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Description

Title :   CRYSTAL STRUCTURE OF CALCIUM BINDING PROTEIN 1 FROM ENTAMOEBA HISTOLYTICA: A NOVEL ARRANGEMENT OF EF HAND MOTIFS

Authors :   S. Kumar, N. Padhan, N. Alam, S. Gourinath

Date :   18 Nov 06 (Deposition) - 21 Aug 07 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.40

Chains :   Asym. Unit : A,B
Biol. Unit 1: A  (3x)
Biol. Unit 2: B  (3x)
Biol. Unit 3: A,B  (3x)
Biol. Unit 4: A  (1x)
Biol. Unit 5: B  (1x)

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

Reference :   S. Kumar, N. Padhan, N. Alam, S. Gourinath
Crystal Structure Of Calcium Binding Protein-1 From Entamoeba Histolytica: A Novel Arrangement Of Ef Hand Motifs.
Proteins V. 68 990 2007
PubMed-ID: 17554780 | Reference-DOI: 10.1002/PROT.21455

Compounds

Molecule 1 - CALCIUM-BINDING PROTEIN
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET-3C
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	ENTAMOEBA HISTOLYTICA
	Organism Taxid	:	294381
	Synonym	:	CABP

Structural Features

Chains, Units

		1	2
Asymmetric Unit	:	A	B
Biological Unit 1 (3x)	:	A
Biological Unit 2 (3x)	:		B
Biological Unit 3 (3x)	:	A	B
Biological Unit 4 (1x)	:	A
Biological Unit 5 (1x)	:		B

Summary Information (see also Sequences/Alignments below)

Ligands, Modified Residues, Ions (2, 9)

Asymmetric Unit (2, 9)

No.	Name	Count	Type	Full Name
1	ACT	5	Ligand/Ion	ACETATE ION
2	CA	4	Ligand/Ion	CALCIUM ION

Biological Unit 1 (1, 6)

No.	Name	Count	Type	Full Name
1	ACT	6	Ligand/Ion	ACETATE ION
2	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 2 (1, 9)

No.	Name	Count	Type	Full Name
1	ACT	9	Ligand/Ion	ACETATE ION
2	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 3 (1, 15)

No.	Name	Count	Type	Full Name
1	ACT	15	Ligand/Ion	ACETATE ION
2	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 4 (1, 2)

No.	Name	Count	Type	Full Name
1	ACT	2	Ligand/Ion	ACETATE ION
2	CA	-1	Ligand/Ion	CALCIUM ION

Biological Unit 5 (1, 3)

No.	Name	Count	Type	Full Name
1	ACT	3	Ligand/Ion	ACETATE ION
2	CA	-1	Ligand/Ion	CALCIUM ION

Sites (8, 8)

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ASP A:10 , ASN A:12 , ASP A:14 , ALA A:16 , GLU A:21 , HOH A:215	BINDING SITE FOR RESIDUE CA A 149
2	AC2	SOFTWARE	ASP A:46 , ASP A:48 , ASN A:50 , GLU A:52 , GLU A:57 , HOH A:216	BINDING SITE FOR RESIDUE CA A 150
3	AC3	SOFTWARE	TYR A:62	BINDING SITE FOR RESIDUE ACT A 201
4	AC4	SOFTWARE	LYS A:33	BINDING SITE FOR RESIDUE ACT A 203
5	AC5	SOFTWARE	ASP B:10 , ASN B:12 , ASP B:14 , ALA B:16 , GLU B:21 , HOH B:222	BINDING SITE FOR RESIDUE CA B 151
6	AC6	SOFTWARE	ASP B:46 , ASP B:48 , ASN B:50 , GLU B:52 , GLU B:57 , HOH B:223	BINDING SITE FOR RESIDUE CA B 152
7	AC7	SOFTWARE	TYR B:62	BINDING SITE FOR RESIDUE ACT B 202
8	AC8	SOFTWARE	VAL B:26	BINDING SITE FOR RESIDUE ACT B 205

SS Bonds (0, 0)

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

Cis Peptide Bonds (0, 0)

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

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

(no "SAP(SNP)/Variant" information available for 2NXQ)

PROSITE Motifs (2, 6)

Asymmetric Unit (2, 6)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALBP_ENTHI	1-32 33-68 72-107 108-134	2	- A:33-67 B:33-65 - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALBP_ENTHI	10-22 46-58 85-97 117-129	4	A:10-22 B:10-22 A:46-58 B:46-58 - -

Biological Unit 1 (2, 9)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALBP_ENTHI	1-32 33-68 72-107 108-134	3	- A:33-67 - - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALBP_ENTHI	10-22 46-58 85-97 117-129	6	A:10-22 - A:46-58 - - -

Biological Unit 2 (2, 9)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALBP_ENTHI	1-32 33-68 72-107 108-134	3	- - B:33-65 - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALBP_ENTHI	10-22 46-58 85-97 117-129	6	- B:10-22 - B:46-58 - -

Biological Unit 3 (2, 18)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALBP_ENTHI	1-32 33-68 72-107 108-134	6	- A:33-67 B:33-65 - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALBP_ENTHI	10-22 46-58 85-97 117-129	12	A:10-22 B:10-22 A:46-58 B:46-58 - -

Biological Unit 4 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALBP_ENTHI	1-32 33-68 72-107 108-134	1	- A:33-67 - - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALBP_ENTHI	10-22 46-58 85-97 117-129	2	A:10-22 - A:46-58 - - -

Biological Unit 5 (2, 3)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	EF_HAND_2	PS50222	EF-hand calcium-binding domain profile.	CALBP_ENTHI	1-32 33-68 72-107 108-134	1	- - B:33-65 - -
2	EF_HAND_1	PS00018	EF-hand calcium-binding domain.	CALBP_ENTHI	10-22 46-58 85-97 117-129	2	- B:10-22 - B:46-58 - -

Exons (0, 0)

(no "Exon" information available for 2NXQ)

Sequences/Alignments

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
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Chain A from PDB  Type:PROTEIN  Length:66
 aligned with CALBP_ENTHI | P38505 from UniProtKB/Swiss-Prot  Length:134

    Alignment length:66
                                    11        21        31        41        51        61      
           CALBP_ENTHI    2 AEALFKEIDVNGDGAVSYEEVKAFVSKKRAIKNEQLLQLIFKSIDADGNGEIDQNEFAKFYGSIQG 67
               SCOP domains d2nxqa_ A: EHCABP                                                  SCOP domains
               CATH domains ------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) EF_HAND_2  PDB: - UniProt: 1-32EF_HAND_2  PDB: A:33-67             PROSITE (1)
                PROSITE (2) --------EF_HAND_1    -----------------------EF_HAND_1    --------- PROSITE (2)
                 Transcript ------------------------------------------------------------------ Transcript
                  2nxq A  2 AEALFKEIDVNGDGAVSYEEVKAFVSKKRAIKNEQLLQLIFKSIDADGNGEIDQNEFAKFYGSIQG 67
                                    11        21        31        41        51        61

Chain B from PDB  Type:PROTEIN  Length:64
 aligned with CALBP_ENTHI | P38505 from UniProtKB/Swiss-Prot  Length:134

    Alignment length:64
                                    11        21        31        41        51        61    
           CALBP_ENTHI    2 AEALFKEIDVNGDGAVSYEEVKAFVSKKRAIKNEQLLQLIFKSIDADGNGEIDQNEFAKFYGSI 65
               SCOP domains d2nxqb_ B: EHCABP                                                SCOP domains
               CATH domains ---------------------------------------------------------------- CATH domains
           Pfam domains (1) efhand-2nxqB01 B:2-29       ------------------------------------ Pfam domains (1)
           Pfam domains (2) efhand-2nxqB02 B:2-29       ------------------------------------ Pfam domains (2)
         Sec.struct. author hhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) EF_HAND_2  PDB: - UniProt: 1-32EF_HAND_2  PDB: B:33-65           PROSITE (1)
                PROSITE (2) --------EF_HAND_1    -----------------------EF_HAND_1    ------- PROSITE (2)
                 Transcript ---------------------------------------------------------------- Transcript
                  2nxq B  2 AEALFKEIDVNGDGAVSYEEVKAFVSKKRAIKNEQLLQLIFKSIDADGNGEIDQNEFAKFYGSI 65
                                    11        21        31        41        51        61

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 '\|'

Classification and Annotation

SCOP Domains (1, 2)

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: EHCABP (3)

Entamoeba (Entamoeba histolytica) [TaxId: 5759] (3)

1a	d2nxqa_	A:
1b	d2nxqb_	B:

CATH Domains (0, 0)

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

Pfam Domains (1, 2)

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: EF_hand (270)

Family: efhand (70)

Entamoeba histolytica (7)

1a	efhand-2nxqB01	B:2-29
1b	efhand-2nxqB02	B:2-29

Gene Ontology (2, 2)

Asymmetric Unit(hide GO term definitions)

Chain A,B (CALBP_ENTHI | P38505)

molecular function
	GO:0005509		calcium ion binding		Interacting selectively and non-covalently with calcium ions (Ca2+).
	GO:0046872		metal ion binding		Interacting selectively and non-covalently with any metal ion.

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Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
	CALBP_ENTHI \| P38505	:	1jfj 1jfk 2i18 2m7k 2m7m 2m7n 3li6 3px1 3qjk 3ulg

Related Entries Specified in the PDB File

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