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= 0248.0036.p
         (518 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309674|ref|YP_003773766.1| UDP-N-acetylmuramoyl-tripeptide...   375   e-105
gi|300309673|ref|YP_003773765.1| UDP-N-acetylmuramoylalanyl-D-gl...   270   2e-73

>gi|300309674|ref|YP_003773766.1|
           UDP-N-acetylmuramoyl-tripeptide---D-alanyl-D-alanine
           ligase [Herbaspirillum seropedicae SmR1]
          Length = 486

 Score =  375 bits (964), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 194/277 (70%), Positives = 218/277 (78%), Gaps = 8/277 (2%)

Query: 220 MQTTFEQLKQWLDGAEV----HNDTGA----SGPRSIRGATTDSRAVVPGNLFIALRGER 271
           M+  F Q+ +WL  AE     H   G     +G  ++    TDSRAV PGN+F+ALRGER
Sbjct: 2   MRFDFRQMLEWLRTAEAAASAHTVPGVVNAPAGLLALNDVVTDSRAVKPGNVFVALRGER 61

Query: 272 FDAHDFLDAVAAQGAAAVVVERVPAGLTLPVIVVPDTRVALGQIARHWRQQFKLPLIAVT 331
           FDAHDFLDAVA QGAAAVVVERVP GL LP IVVPDTR ALGQIA  WR Q ++P+I VT
Sbjct: 62  FDAHDFLDAVADQGAAAVVVERVPPGLALPAIVVPDTRAALGQIAHGWRMQRQIPVIGVT 121

Query: 332 GSNGKTTVKEMIASILAADFGEDRCMATRGNFNNEIGVPLTLFRLQPQHQAAVVELGMNH 391
           GSNGKTTVKEMIA+ILAA FGE+  + TRGNFNNEIGVPLTLFRL+ QHQAAV+E+GMNH
Sbjct: 122 GSNGKTTVKEMIATILAAAFGEEGYLGTRGNFNNEIGVPLTLFRLRAQHQAAVIEMGMNH 181

Query: 392 PGEIAVLAEIARPTLALVNNAQREHQEFMATVEAVARENGAVFAALPADGVAVFPAEDDH 451
           PGEIAVL+ IA PTL LVNNAQREHQEFMATVEAVARENGAV   LPADGVAVFPA+DD 
Sbjct: 182 PGEIAVLSRIAAPTLGLVNNAQREHQEFMATVEAVARENGAVIRHLPADGVAVFPADDDF 241

Query: 452 AWVWREIAGTRPVISFGLNPDADVSATYQIREFGSAI 488
             +WRE AG R V+SFGL+  ADVSA+YQ   FGS +
Sbjct: 242 TPLWREEAGARRVLSFGLSAQADVSASYQATAFGSTL 278


>gi|300309673|ref|YP_003773765.1|
           UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-
           diaminopimelate ligase [Herbaspirillum seropedicae SmR1]
          Length = 508

 Score =  270 bits (690), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 137/202 (67%), Positives = 165/202 (81%), Gaps = 5/202 (2%)

Query: 2   LAIEASSIGLDQGRMNGLHVDVALFTNFTRDHLDYHGDMIAYEAAKIQLFDSPGLQHAVI 61
           LAIEASSIGL QGRMNG+HVDVAL TNFTRDHLD+HGDM  YE AK +LF  PGL+HAV+
Sbjct: 181 LAIEASSIGLAQGRMNGMHVDVALLTNFTRDHLDFHGDMQTYEDAKRKLFQWPGLKHAVV 240

Query: 62  NLDDQMGQRLIPYVQAKSVPIIGYSLGDAAVDEGLE--DVPVLRASAIRSTNAGTSFHIE 119
           NLDD MGQRL+P +  + VP+IGY++ D   ++G +   VP LRAS +RS++ GT FH++
Sbjct: 241 NLDDDMGQRLLPLLAERKVPVIGYAIAD---EQGGDPHGVPTLRASQLRSSHTGTVFHVD 297

Query: 120 SPFGAGQVKTQLVGKFNVSNVLGILGVMLAKGTGWDAALAVIATLTAVPGRMQQFGGQEV 179
           SPFG+GQVKTQLVG+FNVSNVLGI+GV+L +G  WDA +A  A L+  PGRMQQFGG +V
Sbjct: 298 SPFGSGQVKTQLVGRFNVSNVLGIMGVLLTQGVAWDAVVAAAAALSPAPGRMQQFGGPDV 357

Query: 180 PLIVIDYAHTPDALEKTLLALR 201
           PLIVIDYAHTPDAL+KTL  LR
Sbjct: 358 PLIVIDYAHTPDALDKTLSTLR 379


  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    0.134    0.394 

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: 1,616,793
Number of extensions: 69148
Number of successful extensions: 256
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 254
Number of HSP's successfully gapped: 3
Length of query: 518
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 429
Effective length of database: 1,198,455
Effective search space: 514137195
Effective search space used: 514137195
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 (21.8 bits)
S2: 133 (55.8 bits)