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= 0005.0035.p
         (394 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311965|ref|YP_003776057.1| cobalamin biosynthesis CbiD tra...   525   e-150

>gi|300311965|ref|YP_003776057.1| cobalamin biosynthesis CbiD
           transmembrane protein [Herbaspirillum seropedicae SmR1]
          Length = 396

 Score =  525 bits (1352), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 283/399 (70%), Positives = 315/399 (78%), Gaps = 15/399 (3%)

Query: 3   ELERAEFDLAVPAPNGLRRGRTTGSCATAAVKAALTMLLRGEKIDKAEVSLPDGKHYLLV 62
           EL+RAE+DLAV APNGLRRGR+TGSCATAAV+AAL  LL G  + + EVSLPDG+HYL V
Sbjct: 6   ELQRAEYDLAVLAPNGLRRGRSTGSCATAAVRAALYRLLAGVTLQETEVSLPDGRHYLCV 65

Query: 63  PIQDVRQLDGHDGKRVRAEVLKDGGDDPDNTHGATIFAEVARNDAGEIRFKAASGVGTAT 122
           P+Q V  +     +   A+VLKDGGDDPDNTHGATIFA+V RN +GE+RF A  GVGTAT
Sbjct: 66  PVQAVEMIAPDIAQ---ADVLKDGGDDPDNTHGATIFAQVRRNQSGEVRFFAGQGVGTAT 122

Query: 123 QPGLRVAVGEPAINPVPRQMMRLAVAEVLEELNIQGE--TGFDLAIGCEDGQKIAQKTFN 180
            PGLRVAVGEPAINPVPR MMR AVAEVL EL   GE   GFDL IGC +G  IA KTFN
Sbjct: 123 MPGLRVAVGEPAINPVPRAMMRAAVAEVLAELR-PGEPACGFDLTIGCREGVSIAPKTFN 181

Query: 181 PRLGIVGGISILGTSGIVEPMSLASWIASIEVYIRVALADDSKPDGVASCVAYLPGKIGR 240
           P+LGIVGGISILGTSGIVEPMS+ASWIASIEVYIRVALA  +  D VA    YLPGKIGR
Sbjct: 182 PKLGIVGGISILGTSGIVEPMSMASWIASIEVYIRVALAACAPGDAVA----YLPGKIGR 237

Query: 241 TFARDELGLPEARSVQIANFLGDALDFTQSALAEQDAALDVLWLAGHPGKLAKVLDGVWD 300
            F   ELGLP+ RSVQIANFLGDALDFT+ ALAE    L +LWLAGHPGKLAKVLDGVWD
Sbjct: 238 VFVAQELGLPDKRSVQIANFLGDALDFTEQALAEAGRTLPLLWLAGHPGKLAKVLDGVWD 297

Query: 301 THSSKSNMAMGGVARVASEL-AAELG--FSAALIADMESANTVEAAIERLKKEPGAVA-- 355
           THSSKSNMAM GVARVA E+ AAE G  F A L+  M+ ANTVEA IE ++++  A+A  
Sbjct: 298 THSSKSNMAMQGVARVAEEMNAAESGVLFDAPLLQQMKEANTVEAIIELVRQQDAALARR 357

Query: 356 LWRAIEARIAALAQARLPSVKRVEVRLFDLEGNLLGGAA 394
           LW  IEARIA LAQAR+PSV R+EVRLFDLEG+ LG  A
Sbjct: 358 LWCEIEARIATLAQARVPSVARIEVRLFDLEGHQLGAGA 396


  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
   0.317    0.134    0.381 

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: 1,235,011
Number of extensions: 52101
Number of successful extensions: 213
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 208
Number of HSP's successfully gapped: 1
Length of query: 394
Length of database: 1,619,870
Length adjustment: 87
Effective length of query: 307
Effective length of database: 1,207,925
Effective search space: 370832975
Effective search space used: 370832975
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 131 (55.1 bits)