2K0E - JenaLib

NMR Structure - model 1 (Jmol Viewer)

NMR Structure - model 1, sites (Jmol Viewer)

NMR Structure - all models (Jmol Viewer)

Title :   A COUPLED EQUILIBRIUM SHIFT MECHANISM IN CALMODULIN-MEDIATED SIGNAL TRANSDUCTION

Authors :   J. Gsponer, J. Christodoulou, A. Cavalli, J. M. Bui, B. Richter, C. M. Dobson, M. Vendruscolo

Date :   02 Feb 08 (Deposition) - 10 Jun 08 (Release) - 24 Feb 09 (Revision)

Method :   SOLUTION NMR

Resolution :   NOT APPLICABLE

Chains :   NMR Structure  : A  (160x)

Keywords :   Ef Hands, Binding, Ensemble, Helix Bundle, Calcium Binding, Metal Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   J. Gsponer, J. Christodoulou, A. Cavalli, J. M. Bui, B. Richter, C. M. Dobson, M. Vendruscolo
A Coupled Equilibrium Shift Mechanism In Calmodulin-Mediated Signal Transduction
Structure V. 16 736 2008
PubMed-ID: 18462678 | Reference-DOI: 10.1016/J.STR.2008.02.017
(for further references see the PDB file header)

Molecule 1 - CALMODULIN
	Chains	:	A
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Vector	:	AR58
	Expression System Vector Type	:	PLASMID
	Gene	:	CALM1, CALM, CAM, CAM1
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS


NMR Structure (160x)	:

Summary Information (see also Sequences/Alignments below)

NMR Structure (1, 4)

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

NMR Structure (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:20 , LYS A:21 , ASP A:22	BINDING SITE FOR RESIDUE CA A 151
2	AC2	SOFTWARE	ILE A:52 , ASP A:56 , ASP A:58 , ILE A:63	BINDING SITE FOR RESIDUE CA A 152
3	AC3	SOFTWARE	ASP A:93 , LYS A:94 , ASP A:95 , TYR A:99 , SER A:101 , GLU A:104	BINDING SITE FOR RESIDUE CA A 153
4	AC4	SOFTWARE	TYR A:99 , ILE A:125 , ASP A:129	BINDING SITE FOR RESIDUE CA A 154

(no "SS Bond" information available for 2K0E)

(no "Cis Peptide Bond" information available for 2K0E)

NMR Structure (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)

NMR Structure (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:116-148
				CALM2_HUMAN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-78 A:80-115 A:116-148
				CALM3_HUMAN	8-43 44-79 81-116 117-149	4	A:7-42 A:43-78 A:80-115 A:116-148
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 2K0E)

NMR Structure

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:148
 aligned with CALM1_HUMAN | P0DP23 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:148
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141        
          CALM1_HUMAN     2 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK 149
               SCOP domains d2k0ea_ A: Calmodulin                                                                                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh.......hhhhhhhhhhhh....hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh..hhhhhhhhhhhh......eehhhhhhhhhhhh...hhhhhhhhhhh.......eehhhhhhhhhhhh 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:116-148         PROSITE (3)
                PROSITE (4) ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (4)
                PROSITE (5) -------------------EF_HAND_1    -----------------------EF_HAND_1    ------------------------EF_HAND_1    -----------------------EF_HAND_1    ------- PROSITE (5)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2k0e A   1 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK 148
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140

Chain A from PDB  Type:PROTEIN  Length:148
 aligned with CALM2_HUMAN | P0DP24 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:148
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141        
          CALM2_HUMAN     2 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK 149
               SCOP domains d2k0ea_ A: Calmodulin                                                                                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh.......hhhhhhhhhhhh....hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh..hhhhhhhhhhhh......eehhhhhhhhhhhh...hhhhhhhhhhh.......eehhhhhhhhhhhh 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:116-148         PROSITE (2)
                PROSITE (3) ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (3)
                PROSITE (4) -------------------EF_HAND_1    -----------------------EF_HAND_1    ------------------------EF_HAND_1    -----------------------EF_HAND_1    ------- PROSITE (4)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2k0e A   1 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK 148
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140

Chain A from PDB  Type:PROTEIN  Length:148
 aligned with CALM3_HUMAN | P0DP25 from UniProtKB/Swiss-Prot  Length:149

    Alignment length:148
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141        
          CALM3_HUMAN     2 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK 149
               SCOP domains d2k0ea_ A: Calmodulin                                                                                                                                SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhhh.......hhhhhhhhhhhh....hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh..hhhhhhhhhhhh......eehhhhhhhhhhhh...hhhhhhhhhhh.......eehhhhhhhhhhhh 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:116-148         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    ------------------------EF_HAND_1    -----------------------EF_HAND_1    ------- PROSITE (6)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2k0e A   1 ADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK 148
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140

Legend:		→ Mismatch	(orange background)
	-	→ Gap	(green background, '-', border residues have a numbering label)
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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 '\|'

NMR Structure

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)

d2k0ea_

(no "CATH Domain" information available for 2K0E)

(no "Pfam Domain" information available for 2K0E)

NMR Structure(hide GO term definitions)

Chain A (CALM3_HUMAN | P0DP25)

Chain A (CALM2_HUMAN | P0DP24)

Chain A (CALM1_HUMAN | P0DP23)

NMR Structure
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2k0e)

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	2k0e
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	614916
		Disease Information	:	OMIM
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1j7o	SOLUTION STRUCTURE OF CALCIUM-CALMODULIN N-TERMINAL DOMAIN
1j7p	SOLUTION STRUCTURE OF CALCIUM-CALMODULIN C-TERMINAL DOMAIN
2k0f

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 (15, 15)

PROSITE Motifs (2, 8)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 1)

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Pfam Domains (0, 0)

Gene Ontology (81, 81)

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