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= 0001.0463.p
         (309 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,...   299   2e-82
gi|300313483|ref|YP_003777575.1| NAD_dependent epimerase/dehydra...    75   6e-15
gi|300313479|ref|YP_003777571.1| UDP-galactose-4-epimerase [Herb...    61   1e-10

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

 Score =  299 bits (766), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 148/304 (48%), Positives = 212/304 (69%), Gaps = 3/304 (0%)

Query: 2   NKDAKIFVAGHRGMVGSAIVRYLNERGYSNVVVRTHAELDLTRQEAVTAFMESEKPDYVF 61
           ++DA IFVAGH G++GSAI+R L + GY  ++ RT A+L+L  ++ V AF E+E+PDYV 
Sbjct: 15  SRDASIFVAGHAGLIGSAILRALQQAGYRKLITRTRAQLELRDKQQVDAFFEAERPDYVM 74

Query: 62  LAAAKVGGINANDTYRAEFLYQNLMMECNVIHAAWQAGVQRMLFLGSSCIYPRDCPQPIR 121
           LAA KVGGI  N ++ A+F+  NL +  NV+ AA + GV+R++  GSSC+YPR+  QP+ 
Sbjct: 75  LAAGKVGGILENQSFPADFINANLAISLNVLEAAHRCGVKRLVMFGSSCMYPRETAQPMA 134

Query: 122 EEYLLTGPLEQTNEPYAIAKIAGVKLCESYNRQYGTQ-YVAAMPTNLYGPNDNYDLNNSH 180
           E  LL+G  E T+ PYAIAK+AGV+LC +YNRQYG Q ++  +P + YGPNDN+D  + H
Sbjct: 135 ETALLSGHPEPTSLPYAIAKLAGVQLCLAYNRQYGQQRFIPLIPNSAYGPNDNFDPKSGH 194

Query: 181 VLPALIRKAHEAKLRGDTEYVVWGSGKPMREFLYVDDLAAACVHLMESGVSGGL--FNIG 238
           VL +L+ + H+AKL G     +WGSG P REF++ DD+AAA + +M   +       N+G
Sbjct: 195 VLSSLMARFHQAKLDGAEAVTLWGSGTPRREFIHADDIAAAALLMMREQLPALTLPLNVG 254

Query: 239 TGEDITIRELAETVMEVIGFAGKIVFDASKPDGTPRKLLNVDRMKQAGWSAEVTLREGIR 298
           +G DI+IRELA+ +  V+G+ G++ +D+SKPDG  RKLL+   M Q GW  +V   EG+R
Sbjct: 255 SGSDISIRELAQAIAGVVGYEGRLEWDSSKPDGALRKLLDSSLMHQQGWRPQVGFAEGLR 314

Query: 299 RSYA 302
            +YA
Sbjct: 315 DTYA 318


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

 Score = 75.1 bits (183), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 60/212 (28%), Positives = 110/212 (51%), Gaps = 12/212 (5%)

Query: 90  NVIHAAWQAGVQRMLFLGSSCIYPRDCPQPIREEYLLTGPLEQTNEPYAIAKIAGVKLCE 149
           NV+ A    GV+R+++  S+ +Y     +P+ E++    P    N  Y   KIAG  +  
Sbjct: 109 NVMEACVAKGVKRLVYSSSASVYGDAVREPMDEDH----PYNNKNF-YGATKIAGETMLR 163

Query: 150 SYNRQYGTQYVAAMPTNLYGPNDNYDLNNSHVLPALIRKAHEAKLRGDTEYVVWGSGKPM 209
           S++ +YG  YV     N+YGP  +Y  + +++  A+I K  +A  +G++   + G G   
Sbjct: 164 SFHHRYGLNYVGLRYMNVYGPRQDY--HGAYI--AVIMKMLDAIDKGESP-TIMGDGSEA 218

Query: 210 REFLYVDDLAAACVHLMESGVSGGLFNIGTGEDITIRELAETVMEVIGFAGKIVFDASKP 269
            +F+ V+D   A V  M++  +   +N+GTG+  +++ELAE ++E+ G    I F     
Sbjct: 219 FDFVAVEDCGLANVCAMKAETADQYYNVGTGKRTSLKELAELLLEITGCDKPITFAPRSQ 278

Query: 270 DGTPRKLLNVDRM--KQAGWSAEVTLREGIRR 299
               R  +   +    + G++A + LREG++R
Sbjct: 279 ATLVRNRIGCPKKASSEIGFTATIDLREGLKR 310


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

 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 48/164 (29%), Positives = 79/164 (48%), Gaps = 17/164 (10%)

Query: 90  NVIHAAWQAGVQRMLFLGSSCIYPRDCPQPIREEYLLTGPLEQTNEPYAIAKIAGVKLCE 149
           N++ AA  A V+R ++  SS  Y  D P   + E  +  PL     PYA+ K       +
Sbjct: 131 NMLVAARDARVKRFVYAASSSTYG-DHPGLPKVEDRIGKPLS----PYAVTKFVNELYAD 185

Query: 150 SYNRQYGTQYVAAMPTNLYGPNDNYDLNNSHVLPALIRKAHEAKLRGDTEYVVWGSGKPM 209
            + R YG Q +     N++G   N D   + V+P  I     A ++G+  Y+  G G+  
Sbjct: 186 VFARTYGLQTIGLRYFNIFGRRQNPDGAYAAVIPKWI----AAAIKGEQIYIN-GDGETS 240

Query: 210 REFLYVD-----DLAAACVHLMESGVSGGLFNIGTGEDITIREL 248
           R+F YVD     +L AAC   ++   +  ++N+  G+  T++EL
Sbjct: 241 RDFCYVDNAVQANLLAACT--LQDEAANQVYNVAVGDRTTLKEL 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
   0.320    0.136    0.404 

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: 997,307
Number of extensions: 41976
Number of successful extensions: 131
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 3
Length of query: 309
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 224
Effective length of database: 1,217,395
Effective search space: 272696480
Effective search space used: 272696480
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)