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= 042232
         (144 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|A6TWJ0|RPOB_ALKMQ DNA-directed RNA polymerase subunit beta OS=Alkaliphilus
           metalliredigens (strain QYMF) GN=rpoB PE=3 SV=1
          Length = 1246

 Score = 31.2 bits (69), Expect = 2.0,   Method: Composition-based stats.
 Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 12/66 (18%)

Query: 33  NTLF-NIKRFDLARLSSSQFTKGSCSLSNNLITNVHGVGHANFHSIVTCKKAPSNGRVML 91
           NTLF + KR+DLA++   +F+K   SL+N +++          H        P  G +++
Sbjct: 255 NTLFFDAKRYDLAKVGRYKFSK-KLSLANRIMS----------HKAAENVSDPQTGEILV 303

Query: 92  IDGTSI 97
            +GT I
Sbjct: 304 EEGTKI 309


>sp|P0A550|DPO1_MYCTU DNA polymerase I OS=Mycobacterium tuberculosis GN=polA PE=3 SV=1
          Length = 904

 Score = 30.8 bits (68), Expect = 2.6,   Method: Composition-based stats.
 Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 4/33 (12%)

Query: 77  IVTCKKAPSNGR----VMLIDGTSIIYRAYYKI 105
           +VT   APS  R    +ML+DG S+ +RA+Y +
Sbjct: 1   MVTTASAPSEDRAKPTLMLLDGNSLAFRAFYAL 33


>sp|P0A551|DPO1_MYCBO DNA polymerase I OS=Mycobacterium bovis (strain ATCC BAA-935 /
           AF2122/97) GN=polA PE=3 SV=1
          Length = 904

 Score = 30.8 bits (68), Expect = 2.6,   Method: Composition-based stats.
 Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 4/33 (12%)

Query: 77  IVTCKKAPSNGR----VMLIDGTSIIYRAYYKI 105
           +VT   APS  R    +ML+DG S+ +RA+Y +
Sbjct: 1   MVTTASAPSEDRAKPTLMLLDGNSLAFRAFYAL 33


>sp|C1F933|GCST_ACIC5 Aminomethyltransferase OS=Acidobacterium capsulatum (strain ATCC
           51196 / DSM 11244 / JCM 7670) GN=gcvT PE=3 SV=1
          Length = 378

 Score = 30.4 bits (67), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 1/58 (1%)

Query: 30  RTGNTLFNIKRFDLARLSSSQFTKGS-CSLSNNLITNVHGVGHANFHSIVTCKKAPSN 86
           R   TL  +   DLA + + +FT G+ C+L N LI      G   F   +   +A S 
Sbjct: 158 RAAETLAKLTSVDLAAIKNYRFTWGTVCNLHNTLIARTGYTGEDGFEIYIPSDEATSE 215


>sp|P54161|EX53_BACSU 5'-3' exonuclease OS=Bacillus subtilis (strain 168) GN=ypcP PE=1
           SV=1
          Length = 296

 Score = 30.0 bits (66), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 85  SNGRVMLIDGTSIIYRAYYKILLHHGHLSHADGNGDWVLTIFSALSLIIDVLEFIPSHVV 144
           +N +++L+DG ++++RA++   +H   + +  G     +  F    LI  V  F P+HVV
Sbjct: 2   NNNKLLLVDGMALLFRAFFATAVHRNFMINDSGVPTNGVNGFLK-HLITAVETFQPTHVV 60


>sp|Q89AD1|EX53_BUCBP 5'-3' exonuclease OS=Buchnera aphidicola subsp. Baizongia pistaciae
           (strain Bp) GN=pol PE=3 SV=1
          Length = 302

 Score = 29.6 bits (65), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 18/33 (54%)

Query: 85  SNGRVMLIDGTSIIYRAYYKILLHHGHLSHADG 117
            N   +LIDGTS +YRAYY  L    + +   G
Sbjct: 6   KNVNYLLIDGTSYLYRAYYAFLKFKNNFNKPCG 38


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.325    0.137    0.426 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 53,901,977
Number of Sequences: 539616
Number of extensions: 2002147
Number of successful extensions: 5132
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 5131
Number of HSP's gapped (non-prelim): 7
length of query: 144
length of database: 191,569,459
effective HSP length: 106
effective length of query: 38
effective length of database: 134,370,163
effective search space: 5106066194
effective search space used: 5106066194
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)