GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argH in Magnetospirillum magneticum AMB-1

Align argininosuccinate lyase (EC 4.3.2.1) (characterized)
to candidate WP_011386833.1 AMB_RS22715 argininosuccinate lyase

Query= BRENDA::Q8DVX5
         (460 letters)



>NCBI__GCF_000009985.1:WP_011386833.1
          Length = 471

 Score =  417 bits (1073), Expect = e-121
 Identities = 218/454 (48%), Positives = 303/454 (66%), Gaps = 1/454 (0%)

Query: 8   LWGGRFEAGLAQWVEEFGASISFDQKLAEFDLKGSIAHVTMLGEKGIISQEDAATIKAGL 67
           +WGGRF  G A  ++   ASI FD++L   D++GS AH  ML ++ I+++ D A I  GL
Sbjct: 13  MWGGRFAGGPAAIMQRINASIDFDKRLYAQDIRGSKAHCRMLVKQQILTEADGALILDGL 72

Query: 68  EDLLEEYKAGQLKFDVSNEDIHMNMESLLTAKIGPVAGKLHTARSRNDQVATDMHLYLKA 127
           + +L E +AG   F  + EDIHMN+ES L   IG  AG+LHTARSRNDQVATD  L+++ 
Sbjct: 73  DKVLAEIEAGNFPFSHALEDIHMNVESRLAELIGEAAGRLHTARSRNDQVATDFRLWVRD 132

Query: 128 KLDEVIEKLANLRTVLVDLADKHVHTIMPGYTHLQHAQPISFGHHLMAYYNMFTRDSERF 187
            +D +   L  L T L+D A++H  T+MPG+THLQ AQP++FGHH+MAY  M +RD  R 
Sbjct: 133 AVDGMESALKELVTALLDRAEEHAATVMPGFTHLQTAQPVTFGHHMMAYVEMISRDRSRL 192

Query: 188 IFNVKHTDLSPLGAAALAGTTFPIDREMTAQLMGFAEPYSNSLDAVSDRDFILEFLSNAS 247
               +  +  PLG+AALAGT+FPIDRE TA+ +GFA P  NSLD VSDRDF LEF+S ++
Sbjct: 193 ADARRRLNECPLGSAALAGTSFPIDREATARDLGFAGPMRNSLDGVSDRDFALEFMSASA 252

Query: 248 ILMMHMSRMCEEVISWCSHEYQFVTLSDTFSTGSSIMPQKKNPDMAELIRGKSGRVYANL 307
           I  +H+SR+ EE++ W S +++FVTLSD F+TGSSIMPQK+NPD AELIR K+GRV  +L
Sbjct: 253 ICAVHLSRLAEELVIWTSSQFRFVTLSDAFTTGSSIMPQKRNPDAAELIRAKTGRVIGDL 312

Query: 308 FGLLTVMKALPLAYNKDLQEDKEGMFDTAETITVALDILAGMLSSMIVNDKHMAESTQKD 367
             LL VMK LPLAY+KD+Q+DKE +F+ A+T+ +A+  + GM+  M VN   +  +    
Sbjct: 313 NALLIVMKGLPLAYSKDMQDDKEPVFEVADTMELAIAAMTGMVRDMTVNVDILRAAAGAG 372

Query: 368 FSNATELADY-LASKGMPFRQAHEIVGKLILECSKNGHYLQDVPLERYQTISDLIEEDVY 426
           F+ AT++AD+ + +  MPFR+AH + G L+         L+D+ L   Q I   I E+  
Sbjct: 373 FTTATDIADWCVRALKMPFRRAHHVAGSLVKLAEGKNCGLEDLTLAEMQAIEPGITEEAR 432

Query: 427 ETLKSHTAVERRHSLGGTGFEQVKWQIAEAKKAL 460
             L   ++V  R SLGGT   +V+  +A A++ L
Sbjct: 433 SVLSVESSVNSRTSLGGTAPVRVREAVAGARRRL 466


Lambda     K      H
   0.318    0.132    0.378 

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: 533
Number of extensions: 12
Number of successful extensions: 2
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: 460
Length of database: 471
Length adjustment: 33
Effective length of query: 427
Effective length of database: 438
Effective search space:   187026
Effective search space used:   187026
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 (21.7 bits)
S2: 51 (24.3 bits)

Align candidate WP_011386833.1 AMB_RS22715 (argininosuccinate lyase)
to HMM TIGR00838 (argH: argininosuccinate lyase (EC 4.3.2.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.22222.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.22222.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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