GapMind for Amino acid biosynthesis

 

Alignments for a candidate for cimA in Azospirillum brasilense Sp245

Align (R)-citramalate synthase (EC 2.3.1.182) (characterized)
to candidate AZOBR_RS04265 AZOBR_RS04265 2-isopropylmalate synthase

Query= BRENDA::Q74C76
         (528 letters)



>FitnessBrowser__azobra:AZOBR_RS04265
          Length = 534

 Score =  508 bits (1307), Expect = e-148
 Identities = 272/524 (51%), Positives = 350/524 (66%), Gaps = 10/524 (1%)

Query: 4   VKLYDTTLRDGTQAEDISFLVEDKIRIAHKLDEIGIHYIEGGWPGSNPKDVAFFKDIKKE 63
           + LYDTTLRDG Q +D+ F V DKI IA  LD +GI Y+EGGWPG+NP D  FF +    
Sbjct: 6   IYLYDTTLRDGAQTQDVDFSVADKIAIARDLDRLGIDYVEGGWPGANPTDDQFFAEAPD- 64

Query: 64  KLSQAKIAAFGSTRRAKVTPDKDHNLKTLIQAEPDVCTIFGKTWDFHVHEALRISLEENL 123
            L+++   AFG TRR   +   D  L  LIQ++     I GKTWDFHV  AL I  EEN+
Sbjct: 65  -LARSTFTAFGMTRRPGRSTANDPQLAALIQSKARAVCIVGKTWDFHVDVALAIPREENI 123

Query: 124 ELIFDSLEYLKANVPEVFYDAEHFFDGYKANPDYAIKTLKAAQDAKADCIVLCDTNGGTM 183
           ELI DS+  LKA   E  +DAEHFFDGYK NP YA   +KAA +A A  +VLCDTNGGT+
Sbjct: 124 ELIADSIAALKAAKGEALFDAEHFFDGYKRNPAYAASCIKAAYEAGARWVVLCDTNGGTL 183

Query: 184 PFELVEIIREVRKHITAP---LGIHTHNDSECAVANSLHAVSEGIVQVQGTINGFGERCG 240
           P E+ EI+R+V      P   LGIH HND+E AVANSL AV  G+  VQGTING GERCG
Sbjct: 184 PHEIDEIVRQVIDEHGIPGDRLGIHCHNDTENAVANSLAAVRAGVRMVQGTINGLGERCG 243

Query: 241 NANLCSIIPALKLKMKREC-IGDDQLRKLRDLSRFVYELANLSPNKHQAYVGNSAFAHKG 299
           NANL S+IP+L LKM  +  I    L  L ++SR   E  N +PN+H  YVG SAFAHKG
Sbjct: 244 NANLVSLIPSLMLKMGCDVGIKPADLPLLTEISRKFDERLNRAPNRHAPYVGASAFAHKG 303

Query: 300 GVHVSAIQRHPETYEHLRPELVGNMTRVLVSDLSGRSNILAKAEEFNIKMDSKDPVTLEI 359
           G+HVSA+++ P +YEH+ PE VGN  ++++SD +GRSN++A+  E  + +D KD     +
Sbjct: 304 GLHVSAVEKDPSSYEHVEPEAVGNRRQIVMSDQAGRSNVIARLREMGMAVDPKDERLNRL 363

Query: 360 LENIKEMENRGYQFEGAEASFELLMKRALGTHRKFFSVIGFRVIDEKRHEDQKPL---SE 416
           L+ +K+ +  GY ++ AEASFELL++R LG    +F++  F V DE+R+  +  L   SE
Sbjct: 364 LDIVKQRDTEGYAYDTAEASFELLVRRELGEVPDYFTLKRFHVTDERRYNAKGELVVESE 423

Query: 417 ATIMVKVGGKIEHTAAEGNGPVNALDNALRKALEKFYPRLKEVKLLDYKVRVLPAGQGTA 476
           A + VK+GGK  H  A GNGPVNALD A+RKALE  YP L  VKL DY+VR+L A  GT 
Sbjct: 424 AVVRVKIGGKEYHEVASGNGPVNALDTAMRKALEPLYPLLDGVKLSDYRVRILAAKDGTG 483

Query: 477 SSIRVLIESGDKESR-WGTVGVSENIVDASYQALLDSVEYKLHK 519
           +  RVLI S + + + W T+GVS NI++AS +AL+DS  +KL K
Sbjct: 484 AMPRVLIRSRNGDGQEWSTLGVSTNIIEASMEALVDSYTFKLFK 527


Lambda     K      H
   0.317    0.135    0.387 

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: 689
Number of extensions: 24
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: 528
Length of database: 534
Length adjustment: 35
Effective length of query: 493
Effective length of database: 499
Effective search space:   246007
Effective search space used:   246007
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 AZOBR_RS04265 AZOBR_RS04265 (2-isopropylmalate synthase)
to HMM TIGR00977 (cimA: citramalate synthase (EC 2.3.1.182))

Software error:

../bin/blast/fastacmd -i /tmp/list.23898.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.23898.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.