1JV0 - JenaLib

Asymmetric Unit (Jmol Viewer)

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Biological Unit 2 (Jmol Viewer)

Title :   THE CRYSTAL STRUCTURE OF THE ZINC(II) ADDUCT OF THE CAI MICHIGAN 1 VARIANT

Authors :   F. Briganti, M. Ferraroni, W. R. Chegwidden, A. Scozzafava, C. T. Supuran, S. Tilli

Date :   28 Aug 01 (Deposition) - 19 Sep 01 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.00

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

Keywords :   10-Stranded-Beta-Sheet, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Ferraroni, S. Tilli, F. Briganti, W. R. Chegwidden, C. T. Supuran, K. E. Wiebauer, R. E. Tashian, A. Scozzafava
Crystal Structure Of A Zinc-Activated Variant Of Human Carbonic Anhydrase I, Ca I Michigan 1: Evidence For A Second Zinc Binding Site Involving Arginine Coordination
Biochemistry V. 41 6237 2002
PubMed-ID: 12009884 | Reference-DOI: 10.1021/BI0120446
(for further references see the PDB file header)

Molecule 1 - CARBONIC ANHYDRASE I
	Chains	:	A, B
	EC Number	:	4.2.1.1
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PKK232-2
	Expression System Strain	:	JM109
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Mutation	:	YES
	Organism Common	:	HUMAN
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	CA-I

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 11)

No.	Name	Count	Type	Full Name
1	CL	3	Ligand/Ion	CHLORIDE ION
2	EDO	2	Ligand/Ion	1,2-ETHANEDIOL
3	ZN	6	Ligand/Ion	ZINC ION

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	ZN	-1	Ligand/Ion	ZINC ION

Biological Unit 2 (1, 1)

No.	Name	Count	Type	Full Name
1	CL	-1	Ligand/Ion	CHLORIDE ION
2	EDO	1	Ligand/Ion	1,2-ETHANEDIOL
3	ZN	-1	Ligand/Ion	ZINC ION

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	HIS A:94 , HIS A:96 , HIS A:119 , EDO A:265	BINDING SITE FOR RESIDUE ZN A 261
02	AC2	SOFTWARE	HIS A:64 , ARG A:67 , HIS A:200 , CL A:263	BINDING SITE FOR RESIDUE ZN A 262
03	AC3	SOFTWARE	HIS A:64 , ARG A:67 , HIS A:200 , ZN A:262 , HOH A:290	BINDING SITE FOR RESIDUE CL A 263
04	AC4	SOFTWARE	HIS A:243 , HOH A:351 , HOH A:380 , HOH A:418	BINDING SITE FOR RESIDUE ZN A 264
05	AC5	SOFTWARE	HIS B:94 , HIS B:96 , HIS B:119 , EDO B:265	BINDING SITE FOR RESIDUE ZN B 261
06	AC6	SOFTWARE	HIS B:64 , ARG B:67 , HIS B:200 , CL B:263	BINDING SITE FOR RESIDUE ZN B 262
07	AC7	SOFTWARE	HIS B:64 , ARG B:67 , HIS B:94 , HIS B:200 , ZN B:262 , HOH B:1384	BINDING SITE FOR RESIDUE CL B 263
08	AC8	SOFTWARE	HIS B:243 , CL B:1266 , HOH B:1402 , HOH B:1467 , HOH B:1470	BINDING SITE FOR RESIDUE ZN B 264
09	AC9	SOFTWARE	GLN B:242 , HIS B:243 , ZN B:264 , HOH B:1470	BINDING SITE FOR RESIDUE CL B 1266
10	BC1	SOFTWARE	HIS A:94 , HIS A:96 , HIS A:119 , LEU A:198 , THR A:199 , ZN A:261 , HOH A:290	BINDING SITE FOR RESIDUE EDO A 265
11	BC2	SOFTWARE	HIS B:94 , HIS B:96 , HIS B:119 , LEU B:198 , THR B:199 , ZN B:261 , HOH B:1384	BINDING SITE FOR RESIDUE EDO B 265

(no "SS Bond" information available for 1JV0)

(no "Cis Peptide Bond" information available for 1JV0)

Asymmetric Unit (3, 6)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_001378	H	68	R	CAH1_HUMAN	Unclassified	---	A/B	R	67	R
2	UniProt	VAR_048679	A	143	V	CAH1_HUMAN	Polymorphism	7821248	A/B	A	142	V
3	UniProt	VAR_001379	G	254	R	CAH1_HUMAN	Polymorphism	121909577	A/B	G	253	R

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

Biological Unit 1 (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_001378	H	68	R	CAH1_HUMAN	Unclassified	---	A	R	67	R
2	UniProt	VAR_048679	A	143	V	CAH1_HUMAN	Polymorphism	7821248	A	A	142	V
3	UniProt	VAR_001379	G	254	R	CAH1_HUMAN	Polymorphism	121909577	A	G	253	R

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

Biological Unit 2 (3, 3)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_001378	H	68	R	CAH1_HUMAN	Unclassified	---	B	R	67	R
2	UniProt	VAR_048679	A	143	V	CAH1_HUMAN	Polymorphism	7821248	B	A	142	V
3	UniProt	VAR_001379	G	254	R	CAH1_HUMAN	Polymorphism	121909577	B	G	253	R

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

Asymmetric Unit (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ALPHA_CA_1	PS00162	Alpha-carbonic anhydrases signature.	CAH1_HUMAN	106-122	2	A:105-121 B:105-121

Biological Unit 1 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ALPHA_CA_1	PS00162	Alpha-carbonic anhydrases signature.	CAH1_HUMAN	106-122	1	A:105-121 -

Biological Unit 2 (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	ALPHA_CA_1	PS00162	Alpha-carbonic anhydrases signature.	CAH1_HUMAN	106-122	1	- B:105-121

(no "Exon" information available for 1JV0)

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:257
 aligned with CAH1_HUMAN | P00915 from UniProtKB/Swiss-Prot  Length:261

    Alignment length:257
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       
           CAH1_HUMAN     5 DWGYDDKNGPEQWSKLYPIANGNNQSPVDIKTSETKHDTSLKPISVSYNPATAKEIINVGHSFHVNFEDNDNRSVLKGGPFSDSYRLFQFHFHWGSTNEHGSEHTVDGVKYSAELHVAHWNSAKYSSLAEAASKADGLAVIGVLMKVGEANPKLQKVLDALQAIKTKGKRAPFTNFDPSTLLPSSLDFWTYPGSLTHPPLYESVTWIICKESISVSSEQLAQFRSLLSNVEGDNAVPMQHNNRPTQPLKGRTVRASF 261
               SCOP domains d1jv0a_ A: Carbonic anhydrase                                                                                                                                                                                                                                     SCOP domains
               CATH domains 1jv0A00 A:4-260 Carbonic Anhydrase II                                                                                                                                                                                                                             CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhh...hhhhhh......ee.....ee......eeee.hhh.eeeeee....eeeee.......eeee......eeeeeeeeee..........ee......eeeeeeeee.....hhhhhh.....eeeeeeeeee...hhhhhhhhhhhhhh.....eee....hhhhhh.....eeeeee..........eeeeee...eeehhhhhhhhhh............................ee.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------R--------------------------------------------------------------------------V--------------------------------------------------------------------------------------------------------------R------- SAPs(SNPs)
                    PROSITE -----------------------------------------------------------------------------------------------------ALPHA_CA_1       ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jv0 A   4 DWGYDDKNGPEQWSKLYPIANGNNQSPVDIKTSETKHDTSLKPISVSYNPATAKEIINVGHSFRVNFEDNDNRSVLKGGPFSDSYRLFQFHFHWGSTNEHGSEHTVDGVKYSAELHVAHWNSAKYSSLAEAASKADGLAVIGVLMKVGEANPKLQKVLDALQAIKTKGKRAPFTNFDPSTLLPSSLDFWTYPGSLTHPPLYESVTWIICKESISVSSEQLAQFRSLLSNVEGDNAVPMQHNNRPTQPLKGRTVRASF 260
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253

Chain B from PDB  Type:PROTEIN  Length:256
 aligned with CAH1_HUMAN | P00915 from UniProtKB/Swiss-Prot  Length:261

    Alignment length:256
                                    15        25        35        45        55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255      
           CAH1_HUMAN     6 WGYDDKNGPEQWSKLYPIANGNNQSPVDIKTSETKHDTSLKPISVSYNPATAKEIINVGHSFHVNFEDNDNRSVLKGGPFSDSYRLFQFHFHWGSTNEHGSEHTVDGVKYSAELHVAHWNSAKYSSLAEAASKADGLAVIGVLMKVGEANPKLQKVLDALQAIKTKGKRAPFTNFDPSTLLPSSLDFWTYPGSLTHPPLYESVTWIICKESISVSSEQLAQFRSLLSNVEGDNAVPMQHNNRPTQPLKGRTVRASF 261
               SCOP domains d1jv0b_ B: Carbonic anhydrase                                                                                                                                                                                                                                    SCOP domains
               CATH domains 1jv0B00 B:5-260 Carbonic Anhydrase II                                                                                                                                                                                                                            CATH domains
           Pfam domains (1) Carb_anhydrase-1jv0B01 B:5-259                                                                                                                                                                                                                                 - Pfam domains (1)
           Pfam domains (2) Carb_anhydrase-1jv0B02 B:5-259                                                                                                                                                                                                                                 - Pfam domains (2)
         Sec.struct. author .......hhhhhhhhhhhhhh......eehhhhhee......eeee.hhh.eeeeee....eeeee.......eeee......eeeeeeeeee..........ee......eeeeeeee......hhhhhh.....eeeeeeeeee...hhhhhhhhhhhhhhh....eee....hhhhhh.....eeeeee..........eeeeee...eeehhhhhhhhhh............................ee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------R--------------------------------------------------------------------------V--------------------------------------------------------------------------------------------------------------R------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------ALPHA_CA_1       ------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1jv0 B   5 WGYDDKNGPEQWSKLYPIANGNNQSPVDIKTSETKHDTSLKPISVSYNPATAKEIINVGHSFRVNFEDNDNRSVLKGGPFSDSYRLFQFHFHWGSTNEHGSEHTVDGVKYSAELHVAHWNSAKYSSLAEAASKADGLAVIGVLMKVGEANPKLQKVLDALQAIKTKGKRAPFTNFDPSTLLPSSLDFWTYPGSLTHPPLYESVTWIICKESISVSSEQLAQFRSLLSNVEGDNAVPMQHNNRPTQPLKGRTVRASF 260
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254

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 Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All beta proteins (24004)

Fold: Carbonic anhydrase (525)

Superfamily: Carbonic anhydrase (525)

Family: Carbonic anhydrase (513)

Protein domain: Carbonic anhydrase (499)

Human (Homo sapiens), erythrocytes, isozyme I [TaxId: 9606] (18)

1a	d1jv0a_	A:
1b	d1jv0b_	B:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: Carbonic Anhydrase II (332)

Homologous Superfamily: Carbonic Anhydrase II (332)

Human (Homo sapiens) (309)

1a	1jv0B00	B:5-260
1b	1jv0A00	A:4-260

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: no clan defined [family: Carb_anhydrase] (168)

Family: Carb_anhydrase (168)

Homo sapiens (Human) (157)

1a	Carb_anhydrase-1jv0B01	B:5-259
1b	Carb_anhydrase-1jv0B02	B:5-259

Asymmetric Unit(hide GO term definitions)

Chain A,B (CAH1_HUMAN | P00915)

molecular function
	GO:0004064	arylesterase activity	Catalysis of the reaction: a phenyl acetate + H2O = a phenol + acetate.
	GO:0004089	carbonate dehydratase activity	Catalysis of the reaction: H2CO3 = CO2 + H2O.
	GO:0016836	hydro-lyase activity	Catalysis of the cleavage of a carbon-oxygen bond by elimination of water.
	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:0015701	bicarbonate transport	The directed movement of bicarbonate into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
	GO:0006730	one-carbon metabolic process	The chemical reactions and pathways involving the transfer of one-carbon units in various oxidation states.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
	GO:0070062	extracellular exosome	A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.

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1j9w	1J9W CONTAINS STRUCTURE OF THE CAI MICHIGAN 1 VARIANT

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 11)

Sites (11, 11)

SS Bonds (0, 0)

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