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= 0184.0085.p         (130 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

mlr7753 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega...   171   4e-43
SMc02408 [K] COG1758 DNA-directed RNA polymerase, subunit K/omeg...   162   2e-40
BMEI1297 [K] COG1758 DNA-directed RNA polymerase, subunit K/omeg...   154   5e-38
AGc1894 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega...   139   2e-33
CC1552 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega ...   107   9e-24

>mlr7753 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Mlo
           Mesorhizobium loti
          Length = 133

 Score =  171 bits (433), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 86/129 (66%), Positives = 104/129 (80%), Gaps = 5/129 (3%)

Query: 1   MARVTVEDCIDKVDNRFDLVLLAAHRARMISSGSQLTVDRDNDKNPVVSLREIADSTISP 60
           MARVTVEDCIDKVDNRF+LVLLA HRAR IS G+Q+TV RDNDKNPV++LREIAD T+SP
Sbjct: 1   MARVTVEDCIDKVDNRFELVLLAGHRARQISQGAQITVPRDNDKNPVIALREIADETLSP 60

Query: 61  EDLKEELVHSLQKFVEVDEPEPDTVPLIGSAGASVDADDTE-----VAVERMTEEELLKG 115
           +DLKE+L+HSLQK VEVDEPE D   +    GA+V A +T+     +  +RMTEE+LL G
Sbjct: 61  DDLKEDLIHSLQKHVEVDEPEADGEVIADQTGAAVAATETDDAEDNITFDRMTEEDLLAG 120

Query: 116 LEGLAPPEE 124
           +EGL PPE+
Sbjct: 121 IEGLVPPEK 129


>SMc02408 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Sme
           Sinorhizobium meliloti
          Length = 135

 Score =  162 bits (409), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 83/131 (63%), Positives = 102/131 (77%), Gaps = 7/131 (5%)

Query: 1   MARVTVEDCIDKVDNRFDLVLLAAHRARMISSGSQLTVDRDNDKNPVVSLREIADSTISP 60
           MARVTVEDCIDKV+NRF+LVLLA+HRAR++S G+ +TVDRDNDKNPVV+LREIAD T+SP
Sbjct: 1   MARVTVEDCIDKVENRFELVLLASHRARLVSQGAPITVDRDNDKNPVVALREIADETLSP 60

Query: 61  EDLKEELVHSLQKFVEVDEPEPDTVPLIGS-------AGASVDADDTEVAVERMTEEELL 113
            DLKE+L+HSLQK VEVDEPEPD   L+ +         A  +     +  +RM+EEELL
Sbjct: 61  GDLKEDLIHSLQKHVEVDEPEPDPASLVQTEAAPAFAEAAEEEDQPEALTFDRMSEEELL 120

Query: 114 KGLEGLAPPEE 124
            G+EGL PPE+
Sbjct: 121 AGIEGLVPPEK 131


>BMEI1297 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Bme
           Brucella melitensis
          Length = 133

 Score =  154 bits (389), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 80/130 (61%), Positives = 99/130 (76%), Gaps = 5/130 (3%)

Query: 1   MARVTVEDCIDKVDNRFDLVLLAAHRARMISSGSQLTVDRDNDKNPVVSLREIADSTISP 60
           MARVTVEDC+DKV+NRF+LVLLA HRAR IS G+ +TVDRDNDKNPVV+LREIAD T+SP
Sbjct: 1   MARVTVEDCVDKVENRFELVLLAGHRARQISQGAPITVDRDNDKNPVVALREIADETLSP 60

Query: 61  EDLKEELVHSLQKFVEVDEPEPDTVPLIG-----SAGASVDADDTEVAVERMTEEELLKG 115
           +DLKE+L+HSLQK VEVDEPE     +       + G +   ++  V  +RM+EEELL G
Sbjct: 61  DDLKEDLIHSLQKHVEVDEPEAAPAQIANAAEEIAEGIAEAGEEDVVTFDRMSEEELLAG 120

Query: 116 LEGLAPPEEQ 125
           +EGL  PE+ 
Sbjct: 121 IEGLVAPEKN 130


>AGc1894 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Atu
           Agrobacterium tumefaciens strain C58 (Cereon)
          Length = 110

 Score =  139 bits (350), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 72/107 (67%), Positives = 85/107 (79%), Gaps = 1/107 (0%)

Query: 20  VLLAAHRARMISSGSQLTVDRDNDKNPVVSLREIADSTISPEDLKEELVHSLQKFVEVDE 79
           +LLA+HRAR IS GS +TVDRDNDKNPVV+LREIAD T+SP+DLKE+L+HSLQK VEVDE
Sbjct: 1   MLLASHRARQISQGSSITVDRDNDKNPVVALREIADETLSPDDLKEDLIHSLQKHVEVDE 60

Query: 80  PEPDTVPLIGSAGASVDADDTE-VAVERMTEEELLKGLEGLAPPEEQ 125
           PEPD V L  SA    D D  E V  ++M+EEELL G+EGL PPE+ 
Sbjct: 61  PEPDPVTLAASAADGEDDDQPETVTFDQMSEEELLAGIEGLVPPEKN 107


>CC1552 [K] COG1758 DNA-directed RNA polymerase, subunit K/omega Ccr
          Caulobacter vibrioides
          Length = 119

 Score =  107 bits (266), Expect = 9e-24,   Method: Compositional matrix adjust.
 Identities = 52/73 (71%), Positives = 61/73 (83%)

Query: 1  MARVTVEDCIDKVDNRFDLVLLAAHRARMISSGSQLTVDRDNDKNPVVSLREIADSTISP 60
          MARVTVEDC++KV NRF LVLL+AHRAR IS+G+ L VDRDNDKNPVV+LREIAD  I  
Sbjct: 1  MARVTVEDCVEKVPNRFALVLLSAHRARGISAGAALMVDRDNDKNPVVALREIADDVIDH 60

Query: 61 EDLKEELVHSLQK 73
          E LKE L+ +LQ+
Sbjct: 61 EGLKEHLISTLQR 73