GapMind for Amino acid biosynthesis

 

Alignments for a candidate for metE in Pseudomonas fluorescens FW300-N2C3

Align 5-methyltetrahydropteroyltriglutamate-homocysteine S-methyltransferase (EC 2.1.1.14) (characterized)
to candidate AO356_17740 AO356_17740 5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase

Query= BRENDA::P25665
         (753 letters)



>FitnessBrowser__pseudo5_N2C3_1:AO356_17740
          Length = 770

 Score =  932 bits (2409), Expect = 0.0
 Identities = 473/764 (61%), Positives = 563/764 (73%), Gaps = 16/764 (2%)

Query: 4   LNHTLGFPRVGLRRELKKAQESYWAGNSTREELLAVGRELRARHWDQQKQAGIDLLPVGD 63
           L HTLGFPR+G  RELKKA E+YW G+     L AVGRELRARHW  QK AGIDLLPVGD
Sbjct: 3   LAHTLGFPRIGADRELKKALEAYWKGDLAPAALQAVGRELRARHWQLQKDAGIDLLPVGD 62

Query: 64  FAWYDHVLTTSLLLGNVPARHQ---NKDGSVDIDTLFRIGRGR------APTGEPAAAAE 114
           FAWYD VL+ +L LG VP R     N  G   +DTLF + RG       A  G+   A E
Sbjct: 63  FAWYDQVLSHTLTLGAVPQRFHGTLNAQGRPTLDTLFAMARGATASCCGAEHGQAQYAQE 122

Query: 115 MTKWFNTNYHYMVPEFVKGQQFKLTWTQLLDEVDEALALGHKVKPVLLGPVTWLWLGKVK 174
           +TKWF+TNYHY+VPEF   Q F L+W QL DEVDEA ALGH+VKPV++GP+T+LWLGK K
Sbjct: 123 LTKWFDTNYHYLVPEFSADQTFALSWEQLFDEVDEAHALGHQVKPVIIGPLTYLWLGKAK 182

Query: 175 GEQFDRLSLLNDILPVYQQVLAELAKRGIEWVQIDEPALVLELPQAWLDAYKPAYDALQ- 233
           GE FD+L LL  +LPVY ++L  L  +G+EWVQIDEP L L+LP AW  A++ AY  LQ 
Sbjct: 183 GEAFDKLGLLERLLPVYGEILNRLKAQGVEWVQIDEPILTLDLPLAWRSAFERAYHILQY 242

Query: 234 GQVKLLLTTYFEGVTPNLDTITALPVQGLHVDLVHGKDDVAELHKRLPSDWLLSAGLING 293
             +K L+ TYF G+  NL    +LPV GLH+D V   + + ++  RLP+  +LS GL+NG
Sbjct: 243 SPLKKLVATYFSGLQDNLGLAVSLPVDGLHIDAVRDPEQLGQVLDRLPTYKILSVGLVNG 302

Query: 294 RNVWRADLTEKYAQIKDIVGK--RDLWVASSCSLLHSPIDLSVETRLDAEVKSWFAFALQ 351
           RNVWR +L +  AQ++    +   +LWV++SCSLLHSP+DL  E RLD E+KSW AFA+Q
Sbjct: 303 RNVWRCELEQALAQLQAAQERFGDNLWVSTSCSLLHSPVDLEREDRLDPELKSWLAFAVQ 362

Query: 352 KCHELALLRDALNSGDTAALAEW---SAPIQARRH-STRVHNPAVEKRLAAITAQDSQRA 407
           KC E+A+LRDALN     A+ +    S  +QARR  S R+H   V+ RLAAI  QDSQR 
Sbjct: 363 KCGEVAVLRDALNDPQAPAVLQALSDSREVQARRAGSARIHKAEVQARLAAIGPQDSQRH 422

Query: 408 NVYEVRAEAQRARFKLPAWPTTTIGSFPQTTEIRTLRLDFKKGNLDANNYRTGIAEHIKQ 467
           + +  R E QRAR  LPA+PTTTIGSFPQT  IR  R  +K+G L AN+Y+  +   I+ 
Sbjct: 423 SPFAQRIERQRARLALPAFPTTTIGSFPQTPAIRLARQAYKQGKLSANDYQDAMHTEIRH 482

Query: 468 AIVEQERLGLDVLVHGEAERNDMVEYFGEHLDGFVFTQNGWVQSYGSRCVKPPIVIGDIS 527
           A+  QERLGLDVLVHGEAERNDMVEYF E LDG+ FT+ GWVQSYGSRCVKP I+ GDIS
Sbjct: 483 AVQIQERLGLDVLVHGEAERNDMVEYFAEQLDGYAFTRFGWVQSYGSRCVKPAIIYGDIS 542

Query: 528 RPAPITVEWAKYAQSLTDKPVKGMLTGPVTILCWSFPREDVSRETIAKQIALALRDEVAD 587
           RP  +TV+W +YAQSLTDK +KGMLTGPVT+L WSFPREDVSR+  A+Q+ALALRDEV D
Sbjct: 543 RPKAMTVDWIRYAQSLTDKVMKGMLTGPVTMLMWSFPREDVSRQVQARQLALALRDEVLD 602

Query: 588 LEAAGIGIIQIDEPALREGLPLRRSDWDAYLQWGVEAFRINAAVAKDDTQIHTHMCYCEF 647
           LE AGI I+QIDE A REGLPLRR  W  YL W VEAFR+ A+   DDTQIHTHMCY EF
Sbjct: 603 LEKAGIRIVQIDEAAFREGLPLRRGQWQHYLDWAVEAFRLCASGVGDDTQIHTHMCYSEF 662

Query: 648 NDIMDSIAALDADVITIETSRSDMELLESFEEFDYPNEIGPGVYDIHSPNVPSVEWIEAL 707
           ND++ +IA +DADVITIETSRSDMELLE+FE FDYPN+IGPGVYDIHSP VP    + AL
Sbjct: 663 NDVIKAIADMDADVITIETSRSDMELLEAFEAFDYPNDIGPGVYDIHSPRVPDTAEMVAL 722

Query: 708 LKKAAKRIPAERLWVNPDCGLKTRGWPETRAALANMVQAAQNLR 751
           + KA KRI AERLW+NPDCGLKTRGWPET AAL NMV AA+ LR
Sbjct: 723 MSKAVKRIAAERLWINPDCGLKTRGWPETEAALVNMVAAARQLR 766


Lambda     K      H
   0.319    0.135    0.416 

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: 1709
Number of extensions: 75
Number of successful extensions: 7
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: 753
Length of database: 770
Length adjustment: 40
Effective length of query: 713
Effective length of database: 730
Effective search space:   520490
Effective search space used:   520490
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: 55 (25.8 bits)

Align candidate AO356_17740 AO356_17740 (5-methyltetrahydropteroyltriglutamate-- homocysteine methyltransferase)
to HMM TIGR01371 (metE: 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase (EC 2.1.1.14))

Software error:

../bin/blast/fastacmd -i /tmp/list.11594.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11594.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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