GapMind for Amino acid biosynthesis

 

Alignments for a candidate for gatA in Sinorhizobium meliloti 1021

Align glutamyl-tRNAGln amidotransferase subunit A (EC 6.3.5.7) (characterized)
to candidate SMc01352 SMc01352 aspartyl/glutamyl-tRNA amidotransferase subunit A

Query= metacyc::MONOMER-13955
         (485 letters)



>FitnessBrowser__Smeli:SMc01352
          Length = 493

 Score =  466 bits (1199), Expect = e-136
 Identities = 247/483 (51%), Positives = 329/483 (68%), Gaps = 11/483 (2%)

Query: 8   ITELKQLIHKKEIKISDLVDESYKRIQAVDDKVQAFLALDEERARAYAKELDEAVDGRSE 67
           I E +  +  KEI   +L D     I+A ++ + A++A+  E+AR  AK  D  +     
Sbjct: 9   IAEARAKLSAKEITAVELTDAYLGAIEAANETINAYVAVTPEKAREMAKASDARI-AAGN 67

Query: 68  HGLLFGMPIGVKDNIVTKGLRTTCSSKILENFDPIYDATVVQRLQDAEAVTIGKLNMDEF 127
              L G+P+G+KD   T+G+ T   S IL+ F+P Y++TV Q L +  AV +GKLNMDEF
Sbjct: 68  AAALEGIPLGIKDLFGTEGIHTQACSHILDGFEPRYESTVTQNLWNDGAVMLGKLNMDEF 127

Query: 128 AMGSSTENSAYKLTKNPW-----NLDTVPGGSSGGSAAAVAAGEVPFSLGSDTGGSIRQP 182
           AMGSS E S Y   KNPW     NLD VPGGSSGGSAAAVAA     +  +DTGGSIRQP
Sbjct: 128 AMGSSNETSYYGPVKNPWRAKGSNLDLVPGGSSGGSAAAVAARLCAGATATDTGGSIRQP 187

Query: 183 ASFCGVVGLKPTYGRVSRYGLVAFASSLDQIGPITRTVEDNAFLLQAISGVDKMDSTSAN 242
           A+F G VG+KPTYGR SR+G+VAFASSLDQ GPI R V D A LL++++ +D  D+TS +
Sbjct: 188 AAFTGTVGIKPTYGRCSRWGVVAFASSLDQAGPIARDVRDAAILLKSMASIDPKDTTSVD 247

Query: 243 VDVPDFLSSLTGDIKGLKIAVPKEYLGEGVGKEARESVLAALKVLEGLGATWEEVSLPHS 302
           + VPD+ +++   IKG++I +PKEY  +G+ ++        +  L   GA   ++SLPH+
Sbjct: 248 LPVPDYEAAIGQSIKGMRIGIPKEYRVDGMPEDIEALWQQGIAWLRDAGAEIVDISLPHT 307

Query: 303 KYALATYYLLSSSEASANLARFDGIRYGYRTDNADNLIDLYKQTRAEGFGNEVKRRIMLG 362
           KYAL  YY+++ +EAS+NLAR+DG+RYG R D  D +ID+Y++TRA GFG EVKRRIM+G
Sbjct: 308 KYALPAYYIVAPAEASSNLARYDGVRYGLRVDGKD-IIDMYEKTRAAGFGQEVKRRIMIG 366

Query: 363 TFALSSGYYDAYYKKAQKVRTLIKKDFEDVFEK-YDVIVGPTTPTPAFKIGEN--TKDPL 419
           T+ LS+GYYDAYY +AQKVRTLIK+DFE  F+   D I+ P TP+ AF I +     DP+
Sbjct: 367 TYVLSAGYYDAYYLRAQKVRTLIKRDFELAFQAGVDAILTPATPSSAFGIADEDLASDPV 426

Query: 420 TMYANDILTIPVNLAGVPGISVPCGL-ADGLPLGLQIIGKHFDESTVYRVAHAFEQATDH 478
            MY NDI T+ VN+AG+PGI+VP GL   GLPLGLQ+IGK F+E T+++ AH  EQA   
Sbjct: 427 KMYLNDIFTVTVNMAGLPGIAVPGGLDRKGLPLGLQLIGKPFEEETLFKTAHVIEQAAGR 486

Query: 479 HKA 481
             A
Sbjct: 487 FTA 489


Lambda     K      H
   0.315    0.134    0.381 

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: 610
Number of extensions: 34
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: 485
Length of database: 493
Length adjustment: 34
Effective length of query: 451
Effective length of database: 459
Effective search space:   207009
Effective search space used:   207009
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)

Align candidate SMc01352 SMc01352 (aspartyl/glutamyl-tRNA amidotransferase subunit A)
to HMM TIGR00132 (gatA: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit (EC 6.3.5.-))

Software error:

../bin/blast/fastacmd -i /tmp/list.32014.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.32014.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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