BLASTP 2.2.21 [Jun-14-2009]

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= 0001.0096.p         (205 letters)

Database: COGmodified 
           192,987 sequences; 59,019,183 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

BS_dinG_1 [L] COG0847 DNA polymerase III, epsilon subunit and re...   119   6e-27
DR0856 [L] COG0847 DNA polymerase III, epsilon subunit and relat...   117   2e-26
BH1691_1 [L] COG0847 DNA polymerase III, epsilon subunit and rel...   112   6e-25
aq_932 [L] COG0847 DNA polymerase III, epsilon subunit and relat...   108   1e-23
FN0281 [L] COG2176 DNA polymerase III, alpha subunit (gram-posit...   106   3e-23

>BS_dinG_1 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5'
           exonucleases Bsu Bacillus subtilis
          Length = 220

 Score =  119 bits (297), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 62/169 (36%), Positives = 97/169 (57%), Gaps = 1/169 (0%)

Query: 4   QPVVMLDFETTGLSPAQGARITEVAALRIVDGRVVERFVSLINCGAEVPYEITVLTGITQ 63
           Q  V++D ETTG SP +G +I ++AA+ I +G++ ERF   IN    +P  I  LTGI+ 
Sbjct: 4   QRFVVIDVETTGNSPKKGDKIIQIAAVVIENGQITERFSKYINPNKSIPAFIEQLTGISN 63

Query: 64  DMVDSAPPVERVLPELLRFIGSDALAAHNASFDAKFLAAEAERLDLQAGYSELVCSLLLS 123
            MV++  P E V  E+ + +      AHN  FD  F+  E  +   Q    E++ ++ LS
Sbjct: 64  QMVENEQPFEAVAEEVFQLLDGAYFVAHNIHFDLGFVKYELHKAGFQLPDCEVLDTVELS 123

Query: 124 RRLLPGLSSYRLSSLADSLGIRFSGHAHRAEADAEVSAELLLHLSERLR 172
           R + PG   Y+L+ L++ L +R     HRA++DAEV+  + L + E+LR
Sbjct: 124 RIVFPGFEGYKLTELSEELQLR-HDQPHRADSDAEVTGLIFLEILEKLR 171


>DR0856 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5'
           exonucleases Dra Deinococcus radiodurans
          Length = 197

 Score =  117 bits (292), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 70/177 (39%), Positives = 104/177 (58%), Gaps = 10/177 (5%)

Query: 4   QPVVMLDFETTGLSPAQGARITEVAALRIVDGRVVE--RFVSLINC----GA--EVPYEI 55
           Q VV+ D ETTG SPA  A I E+ A+RIV G++ E  +F +L+      G+   +P++ 
Sbjct: 21  QDVVVFDLETTGFSPASAA-IVEIGAVRIVGGQIDETLKFETLVRPTRPDGSLLSIPWQA 79

Query: 56  TVLTGITQDMVDSAPPVERVLPELLRFIGSDALAAHNASFDAKFLAAEAERLDLQAGYSE 115
             + GI+ +MV  AP ++ VLP+   F+   A+ AHN SFD  F+ A AERL L      
Sbjct: 80  QRVHGISDEMVRRAPAIKDVLPDFFDFVDGSAVVAHNVSFDGGFMRAGAERLGLSWAPER 139

Query: 116 LVCSLLLSRRLLPGLSSYRLSSLADSLGIRFS-GHAHRAEADAEVSAELLLHLSERL 171
            +C++ LSRR  P   ++ L+ LA+ LG+ F+ G  HR+  D +V+A+  L L E L
Sbjct: 140 ELCTMQLSRRAFPRERTHNLTVLAERLGLEFAPGGRHRSYGDVQVTAQAYLRLLELL 196


>BH1691_1 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5'
           exonucleases Bha Bacillus halodurans
          Length = 226

 Score =  112 bits (280), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 66/165 (40%), Positives = 95/165 (57%), Gaps = 9/165 (5%)

Query: 2   INQPVVMLDFETTGLSPAQGARITEVAALRIVDGRVVERFVSLINCGAEVPYEITVLTGI 61
           +N   V++D ETTG S AQG RI E+ A+ I D   VE F +L+N    +P  I  LTGI
Sbjct: 1   MNNRFVVIDIETTGQSVAQGDRIIEIGAVVIEDEEAVESFCTLVNPERSIPPFIEELTGI 60

Query: 62  TQDMVDSAPPVERVLPELLRFIGSDALAAHNASFDAKFLAAEAERLDLQAGYSELVCSLL 121
           + +MV  AP   + +PEL+  +      AHN  FD  FL    ++L    GY  L+  ++
Sbjct: 61  SDEMVKGAPTFHQCIPELMSMLEGGVFVAHNVHFDLSFL----QKLLEHEGYGPLLVPII 116

Query: 122 ----LSRRLLPGLSSYRLSSLADSLGIRFSGHAHRAEADAEVSAE 162
               LSR LLP   SY+LS+L + LG+    + HRA++DA+V+A+
Sbjct: 117 DTVELSRILLPTEESYKLSALTEQLGLEHE-NPHRADSDAKVTAD 160


>aq_932 [L] COG0847 DNA polymerase III, epsilon subunit and related 3'-5'
           exonucleases Aae Aquifex aeolicus
          Length = 202

 Score =  108 bits (269), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 55/171 (32%), Positives = 96/171 (56%), Gaps = 2/171 (1%)

Query: 1   VINQPVVMLDFETTGLSPAQGARITEVAALRIVDGRVVERFVSLINCGAEVPYEITVLTG 60
           +++   V++D E TG    + + + ++AA+R+  G + E+F +L+  G  +P  I  LTG
Sbjct: 14  LLDGTFVVIDLEATGFD-VEKSEVIDLAAVRVEGGIITEKFSTLVYPGYFIPERIKKLTG 72

Query: 61  ITQDMVDSAPPVERVLPELLRFIGSDALAAHNASFDAKFLAAEAERLDLQAGYSELVCSL 120
           IT  M+   P +E VLPE L F+G + +  H    D KF+    ++   +   +  +C+L
Sbjct: 73  ITNAMLVGQPTIEEVLPEFLEFVGDNIVVGHFVEQDIKFINKYTKQYRGKKFRNPSLCTL 132

Query: 121 LLSRRLLPGLSSYRLSSLADSLGIRFSGHAHRAEADAEVSAELLLHLSERL 171
            L+R++ PGL  Y L  +A++ G   +G  HRA  DA ++AE+ + + E L
Sbjct: 133 KLARKVFPGLKKYSLKEIAENFGFETNG-VHRALKDATLTAEIFIKILEEL 182


>FN0281 [L] COG2176 DNA polymerase III, alpha subunit (gram-positive type)
           Fnu Fusobacterium nucleatum
          Length = 1454

 Score =  106 bits (265), Expect = 3e-23,   Method: Composition-based stats.
 Identities = 58/166 (34%), Positives = 95/166 (57%), Gaps = 8/166 (4%)

Query: 3   NQPVVMLDFETTGLSPAQGARITEVAALRIVDGRVVERFVSLINCGAEVPYEITVLTGIT 62
           ++  V+ D ETTGL+ +    I E+ A++I  GR+V+R+  LIN G  +PY IT +T IT
Sbjct: 424 DEEFVVFDIETTGLN-SHTNEIIEIGAVKIKAGRIVDRYSQLINPGRPIPYHITEITSIT 482

Query: 63  QDMVDSAPPVERVLPELLRFIGSDALAAHNASFDAKFLAAEAER---LDLQAGYSELVCS 119
            + V + P ++ V+ + + FIG   L AHNA FD  F+  + ++   +D Q     ++ +
Sbjct: 483 DEQVANEPKIDEVIGKFVDFIGDAVLVAHNAPFDMGFIKRDIKKYLNIDYQC---SVIDT 539

Query: 120 LLLSRRLLPGLSSYRLSSLADSLGIRFSGHAHRAEADAEVSAELLL 165
           L ++R L P L  Y L  L  +LG+    H HRA  D++ +A + +
Sbjct: 540 LQMARDLFPDLKKYGLGDLNKTLGLALEKH-HRAVDDSQATANMFI 584