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= 0087.0007.p
         (418 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300310511|ref|YP_003774603.1| tRNA and rRNA cytosine-C5-methy...   707   0.0  
gi|300309418|ref|YP_003773510.1| RNA methyltransferase [Herbaspi...    91   2e-19

>gi|300310511|ref|YP_003774603.1| tRNA and rRNA
           cytosine-C5-methylase [Herbaspirillum seropedicae SmR1]
          Length = 419

 Score =  707 bits (1824), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 338/417 (81%), Positives = 375/417 (89%)

Query: 1   MRLPPAIVPHTEEVLREILRFTGPADVTLSRYFRENPKLGGRERGVIAEAVYGLLRNKSV 60
           MRLPPAI+PHTEE+LRE+LRFTGPADVTLSRYFR+NP+LG RERGVIAEAVYGLLRNK+V
Sbjct: 1   MRLPPAIIPHTEELLREVLRFTGPADVTLSRYFRDNPRLGSRERGVIAEAVYGLLRNKTV 60

Query: 61  FTNFAESGVGPMMRRMALLGLIDTVSIESIAGLSPEEVEWLTRTAQIDRNKLPLAMRANM 120
            TNFAESG GPMMRR+ALLGL D V  ESIAGL   E +WL R AQIDR +L   MR+N+
Sbjct: 61  LTNFAESGSGPMMRRLALLGLADAVGAESIAGLQEGEADWLERVAQIDRTQLAAQMRSNL 120

Query: 121 PPWLLDKLIARDGEAAAMELAAALNQPAPLDLRVNAIKANREDVMAALAAAPILCEATPY 180
           PPWL DKL+AR GEAA +ELA A+N+PAPLDLRVNA+KA+R+ V+A LA AP+ CE TPY
Sbjct: 121 PPWLWDKLVARMGEAATLELAEAMNRPAPLDLRVNALKADRDTVIAELAKAPVACEPTPY 180

Query: 181 SPLGLRVIKKPALQNLPLFKDGAIEVQDEGSQLLAQIVGVKRGEMVVDFCAGAGGKTLAL 240
           SPLGLRV+KKPALQNLPLFKDGAIEVQDEGSQLLAQIVG KRGEMVVDFCAGAGGKTLAL
Sbjct: 181 SPLGLRVLKKPALQNLPLFKDGAIEVQDEGSQLLAQIVGAKRGEMVVDFCAGAGGKTLAL 240

Query: 241 GAAMRNTGRLYAFDISEKRLAKLKPRLARSGLSNVHPVMIAHENDAKVKRLAGKIDRVLV 300
           GA MRNTGRLYAFD+SEKRLAKLKPRLARSGLSNVHPV+IAHENDAKVKRLAGK+DRVLV
Sbjct: 241 GALMRNTGRLYAFDVSEKRLAKLKPRLARSGLSNVHPVVIAHENDAKVKRLAGKLDRVLV 300

Query: 301 DAPCSGLGTLRRNPDMKWRQTVETVAEMNVKQISILTSAARLVKAGGRLVYGTCSFLNEE 360
           DAPCSGLGTLRRNPDMKWRQTVET+AEM  KQ SIL SAARLV+AGGRLVYGTCSFL EE
Sbjct: 301 DAPCSGLGTLRRNPDMKWRQTVETLAEMRAKQSSILASAARLVRAGGRLVYGTCSFLEEE 360

Query: 361 NEDIVTEFLQANPDFTLVPMNTVLAEQKIDLDTGEYLKMLPHVHHTDGFFAAVLERK 417
           N++++ +FLQ++PDF L PM  VLAEQKI L+ G+YLK+LPH H TDGFFAAVLER+
Sbjct: 361 NDEVIADFLQSHPDFILRPMGEVLAEQKIALEMGDYLKLLPHQHQTDGFFAAVLERR 417


>gi|300309418|ref|YP_003773510.1| RNA methyltransferase
           [Herbaspirillum seropedicae SmR1]
          Length = 424

 Score = 90.9 bits (224), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 78/255 (30%), Positives = 117/255 (45%), Gaps = 10/255 (3%)

Query: 119 NMPPWLLDKLIARDGEAAAMELAAALNQPAPLDLRVNAIKANREDVMAALAAAPILCEAT 178
           N P W +D+L A   E     L A  NQ  PL LRVN  +      +  L  A +   A 
Sbjct: 145 NYPTWWIDRLKAAYPEQWQAILHAG-NQAPPLTLRVNRRRTTVAQYLDTLQQAGM--AAR 201

Query: 179 PYSPLGLRVIKKPALQNLPLFKDGAIEVQDEGSQLLAQIVGVKRGEMVVDFCAGAGGKTL 238
              P  +R+ +   +Q LP F +G + VQD  +QL A ++ V  G  V+D CA  GGKT 
Sbjct: 202 QVGPAAVRLHRPVPVQQLPGFAEGVVSVQDAAAQLAAPLLDVADGMRVLDACAAPGGKT- 260

Query: 239 ALGAAMRNTG-RLYAFDISEKRLAKLKPRLARSGLSNVHPVMIAHENDAKVKRLAGKIDR 297
             G  +      L A D   +RL ++   L R  L        A  +D    +     DR
Sbjct: 261 --GHLLELADLDLQALDHDTRRLQRIAENLDRLQLKARLTTGDARADDWWDGQ---PFDR 315

Query: 298 VLVDAPCSGLGTLRRNPDMKWRQTVETVAEMNVKQISILTSAARLVKAGGRLVYGTCSFL 357
           +L D PC+  G +RR+PD++W +     A++      IL    ++++  G+L+  TCS  
Sbjct: 316 ILADVPCTASGIVRRHPDIRWLRRKTDTAQLATLSTQILDKLWQMLRPDGKLLLVTCSLW 375

Query: 358 NEENEDIVTEFLQAN 372
            +E+E     F Q +
Sbjct: 376 PQESEQQAVAFAQKH 390


  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
   0.320    0.136    0.390 

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: 1,176,432
Number of extensions: 44920
Number of successful extensions: 160
Number of sequences better than 1.0e-08: 2
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 2
Length of query: 418
Length of database: 1,619,870
Length adjustment: 88
Effective length of query: 330
Effective length of database: 1,203,190
Effective search space: 397052700
Effective search space used: 397052700
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 (21.8 bits)
S2: 132 (55.5 bits)