAM COMPLEXED WITH 3'-ANT-2'-DATP
1nkf	CALCIUM-BINDING PEPTIDE, NMR, 30 STRUCTURES
1pk0	CRYSTAL STRUCTURE OF THE EF3-CAM COMPLEXED WITH PMEAPP
1s26	STRUCTURE OF ANTHRAX EDEMA FACTOR-CALMODULIN- ALPHA,BETA-METHYLENEADENOSINE 5'-TRIPHOSPHATE COMPLEX REVEALS ANALTERNATIVE MODE OF ATP BINDING TO THE CATALYTIC SITE
1sk6	CRYSTAL STRUCTURE OF THE EF3/CALMODULIN COMPLEXED WITHCAMP/PYROPHOSPHATE
1sw8	SOLUTION STRUCTURE OF THE N-TERMINAL DOMAIN OF HUMAN N60DCALMODULIN REFINED WITH PARAMAGNETISM BASED STRATEGY
1wrz	CALMODULIN COMPLEXED WITH A PEPTIDE FROM A HUMAN DEATH-ASSOCIATED PROTEIN KINASE
1xfu	CRYSTAL STRUCTURE OF FULL-EF-DELTA64 COMPLEX WITH CAM
1xfv	FULL LENTH EF COMPLEXED CAM AND 3'-DEOXY- ATP
1xfw	CRYSTAL STRUCTURE OF FULL-EF-CAM COMPLEXED WITH CAMP
1xfx	CRYSTAL STRUCTURE OF FULL-EF-CAM COMPLEX AT 10 MM CALCIUM
1xfy	CRYSTAL STRUCTURE OF FULLEF-CAM WITH 1 UM CALCIUM
1xfz	CRYSTAL STRUCTURE OF FULLEF-CAM WITH 1 MM CALCIUM
1y6w	TRAPPED INTERMEDIATE OF CALMODULIN
1yr5	1.7-A STRUCTURE OF CALMODULIN BOUND TO A PEPTIDE FROM DAPKINASE
1yrt	CRYSTAL STRUCTURE ANALYSIS OF THE ADENYLYL CYCLAESCATALYTIC DOMAIN OF ADENYLYL CYCLASE TOXIN OF BORDETELLAPERTUSSIS IN PRESENCE OF C-TERMINAL CALMODULIN
1yru	CRYSTAL STRUCTURE ANALYSIS OF THE ADENYLYL CYCLAESCATALYTIC DOMAIN OF ADENYLYL CYCLASE TOXIN OF BORDETELLAPERTUSSIS IN PRESENCE OF C-TERMINAL CALMODULIN AND 1MMCALCIUM CHLORIDE
1zot	CRYSTAL STRUCTURE ANALYSIS OF THE CYAA/C- CAM WITH PMEAPP
2be6	2.0 A CRYSTAL STRUCTURE OF THE CAV1.2 IQ DOMAIN-CA/CAMCOMPLEX
2f3y	CALMODULIN/IQ DOMAIN COMPLEX
2f3z	CALMODULIN/IQ-AA DOMAIN COMPLEX
2v01	RECOMBINANT VERTEBRATE CALMODULIN COMPLEXED WITH PB

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 5)

Sites (5, 5)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (15, 15)

PROSITE Motifs (2, 8)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (81, 81)

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File