BLASTP 2.2.18 [Mar-02-2008]


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= 0282.0005.p
         (149 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VC2695 [J] COG0219 Predicted rRNA methylase (SpoU class)              127   5e-30
spoU [J] COG0566 rRNA methylases                                       59   3e-09
ZspoU [J] COG0566 rRNA methylases                                      59   3e-09
ECs4526 [J] COG0566 rRNA methylases                                    59   3e-09

>VC2695 [J] COG0219 Predicted rRNA methylase (SpoU class)
          Length = 158

 Score =  127 bits (320), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 65/149 (43%), Positives = 88/149 (59%), Gaps = 5/149 (3%)

Query: 2   LVEPEIPANTGNIARTCAATGTHLHLVRPLGFRTDDATLKRAGLDYWHAVHIEYHDSFGE 61
           L EPEI  NTGNI R CA  G +LHL+ PLGF  ++  ++RAGLDY     +  H  +  
Sbjct: 6   LYEPEIAPNTGNIIRLCANCGANLHLIEPLGFDLEEKKVRRAGLDYHDLARVTRHKDYAA 65

Query: 62  VLE----KYAEGRFFYATTKADKRYTDFTFRDGDFFVFGKETKGLSAEILEA-GKETVMR 116
            +E    +    R F  TTK  + + D  F+ GD  +FG ET+GL AE++ +   E  +R
Sbjct: 66  FIEYLQRERGSFRLFACTTKTTQHHVDAQFQQGDVLLFGPETRGLPAELIASLPAEQRIR 125

Query: 117 MPMSEAVRSLNLSNSAAIIVYEALRQLNF 145
           +PM    RSLNLSN+ AII +EA RQ+ F
Sbjct: 126 IPMMPEARSLNLSNAVAIIAFEAWRQMGF 154


>spoU [J] COG0566 rRNA methylases
          Length = 229

 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 70/142 (49%), Gaps = 14/142 (9%)

Query: 8   PANTGNIARTCAATGTH-LHLVRPLGFRTDDATLKRAGLDYWHAVHIEYHDSFGE-VLEK 65
           P N   I RT  A G H +H V P G R        AG + W  V ++ H + G+ V   
Sbjct: 30  PHNVSAIIRTADAVGVHEVHAVWP-GSRMRTMASAAAGSNSW--VQVKTHRTIGDAVAHL 86

Query: 66  YAEGRFFYATTKADKRYTDFTFRDGDF-----FVFGKETKGLSAEILEAGKETVMRMPMS 120
             +G    AT  +D       FR+ D+      + G+E  G++ E L    + ++ +PM 
Sbjct: 87  KGQGMQILATHLSD---NAVDFREIDYTRPTCILMGQEKTGITQEALALADQDII-IPMI 142

Query: 121 EAVRSLNLSNSAAIIVYEALRQ 142
             V+SLN+S ++A+I+YEA RQ
Sbjct: 143 GMVQSLNVSVASALILYEAQRQ 164


>ZspoU [J] COG0566 rRNA methylases
          Length = 229

 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 70/142 (49%), Gaps = 14/142 (9%)

Query: 8   PANTGNIARTCAATGTH-LHLVRPLGFRTDDATLKRAGLDYWHAVHIEYHDSFGE-VLEK 65
           P N   I RT  A G H +H V P G R        AG + W  V ++ H + G+ V   
Sbjct: 30  PHNVSAIIRTADAVGVHEVHAVWP-GSRMRTMASAAAGSNSW--VQVKTHRTIGDAVAHL 86

Query: 66  YAEGRFFYATTKADKRYTDFTFRDGDF-----FVFGKETKGLSAEILEAGKETVMRMPMS 120
             +G    AT  +D       FR+ D+      + G+E  G++ E L    + ++ +PM 
Sbjct: 87  KGQGMQILATHLSD---NAVDFREIDYTRPTCILMGQEKTGITQEALALADQDII-IPMI 142

Query: 121 EAVRSLNLSNSAAIIVYEALRQ 142
             V+SLN+S ++A+I+YEA RQ
Sbjct: 143 GMVQSLNVSVASALILYEAQRQ 164



 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 70/142 (49%), Gaps = 14/142 (9%)

Query: 8   PANTGNIARTCAATGTH-LHLVRPLGFRTDDATLKRAGLDYWHAVHIEYHDSFGE-VLEK 65
           P N   I RT  A G H +H V P G R        AG + W  V ++ H + G+ V   
Sbjct: 30  PHNVSAIIRTADAVGVHEVHAVWP-GSRMRTMASAAAGSNSW--VQVKTHRTIGDAVAHL 86

Query: 66  YAEGRFFYATTKADKRYTDFTFRDGDF-----FVFGKETKGLSAEILEAGKETVMRMPMS 120
             +G    AT  +D       FR+ D+      + G+E  G++ E L    + ++ +PM 
Sbjct: 87  KGQGMQILATHLSD---NAVDFREIDYTRPTCILMGQEKTGITQEALALADQDII-IPMI 142

Query: 121 EAVRSLNLSNSAAIIVYEALRQ 142
             V+SLN+S ++A+I+YEA RQ
Sbjct: 143 GMVQSLNVSVASALILYEAQRQ 164


>ECs4526 [J] COG0566 rRNA methylases
          Length = 229

 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 70/142 (49%), Gaps = 14/142 (9%)

Query: 8   PANTGNIARTCAATGTH-LHLVRPLGFRTDDATLKRAGLDYWHAVHIEYHDSFGE-VLEK 65
           P N   I RT  A G H +H V P G R        AG + W  V ++ H + G+ V   
Sbjct: 30  PHNVSAIIRTADAVGVHEVHAVWP-GSRMRTMASAAAGSNSW--VQVKTHRTIGDAVAHL 86

Query: 66  YAEGRFFYATTKADKRYTDFTFRDGDF-----FVFGKETKGLSAEILEAGKETVMRMPMS 120
             +G    AT  +D       FR+ D+      + G+E  G++ E L    + ++ +PM 
Sbjct: 87  KGQGMQILATHLSD---NAVDFREIDYTRPTCILMGQEKTGITQEALALADQDII-IPMI 142

Query: 121 EAVRSLNLSNSAAIIVYEALRQ 142
             V+SLN+S ++A+I+YEA RQ
Sbjct: 143 GMVQSLNVSVASALILYEAQRQ 164


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.322    0.137    0.404 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 11,231,324
Number of extensions: 465020
Number of successful extensions: 828
Number of sequences better than 1.0e-05: 11
Number of HSP's gapped: 858
Number of HSP's successfully gapped: 11
Length of query: 149
Length of database: 38,378,431
Length adjustment: 97
Effective length of query: 52
Effective length of database: 27,191,033
Effective search space: 1413933716
Effective search space used: 1413933716
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 111 (47.4 bits)