1YM3 - JenaLib

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Title :   CRYSTAL STRUCTURE OF CARBONIC ANHYDRASE RV3588C FROM MYCOBACTERIUM TUBERCULOSIS

Authors :   A. S. Covarrubias, A. M. Larsson, M. Hogbom, J. Lindberg, T. Bergfors, C. Bjorkelid, S. L. Mowbray, T. Unge, T. A. Jones, Structural Proteom Europe (Spine)

Date :   20 Jan 05 (Deposition) - 08 Mar 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.75

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

Keywords :   Zn Protein, Structural Proteomics In Europe, Spine, Structural Genomics, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Suarez Covarrubias, A. M. Larsson, M. Hogbom, J. Lindberg, T. Bergfors, C. Bjorkelid, S. L. Mowbray, T. Unge, T. A. Jones
Structure And Function Of Carbonic Anhydrases From Mycobacterium Tuberculosis.
J. Biol. Chem. V. 280 18782 2005
PubMed-ID: 15753099 | Reference-DOI: 10.1074/JBC.M414348200

Molecule 1 - CARBONIC ANHYDRASE (CARBONATE DEHYDRATASE) (CARBONIC DEHYDRATASE)
	Chains	:	A
	EC Number	:	4.2.1.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PCRT7
	Expression System Strain	:	BL21-AI
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	RV3588C
	Organism Scientific	:	MYCOBACTERIUM TUBERCULOSIS
	Organism Taxid	:	83332
	Strain	:	H37RV

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 2)

No.	Name	Count	Type	Full Name
1	MG	1	Ligand/Ion	MAGNESIUM ION
2	ZN	1	Ligand/Ion	ZINC ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	MG	-1	Ligand/Ion	MAGNESIUM ION
2	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	CYS A:51 , ASP A:53 , HIS A:104 , CYS A:107	BINDING SITE FOR RESIDUE ZN A 301
2	AC2	SOFTWARE	HIS A:199 , HOH A:303 , HOH A:305 , HOH A:307 , HOH A:315	BINDING SITE FOR RESIDUE MG A 302

(no "SS Bond" information available for 1YM3)

(no "Cis Peptide Bond" information available for 1YM3)

(no "SAP(SNP)/Variant" information available for 1YM3)

Asymmetric Unit (2, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROK_CO2_ANHYDRASE_1	PS00704	Prokaryotic-type carbonic anhydrases signature 1.	MTCA2_MYCTO	51-58	1	A:51-58
1	PROK_CO2_ANHYDRASE_1	PS00704	Prokaryotic-type carbonic anhydrases signature 1.	MTCA2_MYCTU	51-58	1	A:51-58
2	PROK_CO2_ANHYDRASE_2	PS00705	Prokaryotic-type carbonic anhydrases signature 2.	MTCA2_MYCTO	88-108	1	A:88-108
2	PROK_CO2_ANHYDRASE_2	PS00705	Prokaryotic-type carbonic anhydrases signature 2.	MTCA2_MYCTU	88-108	1	A:88-108

Biological Unit 1 (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	PROK_CO2_ANHYDRASE_1	PS00704	Prokaryotic-type carbonic anhydrases signature 1.	MTCA2_MYCTO	51-58	2	A:51-58
1	PROK_CO2_ANHYDRASE_1	PS00704	Prokaryotic-type carbonic anhydrases signature 1.	MTCA2_MYCTU	51-58	2	A:51-58
2	PROK_CO2_ANHYDRASE_2	PS00705	Prokaryotic-type carbonic anhydrases signature 2.	MTCA2_MYCTO	88-108	2	A:88-108
2	PROK_CO2_ANHYDRASE_2	PS00705	Prokaryotic-type carbonic anhydrases signature 2.	MTCA2_MYCTU	88-108	2	A:88-108

(no "Exon" information available for 1YM3)

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:193
 aligned with MTCA2_MYCTO | P9WPJ8 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:203
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203   
          MTCA2_MYCTO     4 TNPVAAWKALKEGNERFVAGRPQHPSQSVDHRAGLAAGQKPTAVIFGCADSRVAAEIIFDQGLGDMFVVRTAGHVIDSAVLGSIEYAVTVLNVPLIVVLGHDSCGAVNAALAAINDGTLPGGYVRDVVERVAPSVLLGRRDGLSRVDEFEQRHVHETVAILMARSSAISERIAGGSLAIVGVTYQLDDGRAVLRDHIGNIGEE 206
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh...hhhhh----------....eeeeee.....hhhhhh......eeeeeehhhh.hhhhhhhhhhhhhh....eeeeeee..hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee.......eeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) -----------------------------------------------PROK_CO2-----------------------------PROK_CO2_ANHYDRASE_2 -------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ym3 A   4 TNPVAAWKALKEGNERFVAGRPQHPSQS----------QKPTAVIFGCADSRVAAEIIFDQGLGDMFVVRTAGHVIDSAVLGSIEYAVTVLNVPLIVVLGHDSCGAVNAALAAINDGTLPGGYVRDVVERVAPSVLLGRRDGLSRVDEFEQRHVHETVAILMARSSAISERIAGGSLAIVGVTYQLDDGRAVLRDHIGNIGEE 206
                                    13        23       | -        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203   
                                                      31         42

Chain A from PDB  Type:PROTEIN  Length:193
 aligned with MTCA2_MYCTU | P9WPJ9 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:203
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203   
          MTCA2_MYCTU     4 TNPVAAWKALKEGNERFVAGRPQHPSQSVDHRAGLAAGQKPTAVIFGCADSRVAAEIIFDQGLGDMFVVRTAGHVIDSAVLGSIEYAVTVLNVPLIVVLGHDSCGAVNAALAAINDGTLPGGYVRDVVERVAPSVLLGRRDGLSRVDEFEQRHVHETVAILMARSSAISERIAGGSLAIVGVTYQLDDGRAVLRDHIGNIGEE 206
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhhhh...hhhhh----------....eeeeee.....hhhhhh......eeeeeehhhh.hhhhhhhhhhhhhh....eeeeeee..hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...eeeeeee.......eeeeee...... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -----------------------------------------------PROK_CO2-----------------------------PROK_CO2_ANHYDRASE_2 -------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ym3 A   4 TNPVAAWKALKEGNERFVAGRPQHPSQS----------QKPTAVIFGCADSRVAAEIIFDQGLGDMFVVRTAGHVIDSAVLGSIEYAVTVLNVPLIVVLGHDSCGAVNAALAAINDGTLPGGYVRDVVERVAPSVLLGRRDGLSRVDEFEQRHVHETVAILMARSSAISERIAGGSLAIVGVTYQLDDGRAVLRDHIGNIGEE 206
                                    13        23       | -        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203   
                                                      31         42

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 1YM3)

(no "CATH Domain" information available for 1YM3)

(no "Pfam Domain" information available for 1YM3)

Asymmetric Unit(hide GO term definitions)

Chain A (MTCA2_MYCTO | P9WPJ8)

molecular function
	GO:0004089	carbonate dehydratase activity	Catalysis of the reaction: H2CO3 = CO2 + H2O.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0015976	carbon utilization	A series of processes that forms an integrated mechanism by which a cell or an organism detects the depletion of primary carbon sources and then activates genes to scavenge the last traces of the primary carbon source and to transport and metabolize alternative carbon sources such as carbon dioxide or carbonic acid. The utilization process begins when the cell or organism detects carbon levels, includes the activation of genes whose products detect, transport or metabolize carbon-containing substances, and ends when carbon is incorporated into the cell or organism's metabolism.

Chain A (MTCA2_MYCTU | P9WPJ9)

molecular function
	GO:0004089	carbonate dehydratase activity	Catalysis of the reaction: H2CO3 = CO2 + H2O.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	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).
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0015976	carbon utilization	A series of processes that forms an integrated mechanism by which a cell or an organism detects the depletion of primary carbon sources and then activates genes to scavenge the last traces of the primary carbon source and to transport and metabolize alternative carbon sources such as carbon dioxide or carbonic acid. The utilization process begins when the cell or organism detects carbon levels, includes the activation of genes whose products detect, transport or metabolize carbon-containing substances, and ends when carbon is incorporated into the cell or organism's metabolism.

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	Cis Peptide Bonds
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Biological Unit
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