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= 0038.0048.p
         (323 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 ...   385   e-108
gi|300313137|ref|YP_003777229.1| phosphomethylpyrimidine kinase ...   112   4e-26

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

 Score =  385 bits (988), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 204/278 (73%), Positives = 224/278 (80%), Gaps = 10/278 (3%)

Query: 47  MTTSYRPAPPCVLVFSGSDPSGGAGMQADIPAISALGCHPLSVPTALTVQDNVSVFAVHP 106
           M  +YR  PPCVLVFSGSDPSGGAGMQADIPAI+ALGCHPLSVPTALTVQDNVSVFAVH 
Sbjct: 1   MQAAYRSTPPCVLVFSGSDPSGGAGMQADIPAITALGCHPLSVPTALTVQDNVSVFAVHA 60

Query: 107 IDAELIRHQAQVLIDRFDIRAVKLGIAGNRRNAETIVELILQLRSRRPDLPVVVDPVLAS 166
           +D EL+RHQAQVLIDRFDI AVKLGIAG+R NAE I +LI QLR R P LPVV+DPVLA+
Sbjct: 61  LDPELVRHQAQVLIDRFDIAAVKLGIAGSRENAEVIADLIRQLRERNPQLPVVLDPVLAN 120

Query: 167 GHGNRLSTDDPAQAIAPLYAVATVILPNLNEADRLCGGEHGREAQAAILMQRGCEHVLLK 226
           G G++LS DD  + I PLY +ATVI PNLNEA RLCG     + QAA+LM RGC HVLLK
Sbjct: 121 GKGDQLSRDDAVRVIEPLYELATVITPNLNEARRLCGDVEPTQ-QAALLMARGCAHVLLK 179

Query: 227 GGHGPQEEDVVNRWFG-------PEGA--GASWRWPRLPDEFHGTGCTLAAALSAMLAHG 277
           GGHGPQE+DV+NRW+G        E A   A WRW RLPDEFHG+GCTLAAALSA LA G
Sbjct: 180 GGHGPQEQDVINRWYGQLFRSEFAEEAIETARWRWTRLPDEFHGSGCTLAAALSACLARG 239

Query: 278 LGMRDAIDAAQHYCQHALATSYAIAPGQRIPNRVPLHE 315
           L MR AI+ AQHY QHALATSYAIA GQRIP+RVP  E
Sbjct: 240 LPMRQAIELAQHYTQHALATSYAIADGQRIPHRVPAFE 277


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

 Score =  112 bits (280), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 90/265 (33%), Positives = 138/265 (52%), Gaps = 17/265 (6%)

Query: 55  PPCVLVFSGSDPSGGAGMQADIPAISALGCHPLSVPTALTVQDNVSVFAVHPIDAELIRH 114
           PP +L F  +DP G  G+QAD+   +A+GCH LSV T+L + D   V  V  ++ + +  
Sbjct: 6   PPLILSFGAADPVGATGVQADLATYAAMGCHGLSVITSLLIGDTARVEDVQVVEVDWVAD 65

Query: 115 QAQVLIDRFDIRAVKLGIAGNRRNAETIVELILQLRSRRPDLPVVVDPVLASGHGNRLST 174
           QA+V+++   + A K+G  G+  N   I E++    S  PD+P+++DP   S   N+   
Sbjct: 66  QARVILEDMAVAAFKVGNVGSIENISVIAEIV----SDYPDVPLILDP-FTSALANQEDE 120

Query: 175 DDPAQAIAPLYA-VATVILPNLNEADRLCGGEHGRE--------AQAAILMQRGCEHVLL 225
           DD   AI  L    AT+++ +  E  RL   E  RE          A  +++ GCE++L+
Sbjct: 121 DDRLIAIRELLIPQATLMVASAGELARLA--ETWREPVPGDALMLDAMRIIEMGCEYLLV 178

Query: 226 KGGHGPQEEDVVNRWFGPEGAGASWRWPRLPDEFHGTGCTLAAALSAMLAHGLGMRDAID 285
                  +E + N  F   G      W RLP  F G G TL+AA++AMLA+GL +  A  
Sbjct: 179 TNTQTDLQE-IANSLFDESGLVRQDAWQRLPGSFVGAGTTLSAAMAAMLANGLEVPLAAA 237

Query: 286 AAQHYCQHALATSYAIAPGQRIPNR 310
            AQ +   ALA +  I  G+ +P+R
Sbjct: 238 EAQEFTLAALANAQRIGMGKLVPDR 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    0.137    0.422 

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: 1,014,401
Number of extensions: 41656
Number of successful extensions: 138
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 2
Length of query: 323
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 238
Effective length of database: 1,217,395
Effective search space: 289740010
Effective search space used: 289740010
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: 131 (55.1 bits)