3K4Z - JenaLib

Title :   CRYSTAL STRUCTURE OF THE CELLULOSOMAL CBM4 FROM CLOSTRIDIUM THERMOCELLUM CELLULASE CBHA

Authors :   P. M. Alahuhta, Q. Xu, M. E. Himmel, V. V. Lunin

Date :   06 Oct 09 (Deposition) - 28 Jul 10 (Release) - 27 Oct 10 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.11

Chains :   Asym./Biol. Unit : A

Keywords :   Cellulase, Cbha, Clostridium Thermocellum, Cbm4, Ig-Like, Cellulosome, Cbm, Sugar Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Alahuhta, Q. Xu, Y. J. Bomble, R. Brunecky, W. S. Adney, S. Y. Ding, M. E. Himmel, V. V. Lunin
The Unique Binding Mode Of Cellulosomal Cbm4 From Clostridium Thermocellum Cellobiohydrolase A.
J. Mol. Biol. V. 402 374 2010
PubMed-ID: 20654622 | Reference-DOI: 10.1016/J.JMB.2010.07.028

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (5, 6)

Sites (6, 6)

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:21 , ASP A:23 , ASN A:53 , LYS A:54 , ASP A:166 , HOH A:317	BINDING SITE FOR RESIDUE MG A 290
2	AC2	SOFTWARE	GLU A:19 , GLU A:24 , HOH A:315 , HOH A:377 , HOH A:400 , HOH A:401 , HOH A:406	BINDING SITE FOR RESIDUE MG A 291
3	AC3	SOFTWARE	HIS A:83 , HOH A:523 , HOH A:524 , HOH A:525 , HOH A:526	BINDING SITE FOR RESIDUE NI A 292
4	AC4	SOFTWARE	GLU A:80 , HIS A:83 , GLU A:174 , THR A:176 , HOH A:423	BINDING SITE FOR RESIDUE OXL A 293
5	AC5	SOFTWARE	ASP A:35 , TRP A:68 , GLN A:71 , ARG A:73 , ARG A:75 , LYS A:102 , HIS A:150 , HOH A:310 , HOH A:331 , HOH A:343 , HOH A:368 , HOH A:450 , HOH A:451 , HOH A:494 , HOH A:532	BINDING SITE FOR RESIDUE CBI A 294
6	AC6	SOFTWARE	TRP A:68 , LYS A:102 , TYR A:110 , HIS A:150 , HOH A:331 , HOH A:450 , HOH A:451 , HOH A:532 , HOH A:533 , HOH A:549	BINDING SITE FOR RESIDUE XGP A 295

SS Bonds (0, 0)

Cis Peptide Bonds (3, 3)

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:275
                                                                                                                                                                                                                                                                                                                   
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhhhh...............eeee...eeeeeeeee.......eeeeeeeeee..hhh.eeeeeeeeee....eeeeeeeeee...eeeeeeeee......eee......eee.....eeeeeeee.....eeeeeeeee.hhhhh....eeeeeeeeeee................ee....ee......eeeeee......eeeee.....eeeeee.eeee..eeeeee.......eeeeeee.............eee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3k4z A   1 MLEDNSSTLPPYKNDLLYERTFDEGLCYPWHTCEDSGGKCSFDVVDVPGQPGNKAFAVTVLDKGQNRWSVQMRHRGLTLEQGHTYRVRLKIWADASCKVYIKIGQMGEPYAEYWNNKWSPYTLTAGKVLEIDETFVMDKPTDDTCEFTFHLGGELAATPPYTVYLDDVSLYDPEYTKPVEYILPQPDVRVNQVGYLPEGKKVATVVCNSTQPVKWQLKNAAGVVVLEGYTEPKGLDYVHWLDFSDFATEGIGYYFELPTVNSPTNYSHPFDIRKD 280
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230    || 245       255       265       275     
                                                                                                                                                                                                                                                                    235|                                       
                                                                                                                                                                                                                                                                     241

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 (0, 0)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (0, 0)

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
		CBI	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		MG	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		NI	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		OXL	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		XGP	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

	Sites
		AC1	[ RasMol ]	+environment [ RasMol ]
		AC2	[ RasMol ]	+environment [ RasMol ]
		AC3	[ RasMol ]	+environment [ RasMol ]
		AC4	[ RasMol ]	+environment [ RasMol ]
		AC5	[ RasMol ]	+environment [ RasMol ]
		AC6	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Glu A:108 - Pro A:109	[ RasMol ]
		Pro A:159 - Pro A:160	[ RasMol ]
		Tyr A:28 - Pro A:29	[ RasMol ]

Still Images

Databases and Analysis Tools

Databases

Access by PDB/NDB ID
	3k4z
		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
	(no 'UniProt ID/Accession number' available) \|
		Comparative Protein Structure Models	:	ModBase
		Genomic Information	:	Ensembl
		Protein-protein Interaction	:	DIP
		Sequence, Family and Domain Information	:	InterPro \| Pfam \| SMART \| UniProt

Access by Enzyme Classificator (EC Number)
	(no 'Enzyme Classificator' available)
		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

Description