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= 0001.3813.p
         (380 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313203|ref|YP_003777295.1| A/G-specific adenine glycosylas...   689   0.0  
gi|300310949|ref|YP_003775041.1| endonuclease III protein [Herba...    58   1e-09

>gi|300313203|ref|YP_003777295.1| A/G-specific adenine glycosylase
           [Herbaspirillum seropedicae SmR1]
          Length = 378

 Score =  689 bits (1777), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 335/380 (88%), Positives = 354/380 (93%), Gaps = 2/380 (0%)

Query: 1   MKGIVESRRKTAAPGDATGEQYEDPSFAAAVIAWQKQHGRHQLPWQNTRDAYRVWLSEIM 60
           MKG+VESRRK  AP  A   QYEDPSF+AAVIAWQKQHGRH+LPWQNTRDAYRVWLSEIM
Sbjct: 1   MKGVVESRRK--APASAEAGQYEDPSFSAAVIAWQKQHGRHKLPWQNTRDAYRVWLSEIM 58

Query: 61  LQQTQVAAVIPYYQRFLERCPDVFALASSPSEEVMALWSGLGYYTRARNLHKCAQRVVEQ 120
           LQQTQVAAVIPYYQRFLERCPDVFALA++PSE+VMALWSGLGYYTRARNLHKCAQRVVEQ
Sbjct: 59  LQQTQVAAVIPYYQRFLERCPDVFALAAAPSEDVMALWSGLGYYTRARNLHKCAQRVVEQ 118

Query: 121 YGGRFPDDPALLAELPGIGRSTAAAIAAFSYGRRAAILDGNVKRVFARVFGIDGYPGAKP 180
           YGGRFPDDP LLA+LPGIGRSTAAAIAAFSYGRRAAILDGNVKRVFARVFGIDGYPGAKP
Sbjct: 119 YGGRFPDDPDLLADLPGIGRSTAAAIAAFSYGRRAAILDGNVKRVFARVFGIDGYPGAKP 178

Query: 181 IEDKLWLRAVALLPDEDIESYTQGLMDLGATLCVRGKPSCGRCPLAGRCVALAEDRVGEL 240
           IEDKLWLRAVALLPD+DIESYTQGLMDLGATLCVRGKP+C RCPLAGRCVALA+DRV EL
Sbjct: 179 IEDKLWLRAVALLPDQDIESYTQGLMDLGATLCVRGKPACERCPLAGRCVALAQDRVAEL 238

Query: 241 PVSKPKKAVPEKETVMLVITQGADVLLEQRPDSGIWGGLLSLPEIGVSDAVRFDSAVRTL 300
           PVSKPKKAVPE+ETVMLVIT G DVLLEQRPDSGIWGGLLSLPEI V  A +FD+AVRTL
Sbjct: 239 PVSKPKKAVPERETVMLVITHGEDVLLEQRPDSGIWGGLLSLPEIAVGGAAQFDTAVRTL 298

Query: 301 VAPYGELEGCRKLQPFSHVFTHFKLHVAPFQVALKSRTLHIAERGLVWYPTRKLADAPLP 360
           VAPYGEL+GCRKLQPFSHVFTHFKLHVAPFQVA++SR+  IAE  LVWYP  +L +APLP
Sbjct: 299 VAPYGELQGCRKLQPFSHVFTHFKLHVAPFQVAMQSRSQRIAEGALVWYPVARLGEAPLP 358

Query: 361 APVKKLLLGVLHSDDLLAAV 380
           APVKKLLLG L SDDLLA V
Sbjct: 359 APVKKLLLGALRSDDLLATV 378


>gi|300310949|ref|YP_003775041.1| endonuclease III protein
           [Herbaspirillum seropedicae SmR1]
          Length = 216

 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/155 (24%), Positives = 75/155 (48%), Gaps = 13/155 (8%)

Query: 83  VFALASSPS-------EEVMALWSGLGYY-TRARNLHKCAQRVVEQYGGRFPDDPALLAE 134
           ++ +A++P        +++M     +G Y T+A+N+ +  + ++E++GG+ P+    L  
Sbjct: 54  LYPVANTPEAIYRMGVDQLMPYIQTIGLYRTKAKNVIETCRILIEEHGGQVPESREALEA 113

Query: 135 LPGIGRSTAAAIAAFSYGRRAAILDGNVKRVFARVFGIDGYPGAKPIEDKLWLRAVALLP 194
           LPG+GR TA  +   ++G     +D ++ RV  R     G    K + D++  + +  + 
Sbjct: 114 LPGVGRKTANVVLNTAFGHPTIAVDTHIFRVSNRT----GLAPGKDV-DEVERKLIKFVA 168

Query: 195 DEDIESYTQGLMDLGATLCVRGKPSCGRCPLAGRC 229
            E  +     L+  G   C+  KP C  C +A  C
Sbjct: 169 PEFRQDAHHWLILHGRYTCIARKPQCWNCIIADLC 203


  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
   0.321    0.137    0.423 

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: 1,224,972
Number of extensions: 53643
Number of successful extensions: 133
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 131
Number of HSP's successfully gapped: 2
Length of query: 380
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 293
Effective length of database: 1,207,925
Effective search space: 353922025
Effective search space used: 353922025
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 (21.9 bits)
S2: 131 (55.1 bits)