GapMind for catabolism of small carbon sources

 

Alignments for a candidate for PRO3 in Acidovorax sp. GW101-3H11

Align Pyrroline-5-carboxylate reductase; P5C reductase; P5CR; PCA reductase; EC 1.5.1.2 (characterized)
to candidate Ac3H11_788 Pyrroline-5-carboxylate reductase (EC 1.5.1.2)

Query= SwissProt::P22008
         (273 letters)



>FitnessBrowser__acidovorax_3H11:Ac3H11_788
          Length = 281

 Score =  211 bits (537), Expect = 1e-59
 Identities = 120/269 (44%), Positives = 165/269 (61%), Gaps = 2/269 (0%)

Query: 4   PRIAFIGAGNMAASLIGGLRAQGVPAAQIRASDPGAEQRAKIAGEFAIDVVESNAEAVAD 63
           P IAFIG GNMA+++IGGL  QG PA+QI   +P A  R  +   F +        A+  
Sbjct: 14  PTIAFIGGGNMASAIIGGLIGQGHPASQIEVVEPYAPTREALLKNFGLTAQPEAGPALQR 73

Query: 64  ADVVVLSVKPQAMKAVCQALAPALKPEQLIVSIAAGIPCASLEAWLGQPRPVVRCMPNTP 123
           A +VV +VKPQ  K    A A A  P+ L +S+AAGI   S+  WLG  R VVR MPNTP
Sbjct: 74  ASIVVWAVKPQTFKDAA-AQARAHTPQALHLSVAAGIRSDSIAQWLGTER-VVRTMPNTP 131

Query: 124 ALLRQGASGLYANAQVSAAQCEQAGQLLSAVGIALWLDDEAQIDAVTAVSGSGPAYFFLL 183
           AL+ +G S +YA   V+ A+ +    ++++ G  LW++ E Q+DAVTA+SGSGPAY F  
Sbjct: 132 ALVGKGMSAIYARPAVTPAERQSVEAIMASTGEFLWVESETQLDAVTALSGSGPAYVFYF 191

Query: 184 MQAMTDAGEKLGLSRETASRLTLQTALGAAQMALSSEVEPAELRRRVTSPNGTTEAAIKS 243
           ++AM  AG  +GLS   A +L + T +GA+++A  S   PA LR RVTS  GTT AA++S
Sbjct: 192 LEAMARAGVGMGLSDAQAHQLAVGTFVGASELARRSHEPPAVLRERVTSKGGTTYAALQS 251

Query: 244 FQANGFEALVEQALNAASQRSAELAEQLG 272
            +A+G     E A+ AA +R+ EL  + G
Sbjct: 252 MEASGVSQAFEAAMRAAEKRANELGNEFG 280


Lambda     K      H
   0.315    0.127    0.348 

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: 219
Number of extensions: 9
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: 273
Length of database: 281
Length adjustment: 25
Effective length of query: 248
Effective length of database: 256
Effective search space:    63488
Effective search space used:    63488
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: 47 (22.7 bits)

Align candidate Ac3H11_788 (Pyrroline-5-carboxylate reductase (EC 1.5.1.2))
to HMM TIGR00112 (proC: pyrroline-5-carboxylate reductase (EC 1.5.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.3481.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.3481.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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