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= 0177.0004.p         (182 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mll3697 [K] COG1595 DNA-directed RNA polymerase specialized sigm...   215   4e-56
SMc01506 [K] COG1595 DNA-directed RNA polymerase specialized sig...   211   5e-55
BMEI0371 [K] COG1595 DNA-directed RNA polymerase specialized sig...   209   3e-54
AGl1386 [K] COG1595 DNA-directed RNA polymerase specialized sigm...   199   3e-51
SMb21484 [K] COG1595 DNA-directed RNA polymerase specialized sig...   142   4e-34

>mll3697 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Mlo Mesorhizobium loti
          Length = 183

 Score =  215 bits (548), Expect = 4e-56,   Method: Compositional matrix adjust.
 Identities = 100/176 (56%), Positives = 133/176 (75%)

Query: 3   LTNELRDDILASVPSLRAFAISLSGNGDRADDLVQETLLRAIANIDSFQPGSNLPAWLFT 62
           ++   + D+L ++PSLRAFA+SL+ N D+ADDLVQETL++A    +SFQPG+NL AWLFT
Sbjct: 4   VSQGFKTDLLGAIPSLRAFAVSLTQNADKADDLVQETLVKAWDKHESFQPGTNLKAWLFT 63

Query: 63  ILRNLFRSDYRKRRREVEDAEGNYAKTLKSQPSQAAHLEFEEFRAALEKLPQDQREALIL 122
           ILRN F S  RKR REV+D++G     L   P+Q   L+ ++FR ALE+LP+DQREA+IL
Sbjct: 64  ILRNEFYSQMRKRGREVQDSDGIMTARLAVHPAQHGQLDLKDFRGALEQLPEDQREAIIL 123

Query: 123 VGASGFSYEDAAAICGCAVGTIKSRVNRARSKLSALLYVDSAEDFGPDNTVRAVIG 178
           +GASGFSYE+AA ICGCAVGTIKSRV+RAR++L  +L +   +++GPD     V G
Sbjct: 124 IGASGFSYEEAAEICGCAVGTIKSRVSRARTRLQEILKISGEDEYGPDAISAQVTG 179


>SMc01506 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Sme Sinorhizobium meliloti
          Length = 184

 Score =  211 bits (538), Expect = 5e-55,   Method: Compositional matrix adjust.
 Identities = 100/168 (59%), Positives = 128/168 (76%)

Query: 5   NELRDDILASVPSLRAFAISLSGNGDRADDLVQETLLRAIANIDSFQPGSNLPAWLFTIL 64
            E + ++LA++PSLRAFA+SL G  DRADDLVQ+T+++A A  D F+ G+N+ AWLFTIL
Sbjct: 6   QEFKREMLAALPSLRAFAMSLIGRHDRADDLVQDTIMKAWAKQDHFEIGTNMKAWLFTIL 65

Query: 65  RNLFRSDYRKRRREVEDAEGNYAKTLKSQPSQAAHLEFEEFRAALEKLPQDQREALILVG 124
           RN   S  RKR REV+D++G+  +TL   P Q   L+ ++FR ALE+LP DQREA+ILVG
Sbjct: 66  RNELYSQMRKRGREVQDSDGHLTETLAHHPEQYGSLDLQDFRRALEQLPPDQREAIILVG 125

Query: 125 ASGFSYEDAAAICGCAVGTIKSRVNRARSKLSALLYVDSAEDFGPDNT 172
           ASGFSYE+AA ICGCA+GTIKSRVNRAR +L  +L V    D+GPD T
Sbjct: 126 ASGFSYEEAATICGCALGTIKSRVNRARQRLQEILQVRGENDYGPDET 173


>BMEI0371 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Bme Brucella melitensis
          Length = 190

 Score =  209 bits (532), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 97/167 (58%), Positives = 132/167 (79%)

Query: 4   TNELRDDILASVPSLRAFAISLSGNGDRADDLVQETLLRAIANIDSFQPGSNLPAWLFTI 63
           T   + ++LAS+PSLRAFA+SL G  DRADDLVQ+T+++A A  +SF+ G+N+ AWLFTI
Sbjct: 12  TPPFKRELLASLPSLRAFAVSLIGQHDRADDLVQDTIMKAWAKQESFEVGTNMKAWLFTI 71

Query: 64  LRNLFRSDYRKRRREVEDAEGNYAKTLKSQPSQAAHLEFEEFRAALEKLPQDQREALILV 123
           LRN F +  RKR REV+D +G +++ L   PSQ   L+ ++FRAAL++LP DQREA+IL+
Sbjct: 72  LRNEFYTQMRKRGREVQDTDGMFSEQLAVHPSQYGTLDLQDFRAALDQLPDDQREAIILI 131

Query: 124 GASGFSYEDAAAICGCAVGTIKSRVNRARSKLSALLYVDSAEDFGPD 170
           GASGF+YE+AA ICGCAVGTIKSRV+RAR++L  +L ++   D+GPD
Sbjct: 132 GASGFAYEEAAEICGCAVGTIKSRVSRARARLQEILQIEGEADYGPD 178


>AGl1386 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Atu Agrobacterium tumefaciens strain C58
           (Cereon)
          Length = 189

 Score =  199 bits (506), Expect = 3e-51,   Method: Compositional matrix adjust.
 Identities = 96/170 (56%), Positives = 127/170 (74%)

Query: 7   LRDDILASVPSLRAFAISLSGNGDRADDLVQETLLRAIANIDSFQPGSNLPAWLFTILRN 66
            + ++LA++P+LRAFAISL  + DRADDLVQ+T+++A A  DSFQPG+N+ AWL TILRN
Sbjct: 13  FKREMLAALPNLRAFAISLIRSRDRADDLVQDTIMKAWAKQDSFQPGTNMRAWLVTILRN 72

Query: 67  LFRSDYRKRRREVEDAEGNYAKTLKSQPSQAAHLEFEEFRAALEKLPQDQREALILVGAS 126
            F S  RK  REV+D +G Y   L   P Q   ++ ++FR AL KLP DQREA++L+GAS
Sbjct: 73  EFYSQIRKSGREVQDTDGVYTSRLSVPPEQHGSVDLQDFRTALAKLPDDQREAILLIGAS 132

Query: 127 GFSYEDAAAICGCAVGTIKSRVNRARSKLSALLYVDSAEDFGPDNTVRAV 176
           GF+YE+AA ICGC VGTIKSRV+RAR +L  LL +++  +FGPD  + AV
Sbjct: 133 GFAYEEAAEICGCPVGTIKSRVSRARLRLQELLGIENENEFGPDAQMSAV 182


>SMb21484 [K] COG1595 DNA-directed RNA polymerase specialized sigma subunit,
           sigma24 homolog Sme Sinorhizobium meliloti
          Length = 173

 Score =  142 bits (358), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 70/154 (45%), Positives = 103/154 (66%)

Query: 7   LRDDILASVPSLRAFAISLSGNGDRADDLVQETLLRAIANIDSFQPGSNLPAWLFTILRN 66
           L + ++  +P+LRAFA + +     ADDLVQETLLRA+ +I+ F+PG++L +WLFTI+RN
Sbjct: 15  LEEQVVDLIPALRAFARTFTSASFEADDLVQETLLRALRSIEQFEPGTSLKSWLFTIMRN 74

Query: 67  LFRSDYRKRRREVEDAEGNYAKTLKSQPSQAAHLEFEEFRAALEKLPQDQREALILVGAS 126
            FR+ Y+ R RE   +       + + PSQ   +   E R+AL  L  + RE L+LV   
Sbjct: 75  AFRTQYKIRTRESPGSTNCAELPIPTAPSQEWSVLNGELRSALGALSPEHREVLVLVAGF 134

Query: 127 GFSYEDAAAICGCAVGTIKSRVNRARSKLSALLY 160
           G SY++AA IC CA+GTIKSR++RAR +L+A ++
Sbjct: 135 GMSYKEAADICDCAIGTIKSRLSRARDELTAQMH 168