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= 0110.0001.p
         (370 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312866|ref|YP_003776958.1| DNA polymerase III subunit alph...   538   e-154
gi|300311573|ref|YP_003775665.1| DNA polymerase III subunit alph...   118   7e-28

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

 Score =  538 bits (1386), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 255/282 (90%), Positives = 268/282 (95%)

Query: 34  LPVVATHPIQFLSQDEFVAHEARTCIAEGEILANARRVRRFNEQQNFKTQAEMAELFADL 93
           LP VATHPIQF S +EF+AHEARTCIAEGEI+ANARRVRRFNEQQ FK+QAEM ELFADL
Sbjct: 199 LPCVATHPIQFQSPEEFIAHEARTCIAEGEIMANARRVRRFNEQQYFKSQAEMVELFADL 258

Query: 94  PGAVLNTIEIAKRCNLMLTLGKPQLPNFPTPDGMTIDDFLVAETKIGLEARLKHLYPDEA 153
           PGAV NT+EIAKRCNL+L LGKPQLP+FPTPDGMTIDDFLVA+TK GLE RLK L+P+EA
Sbjct: 259 PGAVANTVEIAKRCNLVLQLGKPQLPDFPTPDGMTIDDFLVAQTKAGLEVRLKELFPNEA 318

Query: 154 RREKERPRYEARLKFENDTIIKMKFPGYFLIVADFIQWAKNNGVPVGPGRGSGAGSLVAY 213
            REK+RPRYEARL+FEN+TIIKMKFPGYFLIVADFIQWAKNNGVPVGPGRGSGAGSLVAY
Sbjct: 319 EREKQRPRYEARLEFENNTIIKMKFPGYFLIVADFIQWAKNNGVPVGPGRGSGAGSLVAY 378

Query: 214 ALSITDLDPLEYNLLFERFLNPERVSMPDFDIDFCQEGRDRVIQYVKDRYGKEAVSQIAT 273
            L ITDLDPL YNLLFERFLNPERVSMPDFDIDFCQEGRDRVIQYVKDRYGKEAVSQIAT
Sbjct: 379 CLLITDLDPLRYNLLFERFLNPERVSMPDFDIDFCQEGRDRVIQYVKDRYGKEAVSQIAT 438

Query: 274 FGTMAAKGAVRDVGRVLDLGYNFCDGISKLIPFKPGKLVTLA 315
           FGTMAAKGAVRDVGRVLDLGYNFCDGISKLIPFKPGKLVTLA
Sbjct: 439 FGTMAAKGAVRDVGRVLDLGYNFCDGISKLIPFKPGKLVTLA 480


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

 Score =  118 bits (296), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 76/269 (28%), Positives = 128/269 (47%), Gaps = 12/269 (4%)

Query: 34  LPVVATHPIQFLSQDEFVAHEARTCIAEGEILANARRVRRFNEQQNFKTQAEMAELFADL 93
           LP+ A   +Q   +      +  T I  G+ +         N +Q+ +++  +       
Sbjct: 207 LPLAAVGDVQMHQRSRKYLQDVVTAIRLGQPVQECGHALAPNAEQHLRSRVRLG--MVHT 264

Query: 94  PGAVLNTIEIAKRCNLMLTLGKPQLPNFPTPDGMTIDDFLVAETKIGLEARLKHLYPDEA 153
           P  +  T+ IA  C   L   + + P+   P GM+  D+L  +T  G   R     P   
Sbjct: 265 PATLAQTLAIAADCRFSLAELRYEYPDELVPLGMSAADYLRQQTLAGAAKRYPQGLPGGV 324

Query: 154 RREKERPRYEARLKFENDTIIKMKFPGYFLIVADFIQWAKNNGVPVGPGRGSGAGSLVAY 213
           R +      EA L      I + ++  YFL V D +Q+A++ G+ +  GRGS A S V Y
Sbjct: 325 REQ-----IEAELAL----IAQKEYEAYFLTVYDLVQFARSRGI-LCQGRGSAANSAVCY 374

Query: 214 ALSITDLDPLEYNLLFERFLNPERVSMPDFDIDFCQEGRDRVIQYVKDRYGKEAVSQIAT 273
            L +T++DP    LLF RF++ +R   PD D+DF  + R+ VIQ++  +YG+   +  A 
Sbjct: 375 CLGVTEVDPTSTRLLFARFISEKREEPPDIDVDFEHQRREEVIQHIYRKYGRRRAALAAA 434

Query: 274 FGTMAAKGAVRDVGRVLDLGYNFCDGISK 302
             +   +GA+R+VG+ L +     D ++K
Sbjct: 435 VHSYRPRGALREVGKALGVDAAIVDAVAK 463


  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
   0.324    0.140    0.415 

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: 1,169,033
Number of extensions: 49189
Number of successful extensions: 123
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 122
Number of HSP's successfully gapped: 2
Length of query: 370
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 283
Effective length of database: 1,207,925
Effective search space: 341842775
Effective search space used: 341842775
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 131 (55.1 bits)