GapMind for catabolism of small carbon sources

 

Alignments for a candidate for PRO3 in Pseudomonas fluorescens GW456-L13

Align Pyrroline-5-carboxylate reductase; P5C reductase; P5CR; PCA reductase; EC 1.5.1.2 (characterized)
to candidate PfGW456L13_1010 Pyrroline-5-carboxylate reductase (EC 1.5.1.2)

Query= SwissProt::P22008
         (273 letters)



>FitnessBrowser__pseudo13_GW456_L13:PfGW456L13_1010
          Length = 272

 Score =  385 bits (990), Expect = e-112
 Identities = 201/273 (73%), Positives = 236/273 (86%), Gaps = 1/273 (0%)

Query: 1   MSTPRIAFIGAGNMAASLIGGLRAQGVPAAQIRASDPGAEQRAKIAGEFAIDVVESNAEA 60
           MS  RIAFIGAGNMAASLIGGLRA+G+ AAQIRASDPG E RA+++ E  I+    NA+A
Sbjct: 1   MSKTRIAFIGAGNMAASLIGGLRAKGLEAAQIRASDPGEETRARVSAEHGIETFADNAQA 60

Query: 61  VADADVVVLSVKPQAMKAVCQALAPALKPEQLIVSIAAGIPCASLEAWLGQPRPVVRCMP 120
           +  ADVVVL+VKPQAMKAVC+A+ P+LKP QL+VSIAAGI CAS+  WLG  +P+VRCMP
Sbjct: 61  IDGADVVVLAVKPQAMKAVCEAIRPSLKPHQLVVSIAAGITCASMNNWLGA-QPIVRCMP 119

Query: 121 NTPALLRQGASGLYANAQVSAAQCEQAGQLLSAVGIALWLDDEAQIDAVTAVSGSGPAYF 180
           NTPAL+RQGASGL+A  +VSA Q +QA +LLSAVGIALWL++E Q+DAVTAVSGSGPAYF
Sbjct: 120 NTPALVRQGASGLFATTEVSAEQRQQAQELLSAVGIALWLNEEQQLDAVTAVSGSGPAYF 179

Query: 181 FLLMQAMTDAGEKLGLSRETASRLTLQTALGAAQMALSSEVEPAELRRRVTSPNGTTEAA 240
           FLL++AMT AG KLGL  + A++LTLQTALGAA MA+SS+V+ AELRRRVTSP GTTEAA
Sbjct: 180 FLLIEAMTAAGVKLGLPADIAAQLTLQTALGAAHMAVSSDVDAAELRRRVTSPAGTTEAA 239

Query: 241 IKSFQANGFEALVEQALNAASQRSAELAEQLGQ 273
           IKSFQANGFEALVE+AL AA+ RSAE+AEQLGQ
Sbjct: 240 IKSFQANGFEALVEKALGAAAHRSAEMAEQLGQ 272


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: 278
Number of extensions: 7
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: 273
Length of database: 272
Length adjustment: 25
Effective length of query: 248
Effective length of database: 247
Effective search space:    61256
Effective search space used:    61256
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 PfGW456L13_1010 (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.16366.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.16366.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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