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Title :   STRUCTURE OF HUMAN GUANOSINE MONOPHOSPHATE REDUCTASE GMPR1 IN COMPLEX WITH GMP

Authors :   G. Bunkoczi, A. Haroniti, S. Ng, F. Von Delft, U. Oppermann, C. Arrowsm M. Sundstrom, A. Edwards, O. Gileadi

Date :   03 Mar 05 (Deposition) - 09 Mar 05 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A
Biol. Unit 1: A  (4x)

Keywords :   Oxidoreductase, Nucleotide Pathway, Tim Barrel (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   G. Bunkoczi, A. Haroniti, S. Ng, F. Von Delft, U. Oppermann, C. Arrowsmith, M. Sundstrom, A. Edwards, O. Gileadi
Structure Of Human Guanosine Monophosphate Reductase Gmpr1 In Complex With Gmp
To Be Published
PubMed: search

Molecule 1 - GMP REDUCTASE I
	Chains	:	A
	EC Number	:	1.7.1.7
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Cell Line	:	DE3
	Expression System Plasmid	:	PNIC-BSA4
	Expression System Strain	:	BL21
	Expression System Taxid	:	511693
	Expression System Vector Type	:	PLASMID
	Organism Scientific	:	HOMO SAPIENS
	Organism Taxid	:	9606
	Synonym	:	GUANOSINE 5'-MONOPHOSPHATE OXIDOREDUCTASE 1, GUANOSINE MONOPHOSPHATE REDUCTASE 1

		1
Asymmetric Unit	:	A
Biological Unit 1 (4x)	:	A

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (2, 3)

No.	Name	Count	Type	Full Name
1	5GP	1	Ligand/Ion	GUANOSINE-5'-MONOPHOSPHATE
2	NA	2	Ligand/Ion	SODIUM ION

Biological Unit 1 (1, 4)

No.	Name	Count	Type	Full Name
1	5GP	4	Ligand/Ion	GUANOSINE-5'-MONOPHOSPHATE
2	NA	-1	Ligand/Ion	SODIUM ION

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	THR A:57 , SER A:246 , GLY A:247 , HOH A:2102	BINDING SITE FOR RESIDUE NA A1345
2	AC2	SOFTWARE	SER A:105 , GLU A:140	BINDING SITE FOR RESIDUE NA A1346
3	AC3	SOFTWARE	ALA A:53 , MET A:55 , GLY A:183 , SER A:184 , CYS A:186 , ASP A:219 , GLY A:220 , GLY A:221 , MET A:240 , LEU A:241 , GLY A:242 , GLY A:243 , GLY A:268 , MET A:269 , SER A:270 , SER A:271 , ARG A:286 , ALA A:287 , SER A:288 , GLY A:290 , HOH A:2077 , HOH A:2078 , HOH A:2082 , HOH A:2100 , HOH A:2124 , HOH A:2125 , HOH A:2126	BINDING SITE FOR RESIDUE 5GP A1344

(no "SS Bond" information available for 2BLE)

Asymmetric Unit

No.	Residues
1	Gly A:157	-	Asn A:158

Asymmetric Unit (2, 2)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_003969	A	234	T	GMPR1_HUMAN	Polymorphism	760571328	A	A	234	T
2	UniProt	VAR_003970	F	256	I	GMPR1_HUMAN	Polymorphism	1042391	A	I	256	I

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Biological Unit 1 (2, 8)

								dbSNP	PDB
No.	Source	Variant ID	Variant			UniProt ID	Status	ID	Chain	Variant
1	UniProt	VAR_003969	A	234	T	GMPR1_HUMAN	Polymorphism	760571328	A	A	234	T
2	UniProt	VAR_003970	F	256	I	GMPR1_HUMAN	Polymorphism	1042391	A	I	256	I

SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

Asymmetric Unit (1, 1)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IMP_DH_GMP_RED	PS00487	IMP dehydrogenase / GMP reductase signature.	GMPR1_HUMAN	176-188	1	A:176-188

Biological Unit 1 (1, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	IMP_DH_GMP_RED	PS00487	IMP dehydrogenase / GMP reductase signature.	GMPR1_HUMAN	176-188	4	A:176-188

Asymmetric Unit (9, 9)

	ENSEMBL					UniProtKB			PDB
No.	Transcript ID	Exon	Exon ID	Genome Location	Length	ID	Location	Length	Count	Location	Length
1.1	ENST00000259727	1	ENSE00000928733	chr6:16238807-16239011	205	GMPR1_HUMAN	1-29	29	1	A:1-29	29
1.2	ENST00000259727	2	ENSE00000928732	chr6:16247073-16247192	120	GMPR1_HUMAN	30-69	40	1	A:30-69	40
1.3	ENST00000259727	3	ENSE00000928731	chr6:16250515-16250598	84	GMPR1_HUMAN	70-97	28	1	A:70-97	28
1.4	ENST00000259727	4	ENSE00000928730	chr6:16254793-16254966	174	GMPR1_HUMAN	98-155	58	1	A:98-155	58
1.5	ENST00000259727	5	ENSE00001790043	chr6:16274646-16274727	82	GMPR1_HUMAN	156-183	28	1	A:156-183	28
1.6	ENST00000259727	6	ENSE00000928728	chr6:16279015-16279121	107	GMPR1_HUMAN	183-218	36	1	A:183-218	36
1.7	ENST00000259727	7	ENSE00000928727	chr6:16286024-16286066	43	GMPR1_HUMAN	219-233	15	1	A:219-233	15
1.8	ENST00000259727	8	ENSE00000928726	chr6:16290693-16290852	160	GMPR1_HUMAN	233-286	54	1	A:233-286 (gaps)	54
1.9	ENST00000259727	9	ENSE00000928725	chr6:16295237-16295417	181	GMPR1_HUMAN	286-345	60	1	A:286-343	58

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
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Chain A from PDB  Type:PROTEIN  Length:337
 aligned with GMPR1_HUMAN | P36959 from UniProtKB/Swiss-Prot  Length:345

    Alignment length:343
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340   
          GMPR1_HUMAN     1 MPRIDADLKLDFKDVLLRPKRSSLKSRAEVDLERTFTFRNSKQTYSGIPIIVANMDTVGTFEMAAVMSQHSMFTAIHKHYSLDDWKLFATNHPECLQNVAVSSGSGQNDLEKMTSILEAVPQVKFICLDVANGYSEHFVEFVKLVRAKFPEHTIMAGNVVTGEMVEELILSGADIIKVGVGPGSVCTTRTKTGVGYPQLSAVIECADSAHGLKGHIISDGGCTCPGDVAKAFGAGADFVMLGGMFSGHTECAGEVFERNGRKLKLFYGMSSDTAMNKHAGGVAEYRASEGKTVEVPYKGDVENTILDILGGLRSTCTYVGAAKLKELSRRATFIRVTQQHNTV 343
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..........hhh.eee........hhhhh...eeee......eeee..eee.......hhhhhhhhhhhh.eee.....hhhhhhhhhhhhhhhhh.eeeee..hhhhhhhhhhhhhhh....eeeee.....hhhhhhhhhhhhhhh...eeeeeee.hhhhhhhhhhh...eeee........hhhhhh....hhhhhhhhhhhhhhh...eeeee....hhhhhhhhhhhh..eeeehhhhh..........----..eeeee...hhhhhhhh--...........eeeee...hhhhhhhhhhhhhhhhhhhhh.....hhhhhh.eee........ Sec.struct. author
                 SAPs(SNPs) -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------T---------------------I--------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------IMP_DH_GMP_RE----------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
           Transcript 1 (1) Exon 1.1  PDB: A:1-29        Exon 1.2  PDB: A:30-69 UniProt: 30-69   Exon 1.3  PDB: A:70-97      Exon 1.4  PDB: A:98-155 UniProt: 98-155                   Exon 1.5  PDB: A:156-183    -----------------------------------Exon 1.7       ----------------------------------------------------Exon 1.9  PDB: A:286-343 UniProt: 286-345 [INCOMPLETE]     Transcript 1 (1)
           Transcript 1 (2) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.6  PDB: A:183-218            --------------Exon 1.8  PDB: A:233-286 (gaps) UniProt: 233-286      --------------------------------------------------------- Transcript 1 (2)
                 2ble A   1 MPRIDADLKLDFKDVLLRPKRSSLKSRAEVDLERTFTFRNSKQTYSGIPIIVANMDTVGTFEMAAVMSQHSMFTAIHKHYSLDDWKLFATNHPECLQNVAVSSGSGQNDLEKMTSILEAVPQVKFICLDVANGYSEHFVEFVKLVRAKFPEHTIMAGNVVTGEMVEELILSGADIIKVGVGPGSVCTTRTKTGVGYPQLSAVIECADSAHGLKGHIISDGGCTCPGDVAKAFGAGADFVMLGGMFSGHTECAGEVI----RKLKLFYGMSSDTAMNKH--GVAEYRASEGKTVEVPYKGDVENTILDILGGLRSTCTYVGAAKLKELSRRATFIRVTQQHNTV 343
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250     |   -|      270       | -|      290       300       310       320       330       340   
                                                                                                                                                                                                                                                                                         256  261              278  |                                                              
                                                                                                                                                                                                                                                                                                                  281

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 '\|'

(no "SCOP Domain" information available for 2BLE)

(no "CATH Domain" information available for 2BLE)

(no "Pfam Domain" information available for 2BLE)

Asymmetric Unit(hide GO term definitions)

Chain A (GMPR1_HUMAN | P36959)

molecular function
	GO:0003920	GMP reductase activity	Catalysis of the reaction: IMP + NADP(+) + NH(4)(+) = GMP + 2 H(+) + NADPH.
	GO:0003824	catalytic activity	Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
	GO:0046872	metal ion binding	Interacting selectively and non-covalently with any metal ion.
	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:0009117	nucleotide metabolic process	The chemical reactions and pathways involving a nucleotide, a 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: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:0006144	purine nucleobase metabolic process	The chemical reactions and pathways involving purine nucleobases, one of the two classes of nitrogen-containing ring compounds found in DNA and RNA, which include adenine and guanine.
	GO:0006163	purine nucleotide metabolic process	The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
	GO:0043101	purine-containing compound salvage	Any process that generates a purine-containing compound, any nucleobase, nucleoside, nucleotide or nucleic acid that contains a purine base, from derivatives of them without de novo synthesis.
	GO:0009409	response to cold	Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cold stimulus, a temperature stimulus below the optimal temperature for that organism.
cellular component
	GO:1902560	GMP reductase complex	An oxidoreductase complex which is capable of GMP reductase activity. It catalyses the irreversible reaction: GMP + 2 H(+) + NADPH => IMP + NADP(+) + NH(4)(+).
	GO:0005829	cytosol	The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.

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		Gly A:157 - Asn A:158	[ RasMol ]

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Description

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Chains, Units

Ligands, Modified Residues, Ions (2, 3)

Sites (3, 3)

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

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Exons (9, 9)

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