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= 0001.2931.p
         (453 letters)

Database: BlastDatabases/707/707 
           3697 sequences; 1,221,021 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|152980877|ref|YP_001353823.1| 23S rRNA 5-methyluridine methyl...   708   0.0  

>gi|152980877|ref|YP_001353823.1| 23S rRNA 5-methyluridine
           methyltransferase [Janthinobacterium sp. Marseille]
          Length = 457

 Score =  708 bits (1828), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 336/451 (74%), Positives = 382/451 (84%), Gaps = 1/451 (0%)

Query: 3   QDIIIEIKSLDMDGRGVGHLENEDGTQGKVIFVEGALPGERVSFASYRKKPKWEAGVMTT 62
           Q  II+I+SLDM+ RGVGHL+NEDGT GKV+FVEGALP ERV ++SYRKK  WEA  M +
Sbjct: 2   QQTIIDIESLDMEARGVGHLQNEDGTPGKVVFVEGALPKERVVYSSYRKKANWEAAKMMS 61

Query: 63  LHHESSLRVKPKCDYFGTCGGCAMQHLEPSAQVAMKQRVLEDNLWHLGKTKAEVMLRPIY 122
           L  ESSLR KPKC YFG CGGC+MQHLEPSAQVA+KQR+LEDNL H+GK KAE MLRPI+
Sbjct: 62  LIKESSLRTKPKCVYFGICGGCSMQHLEPSAQVALKQRILEDNLKHIGKVKAETMLRPIH 121

Query: 123 GPTWGYRYRARISVRHVAKKGGVLVGFHEKRSSFIADMKTCEILPPNVSAMLVPLRELVA 182
           GPTWGYRYRARISVR+V KKGGVLVGFHE++SSFI DMKTCEILPPNVSAMLVPLREL+A
Sbjct: 122 GPTWGYRYRARISVRNVPKKGGVLVGFHERKSSFITDMKTCEILPPNVSAMLVPLRELIA 181

Query: 183 ALSIRDRMPQIELAVGEGDDGSKVTVLVLRIMESLSPADEALLKSFADERKIEWWLQTKG 242
           +LS+ D +PQIELA+G+G    KVT +VLRIM  LS  DE  LK+FAD  +++WWLQ  G
Sbjct: 182 SLSVIDHLPQIELAIGQGAQ-EKVTAMVLRIMTELSADDEVKLKAFADLHQVQWWLQPAG 240

Query: 243 PDTAAPYYPAESRLQYTLPEFGIRMPFKPTDFTQVNHQINRVLVARALRLLDVQPQDRVA 302
           PD+A  +YP E+ L Y LPEF ++MPFKPTDFTQVNHQINRVLVARALRLLD QP DR+A
Sbjct: 241 PDSAYQFYPTENNLHYALPEFNVKMPFKPTDFTQVNHQINRVLVARALRLLDAQPTDRIA 300

Query: 303 DLFCGLGNFTLPIATLAREVVGIEGSTALTERALENAKVNGVDAKTSFYCRNLFEAKSED 362
           DLFCGLGNFTLPIAT AREVVGIEGST LTER+LENA  NG+  KTSFYCRNLFEAK+ED
Sbjct: 301 DLFCGLGNFTLPIATQAREVVGIEGSTTLTERSLENAVANGLADKTSFYCRNLFEAKAED 360

Query: 363 FVALGKFDRMLIDPPREGAMEVCKALVELLPEQQHLKPRRIVYVSCNPATLARDAGMLVH 422
           FV LGKFDRMLIDPPR+GA+ VC+AL EL   Q  L P RIVYVSCNP+TLARDA +LV+
Sbjct: 361 FVELGKFDRMLIDPPRDGALAVCEALSELGKSQPDLLPSRIVYVSCNPSTLARDAAVLVN 420

Query: 423 LGGYALKYAGVVNMFPHTAHVESIAVFDLPQ 453
            G Y LK AGV+NMFPHT+HVES+AVF+L Q
Sbjct: 421 EGLYDLKNAGVINMFPHTSHVESMAVFELRQ 451


  Database: BlastDatabases/707/707
    Posted date:  Apr 13, 2011 12:58 PM
  Number of letters in database: 1,221,021
  Number of sequences in database:  3697
  
Lambda     K      H
   0.321    0.137    0.411 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3697
Number of Hits to DB: 1,048,090
Number of extensions: 42404
Number of successful extensions: 114
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 113
Number of HSP's successfully gapped: 1
Length of query: 453
Length of database: 1,221,021
Length adjustment: 86
Effective length of query: 367
Effective length of database: 903,079
Effective search space: 331429993
Effective search space used: 331429993
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: 131 (55.1 bits)