Alignments for a candidate for gatB in Herbaspirillum seropedicae SmR1

Align glutamyl-tRNA^Gln amidotransferase subunit B (EC 6.3.5.7) (characterized)
to candidate HSERO_RS23300 HSERO_RS23300 glutamyl-tRNA amidotransferase subunit B

Query= metacyc::MONOMER-13956
         (476 letters)



>FitnessBrowser__HerbieS:HSERO_RS23300
          Length = 486

 Score =  459 bits (1180), Expect = e-133
 Identities = 242/484 (50%), Positives = 330/484 (68%), Gaps = 11/484 (2%)

Query: 1   MNFETVIGLEVHVELKTKSKIFSSSPTPFGAEANTQTSVIDLGYPGVLPVLNKEAVEFAM 60
           M +E VIGLE H +L T+SKIFS SPT FGAE NTQ S +DL  PGVLPVLNK AVE A+
Sbjct: 1   MQWEVVIGLETHTQLSTQSKIFSGSPTRFGAEPNTQASPVDLALPGVLPVLNKGAVERAI 60

Query: 61  KAAMALNCEIATDTKFDRKNYFYPDNPKAYQISQFDKPIGENGWIE--IEVGGKT--KRI 116
           +  +A+   IA  + F RKNYFYPD PK YQISQF+ P+ + G +   +E  GKT  K I
Sbjct: 61  QFGLAIGATIAPRSIFARKNYFYPDLPKGYQISQFEIPVVQGGTMSFAVEKDGKTEIKTI 120

Query: 117 GITRLHLEEDAGKLTHTG-DGYSLVDFNRQGTPLVEIVSEPDIRTPEEAYAYLEKLKSII 175
            +TR HLEEDAGK  H    G + +D NR GTPL+EIV+EP++R+  EA  Y + L S++
Sbjct: 121 NLTRAHLEEDAGKSLHEDYQGMTGIDLNRAGTPLLEIVTEPEMRSAAEAVGYAKALHSLV 180

Query: 176 QYTGVSDCKMEEGSLRCDANISLRPIGQEEFGTKTELKNLNSFAFVQKGLEHEEKRQEQV 235
            + G+ D  M+EGS RCDAN+S+RP+GQE+FGT+ E+KNLNSF F+++ + +E +RQ ++
Sbjct: 181 MWLGICDGNMQEGSFRCDANVSVRPVGQEKFGTRCEIKNLNSFRFLEEAINYEVRRQIEL 240

Query: 236 LLSGFFIQQETRRYDEATKKTILMRVKEGSDDYRYFPEPDLVELYIDDEWKERVKASIPE 295
           +  G  + QETR YD   K+T  MR KE + DYRYFP+PDL  L I  EW ERVKA++PE
Sbjct: 241 IEDGGTVVQETRLYDPDKKETRSMRSKEDAQDYRYFPDPDLPPLAISQEWIERVKATMPE 300

Query: 296 LPDERRKRYIEELGFAAYDAMVLTLTKEMADFFEETVQKGA--EAKQASNWLMGEVSAYL 353
           LP   R+R++ E     YDAMVLT +K MA +FE  V      +AK A+NWLMG+V++ L
Sbjct: 301 LPAAMRERFVAEYALPEYDAMVLTQSKGMASYFEAVVAAAGKEQAKPAANWLMGDVASTL 360

Query: 354 NAEQKELADVALTPEGLAGMIKLIEKGTISSKIAKKVFKELIEKGGD----AEKIVKEKG 409
           N E  ++AD  +    LA ++K I  GTIS+KIAK+VF  + E   D    A+ I++ KG
Sbjct: 361 NREDTDIADAPVKAAQLALLLKRIADGTISNKIAKEVFAGMWEARSDKDSLADDIIEAKG 420

Query: 410 LVQISDEGVLLKLVTEALDNNPQSIEDFKNGKDRAIGFLVGQIMKASKGQANPPMVNKIL 469
           L QISD G L  +V + L  N +S+ +F+ GK++AI  L+GQ MKA++G+ANP  + ++L
Sbjct: 421 LKQISDSGALEAIVDQVLAANEKSVAEFRAGKEQAINALIGQAMKATRGKANPAQLTELL 480

Query: 470 LEEI 473
            +++
Sbjct: 481 RKKL 484


Lambda     K      H
   0.314    0.134    0.373 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 591
Number of extensions: 16
Number of successful extensions: 5
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 476
Length of database: 486
Length adjustment: 34
Effective length of query: 442
Effective length of database: 452
Effective search space:   199784
Effective search space used:   199784
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 51 (24.3 bits)

Align candidate HSERO_RS23300 HSERO_RS23300 (glutamyl-tRNA amidotransferase subunit B)
to HMM TIGR00133 (gatB: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, B subunit (EC 6.3.5.-))

Software error:

../bin/blast/fastacmd -i /tmp/list.27770.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.27770.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.