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Asym./Biol. Unit (Jmol Viewer)

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Title :   CRYSTAL STRUCTURE OF PQQC IN COMPLEX WITH PQQ AND A PUTATIVE H2O2

Authors :   O. T. Magnusson, H. Toyama, M. Saeki, A. Rojas, J. C. Reed, R. C. Liddingt J. P. Klinman, R. Schwarzenbacher

Date :   23 Mar 03 (Deposition) - 11 May 04 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.30

Chains :   Asym./Biol. Unit : A,B

Keywords :   Pqqc, Pqq Biosynthesis, Oxidase, Complex, Hydrogen Peroxide, , Biosynthetic Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   O. T. Magnusson, H. Toyama, M. Saeki, A. Rojas, J. C. Reed, R. C. Liddington, J. P. Klinman, R. Schwarzenbacher
Quinone Biogenesis: Structure And Mechanism Of Pqqc, The Final Catalyst In The Production Of Pyrroloquinoline Quinone.
Proc. Natl. Acad. Sci. Usa V. 101 7913 2004
PubMed-ID: 15148379 | Reference-DOI: 10.1073/PNAS.0402640101

Molecule 1 - COENZYME PQQ SYNTHESIS PROTEIN C
	Chains	:	A, B
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI BL21
	Expression System Plasmid	:	PET101
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Gene	:	PQQC
	Mutation	:	YES
	Organism Scientific	:	KLEBSIELLA PNEUMONIAE
	Organism Taxid	:	573

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (2, 4)

No.	Name	Count	Type	Full Name
1	PEO	2	Ligand/Ion	HYDROGEN PEROXIDE
2	PQQ	2	Ligand/Ion	PYRROLOQUINOLINE QUINONE

Asymmetric Unit (4, 4)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	TYR A:23 , HIS A:24 , ARG A:50 , TYR A:53 , GLN A:54 , LYS A:60 , HIS A:84 , TYR A:128 , SER A:144 , THR A:146 , ILE A:153 , HIS A:154 , ARG A:157 , TYR A:175 , ARG A:179 , LYS A:214 , PEO A:600 , HOH A:601	BINDING SITE FOR RESIDUE PQQ A 500
2	AC2	SOFTWARE	TYR B:23 , HIS B:24 , ARG B:50 , TYR B:53 , GLN B:54 , LYS B:60 , HIS B:84 , TYR B:128 , SER B:144 , THR B:146 , ILE B:153 , HIS B:154 , TYR B:175 , LYS B:214 , PEO B:601 , HOH B:602	BINDING SITE FOR RESIDUE PQQ B 501
3	AC3	SOFTWARE	ALA A:150 , HIS A:154 , ARG A:179 , ALA A:183 , PQQ A:500	BINDING SITE FOR RESIDUE PEO A 600
4	AC4	SOFTWARE	ALA B:150 , HIS B:154 , ALA B:183 , PQQ B:501	BINDING SITE FOR RESIDUE PEO B 601

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

(no "Cis Peptide Bond" information available for 1OTW)

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

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

(no "Exon" information available for 1OTW)

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:255
 aligned with PQQC_KLEPN | P27505 from UniProtKB/Swiss-Prot  Length:251

    Alignment length:255
                             1                                                                                                                                                                                                                                                       251   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249 |   
           PQQC_KLEPN     - -MLITDTLSPQAFEEALRAKGAFYHIHHPYHIAMHNGDATRKQIQGWVANRFYYQTTIPLKDAAIMANCPDAQTRRKWVQRILDHDGSHGEDGGIEAWLRLGEAVGLSRDDLLSERHVLPGVRFAVDAYLNFARRACWQEAACSSLTELFAPQIHQSRLDSWPQHYPWIKEEGYFYFRSRLSQANRDVEHGLALAKAYCDSAEKQNRMLEILQFKLDILWSMLDAMTMAYALQRPPYHTVTDKAAWHTTRLV---   -
               SCOP domains d1otwa_ A: Coenzyme PQQ synthesis protein C, PqqC                                                                                                                                                                                                               SCOP domains
               CATH domains 1otwA00 A:0-254 Heme Oxygenase; Chain A                                                                                                                                                                                                                         CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhhhhh.....hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhh..hhhhhhh....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........................ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1otw A   0 HMLITDTLSPQAFEEALRAKGDFYHIHHPYHIAMHNGDATRKQIQGWVANRFYYQTTIPLKDAAIMANCPDAQTRRKWVQRILDHDGSHGEDGGIEAWLRLGEAVGLSRDDLLSERHVLPGVRFAVDAYLNFARRACWQEAACSSLTELFAPQIHQSRLDSWPQHYPWIKEEGYFYFRSRLSQANRDVEHGLALAKAYCDSAEKQNRMLEILQFKLDILWSMLDAMTMAYALQRPPYHTVTDKAAWHTTRLVLEH 254
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249

Chain B from PDB  Type:PROTEIN  Length:253
 aligned with PQQC_KLEPN | P27505 from UniProtKB/Swiss-Prot  Length:251

    Alignment length:253
                                                                                                                                                                                                                                                                                   251   
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251   
           PQQC_KLEPN     2 LITDTLSPQAFEEALRAKGAFYHIHHPYHIAMHNGDATRKQIQGWVANRFYYQTTIPLKDAAIMANCPDAQTRRKWVQRILDHDGSHGEDGGIEAWLRLGEAVGLSRDDLLSERHVLPGVRFAVDAYLNFARRACWQEAACSSLTELFAPQIHQSRLDSWPQHYPWIKEEGYFYFRSRLSQANRDVEHGLALAKAYCDSAEKQNRMLEILQFKLDILWSMLDAMTMAYALQRPPYHTVTDKAAWHTTRLV---   -
               SCOP domains d1otwb_ B: Coenzyme PQQ synthesis protein C, PqqC                                                                                                                                                                                                             SCOP domains
               CATH domains 1otwB00 B:2-254 Heme Oxygenase; Chain A                                                                                                                                                                                                                       CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......hhhhhhhhhhhhhhhh.....hhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh.......hhhhhhhhhh....hhhhhh....hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........................ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1otw B   2 LITDTLSPQAFEEALRAKGDFYHIHHPYHIAMHNGDATRKQIQGWVANRFYYQTTIPLKDAAIMANCPDAQTRRKWVQRILDHDGSHGEDGGIEAWLRLGEAVGLSRDDLLSERHVLPGVRFAVDAYLNFARRACWQEAACSSLTELFAPQIHQSRLDSWPQHYPWIKEEGYFYFRSRLSQANRDVEHGLALAKAYCDSAEKQNRMLEILQFKLDILWSMLDAMTMAYALQRPPYHTVTDKAAWHTTRLVLEH 254
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251

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/Biological Unit

Classes(

)

Folds(

)

Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: All alpha proteins (14657)

Fold: Heme oxygenase-like (107)

Superfamily: Heme oxygenase-like (107)

Family: PqqC-like (6)

Protein domain: Coenzyme PQQ synthesis protein C, PqqC (5)

Klebsiella pneumoniae [TaxId: 573] (2)

1a	d1otwa_	A:
1b	d1otwb_	B:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Mainly Alpha (13335)

Architecture: Up-down Bundle (3216)

Topology: Heme Oxygenase; Chain A (84)

Homologous Superfamily: Heme Oxygenase; Chain A (84)

Klebsiella pneumoniae. Organism_taxid: 573. (2)

1a	1otwB00	B:2-254
1b	1otwA00	A:0-254

(no "Pfam Domain" information available for 1OTW)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (PQQC_KLEPN | P27505)

molecular function
	GO:0016491	oxidoreductase activity	Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
	GO:0033732	pyrroloquinoline-quinone synthase activity	Catalysis of the reaction: 6-(2-amino-2-carboxyethyl)-7,8-dioxo-1,2,3,4,7,8-hexahydroquinoline-2,4-dicarboxylate + 3 O(2) = 2 H(2)O + 2 H(2)O(2) + H(+) + pyrroloquinoline quinone.
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.
	GO:0018189	pyrroloquinoline quinone biosynthetic process	The chemical reactions and pathways resulting in the formation of the cofactor pyrroloquinoline quinone (PQQ); it is synthesized from a small peptide containing tyrosine and glutamic acid; these amino acids in the peptide are multiply cross-linked and the rest of the peptide is removed.

Asymmetric/Biological Unit
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	Ligands, Modified Residues, Ions
		PEO	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]
		PQQ	[ RasMol \| Jena3D ]	+environment [ RasMol \| Jena3D ]

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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 1otw)

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	PQQC_KLEPN \| P27505	:	1otv

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 4)

Sites (4, 4)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

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Exons (0, 0)

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