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= 0009.0165.p
         (341 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309964|ref|YP_003774056.1| tRNA nucleotidyltransferase/pol...   518   e-148
gi|300313567|ref|YP_003777659.1| tRNA nucleotidyltransferase [He...    61   1e-10

>gi|300309964|ref|YP_003774056.1| tRNA
           nucleotidyltransferase/poly(A) polymerase
           [Herbaspirillum seropedicae SmR1]
          Length = 534

 Score =  518 bits (1334), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 262/301 (87%), Positives = 278/301 (92%)

Query: 1   VLRDNTFGEQHEDAVRRDFTINAMYYDPAAQTVLDYHGGIADIRAKTLRIIGVPEARYRE 60
           VLRDNTFGEQHEDA RRDFTINAMYYDPA+Q VLDYHGGIADIR K LRIIG PEARYRE
Sbjct: 153 VLRDNTFGEQHEDATRRDFTINAMYYDPASQAVLDYHGGIADIRDKKLRIIGEPEARYRE 212

Query: 61  DPVRMLRVVRFAAKLKFSIDAATSAPIPVMAPLINNVPAARVFDEMLKLLMSGHALACLQ 120
           DPVRMLRVVRFAAKLKF+ID A+SAPI VMAPLI+NVPAARVFDEMLKLLMSGHALACLQ
Sbjct: 213 DPVRMLRVVRFAAKLKFTIDPASSAPIRVMAPLIDNVPAARVFDEMLKLLMSGHALACLQ 272

Query: 121 QLRKEGLHHGLLPLLDVVLEQPLGEKFVTLALANTDARIKQGKPVSPGFLFASLLWHQVL 180
           QLRKEGLHHGLLPLLDVVLEQPLGEKFVTLALA+TDAR+KQGK VSPGFLFASLLWHQVL
Sbjct: 273 QLRKEGLHHGLLPLLDVVLEQPLGEKFVTLALADTDARVKQGKGVSPGFLFASLLWHQVL 332

Query: 181 EKWRAYQASGEYPIPALHLAADDVLNAQTEKLALQRKIASDMRDIWAMQPRFERRTGKAP 240
           EKWRAYQA+GEYPIPALHLAADDVL+AQTEKLALQRKIASDMRDIWAMQPRFERR GKAP
Sbjct: 333 EKWRAYQAAGEYPIPALHLAADDVLDAQTEKLALQRKIASDMRDIWAMQPRFERRVGKAP 392

Query: 241 YKLLEHLRLRAGYDFLLLRCASGEIDAELGDWWTDFMEADSSGRESLLARKPTVSSAAGA 300
           YKLLEHLRLRAG+DFLLLRC SGE+DAELG+WW  F+    + RE L+ARKP  ++   A
Sbjct: 393 YKLLEHLRLRAGFDFLLLRCQSGELDAELGEWWEAFIAGTGAEREELIARKPADAAGVAA 452

Query: 301 G 301
           G
Sbjct: 453 G 453


>gi|300313567|ref|YP_003777659.1| tRNA nucleotidyltransferase
           [Herbaspirillum seropedicae SmR1]
          Length = 410

 Score = 61.2 bits (147), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 49/139 (35%), Positives = 70/139 (50%), Gaps = 7/139 (5%)

Query: 12  EDAVRRDFTINAMYYDPAAQTVLDYHGGIADIRAKTLRIIGVPEARYREDPVRMLRVVRF 71
           +D  RRD TINA+  D     V  YHG  ADI A+  R +      + EDPVR+LRV RF
Sbjct: 86  DDLARRDLTINAIAQDEDGTLVDPYHGR-ADIAARVFRHVS---DAFIEDPVRILRVARF 141

Query: 72  AAKL-KFSIDAATSAPIPVMAPL--INNVPAARVFDEMLKLLMSGHALACLQQLRKEGLH 128
           AA+   F++   T+A +  M     ++ +   RV+ E+ + LM        + LR  G  
Sbjct: 142 AARFADFTVAPETNALMQRMVEQGEVDALVPERVWQELSRGLMEQKPSRMFEVLRACGAL 201

Query: 129 HGLLPLLDVVLEQPLGEKF 147
             +LP LD +   P  EK+
Sbjct: 202 QRILPELDALWGVPQPEKW 220


  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
   0.322    0.136    0.406 

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: 967,584
Number of extensions: 40673
Number of successful extensions: 131
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 2
Length of query: 341
Length of database: 1,619,870
Length adjustment: 86
Effective length of query: 255
Effective length of database: 1,212,660
Effective search space: 309228300
Effective search space used: 309228300
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: 131 (55.1 bits)