GapMind for Amino acid biosynthesis

 

Alignments for a candidate for glnA in Sinorhizobium meliloti 1021

Align glutamine synthetase (EC 6.3.1.2) (characterized)
to candidate SMc00948 SMc00948 glutamine synthetase

Query= BRENDA::P0A1P6
         (469 letters)



>FitnessBrowser__Smeli:SMc00948
          Length = 469

 Score =  636 bits (1641), Expect = 0.0
 Identities = 306/468 (65%), Positives = 374/468 (79%), Gaps = 1/468 (0%)

Query: 2   SAEHVLTMLNEHEVKFVDLRFTDTKGKEQHVTIPAHQVNAEFFEEGKMFDGSSIGGWKGI 61
           +A  VL  + E++VKFVDLRFTD KGK QHVT+    V+ + F +G MFDGSSIGGWK I
Sbjct: 3   TANEVLKQIKENDVKFVDLRFTDPKGKLQHVTMDVVCVDEDMFADGVMFDGSSIGGWKAI 62

Query: 62  NESDMVLMPDASTAVIDPFFADSTLIIRCDILEPGTLQGYDRDPRSIAKRAEDYLRATGI 121
           NESDMVLMPD  TA +DPFFA ST++I CDIL+P + + Y+RDPR  AK+AE YL+A+GI
Sbjct: 63  NESDMVLMPDPETAHMDPFFAQSTMVIFCDILDPVSGEAYNRDPRGTAKKAEAYLKASGI 122

Query: 122 ADTVLFGPEPEFFLFDDIRFGASISGSHVAIDDIEGAWNSSTKYEGGNKGHRPGVKGGYF 181
            DTV  GPE EFF+FDD+++ A    +   +D  E   N  T YE GN GHRP VKGGYF
Sbjct: 123 GDTVFVGPEAEFFVFDDVKYKADPYNTGFKLDSSELPSNDDTDYETGNLGHRPRVKGGYF 182

Query: 182 PVPPVDSAQDIRSEMCLVMEQMGLVVEAHHHEVATAGQNEVATRFNTMTKKADEIQIYKY 241
           PVPPVDS+QD+RSEM  V+ +MG+ VE HHHEVA A Q+E+  +F+ + + AD++QIYKY
Sbjct: 183 PVPPVDSSQDMRSEMLTVLSEMGVTVEKHHHEVAAA-QHELGVKFDALVRNADKMQIYKY 241

Query: 242 VVHNVAHRFGKTATFMPKPMFGDNGSGMHCHMSLAKNGTNLFSGDKYAGLSEQALYYIGG 301
           VVH VA+ +GKTATFMPKP+FGDNGSGMH H+S+ K+G   F+GD+YAGLSE  LY+IGG
Sbjct: 242 VVHQVANAYGKTATFMPKPIFGDNGSGMHVHLSIWKDGKPTFAGDEYAGLSESCLYFIGG 301

Query: 302 VIKHAKAINALANPTTNSYKRLVPGYEAPVMLAYSARNRSASIRIPVVASPKARRIEVRF 361
           +IKHAKA+NA  NP+TNSYKRLVPGYEAPV+LAYSARNRSAS RIP   +PKA+R+EVRF
Sbjct: 302 IIKHAKALNAFTNPSTNSYKRLVPGYEAPVLLAYSARNRSASCRIPFGTNPKAKRVEVRF 361

Query: 362 PDPAANPYLCFAALLMAGLDGIKNKIHPGEAMDKNLYDLPPEEAKEIPQVAGSLEEALNA 421
           PDP ANPYL FAA+LMAGLDGIKNK+HPG+AMDK+LYDLPP+E K+IP V GSL EAL +
Sbjct: 362 PDPTANPYLAFAAMLMAGLDGIKNKLHPGKAMDKDLYDLPPKELKKIPTVCGSLREALES 421

Query: 422 LDLDREFLKAGGVFTDEAIDAYIALRREEDDRVRMTPHPVEFELYYSV 469
           LD DR+FL AGGVF D+ ID++I L+ +E  R  MTPHPVEF++YYSV
Sbjct: 422 LDKDRKFLTAGGVFDDDQIDSFIELKMQEVMRFEMTPHPVEFDMYYSV 469


Lambda     K      H
   0.318    0.136    0.401 

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: 794
Number of extensions: 28
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: 469
Length of database: 469
Length adjustment: 33
Effective length of query: 436
Effective length of database: 436
Effective search space:   190096
Effective search space used:   190096
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: 51 (24.3 bits)

Align candidate SMc00948 SMc00948 (glutamine synthetase)
to HMM TIGR00653 (glnA: glutamine synthetase, type I (EC 6.3.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.2078.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.2078.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.