1EJ2 - JenaLib

Title :   CRYSTAL STRUCTURE OF METHANOBACTERIUM THERMOAUTOTROPHICUM NICOTINAMIDE MONONUCLEOTIDE ADENYLYLTRANSFERASE WITH BOUND NAD+

Authors :   V. Saridakis, D. Christendat, M. S. Kimber, A. M. Edwards, E. F. Pai, Mid Center For Structural Genomics (Mcsg), Northeast Structural Consortium (Nesg)

Date :   29 Feb 00 (Deposition) - 14 Mar 01 (Release) - 13 Jul 11 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A
Biol. Unit 1: A  (1x)
Biol. Unit 2: A  (6x)

Keywords :   Dinucleotide Binding Fold, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Northeast Structural Genomics Consortium, Nesg, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   V. Saridakis, D. Christendat, M. S. Kimber, A. Dharamsi, A. M. Edwards E. F. Pai
Insights Into Ligand Binding And Catalysis Of A Central Ste In Nad+ Synthesis: Structures Of Methanobacterium Thermoautotrophicum Nmn Adenylyltransferase Complexes.
J. Biol. Chem. V. 276 7225 2001
PubMed-ID: 11063748 | Reference-DOI: 10.1074/JBC.M008810200

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (3, 3)

Sites (3, 3)

Asymmetric Unit (3, 3)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	ARG A:11 , ARG A:47 , GLY A:132 , THR A:133 , ARG A:136 , HOH A:243 , HOH A:277 , NA A:1000 , NAD A:1339	BINDING SITE FOR RESIDUE SO4 A 1759
2	AC2	SOFTWARE	MET A:12 , GLN A:13 , NAD A:1339 , SO4 A:1759	BINDING SITE FOR RESIDUE NA A 1000
3	AC3	SOFTWARE	VAL A:9 , GLY A:10 , ARG A:11 , MET A:12 , HIS A:16 , GLY A:18 , HIS A:19 , VAL A:22 , GLY A:38 , SER A:39 , ASP A:80 , ILE A:81 , ASN A:84 , TRP A:87 , SER A:103 , GLY A:104 , ASN A:105 , LEU A:107 , VAL A:108 , LEU A:124 , PHE A:125 , TYR A:130 , HOH A:204 , HOH A:243 , HOH A:258 , HOH A:274 , NA A:1000 , SO4 A:1759	BINDING SITE FOR RESIDUE NAD A 1339

SS Bonds (0, 0)

Cis Peptide Bonds (1, 1)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (0, 0)

Exons (0, 0)

Sequences/Alignments

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)
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Chain A from PDB  Type:PROTEIN  Length:167
 aligned with NADM_METTH | O26253 from UniProtKB/Swiss-Prot  Length:178

    Alignment length:167
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       
           NADM_METTH     1 MRGLLVGRMQPFHRGHLQVIKSILEEVDELIICIGSAQLSHSIRDPFTAGERVMMLTKALSENGIPASRYYIIPVQDIECNALWVGHIKMLTPPFDRVYSGNPLVQRLFSEDGYEVTAPPLFYRDRYSGTEVRRRMLDDGDWRSLLPESVVEVIDEINGVERIKHLA 167
               SCOP domains d1ej2a_ A: Nicotinamide mononucleotide (NMN) adenylyltransferase                                                                                                        SCOP domains
               CATH domains 1ej2A00 A:4-170 Tyrosyl-Transfer RNA Synthetase , subunit E, domain 1                                                                                                   CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....hhhhhhhhhhhhhhh.eeeeee.............hhhhhhhhhhhhhhhh..hhh.eeeee.....hhhhhhhhhhhhh....eee..hhhhhhhhhhh...ee..........hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ej2 A   4 MRGLLVGRMQPFHRGHLQVIKSILEEVDELIICIGSAQLSHSIRDPFTAGERVMMLTKALSENGIPASRYYIIPVQDIECNALWVGHIKMLTPPFDRVYSGNPLVQRLFSEDGYEVTAPPLFYRDRYSGTEVRRRMLDDGDWRSLLPESVVEVIDEINGVERIKHLA 170
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163

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 '\|'

Classification and Annotation

SCOP Domains (1, 1)

CATH Domains (1, 1)

Pfam Domains (0, 0)

Gene Ontology (10, 10)

Asymmetric Unit(hide GO term definitions)

Chain A (NADM_METTH | O26253)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	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:0000309	nicotinamide-nucleotide adenylyltransferase activity	Catalysis of the reaction: ATP + nicotinamide nucleotide = diphosphate + NAD+.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0016779	nucleotidyltransferase activity	Catalysis of the transfer of a nucleotidyl group to a reactant.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0009435	NAD biosynthetic process	The chemical reactions and pathways resulting in the formation of nicotinamide adenine dinucleotide, a coenzyme present in most living cells and derived from the B vitamin nicotinic acid; biosynthesis may be of either the oxidized form, NAD, or the reduced form, NADH.
	GO:0009058	biosynthetic process	The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
	GO:0019363	pyridine nucleotide biosynthetic process	The chemical reactions and pathways resulting in the formation of a pyridine nucleotide, a nucleotide characterized by a pyridine derivative as a nitrogen base.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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