1Q0O - JenaLib

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Title :   CRYSTAL STRUCTURE OF HOMOPROTOCATECHUATE 2,3-DIOXYGENASE FROM BREVIBACTERIUM FUSCUM (FULL LENGTH PROTEIN)

Authors :   M. W. Vetting, L. P. Wackett, L. Que, J. D. Lipscomb, D. H. Ohlendorf

Date :   16 Jul 03 (Deposition) - 29 Jul 03 (Release) - 16 Nov 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

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

Keywords :   Extradiol Dioxygenase, Non-Heme Iron, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   M. W. Vetting, L. P. Wackett, L. Que, J. D. Lipscomb, D. H. Ohlendorf
Crystallographic Comparison Of Manganese- And Iron-Dependen Homoprotocatechuate 2, 3-Dioxygenases.
J. Bacteriol. V. 186 1945 2004
PubMed-ID: 15028678 | Reference-DOI: 10.1128/JB.186.7.1945-1958.2004

Molecule 1 - HOMOPROTOCATECHUATE 2,3-DIOXYGENASE
	Chains	:	A, B
	EC Number	:	1.13.11.15
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Taxid	:	562
	Organism Scientific	:	BREVIBACTERIUM FUSCUM
	Organism Taxid	:	47914
	Synonym	:	3,4-DIHYDROXYPHENYLACETATE 2,3-DIOXYGENASE

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

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (1, 2)

No.	Name	Count	Type	Full Name
1	FE	2	Ligand/Ion	FE (III) ION

Biological Unit 1 (0, 0)

No.	Name	Count	Type	Full Name
1	FE	-1	Ligand/Ion	FE (III) ION

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:155 , HIS A:214 , GLU A:267 , HOH A:589 , HOH A:590 , HOH A:591	BINDING SITE FOR RESIDUE FE A 500
2	AC2	SOFTWARE	HIS B:155 , HIS B:214 , GLU B:267 , HOH B:600 , HOH B:604	BINDING SITE FOR RESIDUE FE B 500

(no "SS Bond" information available for 1Q0O)

Asymmetric Unit

No.	Residues
1	Gly A:209	-	Pro A:210
2	Gly A:244	-	Pro A:245
3	Gly B:209	-	Pro B:210
4	Gly B:244	-	Pro B:245

(no "SAP(SNP)/Variant" information available for 1Q0O)

(no "PROSITE Motif" information available for 1Q0O)

(no "Exon" information available for 1Q0O)

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:356
 aligned with Q45135_9MICO | Q45135 from UniProtKB/TrEMBL  Length:365

    Alignment length:356
                                    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       313       323       333       343       353      
         Q45135_9MICO     4 EIPKPVAPAPDILRCAYAELVVTDLAKSRNFYVDVLGLHVSYEDENQIYLRSFEEFIHHNLVLTKGPVAALKAMAFRVRTPEDVDKAEAYYQELGCRTERRKDGFVKGIGDALRVEDPLGFPYEFFFETTHVERLHMRYDLYSAGELVRLDHFNQVTPDVPRGRKYLEDLGFRVTEDIQDDEGTTYAAWMHRKGTVHDTALTGGNGPRLHHVAFSTHEKHNIIQICDKMGALRISDRIERGPGRHGVSNAFYLYILDPDNHRIEIYTQDYYTGDPDNPTITWNVHDNQRRDWWGNPVVPSWYTEASKVLDLDGNVQEIIERTDDSELEVTIGADGFSFTRAGDEDGSYHGQASKGF 359
               SCOP domains d1q0oa1 A:4-147 Homoprotocatechuate 2,3-dioxygenase                                                                                             d1q0oa2 A:148-359 Homoprotocatechuate 2,3-dioxygenase                                                                                                                                                                SCOP domains
               CATH domains ---------1q0oA01 A:13-151 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1                                                                           1q0oA02 A:152-290 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1                                                                          --------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeeeeeeee.hhhhhhhhhh.....eeeee...eeeee.........eeeee....eeeeeeeee..hhhhhhhhhhhhhh...eeee..........eeeee.....eeeee......................eeeeeeeee.hhhhhhhhhhhh..eeeeeee.....eeeeeee.......eeeee....eeeeeeee..hhhhhhhhhhhhhhh.hhh.eeeeeee......eeeeee.....eeeeee............eeee..............hhhhhhh....................hhhhhhhh...ee..........ee..hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0o A   4 EIPKPVAPAPDILRCAYAELVVTDLAKSRNFYVDVLGLHVSYEDENQIYLRSFEEFIHHNLVLTKGPVAALKAMAFRVRTPEDVDKAEAYYQELGCRTERRKDGFVKGIGDALRVEDPLGFPYEFFFETTHVERLHMRYDLYSAGELVRLDHFNQVTPDVPRGRKYLEDLGFRVTEDIQDDEGTTYAAWMHRKGTVHDTALTGGNGPRLHHVAFSTHEKHNIIQICDKMGALRISDRIERGPGRHGVSNAFYLYILDPDNHRIEIYTQDYYTGDPDNPTITWNVHDNQRRDWWGNPVVPSWYTEASKVLDLDGNVQEIIERTDDSELEVTIGADGFSFTRAGDEDGSYHGQASKGF 359
                                    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       313       323       333       343       353

Chain B from PDB  Type:PROTEIN  Length:356
 aligned with Q45135_9MICO | Q45135 from UniProtKB/TrEMBL  Length:365

    Alignment length:356
                                    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       313       323       333       343       353      
         Q45135_9MICO     4 EIPKPVAPAPDILRCAYAELVVTDLAKSRNFYVDVLGLHVSYEDENQIYLRSFEEFIHHNLVLTKGPVAALKAMAFRVRTPEDVDKAEAYYQELGCRTERRKDGFVKGIGDALRVEDPLGFPYEFFFETTHVERLHMRYDLYSAGELVRLDHFNQVTPDVPRGRKYLEDLGFRVTEDIQDDEGTTYAAWMHRKGTVHDTALTGGNGPRLHHVAFSTHEKHNIIQICDKMGALRISDRIERGPGRHGVSNAFYLYILDPDNHRIEIYTQDYYTGDPDNPTITWNVHDNQRRDWWGNPVVPSWYTEASKVLDLDGNVQEIIERTDDSELEVTIGADGFSFTRAGDEDGSYHGQASKGF 359
               SCOP domains d1q0ob1 B:4-147 Homoprotocatechuate 2,3-dioxygenase                                                                                             d1q0ob2 B:148-359 Homoprotocatechuate 2,3-dioxygenase                                                                                                                                                                SCOP domains
               CATH domains ---------1q0oB01 B:13-151 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1                                                                           1q0oB02 B:152-290 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1                                                                          --------------------------------------------------------------------- CATH domains
           Pfam domains (1) ----------------------------------------------------------------------------------------------------------------------------------------------------Glyoxalase-1q0oB01 B:152-268                                                                                         ------------------------------------------------------------------------------------------- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------------------------------------------------------------------------Glyoxalase-1q0oB02 B:152-268                                                                                         ------------------------------------------------------------------------------------------- Pfam domains (2)
           Pfam domains (3) ----------------------------------------------------------------------------------------------------------------------------------------------------Glyoxalase-1q0oB03 B:152-268                                                                                         ------------------------------------------------------------------------------------------- Pfam domains (3)
           Pfam domains (4) ----------------------------------------------------------------------------------------------------------------------------------------------------Glyoxalase-1q0oB04 B:152-268                                                                                         ------------------------------------------------------------------------------------------- Pfam domains (4)
         Sec.struct. author ...........eeeeeeeeeee.hhhhhhhhhh.....eeeee...eeeee.........eeeee....eeeeeeeee.hhhhhhhhhhhhhhh..eeeee..........eeeee.....eeeee......................eeeeeeeee.hhhhhhhhhhhh..eeeeeee.....eeeeeee.......eeeee....eeeeeeee..hhhhhhhhhhhhhhh.hhh.eeeeeee......eeeeee.....eeeeee............eeee..............hhhhhhh....................hhhhhhhh...ee..........ee..hhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1q0o B   4 EIPKPVAPAPDILRCAYAELVVTDLAKSRNFYVDVLGLHVSYEDENQIYLRSFEEFIHHNLVLTKGPVAALKAMAFRVRTPEDVDKAEAYYQELGCRTERRKDGFVKGIGDALRVEDPLGFPYEFFFETTHVERLHMRYDLYSAGELVRLDHFNQVTPDVPRGRKYLEDLGFRVTEDIQDDEGTTYAAWMHRKGTVHDTALTGGNGPRLHHVAFSTHEKHNIIQICDKMGALRISDRIERGPGRHGVSNAFYLYILDPDNHRIEIYTQDYYTGDPDNPTITWNVHDNQRRDWWGNPVVPSWYTEASKVLDLDGNVQEIIERTDDSELEVTIGADGFSFTRAGDEDGSYHGQASKGF 359
                                    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       313       323       333       343       353

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: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase (136)

Superfamily: Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase (136)

Family: Extradiol dioxygenases (43)

Protein domain: Homoprotocatechuate 2,3-dioxygenase (17)

Brevibacterium fuscum [TaxId: 47914] (14)

1a	d1q0oa1	A:4-147
1b	d1q0oa2	A:148-359
1c	d1q0ob1	B:4-147
1d	d1q0ob2	B:148-359

Asymmetric Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: Roll (3276)

Topology: 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 (113)

Homologous Superfamily: 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 (106)

Brevibacterium fuscum. Organism_taxid: 47914. (3)

1a	1q0oA01	A:13-151
1b	1q0oB01	B:13-151
1c	1q0oA02	A:152-290
1d	1q0oB02	B:152-290

Asymmetric Unit

Clans(

)

Families(

)

Organisms( (-)

)

Clan: Glyoxalase (58)

Family: Glyoxalase (34)

Brevibacterium fuscum (6)

1a	Glyoxalase-1q0oB01	B:152-268
1b	Glyoxalase-1q0oB02	B:152-268
1c	Glyoxalase-1q0oB03	B:152-268
1d	Glyoxalase-1q0oB04	B:152-268

Asymmetric Unit(hide GO term definitions)

Chain A,B (Q45135_9MICO | Q45135)

molecular function
	GO:0051213	dioxygenase activity	Catalysis of an oxidation-reduction (redox) reaction in which both atoms of oxygen from one molecule of O2 are incorporated into the (reduced) product(s) of the reaction. The two atoms of oxygen may be distributed between two different products.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
biological process
	GO:0055114	oxidation-reduction process	A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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	Cis Peptide Bonds
		Gly A:209 - Pro A:210	[ RasMol ]
		Gly A:244 - Pro A:245	[ RasMol ]
		Gly B:209 - Pro B:210	[ RasMol ]
		Gly B:244 - Pro B:245	[ RasMol ]

Biological Unit
	Complete Structure
		Biological Unit 1	[ Jena3D ]

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	1q0o
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Description

Compounds

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Chains, Units

Ligands, Modified Residues, Ions (1, 2)

Sites (2, 2)

SS Bonds (0, 0)

Cis Peptide Bonds (4, 4)

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Exons (0, 0)

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