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= 0241.0013.p
         (475 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300313613|ref|YP_003777705.1| nucleotidyltransferase/DNA poly...   381   e-107
gi|300313815|ref|YP_003777907.1| Fe3+ ABC transporter permease [...   189   5e-49

>gi|300313613|ref|YP_003777705.1| nucleotidyltransferase/DNA
           polymerase involved in DNA repair protein
           [Herbaspirillum seropedicae SmR1]
          Length = 384

 Score =  381 bits (978), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 187/257 (72%), Positives = 216/257 (84%)

Query: 141 ARALGVFSAMGMMKAAQLAPDAVLLPVDFDSYRHYSRLFKKAVASIAPLVEDRGIDEIYI 200
           ARALGVFSAMG+MKAAQLAPDA+LLP DF++YR YSRLFK+AV +IAPL+EDRGIDEIYI
Sbjct: 71  ARALGVFSAMGIMKAAQLAPDAILLPTDFEAYRKYSRLFKEAVRNIAPLIEDRGIDEIYI 130

Query: 201 DLSEHEEETRALATRIKTAVNEATGLSCSIGVAPNKLLAKICSDLEKPDGLTILTMADVP 260
           DLS   +    +A +IK AV+ AT L+CSIGVAPNK+LAKI S+L+KP+GLTILT AD+ 
Sbjct: 131 DLSAWSDTAPEVARQIKDAVHAATSLTCSIGVAPNKMLAKISSELDKPNGLTILTPADIE 190

Query: 261 TRIWPLPARKINGIGPKAAEKLTALGILTIGDLARTDAGVLQDHFGRSYSAWLGNVAQGI 320
            RIWPLP RKINGIGPKAAEKL+ALGI T+ DLA     +L+ HFGRSY+ WLG VAQG+
Sbjct: 191 RRIWPLPVRKINGIGPKAAEKLSALGIDTVADLAGAAPDLLRAHFGRSYAEWLGRVAQGV 250

Query: 321 DERPVSTSSEPKSISRETTFEHDLHARHDRDKLLGIFTALCTRVSEDLHRKGYVGRTIGI 380
           D+RPV T SEPKSISRETTFE DLHAR DR +L  IFTALC +++ DL RKGYVGRTIGI
Sbjct: 251 DDRPVQTYSEPKSISRETTFERDLHARADRAQLSEIFTALCVKLAADLDRKGYVGRTIGI 310

Query: 381 KLRYADFSTVTRDVTLP 397
           KL+YADF  VTRDVTLP
Sbjct: 311 KLKYADFRGVTRDVTLP 327


>gi|300313815|ref|YP_003777907.1| Fe3+ ABC transporter permease
           [Herbaspirillum seropedicae SmR1]
          Length = 603

 Score =  189 bits (480), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 94/104 (90%), Positives = 96/104 (92%)

Query: 23  NDGVTRFLDYSVLVPRAVPGLLAGLSFLWVFLFVPSLLDNFLKGFDNDVARWLVDSFIPQ 82
            DGVTRFLDYSVLVPRAVPGLLAGLSFLWVFLFVPSLLD+ LKG DN +A WLVDSFIP 
Sbjct: 407 QDGVTRFLDYSVLVPRAVPGLLAGLSFLWVFLFVPSLLDSALKGIDNPIALWLVDSFIPA 466

Query: 83  LRSLRSTIFSVWLAYSVVWMAYGLRLITTALLQVGPELEEAARA 126
           LR LRSTIFSVWLAYSVVWMAYGLRLI TALLQVGPELEEAARA
Sbjct: 467 LRGLRSTIFSVWLAYSVVWMAYGLRLINTALLQVGPELEEAARA 510



 Score =  166 bits (420), Expect = 4e-42,   Method: Compositional matrix adjust.
 Identities = 84/91 (92%), Positives = 88/91 (96%)

Query: 385 ADFSTVTRDVTLPLVKYGLLGAWLMVFLIFEREYSTGVYLLSPGTEVIGSMIVSMWAAGA 444
           A  S VTRDVTLPLV+YGL+GAWLMVFLIFEREYSTGVYLLSPGTEVIGSMIVSMWAAGA
Sbjct: 513 ASRSRVTRDVTLPLVRYGLVGAWLMVFLIFEREYSTGVYLLSPGTEVIGSMIVSMWAAGA 572

Query: 445 VELVAALSFINITLVAIGLGIALRFGIKLHD 475
           VELVAALSFINITLVA+GLGIALRFG+KLHD
Sbjct: 573 VELVAALSFINITLVAVGLGIALRFGVKLHD 603


  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
   0.324    0.139    0.420 

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: 1,435,589
Number of extensions: 58916
Number of successful extensions: 205
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 3
Length of query: 475
Length of database: 1,619,870
Length adjustment: 89
Effective length of query: 386
Effective length of database: 1,198,455
Effective search space: 462603630
Effective search space used: 462603630
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 132 (55.5 bits)