Alignments for a candidate for ilvD in Polaromonas naphthalenivorans CJ2

Align dihydroxyacid dehydratase (EC 4.2.1.9) (characterized)
to candidate WP_011802252.1 PNAP_RS14365 dihydroxy-acid dehydratase

Query= metacyc::MONOMER-18815
         (557 letters)



>NCBI__GCF_000015505.1:WP_011802252.1
          Length = 564

 Score =  873 bits (2255), Expect = 0.0
 Identities = 421/557 (75%), Positives = 492/557 (88%)

Query: 1   MAFNKRSQNITQGVARSPNRSMYYALGYKKEDFDKPMVGIANGHSTITPCNAGLQRLADA 60
           +A N+RS NIT+G +R+PNRSMYYA+GY++ DF KPM+G+ANGHSTITPCN+GLQ+LADA
Sbjct: 6   IAINRRSANITEGKSRAPNRSMYYAMGYEESDFKKPMIGVANGHSTITPCNSGLQKLADA 65

Query: 61  AIDAIKASDANPQVFGTPTISDGMSMGTEGMKYSLISREVIADCIETAAQGQWMDGVVVI 120
           AIDAI+ +  N QVFGTPTISDGM+MGTEGMKYSL+SREVI+DCIET  QGQWMDGV+V+
Sbjct: 66  AIDAIEEAGGNAQVFGTPTISDGMAMGTEGMKYSLVSREVISDCIETCVQGQWMDGVLVV 125

Query: 121 GGCDKNMPGGMIALARTNVPGIYVYGGTIKPGNWKGKDLTIVSSFEAVGEFTAGRMSQED 180
           GGCDKNMPGG++ + R NVP I+VYGGTI PG+++GKDL IVS FEAVGE  AGRMS ED
Sbjct: 126 GGCDKNMPGGLMGMLRANVPAIFVYGGTILPGHYQGKDLNIVSVFEAVGENAAGRMSDED 185

Query: 181 FEGVEKNACPSTGSCGGMYTANTMSSSFEALGMSLLYSSTMANPDQEKVDSAAESARVLV 240
              +E+ A P TGSCGGMYTANTMSS+FEALG+SL YSSTMANP  EK++SA ESARVL+
Sbjct: 186 LLQIERRAIPGTGSCGGMYTANTMSSAFEALGISLPYSSTMANPHDEKLNSAKESARVLI 245

Query: 241 EAIKQDIKPRDIITRKSIENAVALIMATGGSTNAVLHYLAIAHAAEVEWTIDDFERIRRK 300
           EA+K+DIKPRDI+T+KSIENAVA+IMATGGSTNAVLH+LAIAHAA VEWTIDDFER+R+K
Sbjct: 246 EAVKKDIKPRDIVTKKSIENAVAVIMATGGSTNAVLHFLAIAHAAGVEWTIDDFERVRQK 305

Query: 301 VPVICNLKPSGQYVATDLHKAGGIPQVMKILLKAGMLHGDCLTITGRTLAEELENVPDTP 360
            PV+CNLKPSGQY+A DLH+AGGIPQVMK+LL AG+LHGDC+TI+G+T+AE L +VPD P
Sbjct: 306 TPVLCNLKPSGQYLAVDLHQAGGIPQVMKMLLVAGLLHGDCITISGQTIAEVLADVPDAP 365

Query: 361 RADQDVILPIEKALYAEGHLAILKGNLAEEGAVAKITGLKNPVITGPARVFEDEQSAMEA 420
           RA QDVI PI++ +YA+GHLAILKGNL+ EG VAKITGLKNPV+TGPARVFEDEQS ++A
Sbjct: 366 RAGQDVIRPIDQPMYAQGHLAILKGNLSPEGCVAKITGLKNPVMTGPARVFEDEQSGLKA 425

Query: 421 ILADKINAGDILVLRYLGPKGGPGMPEMLAPTSAIIGKGLGESVGFITDGRFSGGTWGMV 480
           IL  KI AGD++VLRYLGPKGGPGMPEMLAPT A+IG GLGESVG ITDGRFSGGTWGMV
Sbjct: 426 ILDGKIVAGDVMVLRYLGPKGGPGMPEMLAPTGALIGAGLGESVGLITDGRFSGGTWGMV 485

Query: 481 VGHVAPEAYVGGTIALVQEGDSITIDAHKLLLQLNVADEELARRRANWKQPAPRYTRGVL 540
           VGHVAPEA  GG IA ++EGDSITIDA++LLLQLN++D EL  R+  W  PAPRYTRGV 
Sbjct: 486 VGHVAPEAAAGGNIAFIEEGDSITIDANQLLLQLNISDAELESRKVGWTAPAPRYTRGVQ 545

Query: 541 AKFSKLASTASKGAVTD 557
           AKF+  AS+ASKGAV D
Sbjct: 546 AKFAFNASSASKGAVLD 562


Lambda     K      H
   0.316    0.133    0.386 

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: 1106
Number of extensions: 37
Number of successful extensions: 1
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: 557
Length of database: 564
Length adjustment: 36
Effective length of query: 521
Effective length of database: 528
Effective search space:   275088
Effective search space used:   275088
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 (21.6 bits)
S2: 53 (25.0 bits)

Align candidate WP_011802252.1 PNAP_RS14365 (dihydroxy-acid dehydratase)
to HMM TIGR00110 (ilvD: dihydroxy-acid dehydratase (EC 4.2.1.9))

Software error:

../bin/blast/fastacmd -i /tmp/list.18114.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.18114.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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