HHsearch alignment for GI: 254780870 and conserved domain: TIGR00442
>TIGR00442 hisS histidyl-tRNA synthetase; InterPro: IPR015807 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology . The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric . Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices , and are mostly dimeric or multimeric, containing at least three conserved regions , , . However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Histidyl-tRNA synthetase (6.1.1.21 from EC) is an alpha2 dimer that belongs to class IIa. Every completed genome includes a histidyl-tRNA synthetase. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and not demonstrated to act as histidyl-tRNA synthetases (see IPR004517 from INTERPRO). The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation, but these regulatory proteins are not orthologous.; GO: 0000166 nucleotide binding, 0004821 histidine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006427 histidyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00 E-value=7.9e-35 Score=239.61 Aligned_cols=388 Identities=19% Similarity=0.279 Sum_probs=244.1
Q ss_pred ECCCCCHHCCCCHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHH-CCC-CHHHHHHHCCHHHCCCCCCEECCCCC
Q ss_conf 0038811104316999999999999999866988973575124689877-197-31122221040213786200034555
Q gi|254780870|r 34 QHSKGIYSWLPLGQKALDNVNAIIREEQNRTGAIEMSVPTLQSADLWVE-SGR-YDSYGKEMLRLADRNDKAMIYGPTHE 111 (449)
Q Consensus 34 ~~~~G~~~~lP~G~~i~~~le~~~r~~~~~~G~~ei~tP~l~~~eL~~~-SGh-~d~~~~em~~~~d~~~~~~~LrP~~~ 111 (449)
T Consensus 5 ~~~~G~~d~~p~~~~~~~~~~~~~~~~~~~~g~~~~~~P~~e~~~~~~~~~~~~~~~~~~~~y~f~d~~~~~~~lrp~~t 84 (446)
T TIGR00442 5 QKPRGTKDWLPGELVYRQWIEAKLRSVLESYGYSEIRTPIFEYTELFARGIGKSGDEVEKELYTFKDKGGRDLALRPELT 84 (446)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHEEEECCCCCEEEECCCHH
T ss_conf 23455200254157899999999999997517720012114445666530253013344443012127884144222003
Q ss_pred CCCCCCHHHCCCCC-CCCCEEEEECCCCCCCCCCCC-CCCCCCEEEEEEECCEECCCHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 43101100001342-013402641465334566767-5434531668740422118868879999999998741111006
Q gi|254780870|r 112 EVMTDIFRSHIKSY-RNLPFTFYQIQLKFRDELRPR-FGVMRSREFLMKDAYSFDLTPEGSKHSYNKMFVSYLRIFHRLG 189 (449)
Q Consensus 112 e~~~~i~~~~~~SY-r~LPlr~y~ig~~fR~E~rp~-~GL~R~ReF~q~D~~~F~~~~e~~~~e~~~~~~~~~~i~~~lg 189 (449)
T Consensus 85 ~~~~r~~~~~~~~~~~~~p~~~~~~g~~~r~e-~p~~~g--r~r~f~~~~~~~~G~~~~~~~~~---~~~~~~~~~~~~g 158 (446)
T TIGR00442 85 APVVRLVAENKLLLPANKPLRLYYIGPVFRYE-RPQLKG--RYREFWQFGCEVIGSESPLADAE---VLSLAVEGLKALG 158 (446)
T ss_pred HHHHHHHHHHHHHCCCCCCEEEEEEECHHHCC-CHHHHC--CHHHHHHCCEEEECCCCCHHHHH---HHHHHHHHHHHHC
T ss_conf 68999998754310467642432320101022-412301--01133211504643665203689---9999999898607
Q ss_pred CHH-HHHHHCCHHCCCCHHHHHHHHCC--CC-----CCEEEECCCCC---CCCCCHHHCCHHHHHCCCCC--CCCCCCCC
Q ss_conf 201-22331100101311334345468--67-----70143101003---47764111220121001122--00013632
Q gi|254780870|r 190 LKS-IPMRAESGPIGGDLSHEFIVLAD--TG-----ETQVFCSKDFM---DFPIPSENTDFDDIISLNSI--VEQWTAPY 256 (449)
Q Consensus 190 l~~-~~v~~~~~~ig~~~s~e~~~~~~--~~-----e~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ 256 (449)
T Consensus 159 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (446)
T TIGR00442 159 LEGHFKLKLNHLGILEGILEYRGALEEDVYLTPIKDKLDKDDQERLEEELTNPLRILDEKVDELLELLKLKGAPEILDYL 238 (446)
T ss_pred CCCEEEEEECCCHHHHHHHHHHCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf 66327887413001456666521102345665666662301156789987654432122245677776325622578888
Q ss_pred CC-----------CHHH-CHHHHHCCC-----CCCCEEEEEEEEC--CCEEEC-----CCCCCCCCEEEEE---CCCCCC
Q ss_conf 12-----------0110-002330358-----7655243211115--814422-----3112230115896---477772
Q gi|254780870|r 257 AA-----------TSDV-HNEKLFDSL-----PENKRVSARGIEV--GHIFYF-----GTKYSLPMSATFK---GADGKD 309 (449)
Q Consensus 257 ~~-----------~~d~-~~~~~~d~l-----~~~~~~~~~~ie~--~~~f~l-----G~~ys~~~~~~~~---~~~g~~ 309 (449)
T Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~rGldyy~g~~~e~~~~~~~~~~~~~~GG~yd~l~~~~~~~ 318 (446)
T TIGR00442 239 DELLDESEGHFEGLKDLEELFQLLEDLGIDDLYELNLGLARGLDYYTGTVFEIVTNALGAQGTVCGGGRYDNLVEEFGGP 318 (446)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHCCEEEEEECCCCCCCCCEECCCCHHHHHHHHCCC
T ss_conf 88741235788899899999999865054210220511331001111323443101124321000465101256650675
Q ss_pred CCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCHHHCCCC----CEEEECCCCHHHHHHHHHHHHHHHHHC--CCEEEEEC
Q ss_conf 323366634474300233221023211111363320321----102421788799999999999999986--98799975
Q gi|254780870|r 310 HYVQMGSYGIGAMRVVAAVIESSHDGKGIIWPDSVAPFK----ISLINIKAHDQVCRDACEKIYARLSKV--GCDVFWDD 383 (449)
Q Consensus 310 ~~~~~g~~giG~~R~~~alle~~~d~~g~~wP~~iaP~~----v~Iipi~~~~~~~~~~A~~i~~~Lr~~--Gi~v~~D~ 383 (449)
T Consensus 319 ~~~~~G-~~~g~~r~~~~~~~~~~~-----~~~~-~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~g~~~~~~~ 388 (446)
T TIGR00442 319 PTPAVG-FAFGLERLINLLDAEKPS-----FPLA-KVVDARVFVLVVGLG---EEALPEALRLAEKLREALPGISAELYP 388 (446)
T ss_pred CCCCCH-HHHHHHHHHHHHHHHHHH-----HCCC-CCCCCEEEEEEEECC---HHHHHHHHHHHHHHHHHCCCCEEEEEE
T ss_conf 454100-233089999987565431-----0000-111110257786064---245789999999998733785168852
Q ss_pred C--CCCHHHHHHHHHHCCCCEEEEECCCHHHCCEEEEEECCCC-CEEEEEHHHHHHH
Q ss_conf 8--9797086787874899889998624023571899998999-7878619999999
Q gi|254780870|r 384 M--GEQIGSQFAVADLLGFPLQVIVGSKFVSDSKVEIKHRLTG-IREDMSLEEVINY 437 (449)
Q Consensus 384 r--~~~iGkK~~~Ad~~gip~~iiiG~~el~~~~Vtir~r~tg-~q~~v~l~eli~~ 437 (449)
T Consensus 389 ~~~~~~~~~~~~~a~~~g~~~~~~~G~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~ 445 (446)
T TIGR00442 389 KNNGRKLKKQFSYADKLGARFAVVLGEEELKEGKVTVKDLETGFEQTTLALDELIDI 445 (446)
T ss_pred CCCCHHHHHHHHHHHHCCCEEEEEECCCCCCCCCEEEHHHHHHHHHHHHHHHHHHHC
T ss_conf 211001345554564348548998453100134122012231245677757877512