GapMind for Amino acid biosynthesis

 

Alignments for a candidate for asnB in Shewanella oneidensis MR-1

Align asparagine synthase (glutamine-hydrolysing) 1; EC 6.3.5.4 (characterized)
to candidate 202285 SO3175 asparagine synthetase, glutamine-hydrolyzing (NCBI ptt file)

Query= CharProtDB::CH_005185
         (632 letters)



>FitnessBrowser__MR1:202285
          Length = 643

 Score =  315 bits (806), Expect = 5e-90
 Identities = 204/647 (31%), Positives = 348/647 (53%), Gaps = 47/647 (7%)

Query: 1   MCGFVGVFNKHPLAQTADQEELIKQMNQMIVHRGPDSDGYFH--DEHVGFGFRRLSIIDV 58
           MCGF G FN   L    D   +++ M   + +RGPDS G +   D+ +G   RRL+I+D+
Sbjct: 1   MCGFAGFFNTSNLT---DHARILECMGLELFNRGPDSFGIWFNSDDRIGLVHRRLAIVDL 57

Query: 59  ENGG-QPLSYEDETYWIIFNGEIYNYIELREELEA-KGYTFNTDSDTEVLLATYRHYKEE 116
              G QP++ +   Y I +NGEIYN+ ELR+ELE+ + Y +   SDTE LLA    +  +
Sbjct: 58  SAAGHQPMTSDSGRYIISYNGEIYNHQELRDELESIRQYNWRGHSDTETLLAAIEQWGLK 117

Query: 117 AA-SKLRGMFAFLIWNKNDHVLYGARDPFGIKPLYYTTINDQVYFASERKSLMVAQN-DI 174
               K  GMF   +W+  +  LY ARD FG KP+YY    D   FAS+  +     +   
Sbjct: 118 ITLQKATGMFGIALWDTLNKELYLARDRFGEKPVYYGLHKDAFIFASQLNAFRAYPDFKP 177

Query: 175 EIDKEALQQYMSFQFVPEPSTLDAHVKKVEPGSQFTIRPDGDITFKTYFKAN---FKPVQ 231
           EI+++++   +   ++P P ++ + + K+ P +   +  + +I+ +TY+ A         
Sbjct: 178 EINRDSITLLLRHNYIPAPYSIYSDIHKLLPATILKLDSNNNISLETYWSAKDIMSNASS 237

Query: 232 TEED----KLVKEVRDAIYDSVNVHMRSDVPVGSFLSGGIDSSFIVSVAK-EFHPSLKTF 286
           TE D    K V+ + + +  +V + M +DVP+G+FLSGG+DSS IVS+ + + +  +KTF
Sbjct: 238 TETDLPVGKQVEALENTLKKAVALQMSADVPLGAFLSGGVDSSLIVSLMQAQSNKPVKTF 297

Query: 287 SVGFEQQGFSEVDVAKETAAALGIENISKVISPEEYMNELPKIVWHFDDPLADPAAIPLY 346
           S+GF+   F+E   AKE A  LG E+    ++ E+ +  +PK+   +D+P +D + IP +
Sbjct: 298 SIGFDDPRFNEAVFAKEVAKHLGTEHTELYLTAEDALEVIPKLAEIYDEPFSDSSQIPTF 357

Query: 347 FVAKEAKKHVTVALSGEGADELFGGYNIYREPLSL-KPFERIPSGLKKMLLHVAAVMPE- 404
            V+K A+++VTV+LSG+  DELF GYN Y     + K    +P  L+  L +V   +P  
Sbjct: 358 LVSKIARQYVTVSLSGDAGDELFCGYNRYLMTSKVWKRLSVLPVFLRSFLANVFTFVPVN 417

Query: 405 --GMRGKSLLER-----------------GCTPLQDRYIGNAKIFEESVKKQLLKHYNPN 445
              + GK L  R                  C  ++  Y+G    + ++ ++ +L    P 
Sbjct: 418 VWNLFGKLLPSRLQLSNLGDKLHKAAAVLACRDVEQLYLGLVSHW-QNPEQVVLGSKEPL 476

Query: 446 LSYRDVTKTYFTESSSYSD-INKMQYVDIHTWMRGDILLKADKMTMANSLELRVPFLDKV 504
               D  +      +++SD I +M   D  +++  DIL+K D+  MA SLE RVPFLD  
Sbjct: 477 TVLTDPKR-----KANFSDPILQMMAQDTLSYLTDDILVKVDRAAMAVSLETRVPFLDHS 531

Query: 505 VFDVASKIPDELKTKNGTTKYLLRKAAEGIVPEHVLNRKKLGFPVPIRHWLKNEMNEWVR 564
           V + A ++  +LK ++G TK+ LR+     VP+ ++ R K+GF VP+  WL+  +  W  
Sbjct: 532 VLEHAWRLSLDLKLRDGKTKWCLREILYKYVPKDLIERPKMGFAVPLDAWLRGPLKVWAD 591

Query: 565 NII--QESQTDAYIHKDYVLQLLEDHCADKADNSRKIWTVLIFMIWH 609
           N++  +  + + +   + + ++ ++H + K +   ++W +L+F  W+
Sbjct: 592 NLLAAERLRQEGFFDAELIDRMWQEHKSGKRNWQYQLWDILMFQSWY 638


Lambda     K      H
   0.319    0.136    0.403 

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: 1017
Number of extensions: 63
Number of successful extensions: 10
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: 632
Length of database: 643
Length adjustment: 38
Effective length of query: 594
Effective length of database: 605
Effective search space:   359370
Effective search space used:   359370
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 (21.7 bits)
S2: 54 (25.4 bits)

Align candidate 202285 SO3175 (asparagine synthetase, glutamine-hydrolyzing (NCBI ptt file))
to HMM TIGR01536 (asnB: asparagine synthase (glutamine-hydrolyzing) (EC 6.3.5.4))

Software error:

../bin/blast/fastacmd -i /tmp/list.21054.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.21054.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.