GapMind for catabolism of small carbon sources

 

Alignments for a candidate for hutH in Pedobacter sp. GW460-11-11-14-LB5

Align Histidine ammonia-lyase (EC 4.3.1.3) (characterized)
to candidate CA265_RS22270 CA265_RS22270 histidine ammonia-lyase

Query= reanno::Pedo557:CA265_RS22270
         (511 letters)



>FitnessBrowser__Pedo557:CA265_RS22270
          Length = 511

 Score =  997 bits (2577), Expect = 0.0
 Identities = 511/511 (100%), Positives = 511/511 (100%)

Query: 1   MSEQQIFNYGTDHLTAKLALAISNGQIKGVLSQSTRDKVLESSQVVERIAVSGKAVYGIN 60
           MSEQQIFNYGTDHLTAKLALAISNGQIKGVLSQSTRDKVLESSQVVERIAVSGKAVYGIN
Sbjct: 1   MSEQQIFNYGTDHLTAKLALAISNGQIKGVLSQSTRDKVLESSQVVERIAVSGKAVYGIN 60

Query: 61  TGFGPLCTSMISAIDTRKLQENILKSHAVGVGEPIDSEISKLMLVLKLQALAQGYSGIKI 120
           TGFGPLCTSMISAIDTRKLQENILKSHAVGVGEPIDSEISKLMLVLKLQALAQGYSGIKI
Sbjct: 61  TGFGPLCTSMISAIDTRKLQENILKSHAVGVGEPIDSEISKLMLVLKLQALAQGYSGIKI 120

Query: 121 ETLDRMIWFLEIGATPVVPKQGSVGASGDLAPLSHLFLPLIGLGKLHYKGEIIATAQLLQ 180
           ETLDRMIWFLEIGATPVVPKQGSVGASGDLAPLSHLFLPLIGLGKLHYKGEIIATAQLLQ
Sbjct: 121 ETLDRMIWFLEIGATPVVPKQGSVGASGDLAPLSHLFLPLIGLGKLHYKGEIIATAQLLQ 180

Query: 181 EYQMSPLQLGPKEGLALINGTQFIAAHAVKVVQRLENVLDSADIIAAMMIEGLQGSEKPF 240
           EYQMSPLQLGPKEGLALINGTQFIAAHAVKVVQRLENVLDSADIIAAMMIEGLQGSEKPF
Sbjct: 181 EYQMSPLQLGPKEGLALINGTQFIAAHAVKVVQRLENVLDSADIIAAMMIEGLQGSEKPF 240

Query: 241 HAQLHQLRPYPANIAVAEQVRKLLQGSEIMKSHADCAKVQDPYSLRCIPQVHGASRTAWL 300
           HAQLHQLRPYPANIAVAEQVRKLLQGSEIMKSHADCAKVQDPYSLRCIPQVHGASRTAWL
Sbjct: 241 HAQLHQLRPYPANIAVAEQVRKLLQGSEIMKSHADCAKVQDPYSLRCIPQVHGASRTAWL 300

Query: 301 HLKEALEIELNSVTDNPVIFNDDLTISGGNFHGQPLALPLDYACLAASEIGNISDRRIYL 360
           HLKEALEIELNSVTDNPVIFNDDLTISGGNFHGQPLALPLDYACLAASEIGNISDRRIYL
Sbjct: 301 HLKEALEIELNSVTDNPVIFNDDLTISGGNFHGQPLALPLDYACLAASEIGNISDRRIYL 360

Query: 361 SLEGNTPGVPKLLMKETGLNSGFMIVQYTSAALASENKGLCFPASADSIPTSLGQEDHVS 420
           SLEGNTPGVPKLLMKETGLNSGFMIVQYTSAALASENKGLCFPASADSIPTSLGQEDHVS
Sbjct: 361 SLEGNTPGVPKLLMKETGLNSGFMIVQYTSAALASENKGLCFPASADSIPTSLGQEDHVS 420

Query: 421 MGSISGRKALQVIENVEKILGIELFCAAQAVDYHHPLKPGKILAAVHDFVRTEIDHFEED 480
           MGSISGRKALQVIENVEKILGIELFCAAQAVDYHHPLKPGKILAAVHDFVRTEIDHFEED
Sbjct: 421 MGSISGRKALQVIENVEKILGIELFCAAQAVDYHHPLKPGKILAAVHDFVRTEIDHFEED 480

Query: 481 QIMYDRMENAIQMVQQGKIVAVAAEAESTLT 511
           QIMYDRMENAIQMVQQGKIVAVAAEAESTLT
Sbjct: 481 QIMYDRMENAIQMVQQGKIVAVAAEAESTLT 511


Lambda     K      H
   0.318    0.134    0.378 

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: 979
Number of extensions: 19
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: 511
Length of database: 511
Length adjustment: 35
Effective length of query: 476
Effective length of database: 476
Effective search space:   226576
Effective search space used:   226576
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: 52 (24.6 bits)

Align candidate CA265_RS22270 CA265_RS22270 (histidine ammonia-lyase)
to HMM TIGR01225 (hutH: histidine ammonia-lyase (EC 4.3.1.3))

Software error:

../bin/blast/fastacmd -i /tmp/list.4493.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.4493.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.