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= 0005.0095.p         (143 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

RSc1229 [J] COG0566 rRNA methylases Rso Ralstonia solanacearum        164   4e-41
NMA1127 [J] COG0566 rRNA methylases NmA Neisseria meningitidis Z...   105   3e-23
NMB0931 [J] COG0566 rRNA methylases Nme Neisseria meningitidis MC58   105   4e-23
XF1985 [J] COG0566 rRNA methylases Xfa Xylella fastidiosa 9a5c         83   2e-16
PA4936 [J] COG0566 rRNA methylases Pae Pseudomonas aeruginosa          82   4e-16

>RSc1229 [J] COG0566 rRNA methylases Rso Ralstonia solanacearum
          Length = 249

 Score =  164 bits (416), Expect = 4e-41,   Method: Compositional matrix adjust.
 Identities = 78/117 (66%), Positives = 96/117 (82%)

Query: 1   MIFGFHAVTSRIRHEASSVEELYVDADRNDARMRDLLHAAKAAGVRIIQADDQRLSNIVG 60
           ++ GFHAVT+R+RH+A S++E+Y +A+R D RM+D L AA+AAGVR+I AD++RL  I G
Sbjct: 6   LLIGFHAVTARLRHDARSIDEIYFEANRRDRRMQDFLKAAEAAGVRMIPADNERLRGIAG 65

Query: 61  TRRHQGVVAKAGELSLARNLDELLDVVEGPPLLLILDGITDPHNLGACLRVGGGGGG 117
           T RHQGVVAKA  LSLA NLDELLD +EGPPLLL+LDG+TDPHNLGACLRV    G 
Sbjct: 66  TDRHQGVVAKAEALSLALNLDELLDGIEGPPLLLVLDGVTDPHNLGACLRVADAAGA 122


>NMA1127 [J] COG0566 rRNA methylases NmA Neisseria meningitidis Z2491
          Length = 261

 Score =  105 bits (262), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 57/118 (48%), Positives = 73/118 (61%), Gaps = 6/118 (5%)

Query: 2   IFGFHAVTSRIRHEASSVEELYVDADRNDARMRDLLHAAKAAGVRIIQADDQRLSNIVGT 61
           I+GFHAV +R+     S+ ELY+   ++DAR R++L  A    +R+  AD  RL+ I   
Sbjct: 18  IYGFHAVNARLWQNPKSIVELYIQEGKSDARTREVLEKAANENIRVYFADADRLNAISKG 77

Query: 62  RRHQGVVAKAGELSLARNLDELLDVVEG---PPLLLILDGITDPHNLGACLRVGGGGG 116
            RHQGVV   G +  ++N   L DV+E    PPLLLILDGITDPHNLGACLR     G
Sbjct: 78  ARHQGVV---GFIDASKNHVHLEDVLENLSEPPLLLILDGITDPHNLGACLRTADAMG 132


>NMB0931 [J] COG0566 rRNA methylases Nme Neisseria meningitidis MC58
          Length = 250

 Score =  105 bits (261), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 57/118 (48%), Positives = 73/118 (61%), Gaps = 6/118 (5%)

Query: 2   IFGFHAVTSRIRHEASSVEELYVDADRNDARMRDLLHAAKAAGVRIIQADDQRLSNIVGT 61
           I+GFHAV +R+     S+ ELY+   ++DAR R++L  A    +R+  AD  RL+ I   
Sbjct: 7   IYGFHAVNARLWQNPKSIVELYIQEGKSDARTREVLEKAANENIRVYFADADRLNAISKG 66

Query: 62  RRHQGVVAKAGELSLARNLDELLDVVEG---PPLLLILDGITDPHNLGACLRVGGGGG 116
            RHQGVV   G +  ++N   L DV+E    PPLLLILDGITDPHNLGACLR     G
Sbjct: 67  ARHQGVV---GFIDASKNHVHLEDVLENLSEPPLLLILDGITDPHNLGACLRTADAMG 121


>XF1985 [J] COG0566 rRNA methylases Xfa Xylella fastidiosa 9a5c
          Length = 249

 Score = 83.2 bits (204), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 46/118 (38%), Positives = 67/118 (56%), Gaps = 2/118 (1%)

Query: 1   MIFGFHAVTSRIRHEASSVEELYVDADRNDARMRDLLHAAKAAGVRIIQADDQRLSNIVG 60
            I G +AV S I ++A  V E+ V+A   ++R+ D+   A+  G+ + +   Q L  + G
Sbjct: 7   WIVGINAVVSSIENDAEHVCEVLVEAGSKNSRLLDIEENARRKGIEVRRVTTQALDGVGG 66

Query: 61  TRRHQGVVAKAGELSLAR--NLDELLDVVEGPPLLLILDGITDPHNLGACLRVGGGGG 116
             RHQGV A+   + L    +L +L+D   G  LLL+LDG+ DPHNLGACLR     G
Sbjct: 67  GVRHQGVAARYAAVRLWEEHDLKDLVDAAGGQALLLVLDGVQDPHNLGACLRSAAAAG 124


>PA4936 [J] COG0566 rRNA methylases Pae Pseudomonas aeruginosa
          Length = 248

 Score = 82.0 bits (201), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 50/118 (42%), Positives = 70/118 (59%), Gaps = 5/118 (4%)

Query: 2   IFGFHAVTSRIRHEASSVEELYVDADRNDARMRDLLHAAKAAGVRI-IQADDQRLSNIVG 60
           ++G HAV + +RH    V++L++   R+D R++ L   A  AG RI +   D+R  +   
Sbjct: 7   VYGVHAVEALLRHHPKRVKQLWLAEGRHDPRVQVLTELA--AGFRIPVGQRDRRELDEWA 64

Query: 61  TRRHQGVVAKAG--ELSLARNLDELLDVVEGPPLLLILDGITDPHNLGACLRVGGGGG 116
              HQGVVA+    ++     L+ELL+  EG PLLL LDG+TDPHNLGACLR     G
Sbjct: 65  EGVHQGVVAEVSPSQVWGENMLEELLERSEGVPLLLALDGVTDPHNLGACLRTADAAG 122