1QI0 - JenaLib

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Biological Unit 2 (Jmol Viewer)

Title :   ENDOGLUCANASE CEL5A FROM BACILLUS AGARADHAERENS IN THE TETRAGONAL CRYSTAL FORM IN COMPLEX WITH CELLOBIOSE

Authors :   A. Varrot, M. Schulein, G. J. Davies

Date :   02 Jun 99 (Deposition) - 07 Jun 00 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.10

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

Keywords :   Hydrolase, Cellulose Degradation, Endoglucanase, Glycoshydrolase Family 5I (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   A. Varrot, M. Schulein, G. J. Davies
Insights Into Ligand-Induced Conformational Change In Cel5A From Bacillus Agaradhaerens Revealed By A Catalytically Active Crystal Form.
J. Mol. Biol. V. 297 819 2000
PubMed-ID: 10731432 | Reference-DOI: 10.1006/JMBI.2000.3567

Molecule 1 - ENDOGLUCANASE B
	Chains	:	A
	EC Number	:	3.2.1.4
	Engineered	:	YES
	Expression System	:	BACILLUS SUBTILIS
	Expression System Plasmid	:	PMOL995
	Expression System Strain	:	PL2306 CELLULASE NEGATIVE
	Expression System Taxid	:	1423
	Expression System Vector Type	:	THERMAMYL-AMYLASE PROMOTER SYSTEM
	Fragment	:	CATALYTIC CORE DOMAIN
	Organism Scientific	:	BACILLUS AGARADHAERENS
	Organism Taxid	:	76935
	Strain	:	AC13
	Synonym	:	CELLULASE, ENDO-1,4-BETA-GLUCANASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 6)

No.	Name	Count	Type	Full Name
1	CA	5	Ligand/Ion	CALCIUM ION
2	CBI	1	Ligand/Ion	CELLOBIOSE

Biological Unit 1 (1, 1)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CBI	1	Ligand/Ion	CELLOBIOSE

Biological Unit 2 (1, 2)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CBI	2	Ligand/Ion	CELLOBIOSE

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLU A:25 , HIS A:35 , TRP A:39 , TYR A:40 , TYR A:66 , LEU A:103 , TYR A:202 , TRP A:262 , LYS A:267 , GLU A:269 , HOH A:588 , HOH A:621 , HOH A:653 , HOH A:700 , HOH A:713	BINDING SITE FOR RESIDUE CBI A 501
2	AC2	SOFTWARE	HOH A:637 , HOH A:646 , HOH A:669 , HOH A:680 , HOH A:729 , HOH A:790	BINDING SITE FOR RESIDUE CA A 400
3	AC3	SOFTWARE	GLU A:157 , ASP A:243 , HOH A:662 , HOH A:749 , HOH A:752	BINDING SITE FOR RESIDUE CA A 401
4	AC4	SOFTWARE	GLY A:127 , ASP A:166 , ASN A:168 , ASN A:169 , HOH A:571 , HOH A:630	BINDING SITE FOR RESIDUE CA A 402
5	AC5	SOFTWARE	ASP A:120 , GLU A:124 , HOH A:558 , HOH A:711	BINDING SITE FOR RESIDUE CA A 403
6	AC6	SOFTWARE	GLU A:139 , GLU A:228 , HOH A:533 , HOH A:580 , HOH A:676 , HOH A:713 , HOH A:720	BINDING SITE FOR RESIDUE CA A 404
7	ACI	AUTHOR	GLU A:139	ACID/BASE
8	NUC	AUTHOR	GLU A:228	NUCLEOPHILE

(no "SS Bond" information available for 1QI0)

Asymmetric Unit

No.	Residues
1	Trp A:262	-	Ser A:263

(no "SAP(SNP)/Variant" information available for 1QI0)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F5	PS00659	Glycosyl hydrolases family 5 signature.	GUN5_BACAG	158-167	1	A:132-141
1	GLYCOSYL_HYDROL_F5	PS00659	Glycosyl hydrolases family 5 signature.	GUN2_BACCJ	158-167	1	A:132-141

Biological Unit 1 (1, 2)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F5	PS00659	Glycosyl hydrolases family 5 signature.	GUN5_BACAG	158-167	1	A:132-141
1	GLYCOSYL_HYDROL_F5	PS00659	Glycosyl hydrolases family 5 signature.	GUN2_BACCJ	158-167	1	A:132-141

Biological Unit 2 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GLYCOSYL_HYDROL_F5	PS00659	Glycosyl hydrolases family 5 signature.	GUN5_BACAG	158-167	2	A:132-141
1	GLYCOSYL_HYDROL_F5	PS00659	Glycosyl hydrolases family 5 signature.	GUN2_BACCJ	158-167	2	A:132-141

(no "Exon" information available for 1QI0)

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:302
 aligned with GUN2_BACCJ | P06565 from UniProtKB/Swiss-Prot  Length:409

    Alignment length:302
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329  
           GUN2_BACCJ    30 SVVEEHGQLSISNGELVNDRGEPVQLKGMSSHGLQWYGQFVNYESMKWLRDDWGITVFRAAMYTSSGGYIEDPSVKEKVKEAVEAAIDLGIYVIIDWHILSDNDPNIYKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWDNQIKPYAEEVIPVIRNNDPNNIIIVGTGTWSQDVHHAADNQLTDPNVMYAFHFYAGTHGQNLRDQVDYALDQGAAIFVSEWGTSEATGDGGVFLDEAQVWIDFMDERNLSWANWSLTHKDESSAALMPGASPTGGWTEAELSPSGTFVREKIRESAT 331
               SCOP domains d1qi0a_ A: Endoglucanase Cel5a                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1qi0A00 A:4-305 Glycosidases                                                                                                                                                                                                                                                                                   CATH domains
               Pfam domains ----------------Cellulase-1qi0A01 A:20-268                                                                                                                                                                                                                               ------------------------------------- Pfam domains
         Sec.struct. author .hhhhh...eee..eee.........eeee...hhhhhhh..hhhhhhhhhh....eeeeeee.........hhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhhhhhhhhh.....eeee...............hhhhhhhhhhhhhhh.....eee..hhhh..hhhhh........eee..eee.....hhhhhhhhhhhhh.......eee...........hhhhhhhhhhhhh....eee........................hhh..hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------GLYCOSYL_H-------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qi0 A   4 SVVEEHGQLSISNGELVNERGEQVQLKGMSSHGLQWYGQFVNYESMKWLRDDWGINVFRAAMYTSSGGYIDDPSVKEKVKEAVEAAIDLDIYVIIDWHILSDNDPNIYKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWGNQIKPYAEEVIPIIRNNDPNNIIIVGTGTWSQDVHHAADNQLADPNVMYAFHFYAGTHGQNLRDQVDYALDQGAAIFVSEWGTSAATGDGGVFLDEAQVWIDFMDERNLSWANWSLTHKDESSAALMPGANPTGGWTEAELSPSGTFVREKIRESAS 305
                                    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       263       273       283       293       303

Chain A from PDB  Type:PROTEIN  Length:302
 aligned with GUN5_BACAG | O85465 from UniProtKB/Swiss-Prot  Length:400

    Alignment length:302
                                    39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329  
           GUN5_BACAG    30 SVVEEHGQLSISNGELVNERGEQVQLKGMSSHGLQWYGQFVNYESMKWLRDDWGINVFRAAMYTSSGGYIDDPSVKEKVKEAVEAAIDLDIYVIIDWHILSDNDPNIYKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWGNQIKPYAEEVIPIIRNNDPNNIIIVGTGTWSQDVHHAADNQLADPNVMYAFHFYAGTHGQNLRDQVDYALDQGAAIFVSEWGTSAATGDGGVFLDEAQVWIDFMDERNLSWANWSLTHKDESSAALMPGANPTGGWTEAELSPSGTFVREKIRESAS 331
               SCOP domains d1qi0a_ A: Endoglucanase Cel5a                                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains 1qi0A00 A:4-305 Glycosidases                                                                                                                                                                                                                                                                                   CATH domains
               Pfam domains ----------------Cellulase-1qi0A01 A:20-268                                                                                                                                                                                                                               ------------------------------------- Pfam domains
         Sec.struct. author .hhhhh...eee..eee.........eeee...hhhhhhh..hhhhhhhhhh....eeeeeee.........hhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhhhhhhhhh.....eeee...............hhhhhhhhhhhhhhh.....eee..hhhh..hhhhh........eee..eee.....hhhhhhhhhhhhh.......eee...........hhhhhhhhhhhhh....eee........................hhh..hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) --------------------------------------------------------------------------------------------------------------------------------GLYCOSYL_H-------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1qi0 A   4 SVVEEHGQLSISNGELVNERGEQVQLKGMSSHGLQWYGQFVNYESMKWLRDDWGINVFRAAMYTSSGGYIDDPSVKEKVKEAVEAAIDLDIYVIIDWHILSDNDPNIYKEEAKDFFDEMSELYGDYPNVIYEIANEPNGSDVTWGNQIKPYAEEVIPIIRNNDPNNIIIVGTGTWSQDVHHAADNQLADPNVMYAFHFYAGTHGQNLRDQVDYALDQGAAIFVSEWGTSAATGDGGVFLDEAQVWIDFMDERNLSWANWSLTHKDESSAALMPGANPTGGWTEAELSPSGTFVREKIRESAS 305
                                    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       263       273       283       293       303

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: Alpha and beta proteins (a/b) (23833)

Fold: TIM beta/alpha-barrel (3956)

Superfamily: (Trans)glycosidases (1191)

Family: beta-glycanases (284)

Protein domain: Endoglucanase Cel5a (23)

Bacillus agaradhaerens [TaxId: 76935] (19)

d1qi0a_

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Alpha-Beta Barrel (2994)

Topology: TIM Barrel (2806)

Homologous Superfamily: Glycosidases (843)

Bacillus agaradhaerens. Organism_taxid: 76935. Strain: ac13. (4)

1qi0A00

A:4-305

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Glyco_hydro_tim (488)

Family: Cellulase (31)

Bacillus agaradhaerens (Bacillus agaradherans) (6)

Cellulase-1qi0A01

A:20-268

Asymmetric Unit(hide GO term definitions)

Chain A (GUN2_BACCJ | P06565)

molecular function
	GO:0030246	carbohydrate binding	Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
	GO:0008810	cellulase activity	Catalysis of the endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016798	hydrolase activity, acting on glycosyl bonds	Catalysis of the hydrolysis of any glycosyl bond.
	GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds	Catalysis of the hydrolysis of any O-glycosyl bond.
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	GO:0030245	cellulose catabolic process	The chemical reactions and pathways resulting in the breakdown of cellulose, a linear beta1-4 glucan of molecular mass 50-400 kDa with the pyranose units in the -4C1 conformation.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0000272	polysaccharide catabolic process	The chemical reactions and pathways resulting in the breakdown of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Chain A (GUN5_BACAG | O85465)

molecular function
	GO:0030246	carbohydrate binding	Interacting selectively and non-covalently with any carbohydrate, which includes monosaccharides, oligosaccharides and polysaccharides as well as substances derived from monosaccharides by reduction of the carbonyl group (alditols), by oxidation of one or more hydroxy groups to afford the corresponding aldehydes, ketones, or carboxylic acids, or by replacement of one or more hydroxy group(s) by a hydrogen atom. Cyclitols are generally not regarded as carbohydrates.
	GO:0008810	cellulase activity	Catalysis of the endohydrolysis of (1->4)-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans.
	GO:0016787	hydrolase activity	Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
	GO:0016798	hydrolase activity, acting on glycosyl bonds	Catalysis of the hydrolysis of any glycosyl bond.
	GO:0004553	hydrolase activity, hydrolyzing O-glycosyl compounds	Catalysis of the hydrolysis of any O-glycosyl bond.
biological process
	GO:0005975	carbohydrate metabolic process	The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.
	GO:0030245	cellulose catabolic process	The chemical reactions and pathways resulting in the breakdown of cellulose, a linear beta1-4 glucan of molecular mass 50-400 kDa with the pyranose units in the -4C1 conformation.
	GO:0008152	metabolic process	The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
	GO:0000272	polysaccharide catabolic process	The chemical reactions and pathways resulting in the breakdown of a polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.
cellular component
	GO:0005576	extracellular region	The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

Asymmetric Unit
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	Cis Peptide Bonds
		Trp A:262 - Ser A:263	[ RasMol ]

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Description

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