GapMind for Amino acid biosynthesis

 

Alignments for a candidate for argI in Pseudomonas stutzeri RCH2

Align Ornithine carbamoyltransferase, anabolic; OTCase; EC 2.1.3.3 (characterized)
to candidate GFF1258 Psest_1291 ornithine carbamoyltransferase

Query= SwissProt::P11724
         (305 letters)



>FitnessBrowser__psRCH2:GFF1258
          Length = 306

 Score =  520 bits (1340), Expect = e-152
 Identities = 253/304 (83%), Positives = 279/304 (91%)

Query: 1   MSVRHFLSFMDYSPEELIGLIRRGSELKDLRNRGVLYEPLKSRVLGMVFEKASTRTRLSF 60
           MS RHFLS MD +P+EL  L+RRG ELKDLR RGVL+EPLK+RVLGM+FEKASTRTRLSF
Sbjct: 1   MSARHFLSLMDCTPQELNSLVRRGIELKDLRKRGVLFEPLKNRVLGMIFEKASTRTRLSF 60

Query: 61  EAGMIQLGGQAIFLSPRDTQLGRGEPIGDSARVMSRMLDGVMIRTFAHATLTEFAAHSKV 120
           EAGMIQLGGQAIFLSPRDTQLGRGEPI DSA VMSRMLD VMIRTFAH+TLT+FAA+S V
Sbjct: 61  EAGMIQLGGQAIFLSPRDTQLGRGEPISDSAIVMSRMLDAVMIRTFAHSTLTDFAANSSV 120

Query: 121 PVINGLSDDLHPCQLLADMQTFHEHRGSIQGKTVAWIGDGNNMCNSYIEAALKFDFQLRV 180
           PVINGLSDDLHPCQL+ADMQTFHEHRGSI GKTVAWIGDGNNMCN+YIEAA++FDFQL+V
Sbjct: 121 PVINGLSDDLHPCQLMADMQTFHEHRGSIAGKTVAWIGDGNNMCNTYIEAAIQFDFQLKV 180

Query: 181 ACPEGYEPKAEFVALAGDRLRVVRDPREAVAGAHLVSTDVWASMGQEDEAAARIALFRPY 240
           ACPEGYEP AE +  AGDR++++RDPREA AGAHL+STDVWASMGQEDEAAAR+A FRPY
Sbjct: 181 ACPEGYEPNAELMGRAGDRVQILRDPREAAAGAHLISTDVWASMGQEDEAAARLATFRPY 240

Query: 241 QVNAALLDGAADDVLFMHCLPAHRGEEISEELLDDPRSVAWDQAENRLHAQKALLELLIE 300
           QV+ ALLD AA DVLFMHCLPAHRGEEIS +LLDDPRSVAWDQAENRLH QKALLE L+E
Sbjct: 241 QVDRALLDCAAADVLFMHCLPAHRGEEISHDLLDDPRSVAWDQAENRLHVQKALLEFLVE 300

Query: 301 HAHY 304
            A++
Sbjct: 301 PAYH 304


Lambda     K      H
   0.322    0.136    0.404 

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: 379
Number of extensions: 9
Number of successful extensions: 1
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: 305
Length of database: 306
Length adjustment: 27
Effective length of query: 278
Effective length of database: 279
Effective search space:    77562
Effective search space used:    77562
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)

Align candidate GFF1258 Psest_1291 (ornithine carbamoyltransferase)
to HMM TIGR00658 (argF: ornithine carbamoyltransferase (EC 2.1.3.3))

Software error:

../bin/blast/fastacmd -i /tmp/list.15277.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15277.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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