GapMind for Amino acid biosynthesis

 

Alignments for a candidate for hisD in Shewanella loihica PV-4

Align histidinol dehydrogenase (EC 1.1.1.23) (characterized)
to candidate 5209745 Shew_2198 histidinol dehydrogenase (RefSeq)

Query= BRENDA::P06988
         (434 letters)



>FitnessBrowser__PV4:5209745
          Length = 443

 Score =  490 bits (1261), Expect = e-143
 Identities = 251/425 (59%), Positives = 319/425 (75%), Gaps = 1/425 (0%)

Query: 7   IDWNSCTAEQQRQLLMRPAISASESITRTVNDILDNVKARGDEALREYSAKFDKTTVTAL 66
           +DW +   + +R+ L R  +    ++ + V  I+D V ++GD AL+ +S KFDK  + AL
Sbjct: 14  LDWQALNDQARREALSRSPLIGDANLEQQVKAIIDQVASQGDVALKAFSQKFDKVELDAL 73

Query: 67  KVSAEEIAAASERLSDELKQAMAVAVKNIETFHTAQKLPPVDVETQPGVRCQQVTRPVAS 126
           ++S   IAAASER++ E+K A+  A +NIETFH AQ    +D+ETQ GVRC+  + P+  
Sbjct: 74  RLSDAAIAAASERVTPEIKAAIEQAKQNIETFHQAQAFKGIDLETQAGVRCELRSEPIEK 133

Query: 127 VGLYIPGGSAPLFSTVLMLATPASIAGCKKVVLCSPPPIADEILYAAQLCGVQDVFNVGG 186
           VGLYIPGGSAPL STVLMLA PA IAGC++ VL SPPPI D I+YAA+ CG+ D++ +GG
Sbjct: 134 VGLYIPGGSAPLISTVLMLALPAKIAGCEQRVLVSPPPIDDAIVYAAKACGITDIYQIGG 193

Query: 187 AQAIAALAFGTESVPKVDKIFGPGNAFVTEAKRQVSQRLDGA-AIDMPAGPSEVLVIADS 245
           AQAIAALA GTESVP VDKIFGPGN +VTEAKR V+Q      +IDMPAGPSEVLVIAD+
Sbjct: 194 AQAIAALAQGTESVPAVDKIFGPGNRYVTEAKRLVAQDSRCVVSIDMPAGPSEVLVIADN 253

Query: 246 GATPDFVASDLLSQAEHGPDSQVILLTPAADMARRVAEAVERQLAELPRAETARQALNAS 305
            A PDF+A+DLLSQAEHGPDSQV+L+T +  +A  V +++  QLA LPRAE A QAL+AS
Sbjct: 254 EANPDFIAADLLSQAEHGPDSQVMLVTDSQTLADAVNQSLGEQLARLPRAEIAMQALSAS 313

Query: 306 RLIVTKDLAQCVEISNQYGPEHLIIQTRNARELVDSITSAGSVFLGDWSPESAGDYASGT 365
           R ++ +D+AQ  E+SN+YGPEHLIIQTR  R+L+  I +AGSVFLG ++PES GDYASGT
Sbjct: 314 RTLIVEDMAQAAEVSNRYGPEHLIIQTRAPRKLLSKIRAAGSVFLGAYTPESVGDYASGT 373

Query: 366 NHVLPTYGYTATCSSLGLADFQKRMTVQELSKEGFSALASTIETLAAAERLTAHKNAVTL 425
           NHVLPTYGY+   SSL LADF +R TVQELS EG   L   + TLA+AE+L AH+NAV +
Sbjct: 374 NHVLPTYGYSRAVSSLSLADFSRRFTVQELSAEGLRGLGECVMTLASAEQLDAHRNAVAV 433

Query: 426 RVNAL 430
           R+  L
Sbjct: 434 RLATL 438


Lambda     K      H
   0.315    0.128    0.356 

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: 492
Number of extensions: 15
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: 434
Length of database: 443
Length adjustment: 32
Effective length of query: 402
Effective length of database: 411
Effective search space:   165222
Effective search space used:   165222
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: 51 (24.3 bits)

Align candidate 5209745 Shew_2198 (histidinol dehydrogenase (RefSeq))
to HMM TIGR00069 (hisD: histidinol dehydrogenase (EC 1.1.1.23))

Software error:

../bin/blast/fastacmd -i /tmp/list.11262.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11262.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.