1VDR - JenaLib

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Title :   DIHYDROFOLATE REDUCTASE

Authors :   U. Pieper, O. Herzberg

Date :   30 Nov 97 (Deposition) - 25 Feb 98 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   2.55

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

Keywords :   Oxidoreductase, Dihydrofolate Reductase, Halophilic Enzyme (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   U. Pieper, G. Kapadia, M. Mevarech, O. Herzberg
Structural Features Of Halophilicity Derived From The Crystal Structure Of Dihydrofolate Reductase From The Dead Sea Halophilic Archaeon, Haloferax Volcanii.
Structure V. 6 75 1998
PubMed-ID: 9493269 | Reference-DOI: 10.1016/S0969-2126(98)00009-4
(for further references see the PDB file header)

Molecule 1 - DIHYDROFOLATE REDUCTASE
	Chains	:	A, B
	EC Number	:	1.5.1.3
	Organism Scientific	:	HALOFERAX VOLCANII
	Organism Taxid	:	2246
	Other Details	:	FORMERLY HALOBACTERIUM VOLCANII
	Synonym	:	DHFR

		1	2
Asymmetric/Biological Unit	:	A	B

Summary Information (see also Sequences/Alignments below)

Asymmetric/Biological Unit (1, 3)

No.	Name	Count	Type	Full Name
1	PO4	3	Ligand/Ion	PHOSPHATE ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG B:46 , SER B:65 , ARG B:66 , ARG B:69	BINDING SITE FOR RESIDUE PO4 B 163
2	AC2	SOFTWARE	ARG A:46 , SER A:65 , ARG A:66 , SER A:67 , ARG A:69 , HOH A:173	BINDING SITE FOR RESIDUE PO4 A 163
3	AC3	SOFTWARE	GLY A:45 , ARG A:46 , THR A:47 , THR A:48 , GLY A:101 , GLY A:102 , ILE A:105	BINDING SITE FOR RESIDUE PO4 A 164

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

Asymmetric/Biological Unit

No.	Residues
1	Gly A:101	-	Gly A:102
2	Gly B:101	-	Gly B:102

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

Asymmetric/Biological Unit (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	DHFR_2	PS51330	Dihydrofolate reductase (DHFR) domain profile.	DYRA_HALVD	2-162	2	A:2-158 B:2-159
2	DHFR_1	PS00075	Dihydrofolate reductase (DHFR) domain signature.	DYRA_HALVD	14-37	2	A:14-37 B:14-37

(no "Exon" information available for 1VDR)

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:157
 aligned with DYRA_HALVD | P15093 from UniProtKB/Swiss-Prot  Length:162

    Alignment length:157
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       
           DYRA_HALVD     2 ELVSVAALAENRVIGRDGELPWPSIPADKKQYRSRIADDPVVLGRTTFESMRDDLPGSAQIVMSRSERSFSVDTAHRAASVEEAVDIAASLDAETAYVIGGAAIYALFQPHLDRMVLSRVPGEYEGDTYYPEWDAAEWELDAETDHEGFTLQEWVRS 158
               SCOP domains d1vdra_ A: Dihydrofolate reductase, prokaryotic type                                                                                                          SCOP domains
               CATH domains 1vdrA00 A:2-158 Dihydrofolate Reductase, subunit A                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee.................hhhhhhhhhh.....eeeehhhhhhh........eeee.................hhhhhhhhhh.....eeeee.hhhhhhhhhh..eeeeeee.................eeeeeeee...eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) DHFR_2  PDB: A:2-158 UniProt: 2-162                                                                                                                           PROSITE (1)
                PROSITE (2) ------------DHFR_1  PDB: A:14-37    ------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vdr A   2 ELVSVAALAENRVIGRDGELPWPSIPADKKQYRSRIADDPVVLGRTTFESMRDDLPGSAQIVMSRSERSFSVDTAHRAASVEEAVDIAASLDAETAYVIGGAAIYALFQPHLDRMVLSRVPGEYEGDTYYPEWDAAEWELDAETDHEGFTLQEWVRS 158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151

Chain B from PDB  Type:PROTEIN  Length:155
 aligned with DYRA_HALVD | P15093 from UniProtKB/Swiss-Prot  Length:162

    Alignment length:158
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151        
           DYRA_HALVD     2 ELVSVAALAENRVIGRDGELPWPSIPADKKQYRSRIADDPVVLGRTTFESMRDDLPGSAQIVMSRSERSFSVDTAHRAASVEEAVDIAASLDAETAYVIGGAAIYALFQPHLDRMVLSRVPGEYEGDTYYPEWDAAEWELDAETDHEGFTLQEWVRSA 159
               SCOP domains d1vdrb_ B: Dihydrofolate reductase, prokaryotic type                                                                                                           SCOP domains
               CATH domains 1vdrB00 B:2-159 Dihydrofolate Reductase, subunit A                                                                                                             CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee................hhhhhhhhhh....eeeeehhhhhhh........eeee...........eeee..hhhhhhhhhh.....eeeee.hhhhhhhhhh..eeeeeee.---.............eeeeeeee...eeeeeeee.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) DHFR_2  PDB: B:2-159 UniProt: 2-162                                                                                                                            PROSITE (1)
                PROSITE (2) ------------DHFR_1  PDB: B:14-37    -------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1vdr B   2 ELVSVAALAENRVIGRDGELPWPSIPADKKQYRSRIADDPVVLGRTTFESMRDDLPGSAQIVMSRSERSFSVDTAHRAASVEEAVDIAASLDAETAYVIGGAAIYALFQPHLDRMVLSRVP---EGDTYYPEWDAAEWELDAETDHEGFTLQEWVRSA 159
                                    11        21        31        41        51        61        71        81        91       101       111       121|   |  131       141       151        
                                                                                                                                                  122 126

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(

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Superfamilies( (-)

)

Families(

)

Protein Domains( (-)

)

Organisms( (-)

)

Class: Alpha and beta proteins (a/b) (23833)

Fold: Dihydrofolate reductase-like (332)

Superfamily: Dihydrofolate reductase-like (332)

Family: Dihydrofolate reductases (249)

Protein domain: Dihydrofolate reductase, prokaryotic type (107)

Haloferax volcanii [TaxId: 2246] (3)

1a	d1vdra_	A:
1b	d1vdrb_	B:

Asymmetric/Biological Unit

Classes(

)

Architectures( (-)

)

Topologies( (-)

)

Homologous Superfamilies( (-)

)

Organisms( (-)

)

Class: Alpha Beta (26913)

Architecture: 3-Layer(aba) Sandwich (12045)

Topology: Dihydrofolate Reductase, subunit A (200)

Homologous Superfamily: Dihydrofolate Reductase, subunit A (200)

Haloferax volcanii. Organism_taxid: 2246. (3)

1a	1vdrA00	A:2-158
1b	1vdrB00	B:2-159

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

Asymmetric/Biological Unit(hide GO term definitions)

Chain A,B (DYRA_HALVD | P15093)

molecular function
	GO:0050661	NADP binding	Interacting selectively and non-covalently with nicotinamide-adenine dinucleotide phosphate, a coenzyme involved in many redox and biosynthetic reactions; binding may be to either the oxidized form, NADP+, or the reduced form, NADPH.
	GO:0004146	dihydrofolate reductase activity	Catalysis of the reaction: 5,6,7,8-tetrahydrofolate + NADP+ = 7,8-dihydrofolate + NADPH + H+.
	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.
biological process
	GO:0006545	glycine biosynthetic process	The chemical reactions and pathways resulting in the formation of glycine, aminoethanoic acid.
	GO:0009165	nucleotide biosynthetic process	The chemical reactions and pathways resulting in the formation of nucleotides, any nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the glycose moiety; may be mono-, di- or triphosphate; this definition includes cyclic-nucleotides (nucleoside cyclic phosphates).
	GO:0006730	one-carbon metabolic process	The chemical reactions and pathways involving the transfer of one-carbon units in various oxidation states.
	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:0046654	tetrahydrofolate biosynthetic process	The chemical reactions and pathways resulting in the formation of tetrahydrofolate, 5,6,7,8-tetrahydrofolic acid, a folate derivative bearing additional hydrogens on the pterin group.

Asymmetric/Biological Unit
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