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= 0004.0105.p
         (303 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311594|ref|YP_003775686.1| exonuclease of the beta-lactama...   415   e-117

>gi|300311594|ref|YP_003775686.1| exonuclease of the beta-lactamase
           fold involved in RNA processing protein [Herbaspirillum
           seropedicae SmR1]
          Length = 355

 Score =  415 bits (1066), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 216/339 (63%), Positives = 233/339 (68%), Gaps = 64/339 (18%)

Query: 1   MSDMVVVRKEGLYCVPGDFHIDPWRPVDRAVITHAHADHARTGHGHYLATADGAGILRAR 60
           M DMVVVRKEGLYCVPGDF+IDPWRPV RAVITHAHADHAR GH HYLA A GA ILRAR
Sbjct: 1   MQDMVVVRKEGLYCVPGDFYIDPWRPVARAVITHAHADHARVGHAHYLAAAPGADILRAR 60

Query: 61  LG-EIRLDALRYGESITHNGVALSLHPAGHVLGSAQLRMEHRGEVWVASGDYKLERDGTC 119
           LG +I LD L YG S+THNGV LSLHPAGHVLGSAQLRMEH G+VWVASGDYKLE DGTC
Sbjct: 61  LGADIALDTLAYGASLTHNGVRLSLHPAGHVLGSAQLRMEHEGQVWVASGDYKLEADGTC 120

Query: 120 APFESVRCDTFITESTFGMPIYRWQPQAEIFDDINAWWRRNAAEGRTSVLFCYAFGKAQR 179
           APFE VRC TFITESTFGMPIYRWQPQAEIF++INAWWR NAA+GR SVLFCYAFGKAQR
Sbjct: 121 APFEPVRCHTFITESTFGMPIYRWQPQAEIFEEINAWWRANAAQGRASVLFCYAFGKAQR 180

Query: 180 ILHGLDPTIGSIVCHGAVTPLNALYREAGVALPPTLAV-----------GDVEDKAVLRQ 228
           ILHG+D +IG I+CHGAV PLN LYR+ GVALP T  V           G     +    
Sbjct: 181 ILHGIDASIGPIICHGAVAPLNRLYRQEGVALPETQTVNQGSPGSKSDGGKRSPSSAYAG 240

Query: 229 ALVLAPPS---------------------------------------------------- 236
           +LV+APPS                                                    
Sbjct: 241 SLVIAPPSAAGSPWMRRFGDYSDAFASGWMRLRGTRRRRGVDRGFVLSDHADWPALQQAI 300

Query: 237 XASGAARIIVTHGQIPIMVRWLQQNGLDAGAFDTEYGGE 275
            A+ A RIIVTHGQ+  MVRWL+QNGLDAGAF TEYG E
Sbjct: 301 AATQAERIIVTHGQVATMVRWLRQNGLDAGAFATEYGDE 339


  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    0.135    0.426 

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: 1,058,748
Number of extensions: 46858
Number of successful extensions: 154
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 153
Number of HSP's successfully gapped: 2
Length of query: 303
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 218
Effective length of database: 1,217,395
Effective search space: 265392110
Effective search space used: 265392110
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)