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= 0005.0028.p
         (510 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311969|ref|YP_003776061.1| cobalamin biosynthesis protein ...   520   e-148

>gi|300311969|ref|YP_003776061.1| cobalamin biosynthesis protein
           [Herbaspirillum seropedicae SmR1]
          Length = 1397

 Score =  520 bits (1338), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 273/415 (65%), Positives = 318/415 (76%), Gaps = 16/415 (3%)

Query: 10  AASAPAARIAVLTHASTDLAILHHALTQLPGDFPATIGINLQGVENEAR--------MSE 61
           A S P ARIA+LTHA TDLA+L  A  QLP DFPA  G +LQ ++   +        ++ 
Sbjct: 9   AMSEPLARIALLTHAPTDLAMLATARAQLPADFPAVAGYDLQRLQAADQDQASQWPSLAA 68

Query: 62  LLQSELADADIIVLRILGRLGSVAGFAELLRHAQRQGRHLIALSGAGEPDAELAAVSTVP 121
           LL+ ELA A +IVLR+LGRLG+V GF E+LR  + +GR LI LSG GEPD ELAA ST P
Sbjct: 69  LLRGELAAAQVIVLRVLGRLGAVQGFPEMLRVVRAEGRQLIVLSGTGEPDPELAAASTAP 128

Query: 122 DDVLREALAYFHGGGSINLAQFLRFVSDRLLLTGFAYEPAVALPDHGIYHPDLEQDAGIA 181
            DV ++ALAYF+GGGS+NLAQ LR +SDR+LL+G+ YEPA ALP+HG+YHPDLEQDAGIA
Sbjct: 129 ADVQQQALAYFNGGGSVNLAQMLRCLSDRMLLSGYGYEPAQALPEHGLYHPDLEQDAGIA 188

Query: 182 DWLRLRIDVAGRRKPAVGVIFYRAHWMSGNTRFIDALVTSLEQRGMDVLPIFTASLRTSA 241
           DWL LR   A   KPAVG+IFYRAHW+SGNT FIDALV +LE RG+DVLP+FT+SLR SA
Sbjct: 189 DWLALRAQ-APAGKPAVGIIFYRAHWLSGNTAFIDALVAALEARGLDVLPVFTSSLRVSA 247

Query: 242 ADSD-LPAALSYFSGEKGAHVDVLINTTSFAMGEITPGGPTPAGWSVSVLEKLNVPVLQA 300
                LP AL YF       VD++INTTSFAMGEIT GG TPAGWSVSVLE+L++PVLQA
Sbjct: 248 GGGQALPPALQYFG---AGQVDLIINTTSFAMGEITAGGVTPAGWSVSVLEQLDLPVLQA 304

Query: 301 MTSGMTQDQWEISTRGMNPLDAAMNVVLPEFDGRIISVPLSFKAQAAGLSGDVVEFHPVA 360
           +TSGMTQ QW+ STRGMNPLDAAMNVVLPEFDGRII VPLSFK          V++ P+ 
Sbjct: 305 ITSGMTQAQWQHSTRGMNPLDAAMNVVLPEFDGRIIGVPLSFKETT---DSGAVQYQPLP 361

Query: 361 DRVERIAGLAARFARLRALDNADKRIAFIFTNSNSKASQIGNAVGLDAPPTRAAT 415
           DRV RIAGLA R  RLR+  NA+KRIAFIFTNS+SKASQIGNAVGLDAP +  A 
Sbjct: 362 DRVRRIAGLAQRLVRLRSTPNANKRIAFIFTNSSSKASQIGNAVGLDAPESLMAV 416


  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
   0.321    0.132    0.395 

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: 1,517,549
Number of extensions: 63100
Number of successful extensions: 209
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 1
Length of query: 510
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 421
Effective length of database: 1,198,455
Effective search space: 504549555
Effective search space used: 504549555
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: 133 (55.8 bits)