GapMind for catabolism of small carbon sources

 

Alignments for a candidate for deoD in Desulfovibrio vulgaris Miyazaki F

Align purine-nucleoside phosphorylase (EC 2.4.2.1) (characterized)
to candidate 8500058 DvMF_0821 purine nucleoside phosphorylase (RefSeq)

Query= BRENDA::P00491
         (289 letters)



>FitnessBrowser__Miya:8500058
          Length = 281

 Score =  236 bits (602), Expect = 4e-67
 Identities = 125/259 (48%), Positives = 169/259 (65%), Gaps = 7/259 (2%)

Query: 24  RPQVAIICGSGLGGLTDKLTQAQIFDYGEIPNFPRSTVPGHAGRLVFGFLNGRACVMMQG 83
           RP+V ++CG+GLGGL D L  A+   Y  +P FP+STV  H GR +FG +     V+ QG
Sbjct: 30  RPRVGVVCGTGLGGLADALADARPLPYSRVPGFPQSTVASHEGRFLFGRIGTVEVVLQQG 89

Query: 84  RFHMYEGYPLWKVTFPVRVFHLLGVDTLVVTNAAGGLNPKFEVGDIMLIRDHINLPGFSG 143
           R H+YEGY    V   VRV   LGV+ LV+TNAAG LNP+++ GD+MLI DHIN   F+G
Sbjct: 90  RCHLYEGYAPEDVCMGVRVMAALGVEMLVITNAAGALNPRWDAGDLMLITDHIN---FTG 146

Query: 144 QNPLRGPNDERFGDRFPAMSDAYDRTMRQRALSTWKQMGEQRELQEGTYVMVAGPSFETV 203
           ++PL GPN + +G RFP MS  YD T+ + A+    ++G +  L+ G YV V GP  ET 
Sbjct: 147 RSPLTGPNHDAWGPRFPDMSAPYDATLGRIAMEEAARLGVR--LERGVYVGVPGPQMETP 204

Query: 204 AECRVLQKLGADAVGMSTVPEVIVARHCGLRVFGFSLITNKVIMDYESLEKANHEEVLAA 263
           AE R+ ++LGADAVGMSTV EVI ARH GLRV G S +TNK + D   +++A  EEV+  
Sbjct: 205 AETRMYRQLGADAVGMSTVLEVIAARHMGLRVLGISCLTNKNLPD--CMQEAPLEEVIRV 262

Query: 264 GKQAAQKLEQFVSILMASI 282
             +A  KL + V+ ++  +
Sbjct: 263 AGEAGDKLTRLVAAVVERV 281


Lambda     K      H
   0.321    0.138    0.419 

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: 262
Number of extensions: 12
Number of successful extensions: 3
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: 289
Length of database: 281
Length adjustment: 26
Effective length of query: 263
Effective length of database: 255
Effective search space:    67065
Effective search space used:    67065
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 8500058 DvMF_0821 (purine nucleoside phosphorylase (RefSeq))
to HMM TIGR01700 (purine nucleoside phosphorylase I, inosine and guanosine-specific (EC 2.4.2.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.10308.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.10308.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.