Alignments for a candidate for trpA in Cereibacter sphaeroides ATCC 17029

Align Tryptophan synthase alpha chain; EC 4.2.1.20 (characterized, see rationale)
to candidate WP_011338525.1 RSPH17029_RS12560 tryptophan synthase subunit alpha

Query= uniprot:M4NLA4
         (266 letters)



>NCBI__GCF_000015985.1:WP_011338525.1
          Length = 263

 Score =  223 bits (569), Expect = 2e-63
 Identities = 120/263 (45%), Positives = 159/263 (60%), Gaps = 1/263 (0%)

Query: 1   MSRIDRRFAALKAANRTGLIPFVTAGDPSPEHMVALMHALVDAGADLIELGVPFSDPMAD 60
           M+RID  F  L+A  +   + ++ AGDP  E  +A+M  L +AG D+IELG+PF+DPMAD
Sbjct: 1   MTRIDDTFRRLRAEGKKAFVAYIMAGDPDLETSLAVMRGLPEAGVDIIELGMPFTDPMAD 60

Query: 61  GPVIQHASERAIAKGVGLADVLGWVAAFRQHDADTPIVLMGYLNPIETHGYARFAGEAVQ 120
           GP IQ A +RA+  G  L   L  V AFR  +A+TPIV+MGY NPI   G   F  EA +
Sbjct: 61  GPTIQTAGQRALEGGQTLTRTLEMVRAFRAENAETPIVMMGYYNPIYARGVETFLAEATE 120

Query: 121 AGVDGVLLVDCPLEESAVL-QPLRDAGLQRILLAAPTTEPSRMAQLCGSAEGFLYYVSFA 179
           AG+DG+++VD P EE A L  P + AGL  I LA PTT+  R+ ++  +  GF+YYVS  
Sbjct: 121 AGIDGLIVVDLPPEEDAELCLPAQAAGLNFIRLATPTTDSRRLPKVLQNTSGFVYYVSIT 180

Query: 180 GITGAAHLSTGDIAARVADVRARAKAPVAVGFGIRDAASAKAIAGFADAVVIGSALVDRL 239
           GITGAA     D+A  VA ++A    PV VGFGI    +A+ +AG AD  V+GSA+V  +
Sbjct: 181 GITGAAAAQAADVAPEVARIKAATDLPVIVGFGITTPEAAQDLAGIADGCVVGSAIVKLV 240

Query: 240 AGATDAGEITRRTQAFLAPIRAA 262
                  E+  R  A  A   AA
Sbjct: 241 GEGRPVAEVLDRVAALAAGAHAA 263


Lambda     K      H
   0.322    0.136    0.394 

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: 221
Number of extensions: 10
Number of successful extensions: 4
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: 266
Length of database: 263
Length adjustment: 25
Effective length of query: 241
Effective length of database: 238
Effective search space:    57358
Effective search space used:    57358
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: 47 (22.7 bits)

Align candidate WP_011338525.1 RSPH17029_RS12560 (tryptophan synthase subunit alpha)
to HMM TIGR00262 (trpA: tryptophan synthase, alpha subunit (EC 4.2.1.20))

Software error:

../bin/blast/fastacmd -i /tmp/list.8381.in -d ../tmp/NCBI__GCF_000015985.1/orgs.faa -p T > /tmp/gapView.8381.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.