GapMind for catabolism of small carbon sources

 

Alignments for a candidate for gcvT in Bacteroides thetaiotaomicron VPI-5482

Align Aminomethyltransferase; EC 2.1.2.10; Glycine cleavage system T protein (uncharacterized)
to candidate 354110 BT4584 putative aminomethyltransferase (NCBI ptt file)

Query= curated2:B2RI74
         (362 letters)



>FitnessBrowser__Btheta:354110
          Length = 361

 Score =  521 bits (1341), Expect = e-152
 Identities = 256/362 (70%), Positives = 294/362 (81%), Gaps = 1/362 (0%)

Query: 1   MKTTPFTDVHIALGAKMHEFAGYNMPIEYGGIIDEHMNVVNNVGVFDVSHMGEFWVKGPN 60
           MKTTPFT+ HIALGAKMHEFAGYNMPIEY GIIDEH+ V N VGVFDVSHMGEFWVKGP 
Sbjct: 1   MKTTPFTEKHIALGAKMHEFAGYNMPIEYSGIIDEHLTVCNAVGVFDVSHMGEFWVKGPQ 60

Query: 61  ALRFLQKVSSNDASKLAVGQVQYCCFPNNDGGIVDDFLLYRYEEEKYMMVPNAANIAKDW 120
           AL FLQKV+SN+ + L  G++QY CFPN +GGIVDD L+Y YE EKY++V NAANI KDW
Sbjct: 61  ALAFLQKVTSNNVAALVPGKIQYTCFPNEEGGIVDDLLVYCYEPEKYLLVVNAANIEKDW 120

Query: 121 AWCRQQNTMGAILENASDNIAQLAVQGPKATEVMQRLTDIDLNEITYYTFKVGSFAGCPD 180
            WC   NT GA LEN+SDN+AQLAVQGPKA   +Q+LTDIDL+ I YYTF VG FAG  +
Sbjct: 121 NWCVSHNTEGAELENSSDNMAQLAVQGPKAILALQKLTDIDLSAIPYYTFTVGRFAGKEN 180

Query: 181 VIISATGYTGAGGFELYFYPQYAQKIWDALFEAGKPEGIKPAGLGARDTLRLEMGFCLYG 240
           VIIS TGYTGAGGFELYFYP  A+ IW A+FEAG+  GIKP GLGARDTLRLEMGFCLYG
Sbjct: 181 VIISNTGYTGAGGFELYFYPDAAEAIWKAVFEAGEEFGIKPVGLGARDTLRLEMGFCLYG 240

Query: 241 NDICDTTSPIEAGLGWITKFTDDKMDMPSRKIMEEQKAGGLKRKLVAFELKDKGIPRQHY 300
           ND+ D TSPIEAGLGWITKF + K +  +R ++E+QK+ G  RKLV FE+ D+GIPR  Y
Sbjct: 241 NDLDDKTSPIEAGLGWITKFVEGK-EFINRPMLEKQKSEGTTRKLVGFEMIDRGIPRHGY 299

Query: 301 EIANAEGQIIGEVTSGTMSPCLKKGIGMGYVATEFSKVGTELGIMVRGRQLKAEIVKPPF 360
           E+ N EG+ IG VTSGTMSP  K GIGMGYV  E++KVGTE+ I +RGR+LKA +VKPPF
Sbjct: 300 ELVNEEGEGIGVVTSGTMSPTRKIGIGMGYVKPEYAKVGTEICIDMRGRKLKAIVVKPPF 359

Query: 361 RK 362
           RK
Sbjct: 360 RK 361


Lambda     K      H
   0.320    0.138    0.420 

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: 506
Number of extensions: 20
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: 362
Length of database: 361
Length adjustment: 29
Effective length of query: 333
Effective length of database: 332
Effective search space:   110556
Effective search space used:   110556
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 354110 BT4584 (putative aminomethyltransferase (NCBI ptt file))
to HMM TIGR00528 (gcvT: glycine cleavage system T protein (EC 2.1.2.10))

Software error:

../bin/blast/fastacmd -i /tmp/list.29399.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.29399.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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