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= 0001.0594.p
         (521 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...   831   0.0  
gi|300313567|ref|YP_003777659.1| tRNA nucleotidyltransferase [He...    89   1e-18

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

 Score =  831 bits (2146), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 423/455 (92%), Positives = 432/455 (94%), Gaps = 13/455 (2%)

Query: 1   MIKKLIRSILGKGKTTD------------KSKTKAVGPDGKIEPDVLDPKQHGIDPALVS 48
           MIKKLIRSILG+GKT              K++ KA G DGKIEPDVL PK+HGIDP+LVS
Sbjct: 1   MIKKLIRSILGRGKTAAAAASAEPPAPARKTRAKA-GADGKIEPDVLGPKEHGIDPSLVS 59

Query: 49  PNAVRVTQTLQEAGYKAFIVGGAVRDLLLGIKPKDFDVATNATPEQVKQLFRRAFIIGRR 108
           PNAVRVTQTLQEAGYKAFIVGGAVRDLLLGIKPKDFDVATNATPEQVKQLFRRAFIIGRR
Sbjct: 60  PNAVRVTQTLQEAGYKAFIVGGAVRDLLLGIKPKDFDVATNATPEQVKQLFRRAFIIGRR 119

Query: 109 FQIVHVMFGQELIEVTTFRGASAEAAPKDEHGRVLRDNTFGEQHEDATRRDFTINAMYYD 168
           FQIVHVMFGQELIEVTTFRGASAEAAPKDEHGRVLRDNTFGEQHEDATRRDFTINAMYYD
Sbjct: 120 FQIVHVMFGQELIEVTTFRGASAEAAPKDEHGRVLRDNTFGEQHEDATRRDFTINAMYYD 179

Query: 169 PASQAVLDYHGGIADIRDKKLRIIGEPEARYREDPVRMLRVVRFAAKLKFTIDPASSAPI 228
           PASQAVLDYHGGIADIRDKKLRIIGEPEARYREDPVRMLRVVRFAAKLKFTIDPASSAPI
Sbjct: 180 PASQAVLDYHGGIADIRDKKLRIIGEPEARYREDPVRMLRVVRFAAKLKFTIDPASSAPI 239

Query: 229 RVMAPLIDNVPAARVFDEMLKLLMSGHALACLQQLRKEGLHHGLLPLLDVVLEQPLGEKF 288
           RVMAPLIDNVPAARVFDEMLKLLMSGHALACLQQLRKEGLHHGLLPLLDVVLEQPLGEKF
Sbjct: 240 RVMAPLIDNVPAARVFDEMLKLLMSGHALACLQQLRKEGLHHGLLPLLDVVLEQPLGEKF 299

Query: 289 VSLALANTDARVKEGKGVSPGFLFASLLWHQVLEKWRAYQAAGEYPIPALHLAADDVLDA 348
           V+LALA+TDARVK+GKGVSPGFLFASLLWHQVLEKWRAYQAAGEYPIPALHLAADDVLDA
Sbjct: 300 VTLALADTDARVKQGKGVSPGFLFASLLWHQVLEKWRAYQAAGEYPIPALHLAADDVLDA 359

Query: 349 QTEKLALQRKIASDMRDIWAMQPRFERRVGKAPYKLLEHLRLRAGFDFLLLRCQSGELDA 408
           QTEKLALQRKIASDMRDIWAMQPRFERRVGKAPYKLLEHLRLRAGFDFLLLRCQSGELDA
Sbjct: 360 QTEKLALQRKIASDMRDIWAMQPRFERRVGKAPYKLLEHLRLRAGFDFLLLRCQSGELDA 419

Query: 409 ELGEWWEAFIAGNGAEREELIARKPTDTASASAGP 443
           ELGEWWEAFIAG GAEREELIARKP D A  +AGP
Sbjct: 420 ELGEWWEAFIAGTGAEREELIARKPADAAGVAAGP 454


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

 Score = 89.0 bits (219), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 83/237 (35%), Positives = 116/237 (48%), Gaps = 30/237 (12%)

Query: 64  KAFIVGGAVRDLLLGIKPKDFD-VATNATPEQVKQLFRRAFIIGRRFQI-VHVMFGQELI 121
           K + VGGAVRD LLG+  KD D V   ATPEQ+  L  R   +G+ F + +H    +E  
Sbjct: 2   KTYTVGGAVRDGLLGLPVKDRDHVVVGATPEQLLALGFRP--VGKDFPVFLHPHTQEEYA 59

Query: 122 EVTT-------FRGASAEAAPKDEHGRVLRDNTFGEQHEDATRRDFTINAMYYDPASQAV 174
              T       ++G +  AAP         D T     +D  RRD TINA+  D     V
Sbjct: 60  LARTERKTAPGYKGFAFHAAP---------DVTL---EDDLARRDLTINAIAQDEDGTLV 107

Query: 175 LDYHGGIADIRDKKLRIIGEPEARYREDPVRMLRVVRFAAKL-KFTIDPASSAPIRVMAP 233
             YHG  ADI  +  R + +    + EDPVR+LRV RFAA+   FT+ P ++A ++ M  
Sbjct: 108 DPYHGR-ADIAARVFRHVSDA---FIEDPVRILRVARFAARFADFTVAPETNALMQRMVE 163

Query: 234 L--IDNVPAARVFDEMLKLLMSGHALACLQQLRKEGLHHGLLPLLDVVLEQPLGEKF 288
              +D +   RV+ E+ + LM        + LR  G    +LP LD +   P  EK+
Sbjct: 164 QGEVDALVPERVWQELSRGLMEQKPSRMFEVLRACGALQRILPELDALWGVPQPEKW 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
   0.318    0.134    0.387 

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: 1,421,515
Number of extensions: 57796
Number of successful extensions: 214
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 210
Number of HSP's successfully gapped: 2
Length of query: 521
Length of database: 1,619,870
Length adjustment: 90
Effective length of query: 431
Effective length of database: 1,193,720
Effective search space: 514493320
Effective search space used: 514493320
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 (21.7 bits)
S2: 133 (55.8 bits)