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= 0020.0046.p
         (288 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309770|ref|YP_003773862.1| phosphomethylpyrimidine kinase ...   576   e-166
gi|300313137|ref|YP_003777229.1| phosphomethylpyrimidine kinase ...   108   5e-25

>gi|300309770|ref|YP_003773862.1| phosphomethylpyrimidine kinase
           [Herbaspirillum seropedicae SmR1]
          Length = 288

 Score =  576 bits (1484), Expect = e-166,   Method: Compositional matrix adjust.
 Identities = 284/288 (98%), Positives = 285/288 (98%)

Query: 1   MQAAYRSTPPCVLVFSGSDPSGGAGMQADIPAITALGCHPLSVPTALTVQDNVSVFAVHA 60
           MQAAYRSTPPCVLVFSGSDPSGGAGMQADIPAITALGCHPLSVPTALTVQDNVSVFAVHA
Sbjct: 1   MQAAYRSTPPCVLVFSGSDPSGGAGMQADIPAITALGCHPLSVPTALTVQDNVSVFAVHA 60

Query: 61  LDPELVRHQAQVLIDRFDIAAVKLGIAGSRENAEVIAALIRQLRERNPQLPVVLDPVLAN 120
           LDPELVRHQAQVLIDRFDIAAVKLGIAGSRENAEVIA LIRQLRERNPQLPVVLDPVLAN
Sbjct: 61  LDPELVRHQAQVLIDRFDIAAVKLGIAGSRENAEVIADLIRQLRERNPQLPVVLDPVLAN 120

Query: 121 GKGDQLSRDDAARVIEPLYELATVITPNLNEARRLCGDVEPTQQAALLMARGCAHVLLKG 180
           GKGDQLSRDDA RVIEPLYELATVITPNLNEARRLCGDVEPTQQAALLMARGCAHVLLKG
Sbjct: 121 GKGDQLSRDDAVRVIEPLYELATVITPNLNEARRLCGDVEPTQQAALLMARGCAHVLLKG 180

Query: 181 GHGPQEQDVINRWYGQLFRSEFAEEAIETARWRWTRLPDEFHGSGCTLAAALSACLARGL 240
           GHGPQEQDVINRWYGQLFRSEFAEEAIETARWRWTRLPDEFHGSGCTLAAALSACLARGL
Sbjct: 181 GHGPQEQDVINRWYGQLFRSEFAEEAIETARWRWTRLPDEFHGSGCTLAAALSACLARGL 240

Query: 241 PMRQAIELAQHYTQHALATSYAIADGQRIPNRVPAFEPVVDAAPAAGA 288
           PMRQAIELAQHYTQHALATSYAIADGQRIP+RVPAFE VVDAAPAAGA
Sbjct: 241 PMRQAIELAQHYTQHALATSYAIADGQRIPHRVPAFEAVVDAAPAAGA 288


>gi|300313137|ref|YP_003777229.1| phosphomethylpyrimidine kinase
           [Herbaspirillum seropedicae SmR1]
          Length = 282

 Score =  108 bits (270), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 93/275 (33%), Positives = 139/275 (50%), Gaps = 27/275 (9%)

Query: 8   TPPCVLVFSGSDPSGGAGMQADIPAITALGCHPLSVPTALTVQDNVSVFAVHALDPELVR 67
           TPP +L F  +DP G  G+QAD+    A+GCH LSV T+L + D   V  V  ++ + V 
Sbjct: 5   TPPLILSFGAADPVGATGVQADLATYAAMGCHGLSVITSLLIGDTARVEDVQVVEVDWVA 64

Query: 68  HQAQVLIDRFDIAAVKLGIAGSRENAEVIAALIRQLRERNPQLPVVLDPVLANGKGDQLS 127
            QA+V+++   +AA K+G  GS EN  VIA ++       P +P++LDP   +   +Q  
Sbjct: 65  DQARVILEDMAVAAFKVGNVGSIENISVIAEIVSDY----PDVPLILDP-FTSALANQED 119

Query: 128 RDDAARVI-EPLYELATVITPNLNEARRLCGDV-EPTQQAALLM------ARGCAHVLLK 179
            DD    I E L   AT++  +  E  RL     EP    AL++        GC ++L+ 
Sbjct: 120 EDDRLIAIRELLIPQATLMVASAGELARLAETWREPVPGDALMLDAMRIIEMGCEYLLVT 179

Query: 180 GGHGPQEQDVINRWYGQ--LFRSEFAEEAIETARWRWTRLPDEFHGSGCTLAAALSACLA 237
                  Q++ N  + +  L R +            W RLP  F G+G TL+AA++A LA
Sbjct: 180 NTQ-TDLQEIANSLFDESGLVRQD-----------AWQRLPGSFVGAGTTLSAAMAAMLA 227

Query: 238 RGLPMRQAIELAQHYTQHALATSYAIADGQRIPNR 272
            GL +  A   AQ +T  ALA +  I  G+ +P+R
Sbjct: 228 NGLEVPLAAAEAQEFTLAALANAQRIGMGKLVPDR 262


  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    0.134    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: 968,140
Number of extensions: 40592
Number of successful extensions: 151
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 149
Number of HSP's successfully gapped: 2
Length of query: 288
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 204
Effective length of database: 1,222,130
Effective search space: 249314520
Effective search space used: 249314520
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)