Alignments for a candidate for carA in Methylobacterium sp. 4-46 Apr-46

Align Carbamoyl-phosphate synthase small chain; Carbamoyl-phosphate synthetase glutamine chain; EC 6.3.5.5 (characterized)
to candidate WP_012333016.1 M446_RS15370 glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit

Query= SwissProt::P0A6F1
         (382 letters)



>NCBI__GCF_000019365.1:WP_012333016.1
          Length = 405

 Score =  363 bits (932), Expect = e-105
 Identities = 199/384 (51%), Positives = 245/384 (63%), Gaps = 13/384 (3%)

Query: 2   IKSALLVLEDGTQFHGRAIGATGSAVGEVVFNTSMTGYQEILTDPSYSRQIVTLTYPHIG 61
           + +ALLVL DGT   G  IGATG A GEV FNT+MTGYQEILTDPSY+ QIVT T+PHIG
Sbjct: 20  VATALLVLADGTILEGFGIGATGEAAGEVCFNTAMTGYQEILTDPSYAGQIVTFTFPHIG 79

Query: 62  NVGTNDADEES-SQVHAQGL---VIRDLPLIASNFRNTEDLSSYLKRHNIVAIADIDTRK 117
           NVGTND D ES  Q  A G+   VI       SN+R+++ L  +L+   I+ I  +DTR 
Sbjct: 80  NVGTNDEDLESLEQAPASGVRGAVIAAAVTNPSNWRSSDHLDGWLRARGIIGITGVDTRA 139

Query: 118 LTRLLREKGAQNGCIIAGDNPDAALALE----KARAFPGLNGMDLAKEVTTAEAYSWTQG 173
           LT L+RE+G  N  +IA D P      E    +AR  P + G+DL   VT+    +W + 
Sbjct: 140 LTALIRERGMPNA-VIAHD-PQGRFDREGLRARARDLPSMEGLDLVPPVTSRATAAWGET 197

Query: 174 SWTLTGGLPEAKKEDELPFHVVAYDFGAKRNILRMLVDRGCRLTIVPAQTSAEDVLKMNP 233
            W    G    +K       VVA D+G KRNILR+L   GC +T+VPA  +AED+L + P
Sbjct: 198 VWERGQGY--GRKAPGEGLRVVAIDYGVKRNILRLLTRAGCDVTVVPATATAEDILALKP 255

Query: 234 DGIFLSNGPGDPAPCD-YAITAIQKFLETDIPVFGICLGHQLLALASGAKTVKMKFGHHG 292
           DG+FLSNGPGDPA    YA+  I++ L+  +P FGICLGHQL+ LA G +TVKM  GHHG
Sbjct: 256 DGVFLSNGPGDPAATGAYAVPVIRQLLDRKVPTFGICLGHQLMGLALGGRTVKMGQGHHG 315

Query: 293 GNHPVKDVEKNVVMITAQNHGFAVDEATLPANLRVTHKSLFDGTLQGIHRTDKPAFSFQG 352
            NHPVKD     V I + NHGFAVD  +LP     TH SLFDG+  G+  TD+PAFS Q 
Sbjct: 316 ANHPVKDKTTGKVEIVSMNHGFAVDPQSLPGTAVETHVSLFDGSNCGLALTDRPAFSVQY 375

Query: 353 HPEASPGPHDAAPLFDHFIELIEQ 376
           HPEASPGP D+  LFD F+ LI Q
Sbjct: 376 HPEASPGPRDSHYLFDRFVSLIRQ 399


Lambda     K      H
   0.318    0.135    0.400 

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: 491
Number of extensions: 23
Number of successful extensions: 5
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: 382
Length of database: 405
Length adjustment: 31
Effective length of query: 351
Effective length of database: 374
Effective search space:   131274
Effective search space used:   131274
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: 50 (23.9 bits)

Align candidate WP_012333016.1 M446_RS15370 (glutamine-hydrolyzing carbamoyl-phosphate synthase small subunit)
to HMM TIGR01368 (carA: carbamoyl-phosphate synthase, small subunit (EC 6.3.5.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.25704.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.25704.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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