GapMind for Amino acid biosynthesis

 

Alignments for a candidate for gatA in Marinobacter adhaerens HP15

Align glutamyl-tRNAGln amidotransferase subunit A (EC 6.3.5.7) (characterized)
to candidate GFF2513 HP15_2457 glutamyl-tRNA (Gln) amidotransferase A subunit

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



>FitnessBrowser__Marino:GFF2513
          Length = 485

 Score =  512 bits (1319), Expect = e-150
 Identities = 259/486 (53%), Positives = 342/486 (70%), Gaps = 5/486 (1%)

Query: 3   LFDHKITELKQLIHKKEIKISDLVDESYKRIQAVDDKVQAFLALDEERARAYAKELDEAV 62
           + +  + EL + +   +I   +L  E   RI+  D K  +F+ + EE+A A A+  DE  
Sbjct: 1   MHNKSVAELSRELESGKISSVELTQEFLDRIKREDSKYNSFITVTEEQALADARVADEQR 60

Query: 63  DGRSEHGLLFGMPIGVKDNIVTKGLRTTCSSKILENFDPIYDATVVQRLQDAEAVTIGKL 122
              +      G+P   KD   T G+RTTC SK+LENF P YDATV    ++A AV +GK 
Sbjct: 61  AAGNATPWT-GVPFAHKDIFCTNGVRTTCGSKMLENFVPPYDATVTANFREAGAVCLGKT 119

Query: 123 NMDEFAMGSSTENSAYKLTKNPWNLDT----VPGGSSGGSAAAVAAGEVPFSLGSDTGGS 178
           NMDEFAMGSS ENS +    NPW L      VPGGSSGGSAAAVAA  +P +  +DTGGS
Sbjct: 120 NMDEFAMGSSNENSYFGAVTNPWGLSEGNKRVPGGSSGGSAAAVAARLIPAATATDTGGS 179

Query: 179 IRQPASFCGVVGLKPTYGRVSRYGLVAFASSLDQIGPITRTVEDNAFLLQAISGVDKMDS 238
           IRQPA+ CGV GLKPTYGRVSRYG++AFASSLDQ G + RT EDNA +L  ++G D  DS
Sbjct: 180 IRQPAALCGVTGLKPTYGRVSRYGMIAFASSLDQGGTMARTAEDNALMLNVMAGFDPKDS 239

Query: 239 TSANVDVPDFLSSLTGDIKGLKIAVPKEYLGEGVGKEARESVLAALKVLEGLGATWEEVS 298
           TS + +VPD+ ++L   +KGL+I +P+EY  + +     + V  A+K  E LGAT +EVS
Sbjct: 240 TSIDREVPDYTATLNEPLKGLRIGLPREYFSDQLSPAMEQQVRNAVKEYEKLGATVKEVS 299

Query: 299 LPHSKYALATYYLLSSSEASANLARFDGIRYGYRTDNADNLIDLYKQTRAEGFGNEVKRR 358
           LP++K A+A YY+++ +EASANL+RFDG+RYGYR +N  +L+DLY ++RAEGFG EVKRR
Sbjct: 300 LPNAKLAIAAYYVIAPAEASANLSRFDGVRYGYRCENPKDLMDLYTRSRAEGFGEEVKRR 359

Query: 359 IMLGTFALSSGYYDAYYKKAQKVRTLIKKDFEDVFEKYDVIVGPTTPTPAFKIGENTKDP 418
           I++GT+ALS+GY+DAYY KAQKVR LI++DF + F++ DV++ PTTP+PAF  GE T DP
Sbjct: 360 ILVGTYALSAGYFDAYYLKAQKVRRLIQQDFINAFKEVDVLMSPTTPSPAFIQGEKTSDP 419

Query: 419 LTMYANDILTIPVNLAGVPGISVPCGLADGLPLGLQIIGKHFDESTVYRVAHAFEQATDH 478
           +TMY  D+ TI +NLAGVP +SVP G  DGLP+GLQIIG +F E+ +   AH F+Q TD 
Sbjct: 420 VTMYLEDVFTIAINLAGVPAMSVPAGFVDGLPVGLQIIGDYFSEARLLNAAHQFQQVTDW 479

Query: 479 HKAKPE 484
           H+ KP+
Sbjct: 480 HQRKPQ 485


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: 574
Number of extensions: 19
Number of successful extensions: 3
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: 485
Length adjustment: 34
Effective length of query: 451
Effective length of database: 451
Effective search space:   203401
Effective search space used:   203401
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 GFF2513 HP15_2457 (glutamyl-tRNA (Gln) amidotransferase A subunit)
to HMM TIGR00132 (gatA: aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit (EC 6.3.5.-))

Software error:

../bin/blast/fastacmd -i /tmp/list.9148.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.9148.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.