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= 0004.0087.p
         (736 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312369|ref|YP_003776461.1| nucleoside-diphosphate-sugar ep...   585   e-168
gi|300312367|ref|YP_003776459.1| translation elongation factor P...   390   e-109
gi|300310345|ref|YP_003774437.1| UDP-glucose 4-epimerase [Herbas...   132   1e-31

>gi|300312369|ref|YP_003776461.1| nucleoside-diphosphate-sugar
           epimerase [Herbaspirillum seropedicae SmR1]
          Length = 324

 Score =  585 bits (1508), Expect = e-168,   Method: Compositional matrix adjust.
 Identities = 286/292 (97%), Positives = 288/292 (98%)

Query: 443 LTGRDGQPQEIKRITLLDVVPAQGFTDPRIEAVTGDIADAAVIERVITPETQSIFHLAAI 502
           LTGRDGQPQ IKRITLLDV PAQGF DPRIEAVTGDIADAAVIERVIT ETQSIFHLAAI
Sbjct: 26  LTGRDGQPQAIKRITLLDVAPAQGFDDPRIEAVTGDIADAAVIERVITAETQSIFHLAAI 85

Query: 503 VSGHAEADFDLGMKINFDATRVILERARALGTKPRVVFTSSVAVFGGELPAVVPDNTLLM 562
           VSGHAEADFDLGMKINFDATRVILERARALG+KPRVVFTSSVAVFGGELPAVVPDNTLLM
Sbjct: 86  VSGHAEADFDLGMKINFDATRVILERARALGSKPRVVFTSSVAVFGGELPAVVPDNTLLM 145

Query: 563 PQSSYGAQKVMGELLVQDYSRKGFIDGRALRMPTISVRPGAPNKAASSFASGIIREPLNG 622
           PQSSYGAQKVMGELLVQDYSRKGFIDGRALRMPTISVRPGAPNKAASSFASGIIREPLNG
Sbjct: 146 PQSSYGAQKVMGELLVQDYSRKGFIDGRALRMPTISVRPGAPNKAASSFASGIIREPLNG 205

Query: 623 QPSVCPVTPDTRMWLMSPRQAIANLIHGHEINGADLGLARFLSIDGLCVTVKDMVEALEQ 682
           QPSVCPVTPDTRMWLMSPRQAIANLIHGHEINGADLGLARFLSIDGLCVTVK+MVEALEQ
Sbjct: 206 QPSVCPVTPDTRMWLMSPRQAIANLIHGHEINGADLGLARFLSIDGLCVTVKEMVEALEQ 265

Query: 683 VAGKEVVQLIEWKEDEAIKRIVNSWPGAFEAKRAKALGFTADANFADIIRAH 734
           VAGKEVVQLIEWKEDEAIKRIVNSWPGAFEAKRAKALGFTADANFADIIRAH
Sbjct: 266 VAGKEVVQLIEWKEDEAIKRIVNSWPGAFEAKRAKALGFTADANFADIIRAH 317


>gi|300312367|ref|YP_003776459.1| translation elongation factor P
           (EF-P)/translation initiation factor 5A [Herbaspirillum
           seropedicae SmR1]
          Length = 191

 Score =  390 bits (1002), Expect = e-109,   Method: Composition-based stats.
 Identities = 188/191 (98%), Positives = 190/191 (99%)

Query: 1   MKFAKEIRVGNIIMVDSKPMIVLRSDVNGSSRTGFTYKWKMKNLLTNSPQESVFRGDDKF 60
           MKFAKEIRVGNIIMVDSKPMIVLRSDVNGSSRTGFTYKWKMKNLLTNSP ESVFRGDDKF
Sbjct: 1   MKFAKEIRVGNIIMVDSKPMIVLRSDVNGSSRTGFTYKWKMKNLLTNSPLESVFRGDDKF 60

Query: 61  DVVVLDKKPVTYSYFADPLFVFMDEEYNQYEIEGENMGDAIGYLKDGMQCEAVFYDGKAI 120
           DVVVLDKKPVTYSYFADPL+VFMDEEYNQYEIEGENMGDAIGYLKDGMQCEAVFY+GKAI
Sbjct: 61  DVVVLDKKPVTYSYFADPLYVFMDEEYNQYEIEGENMGDAIGYLKDGMQCEAVFYEGKAI 120

Query: 121 SVEMPTTIVRKVAYSEPAVKGNTSGNVLKEAKIENAIEANQITVMVPLFVSQDDDIEIDT 180
           SVEMPTTIVRKVAYSEPAVKGNTSGNVLKEAKIENAIEANQITVMVPLFVSQDDDIEIDT
Sbjct: 121 SVEMPTTIVRKVAYSEPAVKGNTSGNVLKEAKIENAIEANQITVMVPLFVSQDDDIEIDT 180

Query: 181 RTNEYKKVVRG 191
           RTNEYKKVVRG
Sbjct: 181 RTNEYKKVVRG 191


>gi|300310345|ref|YP_003774437.1| UDP-glucose 4-epimerase
           [Herbaspirillum seropedicae SmR1]
          Length = 320

 Score =  132 bits (332), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 87/285 (30%), Positives = 145/285 (50%), Gaps = 8/285 (2%)

Query: 454 KRITLLDVVPAQ-GFTDPRIEAVTGDIADAAVIERVITPETQSIFHLAAIVSGHAEADFD 512
           +RI+ L V+  Q G T P +  + G++ DA V  +++       FHLAA+  G AEAD  
Sbjct: 29  RRISSLAVLDRQLGETAPDMVRIEGNLQDAQVQAQIVAFGADLCFHLAALPGGAAEADPA 88

Query: 513 LGMKINFDATRVILE---RARALGTKPRVVFTSSVAVFGGELPAVVPDNTLLMPQSSYGA 569
           L  ++N DAT  + E   R       P VV+ S++AV+G +LP  V   T   P   YGA
Sbjct: 89  LSRRVNLDATLDLFELLARRDPATPPPVVVYASTIAVYGLDLPDPVTPATPPRPALIYGA 148

Query: 570 QKVMGELLVQDYSRKGFIDGRALRMPTISVRPGAPNKAASSFASGIIREPLNGQPSVCPV 629
            K+  E+L+ DY+R+G +DGR+LR+P I  RP A +   S+F S ++     G+   CPV
Sbjct: 149 HKLACEILLADYTRRGLLDGRSLRLPGIVARPRAASGLVSAFMSELLHALAAGELFTCPV 208

Query: 630 TPDTRMWLMSPRQAIANLIHGHEIN---GADLGLARFLSIDGLCVTVKDMVEALEQVAGK 686
            P    W MS ++   NL+H   ++     +   AR   +  L +++  +V  L  + G 
Sbjct: 209 GPQATAWWMSAQRCAENLLHAASMDPTRDPEGAAARVWPLPVLRLSIAQVVATLSALYGV 268

Query: 687 EVVQLIEWKEDEAIKRIVNSWPGAFEAKRAKALGFTADANFADII 731
           +   L+ +     ++ +   +P   + + A+ LG   D +  +++
Sbjct: 269 DGQALVRYAPQPQVEAVFGRYP-RLDDRAARQLGLRDDGSVQEMV 312


  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
   0.319    0.134    0.389 

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: 2,162,016
Number of extensions: 86300
Number of successful extensions: 231
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 230
Number of HSP's successfully gapped: 3
Length of query: 736
Length of database: 1,619,870
Length adjustment: 92
Effective length of query: 644
Effective length of database: 1,184,250
Effective search space: 762657000
Effective search space used: 762657000
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: 134 (56.2 bits)