HHsearch alignment for GI: 254780847 and conserved domain: TIGR01460

>TIGR01460 HAD-SF-IIA HAD-superfamily hydrolase, subfamily IIA; InterPro: IPR006357 These sequences form one of the structural subclass of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The superfamily is defined by the presence of three short catalytic motifs . The classes are defined based on the location and the observed or predicted fold of a so-called "capping domain" , or the absence of such a domain. Class I consists of sequences in which the capping domain is found in between the first and second catalytic motifs. Class II consists of sequences in which the capping domain is found between the second and third motifs. Class III sequences have no capping domain in either of these positions. The Class IIA capping domain is predicted to consist of a mixed alpha-beta fold with the basic pattern: Helix-Helix-Helix-Sheet-Helix-Loop-Sheet-Helix-Sheet-Helix. Presently, this subfamily covers the eukaryotic phosphoglycolate phosphatase, as well as four further subfamilies covering closely related sequences in eukaryotes, in Gram-positive bacteria and in Gram-negative bacteria. The Escherichia coli NagD gene and the Bacillus subtilis AraL gene are members of this subfamily but are not members of the any of the presently defined equivalogs within it. NagD is part of the NAG operon responsible for N-acetylglucosamine metabolism . Genes from several organisms have been annotated as NagD, or NagD-like. However, without data on the presence of other members of this pathway, (such as in the case of Yersinia pestis) these assignments should not be given great weight. The AraL gene is similar and is part of the L-arabinose operon . A gene from Halobacterium has been annotated as AraL, but no other Ara operon genes have been annotated. Many of the genes in this subfamily have been annotated as "pNPPase" "4-nitrophenyl phosphatase" or "NPPase". These all refer to the same activity versus a common lab test compound used to determine phosphatase activity. There is no evidence that this activity is physiologically relevant. The structure of NagD from Escherichia coli K12 has been reported and its activity against various substrates determined. It has high specificity for nucleotide monophosphates, and in particular UMP and GMP. In the context of its occurrence in the NAG operon, it may well be involved in the recycling of cell wall metabolites . ; GO: 0016787 hydrolase activity, 0008152 metabolic process.
Probab=100.00  E-value=1.8e-44  Score=311.94  Aligned_cols=228  Identities=30%  Similarity=0.469  Sum_probs=191.6

Q ss_pred             EEEECCCEEEECCCC-CCCHHHHHHHHHHCC----CCEEEECCCC-CCHHHHHHHHHH-CCCCCHHCCCCCCHHHHHHHH
Q ss_conf             999274432318814-862799999999879----8199985989-995899998751-277700001356879999999
Q gi|254780847|r   18 ILCDVWGVLHNGQKF-LPGTIPALKEARENG----LKVILFTNSP-RPSASVISQIQS-LGSSSQFWDDIITSGDLTHHL   90 (282)
Q Consensus        18 ~lfD~DGvL~~g~~~-ipgA~e~l~~L~~~g----~~~~~lTN~s-~~~~~~~~~L~~-lG~~~~~~d~I~ts~~~~~~~   90 (282)
T Consensus         1 f~fD~DGVl~~g~~~lipGA~~~l~~l~~~gG~L~~~v~f~TN~~~~~~~~~~~~~~~l~g~~v~-~~~i~~s~~~~~~~   79 (304)
T TIGR01460         1 FLFDIDGVLWLGDKPLIPGAVEALARLRAKGGALKKPVVFLTNNSSRSEEDYAEKLSSLLGLDVK-PEQIITSGSVTKDL   79 (304)
T ss_pred             CEEECCEEEEECCEEECCCHHHHHHHHHHCCCCEEEEEEEEECCCCCCHHHHHHHHHHHCCCCCC-CCCEECHHHHHHHH
T ss_conf             95612237980762112227899999982899567548898679997788999999885177446-11101628999999


Q ss_pred             HHH---H-CCCCCCCCCCCHHHHHHCCC-CCC----------CCCC-------------------------CCCCEEEEE
Q ss_conf             985---3-16545438725212431179-731----------5755-------------------------678689984
Q gi|254780847|r   91 LVE---E-SHNIFFIGPQRDYALLEKLN-IKI----------VNEQ-------------------------HAETILCTG  130 (282)
Q Consensus        91 l~~---~-~~~v~viG~~~~~~~l~~~g-~~~----------~~~~-------------------------~~~~iv~~g  130 (282)
T Consensus        80 l~~~~~~~~~~~~~~G~~~~~~~l~~~g~f~~~~~~~d~~~~~~~~~~l~~~~K~~~~~~~~~~~r~~e~~~~~~~~~av  159 (304)
T TIGR01460        80 LRQSERFENEKVYLIGEGELRESLENLGRFRNVVTVDDLRKIVDDIDPLAQYVKEMVDEESRKKLRSVEDLEAEKIVAAV  159 (304)
T ss_pred             HHHHHHCCCCCEEEEECCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHCCCCCEEE
T ss_conf             98765416983699728745888875586311157431566520035410357788655445531577310105557789


Q ss_pred             CCCCCCCCHHHHHHHHHHHHHCC-----------CCEEECCCCCCC--------CCCCCHHHHHHHHHHHHHHHCCCCC-
Q ss_conf             37710011799999999997305-----------740312664322--------5663001104899998875047653-
Q gi|254780847|r  131 LYDDEKDKTEDYRMLLERFAHRH-----------IPLICANPDIVA--------NRGNKIIPCAGALALIYQQLNGIVK-  190 (282)
Q Consensus       131 ~~~~~~~~~~~~~~l~~~~~~~~-----------~~~i~~N~D~~~--------p~~~~~~~~~G~~~~~~~~~~g~~~-  190 (282)
T Consensus       160 ~~~~~~~~~~~~~~~~~~l~~~~mnlpg~~~gP~~~fia~N~DL~w~~e~~~~~~~~G~~~~~~g~~~~~~~~~~g~~~d  239 (304)
T TIGR01460       160 IVGEPSDFSYDELAKAAKLLAEGMNLPGKELGPDVPFIAANRDLLWAAEPDLVRLGDGRFRPGVGAIAEKIKELSGREPD  239 (304)
T ss_pred             EECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCHHHCCCCCCCCCCCCCEEHHHHHHHHHHHHCCCCCEEE
T ss_conf             96488777889999999998547778873447885499847433026865554367862156589999997336771110


Q ss_pred             -CCCCCCCHHHHHHHHHHHHHHCCC--------CCCCEEEECCCHHHHHHHHHHCCCCEEEECCC
Q ss_conf             -234777025899999865431488--------90008997388578899999769969997186
Q gi|254780847|r  191 -MIGKPHLPIYEMAFKKISSLCNSF--------NKKRILAIGDGMDTDIKGALQSGIDALYVSDG  246 (282)
Q Consensus       191 -~~GKP~~~~~~~a~~~l~~~~~~~--------~~~~~lmIGD~l~tDI~gA~~~G~~silV~tG  246 (282)
T Consensus       240 ~~~GKP~~~~~~~a~~~~~~~~~~~~~s~~~~~pf~~~~mvGD~l~tD~~~A~~~G~~~~Lv~tG  304 (304)
T TIGR01460       240 IVVGKPSPAIYKAALELLKARPKRRDSSKQSAAPFERVLMVGDNLRTDVLGAKNAGFDSLLVLTG  304 (304)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHCCCCEEEEECC
T ss_conf             56308828999999999863010257777454341068787088323347787445002431059