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= 0005.0420.p         (67 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSc2154 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega...   128   3e-30
NMB1660 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega...    80   8e-16
NMA1918 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega...    80   8e-16
XF1502 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega ...    73   1e-13
PA5337 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega ...    69   3e-12

>RSc2154 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Rso
          Ralstonia solanacearum
          Length = 67

 Score =  128 bits (322), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 59/67 (88%), Positives = 66/67 (98%)

Query: 1  MARITIEDCLKQIPNRFQLTLSATYRARQLLQGHTPKVDAKDKPTVTALREIAAGKVGVE 60
          MARIT+EDCLKQIPNRF+L L+ATYRARQL+QGHTPKVDAKDKPTVTALREIAAG+VG+E
Sbjct: 1  MARITVEDCLKQIPNRFELALAATYRARQLVQGHTPKVDAKDKPTVTALREIAAGQVGIE 60

Query: 61 MLKKVPA 67
          MLKKVP+
Sbjct: 61 MLKKVPS 67


>NMB1660 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Nme
          Neisseria meningitidis MC58
          Length = 68

 Score = 80.5 bits (197), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 41/66 (62%), Positives = 47/66 (71%), Gaps = 2/66 (3%)

Query: 1  MARITIEDCLKQIPNRFQLTLSATYRARQLLQGHTPKVDA--KDKPTVTALREIAAGKVG 58
          MARIT EDC  +I N F LTL A  RARQL  G+TP VD    +KPTVTALREIAAG +G
Sbjct: 1  MARITTEDCTGKISNHFDLTLVAARRARQLENGNTPLVDDVRNNKPTVTALREIAAGHIG 60

Query: 59 VEMLKK 64
           E+L +
Sbjct: 61 TELLTR 66


>NMA1918 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega NmA
          Neisseria meningitidis Z2491
          Length = 68

 Score = 80.5 bits (197), Expect = 8e-16,   Method: Compositional matrix adjust.
 Identities = 41/66 (62%), Positives = 47/66 (71%), Gaps = 2/66 (3%)

Query: 1  MARITIEDCLKQIPNRFQLTLSATYRARQLLQGHTPKVDA--KDKPTVTALREIAAGKVG 58
          MARIT EDC  +I N F LTL A  RARQL  G+TP VD    +KPTVTALREIAAG +G
Sbjct: 1  MARITTEDCTGKISNHFDLTLVAARRARQLENGNTPLVDDVRNNKPTVTALREIAAGHIG 60

Query: 59 VEMLKK 64
           E+L +
Sbjct: 61 TELLTR 66


>XF1502 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Xfa
          Xylella fastidiosa 9a5c
          Length = 99

 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 35/68 (51%), Positives = 49/68 (72%), Gaps = 3/68 (4%)

Query: 1  MARITIEDCLKQIPNRFQLTLSATYRARQLLQGHTP---KVDAKDKPTVTALREIAAGKV 57
          MARIT+EDCL+ + NRF+L + A+ RARQL  G  P     +++DKPTV ALREIAA K+
Sbjct: 1  MARITVEDCLEVVNNRFELVMMASKRARQLANGVPPLIENTNSEDKPTVLALREIAARKI 60

Query: 58 GVEMLKKV 65
            +M+ ++
Sbjct: 61 DSKMIDEI 68


>PA5337 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Pae
          Pseudomonas aeruginosa
          Length = 88

 Score = 68.6 bits (166), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 36/66 (54%), Positives = 47/66 (71%), Gaps = 2/66 (3%)

Query: 1  MARITIEDCLKQIPNRFQLTLSATYRARQLLQ-GHTPKVDAK-DKPTVTALREIAAGKVG 58
          MAR+T+EDCL  + NRF+L + AT RARQL   G  PKV  + DKPTV ALREIA+G V 
Sbjct: 1  MARVTVEDCLDNVDNRFELVMLATKRARQLATGGKEPKVAWENDKPTVVALREIASGLVD 60

Query: 59 VEMLKK 64
            ++++
Sbjct: 61 ENVVQQ 66