>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=93.13  E-value=0.22  Score=29.74  Aligned_cols=123  Identities=23%  Similarity=0.307  Sum_probs=70.4

Q ss_pred             EEEEECCCHHHH--HHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCC------CCCHH-CCCHHHHHCCCCCCE
Q ss_conf             999982566789--999999998999999739965999998268520027887------71022-078889844889989
Q gi|254780900|r    6 KVGVAGLGTVGS--ALIRSIQKREGRFKDLDQHSFVVSAISARDKNIDRGIDC------LRYEW-FDDPLIMAGEADIDV   76 (438)
Q Consensus         6 kIgiiG~G~VG~--~~~~~l~~~~~~l~~~~g~~i~i~~i~~r~~~k~~~~~~------~~~~~-~~d~~~li~~~~IDv   76 (438)
T Consensus         1 ~i~i~GlG~tG~G~a~a~~L~~~g~--------~~---~~~D~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~d~   69 (476)
T TIGR01087         1 KILILGLGKTGRGVAVARFLKKKGA--------EV---TVTDDDPEEELERSKGQLKLSEGVVLYTGGKDDLEDLNNADL   69 (476)
T ss_pred             CEEEEEECCCCHHHHHHHHHHHCCC--------EE---EEEECCCCCCCCCHHHHCCCCCCEEEEECCCCCCCCCCCCEE
T ss_conf             9789986751078999999997298--------79---999845221343113312455641353267531012334207


Q ss_pred             EEECCCCCCCCHHHHHHHHHHCCEEEEE--------EC---H-HHHH---HHH-----HHHHHHHHHCCCEEEEECCCCC
Q ss_conf             9986488885113578888632702885--------04---1-7788---768-----9999875313966996056453
Q gi|254780900|r   77 FVELIGGEDYPAYDAVRIALMRGCHVVT--------AN---K-ALIA---SHG-----KDLALLAQKNNAILNFEAAVAG  136 (438)
Q Consensus        77 VVEliGg~~~pA~~~i~~AL~~GkhVVT--------AN---K-allA---~~g-----~eL~~lA~~~gv~l~~easV~g  136 (438)
T Consensus        70 vv~S-PGi~-~~hp~~~~a~~~g~~v~gdi~L~~~~~~~~~~~~~~aITGTnGKtTTT~L~~~~L~~~G----~~a~~gG  143 (476)
T TIGR01087        70 VVLS-PGIP-PDHPLVQAAAKRGIPVVGDIELALRLVDFPEPAKVVAITGTNGKTTTTSLLYHLLKAAG----LKAVLGG  143 (476)
T ss_pred             EEEC-CCCC-CCCHHHHHHHHCCCEEEEHHHHHHHHCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHCC----CCEEEEC
T ss_conf             9978-9898-67779999996698089867999974157898737999726860799999999998469----9778625


Q ss_pred             --HHHHHHHHH
Q ss_conf             --013189998
Q gi|254780900|r  137 --GIPIIRILK  145 (438)
Q Consensus       137 --giPii~~l~  145 (438)
T Consensus       144 NIG~p~L~~~~  154 (476)
T TIGR01087       144 NIGTPALEVLD  154 (476)
T ss_pred             CCCCHHHHHHC
T ss_conf             78812555310