GapMind for Amino acid biosynthesis

 

Alignments for a candidate for prs in Echinicola vietnamensis KMM 6221, DSM 17526

Align ribose-phosphate diphosphokinase (EC 2.7.6.1) (characterized)
to candidate Echvi_4597 Echvi_4597 ribose-phosphate pyrophosphokinase

Query= BRENDA::P0A717
         (315 letters)



>FitnessBrowser__Cola:Echvi_4597
          Length = 309

 Score =  295 bits (754), Expect = 1e-84
 Identities = 158/314 (50%), Positives = 215/314 (68%), Gaps = 7/314 (2%)

Query: 1   MPDMKLFAGNATPELAQRIANRLYTSLGDAAVGRFSDGEVSVQINENVRGGDIFIIQSTC 60
           MP++KLFAG  T +LA  IA      LG   +  FSDGE+S   +E+VRG  +F+IQST 
Sbjct: 1   MPEVKLFAGTNTKKLADSIAGNYGQDLGAMTLSMFSDGEMSPSFDESVRGCHVFLIQST- 59

Query: 61  APTNDNLMELVVMVDALRRASAGRITAVIPYFGYARQDRRVRSARVPITAKVVADFLSSV 120
            P  DNL+EL +M+DA +RASA ++ AV+PY+GYARQDR+ R  RV I AK++A+ + S 
Sbjct: 60  NPNADNLLELCLMIDAAKRASAYKVCAVVPYYGYARQDRKDRP-RVSIAAKLIANMIMSA 118

Query: 121 GVDRVLTVDLHAEQIQGFFDVPVDNVFGSPILLEDMLQLNL-DNPIVVSPDIGGVVRARA 179
           G DR++T DLHA QIQGFFD+P+D++ GS I +  +  L+L DN I  SPD+GGV RARA
Sbjct: 119 GADRIMTCDLHAGQIQGFFDIPLDHLNGSAIFVPYLKSLDLGDNLIFASPDVGGVSRARA 178

Query: 180 IAKLLNDTDMAIIDKRRPRANVSQVMHIIGDVAGRDCVLVDDMIDTGGTLCKAAEALKER 239
            AK   + DM + DK R RAN    M +IGDV G+D VLVDD++DT GT+CKAAE L ++
Sbjct: 179 YAKHF-EVDMVVCDKHRKRANEVASMQVIGDVEGKDVVLVDDLVDTAGTMCKAAEILLDK 237

Query: 240 GAKRVFAYATHPIFSGNAANNLRNSVIDEVVVCDTIPLSDEIKSLPNVRTLTLSGMLAEA 299
           GA  V A ATH + SG A  N+ NS + E+V+ DTIP+    K    ++ LT++ + A+A
Sbjct: 238 GANSVRAIATHGVLSGKAYENIENSKLSELVITDTIPIK---KESSKIKVLTVAELFAKA 294

Query: 300 IRRISNEESISAMF 313
           I  ++  +SISA+F
Sbjct: 295 IHAVTGNDSISALF 308


Lambda     K      H
   0.321    0.137    0.385 

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: 280
Number of extensions: 13
Number of successful extensions: 6
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: 315
Length of database: 309
Length adjustment: 27
Effective length of query: 288
Effective length of database: 282
Effective search space:    81216
Effective search space used:    81216
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: 48 (23.1 bits)

Align candidate Echvi_4597 Echvi_4597 (ribose-phosphate pyrophosphokinase)
to HMM TIGR01251 (prs: ribose-phosphate diphosphokinase (EC 2.7.6.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.4034.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.4034.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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