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= 0001.0024.p
         (503 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313843|ref|YP_003777935.1| Type I restriction-modification...   263   3e-71

>gi|300313843|ref|YP_003777935.1| Type I restriction-modification
           system methyltransferase subunit [Herbaspirillum
           seropedicae SmR1]
          Length = 860

 Score =  263 bits (671), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 183/495 (36%), Positives = 263/495 (53%), Gaps = 35/495 (7%)

Query: 6   IQQDAINAAVWNACDTFRGTVDPSIYKDYVLTMLFLKYISD------IWQDHYDRYKAEH 59
           + +  + A +W + +  R  ++ + YKDY+L  +F KY+SD      + QD         
Sbjct: 1   MNKQQLAAKIWASANQMRSKIEANEYKDYILGFIFYKYLSDKLERFAVSQDFSKEDIQGL 60

Query: 60  GDHPALIEELLKNERFVLPRSANFYALHDARHQPGNGERIDKALHAIE---EANLTKLRD 116
            +    I    K+         N ++   A         +  AL A       N  +L D
Sbjct: 61  SEDDEEIVNFFKSNLGYFISYPNLFSTWLALGGDFEVANVRVALSAFSRLIHPNHKRLFD 120

Query: 117 -VFQDISFNSTKLGDEA-QKNDILRHLLEDFAKPELDLRESRVGSLDVIGNAYEFLIKNF 174
            +F+ +    +KLG+ A  +   +  LL+      +D R+      DV+G  YE+LI  F
Sbjct: 121 GIFKTLETGLSKLGESAASQTKAISALLQLIKDIPMDGRQG----YDVLGFIYEYLISMF 176

Query: 175 ASTSGKKAGEFYTPPEVSQLMARLMVPEEGD----EICDPTCGSGSLLMKCGQLI-RAKA 229
           A+ +GKKAGEFYTP EVS LM+ ++     D    +I D T GSGSLL+  GQ I +   
Sbjct: 177 AANAGKKAGEFYTPHEVSVLMSEIIAHHLKDRKTIQIYDSTSGSGSLLLNIGQAIAKHMV 236

Query: 230 GSRKYALFGQEAIGSTWALAKMNMFLHA--EDNHRIEWGDTLRN--PKLLDGKGLLKH-- 283
                  F QE   +T+ L +MN+ +      N      DTL +  P   D   +  +  
Sbjct: 237 DKDNIKYFAQELKENTYNLTRMNLVMRGILPSNIVTRNADTLEDDWPYFDDQDPVNSYNP 296

Query: 284 --FDIVVANPPFSLEKWGHEAAADDP-YKRFRRGLPPRTKADYAFILHMVETMKPGTGRM 340
              D VV+NPP+S +KW  E    DP Y RF  GL P++KADYAF+LH +  +KP  G M
Sbjct: 297 LYLDAVVSNPPYS-QKWDPEHKEADPRYARF--GLAPKSKADYAFLLHDLYHLKPD-GIM 352

Query: 341 AVVVPHGVLFRGAAEGNIRQKLIEENLLDVVIGLPEKLFYGTGIPAAILMLRKKKSDDKV 400
           A+V+PHGVLFRG  EG IR+ LIE N L+ +IGLP  +F+GTGIP  IL+LR+K+    V
Sbjct: 353 AIVLPHGVLFRGGEEGAIRKTLIENNHLETIIGLPSNIFFGTGIPTIILVLRQKRESSDV 412

Query: 401 LFIDASRDF-QDGKNQNILRPQDLERIEQTVRERQSVEKYAYLASPAEIAENEFNLNIPR 459
           L +DAS+ F ++GKN N LR  D+++I   V  R +V  Y+ L   AE+   ++NLNIPR
Sbjct: 413 LIVDASKGFAKEGKN-NKLRACDIKKIADVVTGRLNVPGYSRLVPKAELQAKDYNLNIPR 471

Query: 460 YVDTFEEAEAIDLKA 474
           YVD+ E A++ DL A
Sbjct: 472 YVDSSEPAQSWDLYA 486


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.319    0.137    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 1,597,245
Number of extensions: 69041
Number of successful extensions: 170
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 165
Number of HSP's successfully gapped: 1
Length of query: 503
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 414
Effective length of database: 1,198,455
Effective search space: 496160370
Effective search space used: 496160370
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 (21.7 bits)
S2: 133 (55.8 bits)