2MBR - JenaLib

Title :   MURB WILD TYPE, COMPLEX WITH ENOLPYRUVYL-UDP-N-ACETYLGLUCOSAMINE

Authors :   T. E. Benson, C. T. Walsh, J. M. Hogle

Date :   08 Nov 96 (Deposition) - 01 Apr 97 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.80

Chains :   Asym./Biol. Unit : A

Keywords :   Peptidoglycan Synthesis, Cell Wall, Cell Division, Oxidoreductase, Nadp, Flavoprotein, Fad (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   T. E. Benson, C. T. Walsh, J. M. Hogle
X-Ray Crystal Structures Of The S229A Mutant And Wild-Type Murb In The Presence Of The Substrate Enolpyruvyl-Udp-N-Acetylglucosamine At 1. 8-A Resolution.
Biochemistry V. 36 806 1997
PubMed-ID: 9020778 | Reference-DOI: 10.1021/BI962221G
(for further references see the PDB file header)

Compounds

Structural Features

Chains, Units

Ligands, Modified Residues, Ions (2, 2)

Sites (2, 2)

Asymmetric Unit (2, 2)

No.	Name	Evidence	Residues	Description
1	AC1	SOFTWARE	LEU A:44 , ILE A:45 , LEU A:46 , GLY A:47 , GLU A:48 , GLY A:49 , SER A:50 , ASN A:51 , VAL A:52 , ASN A:65 , ILE A:110 , PRO A:111 , GLY A:112 , CYS A:113 , SER A:116 , ILE A:119 , ILE A:122 , GLY A:123 , ALA A:124 , ARG A:159 , ALA A:172 , ILE A:173 , ARG A:214 , PRO A:219 , ASN A:226 , ALA A:227 , GLY A:228 , ARG A:327 , EPU A:402 , HOH A:620 , HOH A:621 , HOH A:622 , HOH A:623 , HOH A:713	BINDING SITE FOR RESIDUE FAD A 401
2	AC2	SOFTWARE	ALA A:124 , TYR A:125 , TYR A:158 , ARG A:159 , TYR A:190 , ARG A:214 , LYS A:217 , GLY A:228 , SER A:229 , PHE A:231 , ASN A:233 , TYR A:254 , ALA A:264 , GLY A:266 , TRP A:267 , ASP A:270 , LYS A:275 , GLN A:288 , ALA A:289 , GLU A:325 , FAD A:401 , HOH A:501 , HOH A:502 , HOH A:628 , HOH A:630 , HOH A:631 , HOH A:637 , HOH A:638 , HOH A:639 , HOH A:683	BINDING SITE FOR RESIDUE EPU A 402

SS Bonds (0, 0)

Cis Peptide Bonds (0, 0)

Sequence-Structure Mapping

SAPs(SNPs)/Variants (0, 0)

PROSITE Motifs (1, 1)

Exons (0, 0)

Sequences/Alignments

Asymmetric/Biological Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
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	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:340
 aligned with MURB_ECOLI | P08373 from UniProtKB/Swiss-Prot  Length:342

    Alignment length:340
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342
           MURB_ECOLI     3 HSLKPWNTFGIDHNAQHIVCAEDEQQLLNAWQYATAEGQPVLILGEGSNVLFLEDYRGTVIINRIKGIEIHDEPDAWYLHVGAGENWHRLVKYTLQEGMPGLENLALIPGCVGSSPIQNIGAYGVELQRVCAYVDSVELATGKQVRLTAKECRFGYRDSIFKHEYQDRFAIVAVGLRLPKEWQPVLTYGDLTRLDPTTVTPQQVFNAVCHMRTTKLPDPKVNGNAGSFFKNPVVSAETAKALLSQFPTAPNYPQADGSVKLAAGWLIDQCQLKGMQIGGAAVHRQQALVLINEDNAKSEDVVQLAHHVRQKVGEKFNVWLEPEVRFIGASGEVSAVETIS 342
               SCOP domains d2mbra1 A:3-200 Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase (MurB), N-terminal domain                                                                                                  d2mbra2 A:201-342 Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain                                          SCOP domains
               CATH domains 2mbrA02 A:3-68                                                    2mbrA03 A:69-218  [code=3.30.465.10, no name defined]                                                                                                 2mbrA01 A:219-342 Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 1                                       CATH domains
               Pfam domains --------------FAD_binding_4-2mbrA01 A:17-150                                                                                                        ----------------------------------------------------MurB_C-2mbrA02 A:203-330                                                                                                        ------------ Pfam domains
         Sec.struct. author ...hhh..........eeeee..hhhhhhhhhhhhhh...eeee.....eee......eeeee....eeeeee..eeeeeee....hhhhhhhhhh......hhh......hhhh...........hhh.eeeeeeee.....eeeee.hhh.......hhh......eee.eeeeeee.........hhh.........hhhhhhhhhhhhhhh....................hhhhhhhhhh.....eee.....eee.hhhhhhh..........eee.......eee.....hhhhhhhhhhhhhhhhhhh........eee.......hhhh.. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------FAD_PCMH  PDB: A:13-183 UniProt: 13-183                                                                                                                                    --------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2mbr A   3 HSLKPWNTFGIDHNAQHIVCAEDEQQLLNAWQYATAEGQPVLILGEGSNVLFLEDYRGTVIINRIKGIEIHDEPDAWYLHVGAGENWHRLVKYTLQEGMPGLENLALIPGCVGSSPIQNIGAYGVELQRVCAYVDSVELATGKQVRLTAKECRFGYRDSIFKHEYQDRFAIVAVGLRLPKEWQPVLTYGDLTRLDPTTVTPQQVFNAVCHMRTTKLPDPKVNGNAGSFFKNPVVSAETAKALLSQFPTAPNYPQADGSVKLAAGWLIDQCQLKGMQIGGAAVHRQQALVLINEDNAKSEDVVQLAHHVRQKVGEKFNVWLEPEVRFIGASGEVSAVETIS 342
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342

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 (2, 2)

CATH Domains (3, 3)

Pfam Domains (2, 2)

Gene Ontology (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

Chain A (MURB_ECOLI | P08373)

molecular function
	GO:0008762	UDP-N-acetylmuramate dehydrogenase activity	Catalysis of the reaction: UDP-N-acetylmuramate + NADP+ = UDP-N-acetyl-3-O-(1-carboxyvinyl)-D-glucosamine + NADPH + H+.
	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:0050660	flavin adenine dinucleotide binding	Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
	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:0016614	oxidoreductase activity, acting on CH-OH group of donors	Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group act as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
biological process
	GO:0007049	cell cycle	The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
	GO:0051301	cell division	The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
	GO:0071555	cell wall organization	A process that results in the assembly, arrangement of constituent parts, or disassembly of the cell wall, the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.
	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:0009252	peptidoglycan biosynthetic process	The chemical reactions and pathways resulting in the formation of peptidoglycans, any of a class of glycoconjugates found in bacterial cell walls.
	GO:0008360	regulation of cell shape	Any process that modulates the surface configuration of a cell.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
	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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