GapMind for Amino acid biosynthesis

 

Alignments for a candidate for gatB in Dechlorosoma suillum PS

Align glutamyl-tRNAGln amidotransferase subunit B (EC 6.3.5.7) (characterized)
to candidate Dsui_0884 Dsui_0884 glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, B subunit

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



>FitnessBrowser__PS:Dsui_0884
          Length = 485

 Score =  445 bits (1144), Expect = e-129
 Identities = 234/476 (49%), Positives = 325/476 (68%), Gaps = 9/476 (1%)

Query: 2   NFETVIGLEVHVELKTKSKIFSSSPTPFGAEANTQTSVIDLGYPGVLPVLNKEAVEFAMK 61
           N+E VIG+E H +L T+SKIFS S T FGA+ N Q S +DL  PGVLPVLN+ AVE A+K
Sbjct: 5   NWEVVIGIETHAQLSTQSKIFSGSSTAFGAQPNVQASAVDLALPGVLPVLNRGAVECAIK 64

Query: 62  AAMALNCEIATDTKFDRKNYFYPDNPKAYQISQFDKPIGENGWIEIEVGGKTKR----IG 117
             +++  E+A  + F RKNYFYPD PK YQISQF+ P+   G + I+VG   K     + 
Sbjct: 65  FGLSIGAEVAAKSVFARKNYFYPDLPKGYQISQFELPVVVGGGVRIQVGQGDKAYEKVVR 124

Query: 118 ITRLHLEEDAGKLTHTG-DGYSLVDFNRQGTPLVEIVSEPDIRTPEEAYAYLEKLKSIIQ 176
           +TR HLEEDAGK  H    G S +D NR GTPL+EIV+EPD+ +  EA AY + L ++++
Sbjct: 125 LTRAHLEEDAGKSLHEDFHGKSGIDLNRAGTPLLEIVTEPDMCSSAEAVAYAKALHALVR 184

Query: 177 YTGVSDCKMEEGSLRCDANISLRPIGQEEFGTKTELKNLNSFAFVQKGLEHEEKRQEQVL 236
           + G+ D  M+EGS RCDAN+S+R  G E  GT+ E+KNLNSF F+Q+ +++E + Q   L
Sbjct: 185 WIGICDGNMQEGSFRCDANVSVRRPG-EPLGTRREIKNLNSFRFLQQAIDYEIQWQIDTL 243

Query: 237 LSGFFIQQETRRYDEATKKTILMRVKEGSDDYRYFPEPDLVELYIDDEWKERVKASIPEL 296
             G  IQQ T  +D  + +T +MR KE + DYRYFP+PDL+ L I  EW ER KA++PEL
Sbjct: 244 EDGGKIQQATVLFDPDSGETRVMRTKEDAHDYRYFPDPDLLPLVISREWVERTKATLPEL 303

Query: 297 PDERRKRYIEELGFAAYDAMVLTLTKEMADFFEE--TVQKGAEAKQASNWLMGEVSAYLN 354
           P+ +R+R++E+LG +AYDA  LT + E+AD+F+   T    A AK A+NW+MGE+SA LN
Sbjct: 304 PEAKRQRFMEQLGLSAYDATALTASLEVADYFDAVVTAAGAANAKSAANWVMGELSARLN 363

Query: 355 AEQKELADVALTPEGLAGMIKLIEKGTISSKIAKKVFKELIE-KGGDAEKIVKEKGLVQI 413
            E K++A   ++   LAG+I  I   TIS+ IAKKVF+ L    G  A+++++++GL QI
Sbjct: 364 KEDKDIAASPVSAAQLAGLIARIADNTISNNIAKKVFEALWNGDGASADEVIEKQGLKQI 423

Query: 414 SDEGVLLKLVTEALDNNPQSIEDFKNGKDRAIGFLVGQIMKASKGQANPPMVNKIL 469
           +D G + KLV E L  N  ++ ++K GK++A   LVGQ+MKA+KG+ANP  VN +L
Sbjct: 424 TDTGAIEKLVDEVLAANAANVAEYKAGKEKAFNALVGQVMKAAKGKANPQQVNDLL 479


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: 560
Number of extensions: 23
Number of successful extensions: 6
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: 485
Length adjustment: 34
Effective length of query: 442
Effective length of database: 451
Effective search space:   199342
Effective search space used:   199342
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 Dsui_0884 Dsui_0884 (glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, B subunit)
to HMM TIGR00133 (gatB: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, B subunit (EC 6.3.5.-))

Software error:

../bin/blast/fastacmd -i /tmp/list.16282.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.16282.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.