GapMind for Amino acid biosynthesis

 

Alignments for a candidate for serC in Pseudomonas fluorescens FW300-N2E3

Align phosphoserine aminotransferase; EC 2.6.1.52 (characterized)
to candidate AO353_10515 AO353_10515 3-phosphoserine/phosphohydroxythreonine aminotransferase

Query= CharProtDB::CH_002572
         (362 letters)



>FitnessBrowser__pseudo3_N2E3:AO353_10515
          Length = 360

 Score =  362 bits (929), Expect = e-105
 Identities = 187/363 (51%), Positives = 247/363 (68%), Gaps = 4/363 (1%)

Query: 1   MAQIFNFSSGPAMLPAEVLKQAQQELRDWNGLGTSVMEVSHRGKEFIQVAEEAEKDFRDL 60
           MA+  NFS+GP  LP EVL QA +E  D+ G G SVME+SHR + F++VA + E+D RD+
Sbjct: 1   MARSHNFSAGPTALPMEVLTQAHEEFFDFAGTGMSVMEISHRCEVFMEVAYQTERDLRDI 60

Query: 61  LNVPSNYKVLFCHGGGRGQFAAVPLNILGDKTTADYVDAGYWAASAIKEAKKYCTPNVFD 120
           L VPS YKVLF  GG   QFA VP+N+LG+K TADY+  G W+  AI+ A++YC   +  
Sbjct: 61  LQVPSEYKVLFLQGGASLQFAQVPMNLLGNKRTADYLHTGLWSGKAIEAARRYCDVRIV- 119

Query: 121 AKVTVDGLRAVKPMREWQLSDNAAYMHYCPNETIDGIAIDETPDFGADVVVAADFSSTIL 180
           A     G   +  + +W L+ NAAY+HY  NET+ G+   + PD  A +V   D  S++L
Sbjct: 120 ASGKESGFDRIPDVSDWNLNPNAAYLHYTENETVHGVQFVDAPDGLAPLV--CDACSSLL 177

Query: 181 SRPIDVSRYGVIYAGAQKNIGPAGLTIVIVREDLLGKANIACPSILDYSILNDNGSMFNT 240
           S+PIDV+++G++YA AQKN+G AGLT+VI+   LL  A    P IL+Y+ + D  SM NT
Sbjct: 178 SKPIDVAKHGLVYAAAQKNMGVAGLTVVIIDPALLDGAQAFTPDILNYARITDAQSMLNT 237

Query: 241 PPTFAWYLSGLVFKWLKANGGVAEMDKINQQKAELLYGVIDNSD-FYRNDVAKANRSRMN 299
           P TF WYL+GL  KW+K  GG+  + ++NQ KAELLY  ID+SD FYRN V    RS  N
Sbjct: 238 PATFPWYLTGLTLKWIKRRGGLEALHRLNQTKAELLYRTIDDSDGFYRNSVRAPFRSINN 297

Query: 300 VPFQLADSALDKLFLEESFAAGLHALKGHRVVGGMRASIYNAMPLEGVKALTDFMVEFER 359
           VPF LAD+AL+K F++ +  AGL+ LKGH  VGG+RAS+YNA+ LE V+ALTDFM  F R
Sbjct: 298 VPFVLADAALEKTFVQLAEQAGLNGLKGHASVGGIRASLYNAVTLEAVEALTDFMKGFVR 357

Query: 360 RHG 362
            HG
Sbjct: 358 VHG 360


Lambda     K      H
   0.319    0.136    0.405 

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: 380
Number of extensions: 18
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: 362
Length of database: 360
Length adjustment: 29
Effective length of query: 333
Effective length of database: 331
Effective search space:   110223
Effective search space used:   110223
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 (21.8 bits)
S2: 49 (23.5 bits)

Align candidate AO353_10515 AO353_10515 (3-phosphoserine/phosphohydroxythreonine aminotransferase)
to HMM TIGR01364 (serC: phosphoserine transaminase (EC 2.6.1.52))

Software error:

../bin/blast/fastacmd -i /tmp/list.19989.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.19989.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.