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= 0023.0043.p
         (275 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313137|ref|YP_003777229.1| phosphomethylpyrimidine kinase ...   405   e-114
gi|300309770|ref|YP_003773862.1| phosphomethylpyrimidine kinase ...   120   2e-28

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

 Score =  405 bits (1042), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 214/275 (77%), Positives = 248/275 (90%), Gaps = 2/275 (0%)

Query: 1   VQNQTSPLILTFGAADPVGATGIQADLATFAAMGCHGLSIITSILVGDTARIEDIQVIDV 60
           +QNQT PLIL+FGAADPVGATG+QADLAT+AAMGCHGLS+ITS+L+GDTAR+ED+QV++V
Sbjct: 1   MQNQTPPLILSFGAADPVGATGVQADLATYAAMGCHGLSVITSLLIGDTARVEDVQVVEV 60

Query: 61  DWMADQARVILEDMPVAAFKVGAVGSIENISAIAEIVSDYPDIPLILDPFITAMPSQEGD 120
           DW+ADQARVILEDM VAAFKVG VGSIENIS IAEIVSDYPD+PLILDPF +A+ +QE D
Sbjct: 61  DWVADQARVILEDMAVAAFKVGNVGSIENISVIAEIVSDYPDVPLILDPFTSALANQE-D 119

Query: 121 DDDNLIAIRELLIPQTTLMLASAVELNRLAETWREPVPSDALQLDAMRIVEMGCEYLFVT 180
           +DD LIAIRELLIPQ TLM+ASA EL RLAETWREPVP DAL LDAMRI+EMGCEYL VT
Sbjct: 120 EDDRLIAIRELLIPQATLMVASAGELARLAETWREPVPGDALMLDAMRIIEMGCEYLLVT 179

Query: 181 GMPGGDTHEVANALFDESGVIRRDSWQRLPGSFTGAGSTLSAAICAMLANGLEIPEAVSE 240
                D  E+AN+LFDESG++R+D+WQRLPGSF GAG+TLSAA+ AMLANGLE+P A +E
Sbjct: 180 NTQ-TDLQEIANSLFDESGLVRQDAWQRLPGSFVGAGTTLSAAMAAMLANGLEVPLAAAE 238

Query: 241 AQEFTLAALAHAQRLGMGKLIPDRYFWARENDAPN 275
           AQEFTLAALA+AQR+GMGKL+PDRYFWARE++ P 
Sbjct: 239 AQEFTLAALANAQRIGMGKLVPDRYFWARESEDPT 273


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

 Score =  120 bits (300), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 87/273 (31%), Positives = 137/273 (50%), Gaps = 21/273 (7%)

Query: 5   TSPLILTFGAADPVGATGIQADLATFAAMGCHGLSIITSILVGDTARIEDIQVIDVDWMA 64
           T P +L F  +DP G  G+QAD+    A+GCH LS+ T++ V D   +  +  +D + + 
Sbjct: 8   TPPCVLVFSGSDPSGGAGMQADIPAITALGCHPLSVPTALTVQDNVSVFAVHALDPELVR 67

Query: 65  DQARVILEDMPVAAFKVGAVGSIENISAIAEIVSDY----PDIPLILDPFITAMPSQEGD 120
            QA+V+++   +AA K+G  GS EN   IA+++       P +P++LDP +      +  
Sbjct: 68  HQAQVLIDRFDIAAVKLGIAGSRENAEVIADLIRQLRERNPQLPVVLDPVLANGKGDQLS 127

Query: 121 DDDNLIAIRELLIPQTTLMLASAVELNRLAETWREPVPSDALQLDAMRIVEMGCEYLFVT 180
            DD +  I E L    T++  +  E  RL     EP    AL      ++  GC ++ + 
Sbjct: 128 RDDAVRVI-EPLYELATVITPNLNEARRLCGDV-EPTQQAAL------LMARGCAHVLLK 179

Query: 181 GMPGGDTHEVANALF---------DESGVIRRDSWQRLPGSFTGAGSTLSAAICAMLANG 231
           G  G    +V N  +         +E+    R  W RLP  F G+G TL+AA+ A LA G
Sbjct: 180 GGHGPQEQDVINRWYGQLFRSEFAEEAIETARWRWTRLPDEFHGSGCTLAAALSACLARG 239

Query: 232 LEIPEAVSEAQEFTLAALAHAQRLGMGKLIPDR 264
           L + +A+  AQ +T  ALA +  +  G+ IP R
Sbjct: 240 LPMRQAIELAQHYTQHALATSYAIADGQRIPHR 272


  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    0.135    0.395 

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: 911,734
Number of extensions: 38568
Number of successful extensions: 123
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 119
Number of HSP's successfully gapped: 2
Length of query: 275
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 191
Effective length of database: 1,222,130
Effective search space: 233426830
Effective search space used: 233426830
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)