BLASTP 2.2.26 [Sep-21-2011]


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= 006744
         (632 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Ca
          Length = 501

 Score = 35.0 bits (79), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 52/240 (21%), Positives = 95/240 (39%), Gaps = 38/240 (15%)

Query: 162 LSRNNLFRAADQVPELMDSQ--------GRIAEMLEILEKMRRNLCKPDVFAYTAMIRVL 213
           LSR    +A  Q PE +  Q        G + E L + ++ RRN  +   + Y  ++ V 
Sbjct: 12  LSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVC 71

Query: 214 AAERNLDACLRVWEEMKKDLVEADVMAYVTLIMGLCKGGRVVRGHELFREMKENGILIDR 273
           +                  L EA   +      GL       RG ++F++M  + ++ + 
Sbjct: 72  S------------------LAEAATESSPN--PGLS------RGFDIFKQMIVDKVVPNE 105

Query: 274 AIYGVLIEGLVGEGKVGKACDLLKDLVDSGYRADLGIYNSIIGGLCRVKQFDKAYKLFEV 333
           A +       V +     A D++K +   G +  L  Y   + G CR    DKAY++   
Sbjct: 106 ATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAH 165

Query: 334 TVQDDLAPDFSTVNPLLVCCAEMGRMDNFFKLLAQMEKLKFSVAAD----LEKFFEFLVG 389
            V+ ++ P+   +  LL    +    D  +K L ++  L   V+      +E++F+  V 
Sbjct: 166 MVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEVA 225


>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana With Mn
 pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
           A. Thaliana, Semet Substituted Form With Sr
          Length = 501

 Score = 32.0 bits (71), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 47/219 (21%), Positives = 83/219 (37%), Gaps = 34/219 (15%)

Query: 162 LSRNNLFRAADQVPELMDSQ--------GRIAEMLEILEKMRRNLCKPDVFAYTAMIRVL 213
           LSR    +A  Q PE +  Q        G + E L + ++ RRN  +   + Y  ++ V 
Sbjct: 12  LSRKAKKKAIQQSPEALLKQKLDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVC 71

Query: 214 AAERNLDACLRVWEEMKKDLVEADVMAYVTLIMGLCKGGRVVRGHELFREMKENGILIDR 273
           +                  L EA   +      GL       RG ++F++   + ++ + 
Sbjct: 72  S------------------LAEAATESSPN--PGLS------RGFDIFKQXIVDKVVPNE 105

Query: 274 AIYGVLIEGLVGEGKVGKACDLLKDLVDSGYRADLGIYNSIIGGLCRVKQFDKAYKLFEV 333
           A +       V +     A D +K     G +  L  Y   + G CR    DKAY++   
Sbjct: 106 ATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAH 165

Query: 334 TVQDDLAPDFSTVNPLLVCCAEMGRMDNFFKLLAQMEKL 372
            V+ ++ P+   +  LL    +    D  +K L ++  L
Sbjct: 166 XVESEVVPEEPELAALLKVSXDTKNADKVYKTLQRLRDL 204


>pdb|1KO7|A Chain A, X-Ray Structure Of The Hpr KinasePHOSPHATASE FROM
           Staphylococcus Xylosus At 1.95 A Resolution
 pdb|1KO7|B Chain B, X-Ray Structure Of The Hpr KinasePHOSPHATASE FROM
           Staphylococcus Xylosus At 1.95 A Resolution
          Length = 314

 Score = 31.6 bits (70), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 18/40 (45%), Positives = 23/40 (57%)

Query: 258 HELFREMKENGILIDRAIYGVLIEGLVGEGKVGKACDLLK 297
           HEL R    +G+L+D    GVLI G  G GK   A +L+K
Sbjct: 127 HELARTTSLHGVLVDVYGVGVLITGDSGIGKSETALELIK 166


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.322    0.138    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,778,166
Number of Sequences: 62578
Number of extensions: 731662
Number of successful extensions: 1860
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1849
Number of HSP's gapped (non-prelim): 13
length of query: 632
length of database: 14,973,337
effective HSP length: 105
effective length of query: 527
effective length of database: 8,402,647
effective search space: 4428194969
effective search space used: 4428194969
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (25.4 bits)