4HAP - JenaLib

Asymmetric Unit (Jmol Viewer)

Asym. Unit - sites (Jmol Viewer)

Biological Unit 1 (Jmol Viewer)

Biol. Unit 1 - sites (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF A GH7 FAMILY CELLOBIOHYDROLASE FROM LIMNORIA QUADRIPUNCTATA IN COMPLEX WITH CELLOBIOSE

Authors :   R. N. A. Martin, J. E. Mcgeehan, S. D. Streeter, S. M. Cragg, M. J. Guille, K. M. Schnorr, M. Kern, N. C. Bruce, S. J. Mcqueen-Mason

Date :   27 Sep 12 (Deposition) - 12 Jun 13 (Release) - 05 Feb 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.60

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

Keywords :   Cellobiohydrolase, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. Kern, J. E. Mcgeehan, S. D. Streeter, R. N. Martin, K. Besser, L. Elias, W. Eborall, G. P. Malyon, C. M. Payne, M. E. Himmel, K. Schnorr G. T. Beckham, S. M. Cragg, N. C. Bruce, S. J. Mcqueen-Mason
Structural Characterization Of A Unique Marine Animal Famil 7 Cellobiohydrolase Suggests A Mechanism Of Cellulase Salt Tolerance
Proc. Natl. Acad. Sci. Usa V. 110 10189 2013
PubMed-ID: 23733951 | Reference-DOI: 10.1073/PNAS.1301502110
(for further references see the PDB file header)

Molecule 1 - GH7 FAMILY PROTEIN
	Chains	:	A, B
	EC Number	:	3.2.1.91
	Engineered	:	YES
	Expression System	:	ASPERGILLUS ORYZAE
	Expression System Taxid	:	5062
	Fragment	:	UNP RESIDUES 19-448
	Gene	:	GH7B
	Organism Scientific	:	LIMNORIA QUADRIPUNCTATA
	Organism Taxid	:	161573

		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 (4, 10)

No.	Name	Count	Type	Full Name
1	CA	5	Ligand/Ion	CALCIUM ION
2	CBI	2	Ligand/Ion	CELLOBIOSE
3	PCA	2	Mod. Amino Acid	PYROGLUTAMIC ACID
4	TRS	1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

Biological Unit 1 (3, 3)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CBI	1	Ligand/Ion	CELLOBIOSE
3	PCA	1	Mod. Amino Acid	PYROGLUTAMIC ACID
4	TRS	1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

Biological Unit 2 (2, 2)

No.	Name	Count	Type	Full Name
1	CA	-1	Ligand/Ion	CALCIUM ION
2	CBI	1	Ligand/Ion	CELLOBIOSE
3	PCA	1	Mod. Amino Acid	PYROGLUTAMIC ACID
4	TRS	-1	Ligand/Ion	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL

Asymmetric Unit (8, 8)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	GLN A:196 , ASP A:235 , GLU A:238 , HIS A:249 , ARG A:271 , LYS A:278 , ASP A:279 , TRP A:401 , TYR A:406 , ARG A:417 , HOH A:743 , HOH A:758 , HOH A:958 , HOH A:1061 , HOH A:1118 , HOH A:1180 , HOH A:1225	BINDING SITE FOR RESIDUE CBI A 501
2	AC2	SOFTWARE	THR A:262 , HOH A:1129 , GLU B:352 , VAL B:356 , ASP B:369	BINDING SITE FOR RESIDUE CA A 502
3	AC3	SOFTWARE	HOH A:820 , HOH A:849 , HOH A:850 , HOH A:851 , HOH A:852 , HOH A:1186	BINDING SITE FOR RESIDUE CA A 503
4	AC4	SOFTWARE	GLU A:86 , HOH A:859 , HOH A:861 , HOH A:862 , HOH B:679	BINDING SITE FOR RESIDUE CA A 504
5	AC5	SOFTWARE	PHE A:362 , GLU A:412 , PRO A:413 , GLY A:414 , ALA A:415 , TRS A:506 , HOH A:737 , HOH A:932 , HOH A:959	BINDING SITE FOR RESIDUE CA A 505
6	AC6	SOFTWARE	ASP A:134 , ASP A:136 , PHE A:362 , GLY A:363 , ASP A:364 , GLU A:412 , CA A:505 , HOH A:760 , HOH A:828 , HOH A:983	BINDING SITE FOR RESIDUE TRS A 506
7	AC7	SOFTWARE	GLN B:196 , ASP B:235 , GLU B:238 , HIS B:249 , ARG B:271 , LYS B:278 , ASP B:279 , TRP B:401 , TYR B:406 , ARG B:417 , HOH B:696 , HOH B:748 , HOH B:965 , HOH B:1052 , HOH B:1128 , HOH B:1204	BINDING SITE FOR RESIDUE CBI B 501
8	AC8	SOFTWARE	HOH A:848 , HOH B:790 , HOH B:792 , HOH B:836 , HOH B:837 , HOH B:838	BINDING SITE FOR RESIDUE CA B 502

Asymmetric Unit

No.	Residues
1	A:67	-	A:88
2	A:78	-	A:84
3	A:159	-	A:420
4	A:193	-	A:231
5	A:197	-	A:230
6	A:251	-	A:276
7	A:259	-	A:264
8	A:281	-	A:355
9	B:67	-	B:88
10	B:78	-	B:84
11	B:159	-	B:420
12	B:193	-	B:231
13	B:197	-	B:230
14	B:251	-	B:276
15	B:259	-	B:264
16	B:281	-	B:355

Asymmetric Unit

No.	Residues
1	Tyr A:406	-	Pro A:407
2	Tyr B:406	-	Pro B:407

(no "SAP(SNP)/Variant" information available for 4HAP)

(no "PROSITE Motif" information available for 4HAP)

(no "Exon" information available for 4HAP)

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:431
                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4hapa_ A: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee........eeeeeee..eeeeeeeee.hhhh.eee.......ee..ee......hhhhhhhheee.....hhhhhhhh.eee..eeeee.eee....eee.eeeeeeee..ee.......eeeeeeee.......eeeeeeee................hhhhh.............ee..ee.....ee.......ee...eee..eeeeeee....eeeeee.......eeehhhhhh...............eee..........ee....ee....eeeeeeeeee..eeeeeeeeeee..eeee................hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh..eeeeeeee.....hhhhhh.....................hhhhhhhhh...eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hap A  23 xQAGTETEEYHLPLTWERDGSSVSASVVIDSNWRWTHSTEDTTNCYDGNEWDSTLCPDADTCTENCAIDGVDQGTWGDTYGITASGSKLTLSFVTEGEYSTDIGSRVFLMADDDNYEIFNLLDKEFSFDVDASNLPCGLNGALYFVSMDEDGGTSKYSTNTAGAKYGTGYCDAQCPHDMKFIAGKANSDGWTPSDNDQNAGTGEMGACCHEMDIWEANSQAQSYTAHVCSVDGYTPCTGTDCGDNGDDRYKGVCDKDGCDYAAYRLGQHDFYGEGGTVDSGSTLTVITQFITGGGGLNEIRRIYQQGGQTIQNAAVNFPGDVDPYDSITEDFCVDIKRYFGDTNDFDAKGGMSGMSNALKKGMVLVMSLWDDHYANMLWLDATYPVDSTEPGALRGPCSTDSGDPADVEANFPGSTVTFSNIKIGPIQSYD 453
                            |       32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452 
                            |                                                                                                                                                                                                                                                                                                                                                                                                                                              
                           23-PCA

Chain B from PDB  Type:PROTEIN  Length:431
                                                                                                                                                                                                                                                                                                                                                                                                                                                                               
               SCOP domains d4hapb_ B: automated matches                                                                                                                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee........eeeeeee..eeeeeeeee.hhhh.eee.......ee..ee......hhhhhhhheee...hhhhhhhh...eee..eeeee.eee....eee.eeeeeeee..ee.......eeeeeeee.......eeeeeeee...............hhhhhh.............ee..ee.....ee.......ee...eee..eeeeeee....eeeeee.......eeehhhhhh...............eee..........ee....ee....eeeeeeeeee..eeeeeeeeeee..eeee................hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh..eeeeeeee.....hhhhhh.....................hhhhhhhhh...eeeeeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hap B  23 xQAGTETEEYHLPLTWERDGSSVSASVVIDSNWRWTHSTEDTTNCYDGNEWDSTLCPDADTCTENCAIDGVDQGTWGDTYGITASGSKLTLSFVTEGEYSTDIGSRVFLMADDDNYEIFNLLDKEFSFDVDASNLPCGLNGALYFVSMDEDGGTSKYSTNTAGAKYGTGYCDAQCPHDMKFIAGKANSDGWTPSDNDQNAGTGEMGACCHEMDIWEANSQAQSYTAHVCSVDGYTPCTGTDCGDNGDDRYKGVCDKDGCDYAAYRLGQHDFYGEGGTVDSGSTLTVITQFITGGGGLNEIRRIYQQGGQTIQNAAVNFPGDVDPYDSITEDFCVDIKRYFGDTNDFDAKGGMSGMSNALKKGMVLVMSLWDDHYANMLWLDATYPVDSTEPGALRGPCSTDSGDPADVEANFPGSTVTFSNIKIGPIQSYD 453
                            |       32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452 
                           23-PCA

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: Concanavalin A-like lectins/glucanases (797)

Superfamily: Concanavalin A-like lectins/glucanases (797)

Family: Glycosyl hydrolase family 7 catalytic core (44)

Protein domain: automated matches (17)

Limnoria quadripunctata [TaxId: 161573] (4)

1a	d4hapa_	A:
1b	d4hapb_	B:

(no "CATH Domain" information available for 4HAP)

(no "Pfam Domain" information available for 4HAP)

Asymmetric Unit(hide GO term definitions)

Asymmetric 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
		CA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		CBI	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PCA	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		TRS	[ 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 ]
		AC7	[ RasMol ]	+environment [ RasMol ]
		AC8	[ RasMol ]	+environment [ RasMol ]

	Cis Peptide Bonds
		Tyr A:406 - Pro A:407	[ RasMol ]
		Tyr B:406 - Pro B:407	[ RasMol ]

Biological Units
	Complete Structure
		Biological Unit 1	[ Jena3D ]
		Biological Unit 2	[ Jena3D ]

Jmol
	protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick [ Asym. Unit PNG format \| Asym. Unit - sites PNG format \| Biol. Unit 1 PNG format \| Biol. Unit 1 - sites PNG format \| Biol. Unit 2 PNG format ](automatic orientation, automatically generated)
Molscript
	protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick [ mono PDF format \| stereo PDF format ](default orientation, automatically generated)

Access by PDB/NDB ID
	4hap
		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
	D4HRL0_9CRUS \| D4HRL0
		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)
	3.2.1.91
		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

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
	D4HRL0_9CRUS \| D4HRL0
		Protein Disorder Prediction	:	DisEMBL \| FoldIndex \| GLOBPLOT (for more information see DisProt)

UniProtKB/TrEMBL
	D4HRL0_9CRUS \| D4HRL0	:	4gwa 4haq 4ipm

4gwa	NATIVE FREE PROTEIN
4haq

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (4, 10)

Sites (8, 8)

SS Bonds (16, 16)

Cis Peptide Bonds (2, 2)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

Classification and Annotation

SCOP Domains (1, 2)

CATH Domains (0, 0)

Pfam Domains (0, 0)

Gene Ontology (6, 6)

Visualization

Interactive Views

Still Images

Databases and Analysis Tools

Databases

Analysis Tools

Related Entries

Entries Sharing at Least One Protein Chain (UniProt ID)

Related Entries Specified in the PDB File