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= 0002.0147.p
         (295 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313697|ref|YP_003777789.1| GDP-4-keto-6-deoxy-D-mannose-3,...   287   7e-79
gi|300313483|ref|YP_003777575.1| NAD_dependent epimerase/dehydra...    63   2e-11
gi|300313479|ref|YP_003777571.1| UDP-galactose-4-epimerase [Herb...    58   1e-09

>gi|300313697|ref|YP_003777789.1|
           GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-reductase
           [Herbaspirillum seropedicae SmR1]
          Length = 329

 Score =  287 bits (734), Expect = 7e-79,   Method: Compositional matrix adjust.
 Identities = 144/294 (48%), Positives = 203/294 (69%), Gaps = 3/294 (1%)

Query: 1   MVGSAITRRLQNDGYGNLVVRTHAELDLLDQARVREFLGREKPDYIFLAAAKVGGILANN 60
           ++GSAI R LQ  GY  L+ RT A+L+L D+ +V  F   E+PDY+ LAA KVGGIL N 
Sbjct: 28  LIGSAILRALQQAGYRKLITRTRAQLELRDKQQVDAFFEAERPDYVMLAAGKVGGILENQ 87

Query: 61  TYRADFIHQNLVMQSNVISGAHEAGVRRLMFLGSSCIYPRDCPQPIREEYLLTGPLEITN 120
           ++ ADFI+ NL +  NV+  AH  GV+RL+  GSSC+YPR+  QP+ E  LL+G  E T+
Sbjct: 88  SFPADFINANLAISLNVLEAAHRCGVKRLVMFGSSCMYPRETAQPMAETALLSGHPEPTS 147

Query: 121 EPYAIAKIAGLKMCESYNRQY-QTEYVTVMPTNLYGPNDNFDLATSHVLPALLRKAHEAK 179
            PYAIAK+AG+++C +YNRQY Q  ++ ++P + YGPNDNFD  + HVL +L+ + H+AK
Sbjct: 148 LPYAIAKLAGVQLCLAYNRQYGQQRFIPLIPNSAYGPNDNFDPKSGHVLSSLMARFHQAK 207

Query: 180 LGGEKRMVVWGSGKPMREFLYVDDMADACVFLMEQGVR--NGAYNVGTGADVTIRDLARA 237
           L G + + +WGSG P REF++ DD+A A + +M + +       NVG+G+D++IR+LA+A
Sbjct: 208 LDGAEAVTLWGSGTPRREFIHADDIAAAALLMMREQLPALTLPLNVGSGSDISIRELAQA 267

Query: 238 ILETVGFDGELAFDASKPDGTPRKLLDVSLLASLGWRAKTMLDEGLIKTYQHYL 291
           I   VG++G L +D+SKPDG  RKLLD SL+   GWR +    EGL  TY  Y+
Sbjct: 268 IAGVVGYEGRLEWDSSKPDGALRKLLDSSLMHQQGWRPQVGFAEGLRDTYAWYV 321


>gi|300313483|ref|YP_003777575.1| NAD_dependent
           epimerase/dehydratase [Herbaspirillum seropedicae SmR1]
          Length = 333

 Score = 63.2 bits (152), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 62/210 (29%), Positives = 98/210 (46%), Gaps = 12/210 (5%)

Query: 76  NVISGAHEAGVRRLMFLGSSCIYPRDCPQPIREEYLLTGPLEITNEPYAIAKIAGLKMCE 135
           NV+      GV+RL++  S+ +Y     +P+ E++    P    N  Y   KIAG  M  
Sbjct: 109 NVMEACVAKGVKRLVYSSSASVYGDAVREPMDEDH----PYNNKNF-YGATKIAGETMLR 163

Query: 136 SYNRQYQTEYVTVMPTNLYGPNDNFDLATSHVLPALLRKAHEAKLGGEKRMVVWGSGKPM 195
           S++ +Y   YV +   N+YGP  ++  A   V+  +L    +A   GE   ++ G G   
Sbjct: 164 SFHHRYGLNYVGLRYMNVYGPRQDYHGAYIAVIMKML----DAIDKGESPTIM-GDGSEA 218

Query: 196 REFLYVDDMADACVFLMEQGVRNGAYNVGTGADVTIRDLARAILETVGFDGELAFDASKP 255
            +F+ V+D   A V  M+    +  YNVGTG   ++++LA  +LE  G D  + F     
Sbjct: 219 FDFVAVEDCGLANVCAMKAETADQYYNVGTGKRTSLKELAELLLEITGCDKPITFAPRSQ 278

Query: 256 DGTPRKLLDVSLLAS--LGWRAKTMLDEGL 283
               R  +     AS  +G+ A   L EGL
Sbjct: 279 ATLVRNRIGCPKKASSEIGFTATIDLREGL 308


>gi|300313479|ref|YP_003777571.1| UDP-galactose-4-epimerase
           [Herbaspirillum seropedicae SmR1]
          Length = 357

 Score = 57.8 bits (138), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 44/162 (27%), Positives = 76/162 (46%), Gaps = 13/162 (8%)

Query: 76  NVISGAHEAGVRRLMFLGSSCIYPRDCPQPIREEYLLTGPLEITNEPYAIAKIAGLKMCE 135
           N++  A +A V+R ++  SS  Y  D P   + E  +  PL     PYA+ K       +
Sbjct: 131 NMLVAARDARVKRFVYAASSSTYG-DHPGLPKVEDRIGKPLS----PYAVTKFVNELYAD 185

Query: 136 SYNRQYQTEYVTVMPTNLYGPNDNFDLATSHVLPALLRKAHEAKLGGEKRMVVWGSGKPM 195
            + R Y  + + +   N++G   N D A + V+P  +     A + GE+ + + G G+  
Sbjct: 186 VFARTYGLQTIGLRYFNIFGRRQNPDGAYAAVIPKWI----AAAIKGEQ-IYINGDGETS 240

Query: 196 REFLYVDDMADACVF---LMEQGVRNGAYNVGTGADVTIRDL 234
           R+F YVD+   A +     ++    N  YNV  G   T+++L
Sbjct: 241 RDFCYVDNAVQANLLAACTLQDEAANQVYNVAVGDRTTLKEL 282


  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
   0.321    0.138    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: 958,977
Number of extensions: 41034
Number of successful extensions: 130
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 3
Length of query: 295
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 210
Effective length of database: 1,217,395
Effective search space: 255652950
Effective search space used: 255652950
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 (21.8 bits)
S2: 130 (54.7 bits)