2NLR - JenaLib

Title :   STREPTOMYCES LIVIDANS ENDOGLUCANASE (EC: 3.2.1.4) COMPLEX WITH MODIFIED GLUCOSE TRIMER

Authors :   G. Sulzenbacher, C. Dupont, G. J. Davies

Date :   02 Nov 98 (Deposition) - 10 Nov 99 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.20

Chains :   Asym./Biol. Unit : A

Keywords :   Hydrolase (Endoglucanase), Glycosyl Hydrolase, Family 12, Endoglucanase, Celb2, Glycosyl-Enzyme Intermediate, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Sulzenbacher, L. F. Mackenzie, K. S. Wilson, S. G. Withers, C. Dupont, G. J. Davies
The Crystal Structure Of A 2-Fluorocellotriosyl Complex Of The Streptomyces Lividans Endoglucanase Celb2 At 1. 2 A Resolution.
Biochemistry V. 38 4826 1999
PubMed-ID: 10200171 | Reference-DOI: 10.1021/BI982648I
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 4)

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	ABC	AUTHOR	GLU A:203	ACID BASE CATALYST, GLU 203.
2	AC1	SOFTWARE	PHE A:8 , ASN A:22 , GLU A:149 , BGC A:602 , HOH A:1017 , HOH A:1019 , HOH A:1026 , HOH A:1035 , HOH A:1185 , HOH A:1222	BINDING SITE FOR RESIDUE BGC A 601
3	AC2	SOFTWARE	ASN A:22 , TRP A:24 , HIS A:65 , THR A:140 , BGC A:601 , SHG A:603 , G2F A:604 , HOH A:1001 , HOH A:1056 , HOH A:1185	BINDING SITE FOR RESIDUE BGC A 602
4	AC3	SOFTWARE	TRP A:24 , TYR A:57 , ASP A:104 , TRP A:106 , GLU A:120 , MET A:122 , ASN A:155 , ASN A:158 , VAL A:160 , GLU A:203 , BGC A:602 , HOH A:1036 , HOH A:1191	BINDING SITE FOR RESIDUE G2F A 604
5	AC4	SOFTWARE	TRP A:24 , TYR A:57 , ASP A:104 , GLU A:120 , MET A:122 , ILE A:134 , ASN A:155 , GLU A:203 , BGC A:602 , HOH A:1036 , HOH A:1173 , HOH A:1191 , HOH A:1213	BINDING SITE FOR RESIDUE SHG A 603
6	NUC	AUTHOR	GLU A:120	CATALYTIC NUCLEOPHILE, CGLU 120, OVALENTLY LINKED TO THE FLUOROCELLOTRIOSIDE.

SS Bonds (2, 2)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological 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:222
 aligned with Q54331_STRLI | Q54331 from UniProtKB/TrEMBL  Length:381

    Alignment length:222
                                    50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260  
         Q54331_STRLI    41 DTTICEPFGTTTIQGRYVVQNNRWGSTAPQCVTATDTGFRVTQADGSAPTNGAPKSYPSVFNGCHYTNCSPGTDLPVRLDTVSAAPSSISYGFVDGAVYNASYDIWLDPTARTDGVNQTEIMIWFNRVGPIQPIGSPVGTASVGGRTWEVWSGGNGSNDVLSFVAPSAISGWSFDVMDFVRATVARGLAENDWYLTSVQAGFEPWQNGAGLAVNSFSSTVET 262
               SCOP domains d2nlra_ A: Family 12 endo-1,4-beta-glucanase (cellulase) catalytic domain                                                                                                                                                      SCOP domains
               CATH domains 2nlrA00 A:1-222  [code=2.60.120.180, no name defined]                                                                                                                                                                          CATH domains
               Pfam domains ----------------------------------------------------------------------Glyco_hydro_12-2nlrA01 A:71-221                                                                                                                        - Pfam domains
         Sec.struct. author .eee.....eeee...eeee.........eeeee....eeeeee..............eeeee...............hhh....eeeeeee.....eeeeeeeeee...........eeeeeeeeee.......eeeeeeee..eeeeeeeee....eeeeeee.....eeeeehhhhhhhhhh...........eeeeeeeeee.....eeeeeee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 2nlr A   1 DTTICEPFGTTTIQGRYVVQNNRWGSTAPQCVTATDTGFRVTQADGSAPTNGAPKSYPSVFNGCHYTNCSPGTDLPVRLDTVSAAPSSISYGFVDGAVYNASYDIWLDPTARTDGVNQTEIMIWFNRVGPIQPIGSPVGTASVGGRTWEVWSGGNGSNDVLSFVAPSAISGWSFDVMDFVRATVARGLAENDWYLTSVQAGFEPWQNGAGLAVNSFSSTVET 222
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220

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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (1, 1)

Gene Ontology (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (Q54331_STRLI | Q54331)

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.
	GO:0030247	polysaccharide binding	Interacting selectively and non-covalently with any polysaccharide, a polymer of many (typically more than 10) monosaccharide residues linked glycosidically.
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: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.

Visualization

Interactive Views

Asymmetric/Biological Unit
	Complete Structure
		Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
		WebMol \| AstexViewer[tm]@PDBe (Java Applets, require no local installation except for Java; loading may be slow)
		STRAP (Java WebStart application, automatic local installation, requires Java; full application with system access!)
		RasMol (require local installation)
		Molscript (VRML) (requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)

	Ligands, Modified Residues, Ions
		BGC	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		G2F	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		SHG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		ABC	[ RasMol ]	+environment [ RasMol ]
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		NUC	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Leu A:75 - Pro A:76	[ RasMol ]

Still Images

Databases and Analysis Tools

Databases

Access by PDB/NDB ID
	2nlr
		Family and Domain Information	:	ProDom \| SYSTERS
		General Structural Information	:	GlycoscienceDB \| MMDB \| NDB \| OCA \| PDB \| PDBe \| PDBj \| PDBsum \| PDBWiki \| PQS \| PROTEOPEDIA
		Orientation in Membranes	:	OPM
		Protein Surface	:	SURFACE
		Secondary Structure	:	DSSP (structure derived) \| HSSP (homology derived)
		Structural Genomics	:	GeneCensus
		Structural Neighbours	:	CE \| VAST
		Structure Classification	:	CATH \| Dali \| SCOP
		Validation and Original Data	:	BMRB Data View \| BMRB Restraints Grid \| EDS \| PROCHECK \| RECOORD \| WHAT_CHECK

Access by UniProt ID/Accession number
	Q54331_STRLI \| Q54331
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProtKB/TrEMBL

Access by Enzyme Classificator (EC Number)
	3.2.1.4
		General Enzyme Information	:	BRENDA \| EC-PDB \| Enzyme \| IntEnz
		Pathway	:	KEGG \| MetaCyc

Access by Disease Identifier (MIM ID)
	(no 'MIM ID' available)
		Disease Information	:	OMIM

Access by GenAge ID
	(no 'GenAge ID' available)
		Age Related Information	:	GenAge

Analysis Tools

Access by PDB/NDB ID
		Domain Information	:	XDom
		Interatomic Contacts of Structural Units	:	CSU
		Ligand-protein Contacts	:	LPC
		Protein Cavities	:	castP
		Sequence and Secondary Structure	:	PDBCartoon
		Structure Alignment	:	STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
		Structure and Sequence Browser	:	STING

Access by UniProt ID/Accession number
	Q54331_STRLI \| Q54331
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

Description