GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvC in Pedobacter sp. GW460-11-11-14-LB5

Align ketol-acid reductoisomerase [NAD(P)+] (EC 1.1.1.383); ketol-acid reductoisomerase (NADP+) (EC 1.1.1.86) (characterized)
to candidate CA265_RS15825 CA265_RS15825 ketol-acid reductoisomerase

Query= BRENDA::P05793
         (491 letters)



>FitnessBrowser__Pedo557:CA265_RS15825
          Length = 493

 Score =  696 bits (1796), Expect = 0.0
 Identities = 353/493 (71%), Positives = 400/493 (81%), Gaps = 3/493 (0%)

Query: 1   MANYFNTLNLRQQLAQLGKCRFMGRDEFADGASYLQGKKVVIVGCGAQGLNQGLNMRDSG 60
           MANYFNTL LR++L QLG C FM   EF DG + L+GKK+VIVGCGAQGLNQGLN+RDSG
Sbjct: 1   MANYFNTLPLREKLNQLGVCDFMDSSEFLDGVNALKGKKLVIVGCGAQGLNQGLNLRDSG 60

Query: 61  LDISYALRKEAIAEKRASWRKATENGFKVGTYEELIPQADLVINLTPDKQHSDVVRTVQP 120
           LD+SY LRKEAI  KR SW+ ATEN F VGTYEELIP AD+VINLTPDKQH+ VV  + P
Sbjct: 61  LDVSYTLRKEAIEGKRDSWKNATENNFTVGTYEELIPNADVVINLTPDKQHTAVVNAIMP 120

Query: 121 LMKDGAALGYSHGFNIVEVGEQIRKDITVVMVAPKCPGTEVREEYKRGFGVPTLIAVHPE 180
           LMK+GA L YSHGFNIVE G QIRKD+TV+MVAPKCPG+EVR EY RGFGVPTLIAVHPE
Sbjct: 121 LMKEGATLLYSHGFNIVEEGMQIRKDLTVIMVAPKCPGSEVRAEYVRGFGVPTLIAVHPE 180

Query: 181 NDPKGEGMAIAKAWAAATGGHRAGVLESSFVAEVKSDLMGEQTILCGMLQAGSLLCFDKL 240
           NDP+G+G+A AKA+ A TGGHRAGVL+SSFVAEVKSDLMGEQTILCG+LQ GS+L FDK+
Sbjct: 181 NDPQGKGLAQAKAYCAGTGGHRAGVLKSSFVAEVKSDLMGEQTILCGLLQTGSILSFDKM 240

Query: 241 VEEGTDPAYAEKLIQFGWETITEALKQGGITLMMDRLSNPAKLRAYALSEQLKEIMAPLF 300
           VE+G D  YA KL+Q+G E ITEALKQGGIT MMDRLSN AK++A+ +SE+LK+IM PLF
Sbjct: 241 VEKGIDAGYASKLVQYGVEVITEALKQGGITAMMDRLSNVAKIKAFEISEELKDIMRPLF 300

Query: 301 QKHMDDIISGEFSSGMMADWANDDKKLLTWREETGKTAFETAPQYEGKIGEQEYFDKGVL 360
           QKH DDI+SGEFS  MM DWAN DK LL WR ETG+TAFE  P  + KIGEQEYFD   L
Sbjct: 301 QKHQDDIMSGEFSRTMMEDWANGDKNLLKWRAETGETAFEKTPAGDVKIGEQEYFDNYTL 360

Query: 361 MIAMVKAGVELAFETMVDSGIIEESAYYESLHELPLIANTIARKRLYEMNVVISDTAEYG 420
           M+A V+AGVELAFETMV +GI  ESAYYESLHE PLIANTIARK+L+EMN VISDTAEYG
Sbjct: 361 MVAFVRAGVELAFETMVQAGIKPESAYYESLHETPLIANTIARKKLFEMNRVISDTAEYG 420

Query: 421 NYLFSYACVPLLKPFMAELQPGDLGKAIPE---GAVDNGQLRDVNEAIRSHAIEQVGKKL 477
            YLF  AC PLL  FM ++    +GK   E   GAVDN +L D+NEAIRSH +EQ+G  L
Sbjct: 421 CYLFDQACKPLLGDFMKKVDTDLVGKNFNEGKDGAVDNRKLIDINEAIRSHEVEQIGATL 480

Query: 478 RGYMTDMKRIAVA 490
           R  MT MK I  A
Sbjct: 481 RKAMTAMKAIKTA 493


Lambda     K      H
   0.317    0.135    0.390 

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: 748
Number of extensions: 25
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: 491
Length of database: 493
Length adjustment: 34
Effective length of query: 457
Effective length of database: 459
Effective search space:   209763
Effective search space used:   209763
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: 52 (24.6 bits)

Align candidate CA265_RS15825 CA265_RS15825 (ketol-acid reductoisomerase)
to HMM TIGR00465 (ilvC: ketol-acid reductoisomerase (EC 1.1.1.86))

Software error:

../bin/blast/fastacmd -i /tmp/list.22269.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.22269.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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