BLASTP 2.2.18 [Mar-02-2008]


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.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0001.0133.p
         (242 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310438|ref|YP_003774530.1| transketolase, C-terminal subun...   488   e-139
gi|300313125|ref|YP_003777217.1| 1-deoxy-D-xylulose 5-phosphate ...    75   3e-15
gi|300309646|ref|YP_003773738.1| transketolase C-terminal subuni...    74   1e-14

>gi|300310438|ref|YP_003774530.1| transketolase, C-terminal subunit
           [Herbaspirillum seropedicae SmR1]
          Length = 334

 Score =  488 bits (1255), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 232/242 (95%), Positives = 237/242 (97%)

Query: 1   VPFATTYAVFATRRAYDFIHQVIAEENLNVKICCALPGLTTGYGPSHQATEDLAMMRAIP 60
           VPFATTYAVFATRRAYDFIHQVIAEENLNVKICCALPGLTTGYGPSHQATEDLAMMRAIP
Sbjct: 93  VPFATTYAVFATRRAYDFIHQVIAEENLNVKICCALPGLTTGYGPSHQATEDLAMMRAIP 152

Query: 61  GMTIIDPCDALDLEQAVPQIAAHQGPVYMRLARGNVPLVLDEYDYQFELGKAKEIRDGND 120
           GMTI+DPCDALDLEQAVPQIAAHQGPVYMRLARGNVPLVLDEYDY+FELG+AKEIRDGND
Sbjct: 153 GMTIVDPCDALDLEQAVPQIAAHQGPVYMRLARGNVPLVLDEYDYRFELGRAKEIRDGND 212

Query: 121 VLIISSGFMTMRALEVAKALEADNVSVGVLHCPTIKPFDEATVVEQVSKKNRLVVVAENH 180
           VLIISSGFMTMRALEVAKALEAD VSV VLHCPTIKPFDEATVV QV KKNRLVVVAENH
Sbjct: 213 VLIISSGFMTMRALEVAKALEADKVSVAVLHCPTIKPFDEATVVAQVKKKNRLVVVAENH 272

Query: 181 SVVGGLGEIVATTLMRHRVQPAGFQMAGLPDAFLDAGALPTLHDRYGISCEVLSRRIREW 240
           SVVGGLGEIVATTLMRHRVQPAGFQ+AGLPDAFLDAGALPTLHDRYGISCEVL RRI+EW
Sbjct: 273 SVVGGLGEIVATTLMRHRVQPAGFQLAGLPDAFLDAGALPTLHDRYGISCEVLGRRIKEW 332

Query: 241 LK 242
           LK
Sbjct: 333 LK 334


>gi|300313125|ref|YP_003777217.1| 1-deoxy-D-xylulose 5-phosphate
           synthase [Herbaspirillum seropedicae SmR1]
          Length = 621

 Score = 75.5 bits (184), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 62/239 (25%), Positives = 107/239 (44%), Gaps = 9/239 (3%)

Query: 2   PFATTYAVFATRRAYDFIHQVIAEENLNVKICCALPGLTTGYGPSHQATEDLAMMRAIPG 61
           P    Y+ F  +RAYD +   +A +NL+V       GL    G +H    DLA +R IP 
Sbjct: 377 PVVAIYSTF-LQRAYDQLIHDVALQNLDVTFALDRAGLVGADGATHAGNYDLAFLRCIPN 435

Query: 62  MTIIDPCDALDLEQAVPQIAAHQGPVYMRLARG-NVPLVLDEYDYQFELGKAKEIRDGND 120
           M ++   D  +  + +     + GP  +R  RG  +   +D+      LG+ +  R G +
Sbjct: 436 MVVMAASDENECRKMLSTAYQYPGPASVRYPRGAGIGAAVDQTLETLPLGRGEIRRQGKN 495

Query: 121 VLIISSGFMTMRALEVAKALEADNVSVGVLHCPTIKPFDEATVVEQVSKKNRLVVVAENH 180
           V I++ G +   +L        D ++  V +   IKP D   +V+Q++  +  +V  E  
Sbjct: 496 VAILAFGSLLAPSLGA-----GDKLNATVANMRFIKPLD-VELVKQLAASHDALVTVEEG 549

Query: 181 SVVGGLGEIVATTLMRHRVQPAGFQMAGLPDAFLDAGALPTLHDRYGISCEVLSRRIRE 239
            ++GG G  V+  L    +      + GLPD F+D G    L  + G+    ++  I +
Sbjct: 550 CIMGGAGAAVSEALAAAGINKPILHL-GLPDRFIDHGDAAQLLAQCGLDANGIADSIAQ 607


>gi|300309646|ref|YP_003773738.1| transketolase C-terminal subunit
           [Herbaspirillum seropedicae SmR1]
          Length = 321

 Score = 73.6 bits (179), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 59/245 (24%), Positives = 108/245 (44%), Gaps = 10/245 (4%)

Query: 3   FATTYAVFATRRAYDFIHQVIAEENLNVKICCALPGLTTGY-----GPSHQATEDLAMMR 57
           FA   A F T R Y+ +   +A  +    +   L G+  GY     GP+HQ  ED+ +MR
Sbjct: 74  FAYAIAPFITMRCYEQVRVSLALLSEVRPMNVNLIGVGAGYSYVVSGPTHQCYEDITLMR 133

Query: 58  AIPGMTIIDPCDALDLEQAVPQIAAHQGPVYMRLARGNVPLVLDEYDYQFELGKAKEI-R 116
           A+P   ++   D +         +   GP Y+R     +P++    D   +L +   I R
Sbjct: 134 ALPNFQVLSAADHVTAAAFFDTCSNSMGPKYLRFDAQVLPVIYG--DGAPDLAQGFHIHR 191

Query: 117 DGNDVLIISSGFMTMRALEVAKALEADNVSVGVLHCPTIKPFDEATVVEQVSKKNRLVVV 176
            G  + ++++G+M   AL+ A+ L A+ + VGV+    +  F    + E +     +  +
Sbjct: 192 RGGKIGLVATGYMLHTALQAAEVLAAEGIEVGVIDLFDLARFSADALQETLQSYAGIATL 251

Query: 177 AENHSVVGGLGEIVATTLMRHRVQPAGFQMAGLPDAF-LDAGALPTLHDRYGISCEVLSR 235
            E     GG+  ++   + R  +Q     + G+   +  + G    LH+  GI  + +  
Sbjct: 252 EEGFRGRGGMDSMLFEFIARRGLQTRMLNI-GVDGVYRFELGTRTELHEEVGIGPQAVLT 310

Query: 236 RIREW 240
            IRE+
Sbjct: 311 SIREF 315


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.322    0.137    0.407 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 762,649
Number of extensions: 31312
Number of successful extensions: 106
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 106
Number of HSP's successfully gapped: 3
Length of query: 242
Length of database: 1,619,870
Length adjustment: 83
Effective length of query: 159
Effective length of database: 1,226,865
Effective search space: 195071535
Effective search space used: 195071535
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: 129 (54.3 bits)