2Z37 - JenaLib

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Biological Unit 1 (Jmol Viewer)

Biological Unit 2 (Jmol Viewer)

Biological Unit 3 (Jmol Viewer)

Biological Unit 4 (Jmol Viewer)

Title :   CRYSTAL STRUCTURE OF BRASSICA JUNCEA CHITINASE CATALYTIC MODULE (BJCHI3)

Authors :   W. Ubhayasekera, G. Berglund, T. Bergfors, S. L. Mowbray

Date :   02 Jun 07 (Deposition) - 19 Jun 07 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.53

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A  (1x)
Biol. Unit 2: B  (1x)
Biol. Unit 3: C  (1x)
Biol. Unit 4: D  (1x)

Keywords :   Chitinase, Endochitinase, Family 19, Conformational Changes, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   W. Ubhayasekera, C. M. Tang, S. W. T. Ho, G. Berglund, T. Bergfors, M. -L. Chye, S. L. Mowbray
Crystal Structures Of A Family 19 Chitinase From Brassica Juncea Show Flexibility Of Binding Cleft Loops
Febs J. V. 274 3695 2007
PubMed-ID: 17608716 | Reference-DOI: 10.1111/J.1742-4658.2007.05906.X
(for further references see the PDB file header)

Molecule 1 - CHITINASE
	Chains	:	A, B, C, D
	EC Number	:	3.2.1.14
	Engineered	:	YES
	Expression System	:	PICHIA PASTORIS
	Expression System Plasmid	:	PPIC9K
	Expression System Strain	:	KM71
	Expression System Taxid	:	4922
	Expression System Vector Type	:	PLASMID
	Fragment	:	CATALYTIC MODULE, UNP RESIDUES 146-389
	Gene	:	BJCHI1
	Organism Scientific	:	BRASSICA JUNCEA
	Organism Taxid	:	3707

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A
Biological Unit 2 (1x)	:		B
Biological Unit 3 (1x)	:			C
Biological Unit 4 (1x)	:				D

Summary Information (see also Sequences/Alignments below)

(no "Ligand,Modified Residues,Ions" information available for 2Z37)

(no "Site" information available for 2Z37)

Asymmetric Unit

No.	Residues
1	A:168	-	A:230
2	A:242	-	A:251
3	A:350	-	A:382
4	B:168	-	B:230
5	B:242	-	B:251
6	B:350	-	B:382
7	C:168	-	C:230
8	C:350	-	C:382
9	D:168	-	D:230
10	D:350	-	D:382

Asymmetric Unit

No.	Residues
1	Ala A:309	-	Pro A:310
2	Ala B:309	-	Pro B:310
3	Ala D:309	-	Pro D:310

(no "SAP(SNP)/Variant" information available for 2Z37)

(no "PROSITE Motif" information available for 2Z37)

(no "Exon" information available for 2Z37)

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:244
 aligned with Q9SQF7_BRAJU | Q9SQF7 from UniProtKB/TrEMBL  Length:400

    Alignment length:244
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385    
         Q9SQF7_BRAJU   146 DLSGIISRDQFYKMLKHMNDNDCHAVGFFTYDAFITAAKSFPSFGNTGDLAMRKKEIAAFFGQTSHETTGGWSGAPDGANTWGYCYKEEIDKSDPHCDSNNLEWPCAPGKFYYGRGPMMLSWNYNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRYCGMFGVDPGSNIDCDNQRPFN 389
               SCOP domains d2z37a_ A: automated matches                                                                                                                                                                                                                         SCOP domains
               CATH domains 2z37A01 A:146-232,A:292-389  [code=1.10.530.10, no name defined]                       2z37A02 A:233-291 Endochitinase, domain 2                  2z37A01 A:146-232,A:292-389  [code=1.10.530.10, no name defined]                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.hhhhhhhhh..............hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh.........hhhhh.......................................hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh......hhhhhhh.....hhhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2z37 A 146 DLSGIISRDQFYKMLKHMNDNDCHAVGFFTYDAFITAAKSFPSFGNTGDLAMRKKEIAAFFGQTSHETTGGWSGAPDGANTWGYCYKEEIDKSDPHCDSNNLEWPCAPGKFYYGRGPMMLSWNYNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRYCGMFGVDPGSNIDCDNQRPFN 389
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385

Chain B from PDB  Type:PROTEIN  Length:244
 aligned with Q9SQF7_BRAJU | Q9SQF7 from UniProtKB/TrEMBL  Length:400

    Alignment length:244
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385    
         Q9SQF7_BRAJU   146 DLSGIISRDQFYKMLKHMNDNDCHAVGFFTYDAFITAAKSFPSFGNTGDLAMRKKEIAAFFGQTSHETTGGWSGAPDGANTWGYCYKEEIDKSDPHCDSNNLEWPCAPGKFYYGRGPMMLSWNYNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRYCGMFGVDPGSNIDCDNQRPFN 389
               SCOP domains d2z37b_ B: automated matches                                                                                                                                                                                                                         SCOP domains
               CATH domains 2z37B01 B:146-232,B:292-389  [code=1.10.530.10, no name defined]                       2z37B02 B:233-291 Endochitinase, domain 2                  2z37B01 B:146-232,B:292-389  [code=1.10.530.10, no name defined]                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.hhhhhhhhh..............hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh.........hhhhh.......................................hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh......hhhhhhh.....hhhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2z37 B 146 DLSGIISRDQFYKMLKHMNDNDCHAVGFFTYDAFITAAKSFPSFGNTGDLAMRKKEIAAFFGQTSHETTGGWSGAPDGANTWGYCYKEEIDKSDPHCDSNNLEWPCAPGKFYYGRGPMMLSWNYNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRYCGMFGVDPGSNIDCDNQRPFN 389
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385

Chain C from PDB  Type:PROTEIN  Length:244
 aligned with Q9SQF7_BRAJU | Q9SQF7 from UniProtKB/TrEMBL  Length:400

    Alignment length:244
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385    
         Q9SQF7_BRAJU   146 DLSGIISRDQFYKMLKHMNDNDCHAVGFFTYDAFITAAKSFPSFGNTGDLAMRKKEIAAFFGQTSHETTGGWSGAPDGANTWGYCYKEEIDKSDPHCDSNNLEWPCAPGKFYYGRGPMMLSWNYNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRYCGMFGVDPGSNIDCDNQRPFN 389
               SCOP domains d2z37c_ C: automated matches                                                                                                                                                                                                                         SCOP domains
               CATH domains 2z37C01 C:146-232,C:292-389  [code=1.10.530.10, no name defined]                       2z37C02 C:233-291 Endochitinase, domain 2                  2z37C01 C:146-232,C:292-389  [code=1.10.530.10, no name defined]                                   CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhh.hhhhhhhhh..............hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh.........hhhhh.......................................hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh......hhhhhhh.....hhhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2z37 C 146 DLSGIISRDQFYKMLKHMNDNDCHAVGFFTYDAFITAAKSFPSFGNTGDLAMRKKEIAAFFGQTSHETTGGWSGAPDGANTWGYCYKEEIDKSDPHCDSNNLEWPCAPGKFYYGRGPMMLSWNYNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRYCGMFGVDPGSNIDCDNQRPFN 389
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385

Chain D from PDB  Type:PROTEIN  Length:244
 aligned with Q9SQF7_BRAJU | Q9SQF7 from UniProtKB/TrEMBL  Length:400

    Alignment length:244
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385    
         Q9SQF7_BRAJU   146 DLSGIISRDQFYKMLKHMNDNDCHAVGFFTYDAFITAAKSFPSFGNTGDLAMRKKEIAAFFGQTSHETTGGWSGAPDGANTWGYCYKEEIDKSDPHCDSNNLEWPCAPGKFYYGRGPMMLSWNYNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRYCGMFGVDPGSNIDCDNQRPFN 389
               SCOP domains d2z37d_ D: automated matches                                                                                                                                                                                                                         SCOP domains
               CATH domains 2z37D01 D:146-232,D:292-389  [code=1.10.530.10, no name defined]                       2z37D02 D:233-291 Endochitinase, domain 2                  2z37D01 D:146-232,D:292-389  [code=1.10.530.10, no name defined]                                   CATH domains
           Pfam domains (1) ----Glyco_hydro_19-2z37D01 D:150-382                                                                                                                                                                                                         ------- Pfam domains (1)
           Pfam domains (2) ----Glyco_hydro_19-2z37D02 D:150-382                                                                                                                                                                                                         ------- Pfam domains (2)
           Pfam domains (3) ----Glyco_hydro_19-2z37D03 D:150-382                                                                                                                                                                                                         ------- Pfam domains (3)
           Pfam domains (4) ----Glyco_hydro_19-2z37D04 D:150-382                                                                                                                                                                                                         ------- Pfam domains (4)
         Sec.struct. author hhhhh.hhhhhhhhh..............hhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhh.........hhhhh.......................................hhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhh......hhhhhhh.....hhhhhhh....hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh................ Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2z37 D 146 DLSGIISRDQFYKMLKHMNDNDCHAVGFFTYDAFITAAKSFPSFGNTGDLAMRKKEIAAFFGQTSHETTGGWSGAPDGANTWGYCYKEEIDKSDPHCDSNNLEWPCAPGKFYYGRGPMMLSWNYNYGPCGRDLGLELLKNPDVASSDPVIAFKTAIWFWMTPQAPKPSCHDVITDQWEPSAADISAGRLPGYGVITNIINGGLECAGRDVAKVQDRISFYTRYCGMFGVDPGSNIDCDNQRPFN 389
                                   155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385

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) (23004)

Fold: Lysozyme-like (1361)

Superfamily: Lysozyme-like (1361)

Family: Family 19 glycosidase (12)

Protein domain: automated matches (9)

Brassica juncea [TaxId: 3707] (3)

1a	d2z37a_	A:
1b	d2z37b_	B:
1c	d2z37c_	C:
1d	d2z37d_	D:

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 2-Layer Sandwich (8480)

Topology: Endochitinase; domain 2 (16)

Homologous Superfamily: Endochitinase, domain 2 (16)

Brassica juncea. Organism_taxid: 3707. (3)

1a	2z37A02	A:233-291
1b	2z37B02	B:233-291
1c	2z37C02	C:233-291
1d	2z37D02	D:233-291

Class: Mainly Alpha (13335)

Architecture: Orthogonal Bundle (10391)

Topology: Lysozyme (1131)

Homologous Superfamily: [code=1.10.530.10, no name defined] (605)

Brassica juncea. Organism_taxid: 3707. (3)

2a	2z37A01	A:146-232,A:292-389
2b	2z37B01	B:146-232,B:292-389
2c	2z37C01	C:146-232,C:292-389
2d	2z37D01	D:146-232,D:292-389

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Lysozyme (266)

Family: Glyco_hydro_19 (5)

Brassica juncea (Indian mustard) (Sinapis juncea) (3)

1a	Glyco_hydro_19-2z37D01	D:150-382
1b	Glyco_hydro_19-2z37D02	D:150-382
1c	Glyco_hydro_19-2z37D03	D:150-382
1d	Glyco_hydro_19-2z37D04	D:150-382

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (Q9SQF7_BRAJU | Q9SQF7)

molecular function
	GO:0008061	chitin binding	Interacting selectively and non-covalently with chitin, a linear polysaccharide consisting of beta-(1->4)-linked N-acetyl-D-glucosamine residues.
	GO:0004568	chitinase activity	Catalysis of the hydrolysis of (1->4)-beta linkages of N-acetyl-D-glucosamine (GlcNAc) polymers of chitin and chitodextrins.
biological process
	GO:0016998	cell wall macromolecule catabolic process	The chemical reactions and pathways resulting in the breakdown of macromolecules that form part of a cell wall.
	GO:0006032	chitin catabolic process	The chemical reactions and pathways resulting in the breakdown of chitin, a linear polysaccharide consisting of beta-(1->4)-linked N-acetyl-D-glucosamine residues.

Asymmetric Unit
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	Ligands, Modified Residues, Ions
(no "Ligands, Modified Residues, Ions" information available for 2z37)

	Sites
(no "Sites" information available for 2z37)

	Cis Peptide Bonds
		Ala A:309 - Pro A:310	[ RasMol ]
		Ala B:309 - Pro B:310	[ RasMol ]
		Ala D:309 - Pro D:310	[ RasMol ]

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	2z37
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UniProtKB/TrEMBL
	Q9SQF7_BRAJU \| Q9SQF7	:	2z38 2z39

2z38	BRASSICA JUNCEA CATALYTIC MODULE WITH BOUND CHLORIDE IONS
2z39	BRASSICA JUNCEA CATALYTIC MODULE GLU234ALA MUTANT WITH BOUND CHLORIDE IONS

Description

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Ligands, Modified Residues, Ions (0, 0)

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