>TIGR01087 murD UDP-N-acetylmuramoylalanine--D-glutamate ligase; InterPro: IPR005762 The bacterial cell wall provides strength and rigidity to counteract internal osmotic pressure, and protection against the environment. The peptidoglycan layer gives the cell wall its strength, and helps maintain the overall shape of the cell. The basic peptidoglycan structure of both Gram-positive and Gram-negative bacteria is comprised of a sheet of glycan chains connected by short cross-linking polypeptides. Biosynthesis of peptidoglycan is a multi-step (11-12 steps) process comprising three main stages: (1) formation of UDP-N-acetylmuramic acid (UDPMurNAc) from N-acetylglucosamine (GlcNAc). (2) addition of a short polypeptide chain to the UDPMurNAc. (3) addition of a second GlcNAc to the disaccharide-pentapeptide building block and transport of this unit through the cytoplasmic membrane and incorporation into the growing peptidoglycan layer. Stage two involves four key Mur ligase enzymes: MurC (6.3.2.8 from EC) , MurD (6.3.2.9 from EC) , MurE (6.3.2.13 from EC) and MurF (6.3.2.10 from EC) . These four Mur ligases are responsible for the successive additions of L-alanine, D-glutamate, meso-diaminopimelate or L-lysine, and D-alanyl-D-alanine to UDP-N-acetylmuramic acid. All four Mur ligases are topologically similar to one another, even though they display low sequence identity. They are each composed of three domains: an N-terminal Rossmann-fold domain responsible for binding the UDPMurNAc substrate; a central domain (similar to ATP-binding domains of several ATPases and GTPases); and a C-terminal domain (similar to dihydrofolate reductase fold) that appears to be associated with binding the incoming amino acid. The conserved sequence motifs found in the four Mur enzymes also map to other members of the Mur ligase family, including folylpolyglutamate synthetase, cyanophycin synthetase and the capB enzyme from Bacillales . This entry represents UDP-N-acetylmuramoylalanine-D-glutamate ligase (MurD). MurD catalyses the addition of d-glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-l-alanine. ; GO: 0005524 ATP binding, 0008764 UDP-N-acetylmuramoylalanine-D-glutamate ligase activity, 0008360 regulation of cell shape, 0009252 peptidoglycan biosynthetic process, 0009273 peptidoglycan-based cell wall biogenesis, 0051301 cell division, 0005737 cytoplasm.

Probab=100.00 E-value=0 Score=550.02 Aligned_cols=425 Identities=26% Similarity=0.359 Sum_probs=327.4 Q ss_pred EEEEEEECHHHH--HHHHHHHHHCCCEEEEEECCCCHHH---HHHHHC--CCEEEEC--CCHHHCCCCCEEEECCCCCCC Q ss_conf 079994614608--7899999987986999607899889---999988--9889967--997886889899988898999 Q gi|254781096|r 9 PIHFVGIGGIGM--SGIAEVLHNTGHQVQGSDVILGPNV---QRLHKQ--GIKVSIG--HKVENIDNAEILVLSTAIDKD 79 (474) Q Consensus 9 ~i~~iGigG~G~--s~lA~~l~~~G~~V~g~D~~~~~~~---~~L~~~--gi~i~~g--~~~~~i~~~d~vV~spgi~~~ 79 (474) T Consensus 1 ~i~i~GlG~tG~G~a-~a~~L~~~g~~~~~~D~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~d~vv~SPGi~~~ 79 (476) T TIGR01087 1 KILILGLGKTGRGVA-VARFLKKKGAEVTVTDDDPEEELERSKGQLKLSEGVVLYTGGKDDLEDLNNADLVVLSPGIPPD 79 (476) T ss_pred CEEEEEECCCCHHHH-HHHHHHHCCCEEEEEECCCCCCCCCHHHHCCCCCCEEEEECCCCCCCCCCCCEEEEECCCCCCC T ss_conf 978998675107899-9999997298799998452213431133124556413532675310123342079978989867 Q ss_pred CHHHHHHHHCCCCEEEHHHHHHHHHC---CCCCEEEECCCCCCHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCC Q ss_conf 98899999779949953899886411---685158704578404778888640344443057535733333100146854 Q gi|254781096|r 80 NVECIAARERNIPIIFRSEMLAGLMR---CRKSISVSGTHGKTTTTSLIAALLEQGKFDPTVINGGIINSYGTNARIGTS 156 (474) Q Consensus 80 ~~~l~~a~~~gi~i~~~~e~l~~~~~---~~~~IaVTGTnGKTTTt~ml~~il~~~g~~~~~~~G~~~~~~~~~~~~~~~ 156 (474) T Consensus 80 hp~~~~a~~~g~~v~gdi~L~~~~~~~~~~~~~~aITGTnGKtTTT~L~~~~L~~~G~~a-~~gGNIG~p~L~~~~~~~~ 158 (476) T TIGR01087 80 HPLVQAAAKRGIPVVGDIELALRLVDFPEPAKVVAITGTNGKTTTTSLLYHLLKAAGLKA-VLGGNIGTPALEVLDQEGA 158 (476) T ss_pred CHHHHHHHHCCCEEEEHHHHHHHHCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHCCCCE-EEECCCCCHHHHHHCCCCC T ss_conf 779999996698089867999974157898737999726860799999999998469977-8625788125553105889 Q ss_pred CCCHHHCCCCCCH-HHHCC--CCCEEEEEEECCCHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCC---CCHHHHHHHHC Q ss_conf 2001102322101-22118--553034222022011000255666643013333332222222346---50134543200 Q gi|254781096|r 157 EWIVVEADESDGT-FIRLP--SDIVVVTNIDPEHLDYYGDFNAIRAAFYKFIDNIPFYGFAVVCMD---HPEVRSLIARI 230 (474) Q Consensus 157 ~~~V~E~~e~~~s-~~~~~--P~iaVitNI~~DHld~~~s~e~y~~aK~~i~~~~~~~g~~vin~D---d~~~~~~~~~~ 230 (474) T Consensus 159 ~~~VlElSSFQL~~~~~~~p~p~i~~~lNi~~DHLD~h~~~~~Y~~aK~~i~~~~~~~d~~v~n~d~~~~~~~~~~~~-~ 237 (476) T TIGR01087 159 ELYVLELSSFQLETTESLRPAPEIALILNISEDHLDWHGSFEDYVAAKLKIFARQTEGDVAVLNADQAYDPRFTRLEK-K 237 (476) T ss_pred CEEEEEECCHHHCCCCCCCCCCEEEEEECCCHHHHCCCCCHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCHHHHCCC-C T ss_conf 669997000320457555665124687066356301107988999998898525998767988120025504652124-6 Q ss_pred CCCCCCCCCCCC---CCCEEEEEEEECCCCCEEEEEE-ECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCH-- Q ss_conf 111233333332---2220221021125842013555-1134444420000235676543332211210012321000-- Q gi|254781096|r 231 QNRKIITYGRHP---QADIRYSNIRKYSGRSIFDVSV-QGNVTKDLTVIKDLSLPLIGEHNISNACASIAVAYKLGLS-- 304 (474) Q Consensus 231 ~~~~v~~fg~~~---~~d~~~~~i~~~~~~~~f~~~~-~~~~~~~~~~~~~~~l~l~G~Hn~~NalaAia~a~~lgi~-- 304 (474) T Consensus 238 ~~~~~~~~~~~~CP~~~~~~---l~~~~~~~~l~~~~e~~~~C~~~~~~~~~~~~l~g~h~~~n~laa~ala~~~g~~~~ 314 (476) T TIGR01087 238 SKAQVVLFSVEKCPAEAEQG---LEIRDGKEYLKPNDENDFACDDLTILPCEELKLLGLHNAENILAAIALAKSLGLNSD 314 (476) T ss_pred CCCEEEEECCCCCCHHHHHH---HHHCCCCEEECCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCCC T ss_conf 75307874044580889976---412388526336787630000112433215676788899999999999998288976 Q ss_pred --HHHHHHHHHCCCCCCCCEEEECCCCCEEEEEE-CCCCCCCCHHHHHHHHCCCCC-CCEEEEECCCCHHHHHHHHHHHH Q ss_conf --00013343100001582211014786047630-244554302223331013443-21033303663147888999999 Q gi|254781096|r 305 --SEDVKKGLASFSGIKRRFTLVGVWNDVHVFDD-YGHHPIEISSVLAAVRQICPR-KIIAIHQPHRYSRLSTLFDQFSS 380 (474) Q Consensus 305 --~e~i~~~L~~f~g~~~R~e~v~~~~gv~~idD-yahnP~~i~atl~al~~~~~~-rii~i~~p~~~sr~~~~~~e~~~ 380 (474) T Consensus 315 ~~~~~~~~~l~~F~~~~HRlE~~~~~~G~~f~NDSKATn~---~At~~AL~~~~~~~~~~LI~GG~--~KG~df-~~L~~ 388 (476) T TIGR01087 315 EELEAILEALRSFKGLPHRLEYVGQKNGVHFINDSKATNV---HATLAALSALKNPKRVILIVGGD--DKGADF-SPLAP 388 (476) T ss_pred CHHHHHHHHHHHCCCCCCCEEEEEECCCEEEEECCCCCCH---HHHHHHHHHCCCCCEEEEEEECC--CCCCCH-HHHHH T ss_conf 0168999999845798762688777285479825621218---99999998479997189996034--689984-89999 Q ss_pred HHHHCCEEEEECCCCCCCCCCCCCCHHHHHHHHHHCCCCC----EEEECCHHHHHHHHHHHCCCC--CEEEEECCC-CHH Q ss_conf 9861899999086667764323899999999999638998----999889899999999855898--799994489-988 Q gi|254781096|r 381 CFGDADIVLISPVYSAGEKEIPGFSSPELVKNIKLQGHPQ----AYYMDSFDHLVSKILAIAEPG--DFIIFFGAG-NIT 453 (474) Q Consensus 381 ~l~~ad~vil~~i~~~~e~~~~g~~~~~l~~~i~~~~~~~----~~~~~~~~eav~~~~~~~~~g--DvVL~~GaG-~~~ 453 (474) T Consensus 389 ~~~~~~~~~~~----------~G~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~Av~~a~~~~~~g~~d~vLLSPacASFD 458 (476) T TIGR01087 389 ALKKKVKAVLA----------IGEDAAKIAKLLKEIGLVVKYGEETLVESLEEAVQAAREVAKEGNADVVLLSPACASFD 458 (476) T ss_pred HHCCCEEEEEE----------ECCCHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHH T ss_conf 84365079998----------53547899998634276435465305778999999999971279976798886412177 Q ss_pred HH Q ss_conf 99 Q gi|254781096|r 454 QW 455 (474) Q Consensus 454 ~~ 455 (474) T Consensus 459 qF 460 (476) T TIGR01087 459 QF 460 (476) T ss_pred HH T ss_conf 73

HHsearch alignment for GI: 254781096 and conserved domain: TIGR01087