Alignments for a candidate for carA in Desulfovibrio vulgaris Miyazaki F

Align Carbamoyl-phosphate synthase pyrimidine-specific small chain; Carbamoyl-phosphate synthetase glutamine chain; EC 6.3.5.5 (characterized)
to candidate 8501652 DvMF_2370 carbamoyl phosphate synthase small subunit (RefSeq)

Query= SwissProt::P25993
         (364 letters)



>FitnessBrowser__Miya:8501652
          Length = 376

 Score =  332 bits (850), Expect = 1e-95
 Identities = 164/370 (44%), Positives = 230/370 (62%), Gaps = 20/370 (5%)

Query: 1   MKRRLVLENGAVFEGEAFGSLEHNMGEVVFNTGMTGYQEILSDPSYCGQIVTLTYPLIGN 60
           M+  L LE+G V EG +F     + GEV+FNTGMTGYQE+L+DPSY GQ+V +TYPLIGN
Sbjct: 1   MRAFLALEDGFVLEGRSFTGRGESGGEVIFNTGMTGYQEVLTDPSYAGQMVCMTYPLIGN 60

Query: 61  YGINRDDFESITPFVKGLIIKELCELPSNWRSAYTLDEYLKMKNIPGLQGIDTRKLTRMI 120
           YG+  +D ES    V+  I+KE C  PSNWR+  +L +YL    + G++GIDTR LTR +
Sbjct: 61  YGVTAEDMESGKVHVEAFIVKECCRTPSNWRAIMSLPDYLAQHGVMGIEGIDTRALTRHL 120

Query: 121 RTAGALKGTFASSDEDIEAVLKRLNETEL--------------------PRNQVSQVSAK 160
           R  GA++G  ++  +D + +++R                           R Q  Q++A 
Sbjct: 121 RINGAMRGIISTETDDRDELVRRARALPTMEGQNLVTRVAPATPYRWDGTRPQPVQLAAD 180

Query: 161 TAYPSPGRGKRIVLVDFGMKHGILRELNKRKCDVIVVPYNITAEEVLQLKPDGIMLSNGP 220
            AY  PG G R+V+ D+G+K  ILR L  +  D++VVP + TA +V     + + LSNGP
Sbjct: 181 GAYAWPGTGPRLVVYDYGIKWNILRLLTDQGFDLLVVPPSFTAMQVAASGAEAVFLSNGP 240

Query: 221 GDPKDVPEAIEMIKGVLGKVPLFGICLGHQLFALACGANTEKMKFGHRGSNHPVKELATG 280
           GDP  + + +  I+ +  ++P+ GICLGHQL   A G  T K+KFGH G NHPVK+L TG
Sbjct: 241 GDPATLTDEVREIRVMTERMPVAGICLGHQLLGHALGGTTHKLKFGHHGCNHPVKDLVTG 300

Query: 281 KVALTSQNHGYTVSSISKTELEVTHIAINDDTIEGLKHKTLPAFTVQYHPEASPGPEDAN 340
            + ++SQNHG+ V   S  ++E+TH+ +ND T+EG  HKT P   VQ+HPEASPGP D+ 
Sbjct: 301 HIEISSQNHGFCVDIESVPDVEITHVNLNDGTLEGFAHKTRPILAVQHHPEASPGPTDSR 360

Query: 341 HLFDRFIEMI 350
           + F RF  M+
Sbjct: 361 YFFARFRGMV 370


Lambda     K      H
   0.317    0.136    0.397 

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: 419
Number of extensions: 19
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: 364
Length of database: 376
Length adjustment: 30
Effective length of query: 334
Effective length of database: 346
Effective search space:   115564
Effective search space used:   115564
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: 49 (23.5 bits)

Align candidate 8501652 DvMF_2370 (carbamoyl phosphate synthase small subunit (RefSeq))
to HMM TIGR01368 (carA: carbamoyl-phosphate synthase, small subunit (EC 6.3.5.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.5490.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.5490.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.