GapMind for catabolism of small carbon sources

 

Alignments for a candidate for acn in Klebsiella michiganensis M5al

Align Aconitate hydratase B; ACN; Aconitase; (2R,3S)-2-methylisocitrate dehydratase; (2S,3R)-3-hydroxybutane-1,2,3-tricarboxylate dehydratase; 2-methyl-cis-aconitate hydratase; Iron-responsive protein-like; IRP-like; RNA-binding protein; EC 4.2.1.3; EC 4.2.1.99 (characterized)
to candidate BWI76_RS04910 BWI76_RS04910 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase

Query= SwissProt::Q8ZRS8
         (865 letters)



>FitnessBrowser__Koxy:BWI76_RS04910
          Length = 872

 Score = 1679 bits (4347), Expect = 0.0
 Identities = 835/865 (96%), Positives = 853/865 (98%)

Query: 1   MLEEYRKHVAERAAQGIVPKPLDATQMAALVELLKTPPVGEEEFLLDLLINRVPPGVDEA 60
           +LEEYRKHVAERAA+GIVPKPLDATQMAALVELLK PP GEEEFLLDLLINRVPPGVDEA
Sbjct: 8   VLEEYRKHVAERAAEGIVPKPLDATQMAALVELLKNPPAGEEEFLLDLLINRVPPGVDEA 67

Query: 61  AYVKAGFLAAVAKGDTTSPLVSPEKAIELLGTMQGGYNIHPLIDALDDAKLAPIAAKALS 120
           AYVKAGFLAA+AKGD TSPLV+ EKA+ELLGTMQGGYNIHPLIDALDDAKLAPIAAKALS
Sbjct: 68  AYVKAGFLAAIAKGDATSPLVTREKAVELLGTMQGGYNIHPLIDALDDAKLAPIAAKALS 127

Query: 121 HTLLMFDNFYDVEEKAKAGNEYAKQVMQSWADAEWFLSRPPLAEKITVTVFKVTGETNTD 180
           HTLLMFDNFYDVEEKAKAGNEYAKQVMQSWADAEWFLSRP LA+KITVTVFKVTGETNTD
Sbjct: 128 HTLLMFDNFYDVEEKAKAGNEYAKQVMQSWADAEWFLSRPQLADKITVTVFKVTGETNTD 187

Query: 181 DLSPAPDAWSRPDIPLHAQAMLKNAREGIEPDQPGVVGPIKQIEALQKKGYPLAYVGDVV 240
           DLSPAPDAWSRPDIPLHA AMLKNAREGI+PDQPG VGPIKQIEALQ+KG+PLAYVGDVV
Sbjct: 188 DLSPAPDAWSRPDIPLHALAMLKNAREGIDPDQPGAVGPIKQIEALQQKGFPLAYVGDVV 247

Query: 241 GTGSSRKSATNSVLWFMGDDIPNVPNKRGGGLCLGGKIAPIFFNTMEDAGALPIEVDVSN 300
           GTGSSRKSATNSVLWFMGDDIPNVPNKRGGGL LGGKIAPIFFNTMEDAGALPIEVDV+N
Sbjct: 248 GTGSSRKSATNSVLWFMGDDIPNVPNKRGGGLVLGGKIAPIFFNTMEDAGALPIEVDVNN 307

Query: 301 LNMGDVIDVYPYKGEVRNHETGELLATFELKTDVLIDEVRAGGRIPLIIGRGLTTKAREA 360
           LNMGDVIDVYP+KGEVRNHETGELLATFELKTDVLIDEVRAGGRIPLIIGRGLTTKAREA
Sbjct: 308 LNMGDVIDVYPFKGEVRNHETGELLATFELKTDVLIDEVRAGGRIPLIIGRGLTTKAREA 367

Query: 361 LGLPHSDVFRQAKDVAESSRGFSLAQKMVGRACGVKGIRPGAYCEPKMTSVGSQDTTGPM 420
           LGLPHS+VFRQAKDVAESSRG+SLAQKMVGRACGV G+RPGAYCEPKMTSVGSQDTTGPM
Sbjct: 368 LGLPHSEVFRQAKDVAESSRGYSLAQKMVGRACGVAGVRPGAYCEPKMTSVGSQDTTGPM 427

Query: 421 TRDELKDLACLGFSADLVMQSFCHTAAYPKPVDVTTHHTLPDFIMNRGGVSLRPGDGVIH 480
           TRDELKDLACLGFS+DLVMQSFCHTAAYPKPVDVTTHHTLPDFIMNRGGVSLRPGDGVIH
Sbjct: 428 TRDELKDLACLGFSSDLVMQSFCHTAAYPKPVDVTTHHTLPDFIMNRGGVSLRPGDGVIH 487

Query: 481 SWLNRMLLPDTVGTGGDSHTRFPIGISFPAGSGLVAFAAATGVMPLDMPESVLVRFKGKM 540
           SWLNRMLLPDTVGTGGDSHTRFPIGISFPAGSGLVAFAAATGVMPLDMPESVLVRFKGKM
Sbjct: 488 SWLNRMLLPDTVGTGGDSHTRFPIGISFPAGSGLVAFAAATGVMPLDMPESVLVRFKGKM 547

Query: 541 QPGITLRDLVHAIPLYAIKQGLLTVEKKGKKNIFSGRILEIEGLPDLKVEQAFELTDASA 600
           QPGITLRDLVHAIPLYAIKQGLLTVEKKGKKNIFSGRILEIEGLPDLKVEQAFELTDASA
Sbjct: 548 QPGITLRDLVHAIPLYAIKQGLLTVEKKGKKNIFSGRILEIEGLPDLKVEQAFELTDASA 607

Query: 601 ERSAAGCTIKLNKEPIVEYLTSNIVLLKWMIAEGYGDRRTLERRIQGMEKWLADPQLLEA 660
           ERSAAGCTIKLNKEPIVEYLTSNIVLLKWMIAEGYGDRRTLERR+QGMEKWLA+P+LLE 
Sbjct: 608 ERSAAGCTIKLNKEPIVEYLTSNIVLLKWMIAEGYGDRRTLERRVQGMEKWLAEPELLEG 667

Query: 661 DADAEYAAVIDIDLADIKEPILCAPNDPDDARLLSDVQGEKIDEVFIGSCMTNIGHFRAA 720
           DADAEYAAVIDIDLADIKEPILCAPNDPDDARLLSDVQGEKIDEVFIGSCMTNIGHFRAA
Sbjct: 668 DADAEYAAVIDIDLADIKEPILCAPNDPDDARLLSDVQGEKIDEVFIGSCMTNIGHFRAA 727

Query: 721 GKLLDNHKGQLPTRLWVAPPTRMDAAQLTEEGYYSVFGKSGARIEIPGCSLCMGNQARVA 780
           GKLLDNHKGQLPTRLWVAPPTRMDAAQLTEEGYYSVFGKSGARIEIPGCSLCMGNQARVA
Sbjct: 728 GKLLDNHKGQLPTRLWVAPPTRMDAAQLTEEGYYSVFGKSGARIEIPGCSLCMGNQARVA 787

Query: 781 DGATVVSTSTRNFPNRLGTGANVFLASAELAAVAALIGKLPTPEEYQTYVAQVDKTAVDT 840
           DGATVVSTSTRNFPNRLGTGANVFLASAELAAVAALIGKLPTPEEYQTYVAQVDKTA DT
Sbjct: 788 DGATVVSTSTRNFPNRLGTGANVFLASAELAAVAALIGKLPTPEEYQTYVAQVDKTAADT 847

Query: 841 YRYLNFDQLSQYTEKADGVIFQTAV 865
           YRYLNFDQL QYTEKADGVIFQTAV
Sbjct: 848 YRYLNFDQLGQYTEKADGVIFQTAV 872


Lambda     K      H
   0.317    0.136    0.400 

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: 2366
Number of extensions: 73
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: 865
Length of database: 872
Length adjustment: 42
Effective length of query: 823
Effective length of database: 830
Effective search space:   683090
Effective search space used:   683090
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: 56 (26.2 bits)

Align candidate BWI76_RS04910 BWI76_RS04910 (bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase)
to HMM TIGR00117 (acnB: aconitate hydratase 2 (EC 4.2.1.3))

Software error:

../bin/blast/fastacmd -i /tmp/list.6819.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.6819.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.