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= 0064.0003.p
         (290 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311573|ref|YP_003775665.1| DNA polymerase III subunit alph...   314   4e-87
gi|300312866|ref|YP_003776958.1| DNA polymerase III subunit alph...   115   4e-27

>gi|300311573|ref|YP_003775665.1| DNA polymerase III subunit alpha
           [Herbaspirillum seropedicae SmR1]
          Length = 942

 Score =  314 bits (805), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 156/235 (66%), Positives = 180/235 (76%)

Query: 39  DDLHRGAIQEAAGRCGLPVVALGQVNMHVRSRKPLQDTLTAIRLGKAVGDCGYDLAPNAE 98
           DDLHR A++ A  R GLP+ A+G V MH RSRK LQD +TAIRLG+ V +CG+ LAPNAE
Sbjct: 191 DDLHRAALEAATRRHGLPLAAVGDVQMHQRSRKYLQDVVTAIRLGQPVQECGHALAPNAE 250

Query: 99  QHLRSRLRLANIFPAAALEETLRIASLCHFKLDELRYEYPEELVPEGQTPAAYLRQEAYL 158
           QHLRSR+RL  +   A L +TL IA+ C F L ELRYEYP+ELVP G + A YLRQ+   
Sbjct: 251 QHLRSRVRLGMVHTPATLAQTLAIAADCRFSLAELRYEYPDELVPLGMSAADYLRQQTLA 310

Query: 159 GAHLRYPAGIPESVSGQIEHELTLINDMAYEPYFLTVYDIVRFAKDNGILRQGRGSAANS 218
           GA  RYP G+P  V  QIE EL LI    YE YFLTVYD+V+FA+  GIL QGRGSAANS
Sbjct: 311 GAAKRYPQGLPGGVREQIEAELALIAQKEYEAYFLTVYDLVQFARSRGILCQGRGSAANS 370

Query: 219 VVCYCLGVTEVDPTCSTMLFERFISKERGEPPDIDVDFEHQRREEVIQYIYRKYG 273
            VCYCLGVTEVDPT + +LF RFIS++R EPPDIDVDFEHQRREEVIQ+IYRKYG
Sbjct: 371 AVCYCLGVTEVDPTSTRLLFARFISEKREEPPDIDVDFEHQRREEVIQHIYRKYG 425


>gi|300312866|ref|YP_003776958.1| DNA polymerase III subunit alpha
           [Herbaspirillum seropedicae SmR1]
          Length = 1152

 Score =  115 bits (288), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 76/249 (30%), Positives = 120/249 (48%), Gaps = 14/249 (5%)

Query: 52  RCGLPVVALGQVNMHVRSRKPLQDTLTAIRLGKAVGDCGYDLAPNAEQHLRSRLRLANIF 111
           + GLP VA   +           +  T I  G+ + +       N +Q+ +S+  +  +F
Sbjct: 196 KLGLPCVATHPIQFQSPEEFIAHEARTCIAEGEIMANARRVRRFNEQQYFKSQAEMVELF 255

Query: 112 P--AAALEETLRIASLCHFKLDELRYEYPEELVPEGQTPAAYLRQEAYLGAHLRYPAGIP 169
                A+  T+ IA  C+  L   + + P+   P+G T   +L  +   G  +R     P
Sbjct: 256 ADLPGAVANTVEIAKRCNLVLQLGKPQLPDFPTPDGMTIDDFLVAQTKAGLEVRLKELFP 315

Query: 170 ESVS---------GQIEHELTLINDMAYEPYFLTVYDIVRFAKDNGI-LRQGRGSAANSV 219
                         ++E E   I  M +  YFL V D +++AK+NG+ +  GRGS A S+
Sbjct: 316 NEAEREKQRPRYEARLEFENNTIIKMKFPGYFLIVADFIQWAKNNGVPVGPGRGSGAGSL 375

Query: 220 VCYCLGVTEVDPTCSTMLFERFISKERGEPPDIDVDFEHQRREEVIQYIYRKYGR--XSQ 277
           V YCL +T++DP    +LFERF++ ER   PD D+DF  + R+ VIQY+  +YG+   SQ
Sbjct: 376 VAYCLLITDLDPLRYNLLFERFLNPERVSMPDFDIDFCQEGRDRVIQYVKDRYGKEAVSQ 435

Query: 278 TARRAVRAA 286
            A     AA
Sbjct: 436 IATFGTMAA 444


  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    0.406 

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: 845,681
Number of extensions: 34556
Number of successful extensions: 72
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 71
Number of HSP's successfully gapped: 2
Length of query: 290
Length of database: 1,619,870
Length adjustment: 84
Effective length of query: 206
Effective length of database: 1,222,130
Effective search space: 251758780
Effective search space used: 251758780
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)