GeneModel BLAST Result against arabidopsis

BLASTP 2.2.12 [Aug-07-2005]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= BGIBMGA001093-TA|BGIBMGA001093-PA|IPR003698|Lipoate synthase,
IPR007197|Radical SAM, IPR006638|Elongator protein 3/MiaB/NifB
         (366 letters)

Database: arabidopsis 
           28,952 sequences; 12,070,560 total letters

Searching..................................................done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

At2g20860.1 68415.m02458 lipoic acid synthase (LIP1) identical t...   404   e-113
At5g08415.1 68418.m00991 lipoic acid synthase family protein sim...   402   e-112
At4g36390.1 68417.m05170 radical SAM domain-containing protein /...    32   0.70 
At3g53640.1 68416.m05925 protein kinase family protein contains ...    31   1.6  
At3g42670.1 68416.m04437 SNF2 domain-containing protein / helica...    29   4.9  
At5g41470.1 68418.m05036 hypothetical protein similar to unknown...    28   8.6  

>At2g20860.1 68415.m02458 lipoic acid synthase (LIP1) identical to
           gi:3928758 contains Pfam profile PF04055: radical SAM
           domain protein
          Length = 374

 Score =  404 bits (994), Expect = e-113
 Identities = 193/342 (56%), Positives = 254/342 (74%), Gaps = 11/342 (3%)

Query: 26  LDAIREKL-KEGPNLTDFISEDRPKNWDEYQGKLKREKGESERLRLPPWLKTTIPTGSKF 84
           L+A+R +L  E P+LTDFI      + D Y  ++  +K   + L  P W+K +IP G ++
Sbjct: 37  LEALRARLANESPSLTDFI------HGDTYSVEVGTKK---KPLPKPKWMKESIPGGERY 87

Query: 85  NEIKQQLRSLKLSTVCEEARCPNIGECWSGGKHGASTATIMLMGDTCTRGCMFCSVKTSR 144
            +IK++LR LKL TVCEEA+CPN+GECWSGG+ G +TATIM++GDTCTRGC FC+VKTSR
Sbjct: 88  VQIKKKLRDLKLHTVCEEAKCPNLGECWSGGETGTATATIMILGDTCTRGCRFCNVKTSR 147

Query: 145 NPPPLDPEEPRNTAHAINHWGVGYIVLTSVDRDDLPDGGSLHFAETVKEIKKLNKDILVE 204
            PPP DP EP N A AI  WGV Y+V+TSVDRDDLPD GS HFAETV+ +K L  ++L+E
Sbjct: 148 TPPPPDPNEPNNVAEAIASWGVDYVVITSVDRDDLPDQGSGHFAETVQRLKFLKPEMLIE 207

Query: 205 CLVPDFRAVRGCVARVASSGLDVFAHNVETVERLTPFVRDPRAGYRQTLKVLQMAKEINP 264
            LVPDFR   GCV +V+ SGLDV AHN+ETVE L  FVRD RA ++Q+L VL+MAKE  P
Sbjct: 208 ALVPDFRGDGGCVEKVSKSGLDVLAHNIETVEELQSFVRDHRANFKQSLDVLRMAKEYAP 267

Query: 265 -DLITKSSIMLGLGETDAQVEQTMKDLREAGVDCVTLGQYMQPTKKHLKVFEYVTPARFQ 323
              +TK+S+MLG GET  QV +TM+ +R AGVD +T GQYM+P+K+H+ V EYVTP  F+
Sbjct: 268 AGTLTKTSVMLGCGETPDQVVKTMEKVRAAGVDVMTFGQYMRPSKRHMPVAEYVTPDAFE 327

Query: 324 QWEARGRQLGFLYVASGALVRSSYRAGEFFISAVLRDRKVNS 365
           ++   G ++GF YVASG +VRSSY+AGE++I +++   +V S
Sbjct: 328 RYRLLGMEMGFRYVASGPMVRSSYKAGEYYIKSMIEADRVAS 369


>At5g08415.1 68418.m00991 lipoic acid synthase family protein
           similar to lipoic acid synthase from Arabidopsis
           thaliana [gi:3928758], from Mus musculus [gi:14669826]
           Pfam profile PF04055: radical SAM domain protein
          Length = 394

 Score =  402 bits (989), Expect = e-112
 Identities = 188/339 (55%), Positives = 239/339 (70%), Gaps = 3/339 (0%)

Query: 25  KLDAIREKLKEGPNLTDFISEDRPKNWDEYQG---KLKREKGESERLRLPPWLKTTIPTG 81
           K  ++  ++++  +L   + E   K  + Y G   K+    G    ++ P WL+   P G
Sbjct: 49  KAVSLSSEMEDSSSLKKSLMELEGKKSEPYPGGMPKMGPFTGRDPNVKKPAWLRQKAPQG 108

Query: 82  SKFNEIKQQLRSLKLSTVCEEARCPNIGECWSGGKHGASTATIMLMGDTCTRGCMFCSVK 141
            +F E+K+ L  L L+TVCEEA+CPNIGECW+GG  G +TATIM++GDTCTRGC FC+VK
Sbjct: 109 ERFQEVKESLSRLNLNTVCEEAQCPNIGECWNGGGDGVATATIMVLGDTCTRGCRFCAVK 168

Query: 142 TSRNPPPLDPEEPRNTAHAINHWGVGYIVLTSVDRDDLPDGGSLHFAETVKEIKKLNKDI 201
           TSRNPPP DP EP NTA AI  WGV YIV+TSVDRDD+PDGGS HFA+TVK +K+   DI
Sbjct: 169 TSRNPPPPDPMEPENTAKAIASWGVDYIVITSVDRDDIPDGGSGHFAQTVKAMKRHKPDI 228

Query: 202 LVECLVPDFRAVRGCVARVASSGLDVFAHNVETVERLTPFVRDPRAGYRQTLKVLQMAKE 261
           ++ECL  DFR     V  +  SGLDVFAHNVETV+RL   VRDPRAGY Q++ VL+ AK 
Sbjct: 229 MIECLTSDFRGDLEAVDTLVHSGLDVFAHNVETVKRLQRLVRDPRAGYEQSMSVLKHAKI 288

Query: 262 INPDLITKSSIMLGLGETDAQVEQTMKDLREAGVDCVTLGQYMQPTKKHLKVFEYVTPAR 321
             P +ITK+SIMLGLGETD ++++ M DLR   VD +TLGQY+QPT  HL V EYVTP +
Sbjct: 289 SKPGMITKTSIMLGLGETDEELKEAMADLRAIDVDILTLGQYLQPTPLHLTVKEYVTPEK 348

Query: 322 FQQWEARGRQLGFLYVASGALVRSSYRAGEFFISAVLRD 360
           F  W+  G  +GF YVASG LVRSSYRAGE F+  ++++
Sbjct: 349 FDFWKTYGESIGFRYVASGPLVRSSYRAGELFVKTMVKE 387


>At4g36390.1 68417.m05170 radical SAM domain-containing protein /
           TRAM domain-containing protein similar to CDK5
           activator-binding protein [Rattus norvegicus]
           GI:7330738; contains Pfam profiles PF00919: UPF0004
           family protein, PF01938: TRAM domain, PF04055: radical
           SAM domain protein
          Length = 640

 Score = 31.9 bits (69), Expect = 0.70
 Identities = 19/68 (27%), Positives = 33/68 (48%), Gaps = 3/68 (4%)

Query: 246 RAGYRQT--LKVLQMAKEINPDLITKSSIMLGL-GETDAQVEQTMKDLREAGVDCVTLGQ 302
           R GY +   L +++  + I PD+   S  + G  GET+ + ++T+  +R  G D   +  
Sbjct: 437 RRGYTREAYLDLVKKIRSIIPDVAITSDFITGFCGETEEEHQETLSLVRAVGYDMAYMFA 496

Query: 303 YMQPTKKH 310
           Y    K H
Sbjct: 497 YSMREKTH 504


>At3g53640.1 68416.m05925 protein kinase family protein contains
           protein kinase domain, Pfam:PF00069
          Length = 642

 Score = 30.7 bits (66), Expect = 1.6
 Identities = 15/33 (45%), Positives = 19/33 (57%)

Query: 33  LKEGPNLTDFISEDRPKNWDEYQGKLKREKGES 65
           L+EG NL    S DR  N D Y+G+  R+K  S
Sbjct: 68  LEEGENLKKKGSIDRESNRDNYRGRSSRDKARS 100


>At3g42670.1 68416.m04437 SNF2 domain-containing protein / helicase
           domain-containing protein low similarity to SP|P41410
           DNA repair protein rhp54 (RAD54 homolog)
           {Schizosaccharomyces pombe}; contains PFam profiles
           PF00271: Helicase conserved C-terminal domain, PF00176:
           SNF2 family N-terminal domain
          Length = 1256

 Score = 29.1 bits (62), Expect = 4.9
 Identities = 19/63 (30%), Positives = 33/63 (52%), Gaps = 3/63 (4%)

Query: 58  LKREKGESERLRLPPWLKTTIPTGSKFNEIKQQLRSLKLSTVCEEARCPNIGECWSGGKH 117
           + RE G SE  ++  + K T+  G+ +N++     S   ST+  + +  N+ E W G K+
Sbjct: 464 VSRETGVSEEPQI--YKKRTLSAGA-YNKLIDSYMSRIDSTIAAKDKATNVVEQWQGLKN 520

Query: 118 GAS 120
            AS
Sbjct: 521 PAS 523


>At5g41470.1 68418.m05036 hypothetical protein similar to unknown
          protein (gb|AAF23339.1)
          Length = 158

 Score = 28.3 bits (60), Expect = 8.6
 Identities = 13/29 (44%), Positives = 20/29 (68%), Gaps = 1/29 (3%)

Query: 3  RNTIKKYKVTK-HLDFPRYKHSNKLDAIR 30
          RN I K+K  +  LD P  +HS++L+AI+
Sbjct: 14 RNLITKFKTPRLKLDLPSLQHSSQLNAIK 42


  Database: arabidopsis
    Posted date:  Oct 3, 2007  3:31 PM
  Number of letters in database: 12,070,560
  Number of sequences in database:  28,952
  
Lambda     K      H
   0.319    0.135    0.408 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 8,804,742
Number of Sequences: 28952
Number of extensions: 371643
Number of successful extensions: 1052
Number of sequences better than 10.0: 6
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1047
Number of HSP's gapped (non-prelim): 6
length of query: 366
length of database: 12,070,560
effective HSP length: 82
effective length of query: 284
effective length of database: 9,696,496
effective search space: 2753804864
effective search space used: 2753804864
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)
S2: 60 (28.3 bits)