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= 0004.0057.p
         (308 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313656|ref|YP_003777748.1| dTDP-4-dehydrorhamnose reductas...   314   6e-87
gi|300313503|ref|YP_003777595.1| dTDP-4-dehydrorhamnose reductas...    70   2e-13

>gi|300313656|ref|YP_003777748.1| dTDP-4-dehydrorhamnose reductase
           [Herbaspirillum seropedicae SmR1]
          Length = 312

 Score =  314 bits (804), Expect = 6e-87,   Method: Compositional matrix adjust.
 Identities = 156/295 (52%), Positives = 202/295 (68%), Gaps = 3/295 (1%)

Query: 1   LKILLTGQTGQLGHVLAQDMQFLGQVICPSHTEMDLMQPDQIRSFIRAIRPDLIINPAAY 60
           ++ILLTG +GQLG VL   +   G+++ PS  E+DL     ++SF++  RP LI+N AAY
Sbjct: 1   MRILLTGASGQLGQVLQPMLARHGELLAPSSRELDLADRQALQSFLQQARPGLIVNAAAY 60

Query: 61  TAVDKAESEVSLATRINAEAPMILAQEAQALDAGFIHFSTDYVFDGEKTAPYTERDQPYP 120
           TAVDKAES+V+ A  +NA APMILAQ+AQ L A  +HFSTDYVFDG+   PY E D   P
Sbjct: 61  TAVDKAESDVARAEAVNALAPMILAQQAQMLGAPLVHFSTDYVFDGKSARPYVETDPTGP 120

Query: 121 SNIYGKTKLEGEQAIAEQSDAYWIFRTSWVYGAHGSNFLKTIVRLAQERESLHVVADQIG 180
            N+YG+TKL GEQ IA   DAYWI RTSWVYG +GSNFLKT+ RLA ERE L VV DQIG
Sbjct: 121 LNVYGRTKLAGEQGIAAHCDAYWILRTSWVYGCYGSNFLKTMWRLAGEREYLTVVDDQIG 180

Query: 181 APTWTKTISQTLQQCLRQRPENISLTAYLRENTGIYHLTADGETSWHGYAQHIVRQLAAL 240
           APTWT TI+ TL + L            +R+ TG+YHL+A G TSWHG+AQ I++ L A 
Sbjct: 181 APTWTHTIADTLARMLAH---GADAQQSVRDTTGLYHLSAGGATSWHGFAQRILQLLRAQ 237

Query: 241 DFQLSLKTNAILEVATSGHPSAARRPANSRLNTNKIREKFNIALPLWHEAVDQCL 295
                L    +  +A+  +P+ A+RP NSRL+T  +R  F+++LP W EA+++CL
Sbjct: 238 GETALLDPALVRPIASDAYPAIAQRPRNSRLDTGLLRRTFSLSLPTWEEALERCL 292


>gi|300313503|ref|YP_003777595.1| dTDP-4-dehydrorhamnose reductase
           [Herbaspirillum seropedicae SmR1]
          Length = 285

 Score = 70.5 bits (171), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 55/175 (31%), Positives = 80/175 (45%), Gaps = 26/175 (14%)

Query: 1   LKILLTGQTGQLG----HVLAQDMQFLGQVIC------------PSHTEMDLMQPDQIRS 44
           +K+L+ G +G +G    HVL+Q     G  +C            P  T +DL   D +  
Sbjct: 1   MKVLVLGASGMIGRTMFHVLSQRP---GWEVCAIVRAKTFEVGAPVVTGIDLSNQDHMER 57

Query: 45  FIRAIRPDLIINPAAYTA-VDKAESEVSLATRINAEAPMILAQEAQALDAGFIHFSTDYV 103
                RPD+++N A  T  + +  + +   T +NA  P  LAQ     DA  IH STD V
Sbjct: 58  LFAQRRPDVVVNCAGLTKHLPEGNAHIPALT-MNALLPHRLAQLCDIADARLIHVSTDCV 116

Query: 104 FDGEKTAPYTERDQPYPSNIYGKTKLEGEQAIAEQSDAYWIFRTSWVYGAHGSNF 158
           F G+    Y E+D P  +++YG+TK  GE             RTS +   HG+ F
Sbjct: 117 FSGD-AGNYKEQDTPDATDVYGRTKALGEVTAGNA----LTLRTSTIGHEHGTQF 166


  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
   0.318    0.131    0.387 

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: 918,234
Number of extensions: 35700
Number of successful extensions: 127
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 2
Length of query: 308
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 223
Effective length of database: 1,217,395
Effective search space: 271479085
Effective search space used: 271479085
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 130 (54.7 bits)