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Asym./Biol. Unit (Jmol Viewer)

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Title :   STRUCTURE OF 6-PYRUVOYLTETRAHYDROPTERIN SYNTHASE

Authors :   K. H. Seo, N. N. Zhuang, K. H. Lee

Date :   07 Feb 11 (Deposition) - 07 Dec 11 (Release) - 28 May 14 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.34

Chains :   Asym./Biol. Unit : A,B,C,D,E,F

Keywords :   6-Pyruvoyltetrahydropterin Synthase, Bh4 Synthase, Sepiapterin, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. H. Seo, N. Zhuang, Y. S. Park, K. H. Park, K. H. Lee
Structural Basis Of A Novel Activity Of Bacterial 6-Pyruvoyltetrahydropterin Synthase Homologues Distinct Fro Mammalian 6-Pyruvoyltetrahydropterin Synthase Activity.
Acta Crystallogr. , Sect. D V. 70 1212 2014
PubMed-ID: 24816091 | Reference-DOI: 10.1107/S1399004714002016

Molecule 1 - 6-CARBOXY-5,6,7,8-TETRAHYDROPTERIN SYNTHASE
	Chains	:	A, B, C, D, E, F
	EC Number	:	4.1.2.50
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET28B
	Expression System Strain	:	BL21(DE3)
	Expression System Taxid	:	562
	Expression System Vector Type	:	PLASMID
	Gene	:	ECDH1_0923
	Organism Scientific	:	ESCHERICHIA COLI
	Organism Taxid	:	469008
	Strain	:	BL21(DE3)
	Synonym	:	6-CARBOXYTERAHYDROPTERIN SYNTHASE, PTPS

		1	2	3	4	5	6
Asymmetric/Biological Unit	:	A	B	C	D	E	F

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 6)

No.	Name	Count	Type	Full Name
1	ZN	6	Ligand/Ion	ZINC ION

Asymmetric Unit (6, 6)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	HIS A:15 , HIS A:30 , HIS A:32 , GLU A:109	BINDING SITE FOR RESIDUE ZN A 121
2	AC2	SOFTWARE	HIS B:15 , HIS B:30 , HIS B:32 , GLU B:109	BINDING SITE FOR RESIDUE ZN B 121
3	AC3	SOFTWARE	HIS C:15 , HIS C:30 , HIS C:32 , GLU C:109	BINDING SITE FOR RESIDUE ZN C 121
4	AC4	SOFTWARE	HIS D:15 , HIS D:30 , HIS D:32 , GLU D:109	BINDING SITE FOR RESIDUE ZN D 121
5	AC5	SOFTWARE	HIS E:15 , HIS E:30 , HIS E:32 , GLU E:109	BINDING SITE FOR RESIDUE ZN E 121
6	AC6	SOFTWARE	HOH B:122 , HIS F:15 , HIS F:30 , HIS F:32 , GLU F:109	BINDING SITE FOR RESIDUE ZN F 121

(no "SS Bond" information available for 3QN0)

(no "Cis Peptide Bond" information available for 3QN0)

(no "SAP(SNP)/Variant" information available for 3QN0)

(no "PROSITE Motif" information available for 3QN0)

(no "Exon" information available for 3QN0)

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:117
 aligned with QUED_ECOLI | P65870 from UniProtKB/Swiss-Prot  Length:121

    Alignment length:117
                                    12        22        32        42        52        62        72        82        92       102       112       
           QUED_ECOLI     3 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 119
               SCOP domains d3qn0a_ A: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee........hhhhh.eeeeeeeeeeeee..........hhhhhhhhhhhhhhhhh.ee.hhh......hhhhhhhhhhhhhhhhh..eeeeeeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3qn0 A   2 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 118
                                    11        21        31        41        51        61        71        81        91       101       111

Chain B from PDB  Type:PROTEIN  Length:117
 aligned with QUED_ECOLI | P65870 from UniProtKB/Swiss-Prot  Length:121

    Alignment length:117
                                    12        22        32        42        52        62        72        82        92       102       112       
           QUED_ECOLI     3 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 119
               SCOP domains d3qn0b_ B: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee........hhhhh.eeeeeeeeeeee...........hhhhhhhhhhhhhhhhh.ee.hhh......hhhhhhhhhhhhhh.....eeeeeeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3qn0 B   2 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 118
                                    11        21        31        41        51        61        71        81        91       101       111

Chain C from PDB  Type:PROTEIN  Length:117
 aligned with QUED_ECOLI | P65870 from UniProtKB/Swiss-Prot  Length:121

    Alignment length:117
                                    12        22        32        42        52        62        72        82        92       102       112       
           QUED_ECOLI     3 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 119
               SCOP domains d3qn0c_ C: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee........hhhhh.eeeeeeeeeeee...........hhhhhhhhhhhhhhhhh..hhhhh......hhhhhhhhhhhhhhhhh..eeeeeeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3qn0 C   2 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 118
                                    11        21        31        41        51        61        71        81        91       101       111

Chain D from PDB  Type:PROTEIN  Length:117
 aligned with QUED_ECOLI | P65870 from UniProtKB/Swiss-Prot  Length:121

    Alignment length:117
                                    12        22        32        42        52        62        72        82        92       102       112       
           QUED_ECOLI     3 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 119
               SCOP domains d3qn0d_ D: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee........hhhhh.eeeeeeeeeeeee..........hhhhhhhhhhhhhhhhh..hhhhh......hhhhhhhhhhhhhh.....eeeeeeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3qn0 D   2 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 118
                                    11        21        31        41        51        61        71        81        91       101       111

Chain E from PDB  Type:PROTEIN  Length:117
 aligned with QUED_ECOLI | P65870 from UniProtKB/Swiss-Prot  Length:121

    Alignment length:117
                                    12        22        32        42        52        62        72        82        92       102       112       
           QUED_ECOLI     3 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 119
               SCOP domains d3qn0e_ E: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee........hhhhh.eeeeeeeeeeee...........hhhhhhhhhhhhhhhhh.ee.hhh......hhhhhhhhhhhhhh.....eeeeeeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3qn0 E   2 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 118
                                    11        21        31        41        51        61        71        81        91       101       111

Chain F from PDB  Type:PROTEIN  Length:117
 aligned with QUED_ECOLI | P65870 from UniProtKB/Swiss-Prot  Length:121

    Alignment length:117
                                    12        22        32        42        52        62        72        82        92       102       112       
           QUED_ECOLI     3 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 119
               SCOP domains d3qn0f_ F: automated matches                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeeeeeee........hhhhh.eeeeeeeeeeee...........hhhhhhhhhhhhhhhhh.ee.hhh......hhhhhhhhhhhhhhhhh..eeeeeeeee..eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------- Transcript
                 3qn0 F   2 STTLFKDFTFEAAHRLPHVPEGHKCGRLHGHSFMVRLEITGEVDPHTGWIIDFAELKAAFKPTYERLDHHYLNDIPGLENPTSEVLAKWIWDQVKPVVPLLSAVMVKETCTAGCIYR 118
                                    11        21        31        41        51        61        71        81        91       101       111

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: Alpha and beta proteins (a+b) (23004)

Fold: T-fold (116)

Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like (113)

Family: automated matches (13)

Protein domain: automated matches (13)

Escherichia coli [TaxId: 469008] (3)

1a	d3qn0a_	A:
1b	d3qn0b_	B:
1c	d3qn0c_	C:
1d	d3qn0d_	D:
1e	d3qn0e_	E:
1f	d3qn0f_	F:

(no "CATH Domain" information available for 3QN0)

(no "Pfam Domain" information available for 3QN0)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B,C,D,E,F (QUED_ECOLI | P65870)

molecular function
	GO:0070497	6-carboxy-5,6,7,8-tetrahydropterin synthase activity	Catalysis of the reaction: 7,8-dihydroneopterin triphosphate + H2O = 6-carboxy-5,6,7,8-tetrahydropterin + triphosphate + acetaldehyde + 2 H+.
	GO:0042802	identical protein binding	Interacting selectively and non-covalently with an identical protein or proteins.
	GO:0016829	lyase activity	Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	GO:0008270	zinc ion binding	Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
	GO:0008616	queuosine biosynthetic process	The chemical reactions and pathways resulting in the formation of queuosines, any of a series of nucleosides found in tRNA and having an additional pentenyl ring added via an NH group to the methyl group of 7-methylguanosine. The pentenyl ring may carry other substituents.

Asymmetric/Biological Unit
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	Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 3qn0)

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	4.1.2.50
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	QUED_ECOLI \| P65870	:	3qn9 3qna 4ntk 4ntm 4ntn

(no "Related Entries Specified in the PDB File" available for 3QN0)

Description

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (1, 6)

Sites (6, 6)

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

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SCOP Domains (1, 6)

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