BLASTP 2.2.26 [Sep-21-2011]


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= 024936
         (260 letters)

Database: swissprot 
           539,616 sequences; 191,569,459 total letters

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



>sp|A1W165|TRUD_CAMJJ tRNA pseudouridine synthase D OS=Campylobacter jejuni subsp. jejuni
           serotype O:23/36 (strain 81-176) GN=truD PE=3 SV=1
          Length = 372

 Score = 35.4 bits (80), Expect = 0.45,   Method: Compositional matrix adjust.
 Identities = 25/68 (36%), Positives = 40/68 (58%), Gaps = 4/68 (5%)

Query: 140 LHGKIVVAVDVDEVL-GNFVSAL-NRFIADRYSLNHSVSEYHVYEFFKIWNCSRDEA-DL 196
           LHGK +  V + E L   F S L NR+++ R  L+H  +++   E  +I+  S++EA +L
Sbjct: 184 LHGKKMKNVKMKEFLISAFQSELFNRYLSKRVELSHFANDFSEKELIQIYKISKEEAKEL 243

Query: 197 RVHE-FFK 203
           +  E FFK
Sbjct: 244 KKQEQFFK 251


>sp|Q6YYZ1|LDL2_ORYSJ Lysine-specific histone demethylase 1 homolog 2 OS=Oryza sativa
           subsp. japonica GN=Os08g0143400 PE=2 SV=1
          Length = 763

 Score = 33.1 bits (74), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 4/49 (8%)

Query: 28  LMSCAIR--SDPICKGFHSNVTNNSS--DINIINSSSNGFLRFKGKVNN 72
           + SC  R  SDP+C G +S++   SS  D +I+  S N  L F G+  N
Sbjct: 526 IQSCCTRWGSDPLCSGSYSHIRVGSSGTDYDILAESVNDRLFFAGEATN 574


>sp|Q9PMK3|TRUD_CAMJE tRNA pseudouridine synthase D OS=Campylobacter jejuni subsp. jejuni
           serotype O:2 (strain NCTC 11168) GN=truD PE=3 SV=1
          Length = 372

 Score = 32.0 bits (71), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 4/68 (5%)

Query: 140 LHGKIVVAVDVDEVL-GNFVSAL-NRFIADRYSLNHSVSEYHVYEFFKIWNCSRDEA-DL 196
           L GK +  V + E L   F S L NR+++ R  L+H  +++   E  +I+  S++EA +L
Sbjct: 184 LRGKKMKNVKMKEFLISAFQSELFNRYLSKRVELSHFANDFSEKELIQIYKISKEEAKEL 243

Query: 197 RVHE-FFK 203
           +  E FFK
Sbjct: 244 KKQEQFFK 251


>sp|Q5HSX3|TRUD_CAMJR tRNA pseudouridine synthase D OS=Campylobacter jejuni (strain
           RM1221) GN=truD PE=3 SV=1
          Length = 372

 Score = 32.0 bits (71), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 4/68 (5%)

Query: 140 LHGKIVVAVDVDEVL-GNFVSAL-NRFIADRYSLNHSVSEYHVYEFFKIWNCSRDEA-DL 196
           L GK +  V + E L   F S L NR+++ R  L+H  +++   E  +I+  S++EA +L
Sbjct: 184 LRGKKMKNVKMKEFLISAFQSELFNRYLSKRVELSHFANDFSEKELIQIYKISKEEAKEL 243

Query: 197 RVHE-FFK 203
           +  E FFK
Sbjct: 244 KKQEQFFK 251


>sp|A8FNC4|TRUD_CAMJ8 tRNA pseudouridine synthase D OS=Campylobacter jejuni subsp. jejuni
           serotype O:6 (strain 81116 / NCTC 11828) GN=truD PE=3
           SV=1
          Length = 372

 Score = 32.0 bits (71), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 4/68 (5%)

Query: 140 LHGKIVVAVDVDEVL-GNFVSAL-NRFIADRYSLNHSVSEYHVYEFFKIWNCSRDEA-DL 196
           L GK +  V + E L   F S L NR+++ R  L+H  +++   E  +I+  S++EA +L
Sbjct: 184 LRGKKMKNVKMKEFLISAFQSELFNRYLSKRVELSHFANDFSEKELIQIYKISKEEAKEL 243

Query: 197 RVHE-FFK 203
           +  E FFK
Sbjct: 244 KKQEQFFK 251


  Database: swissprot
    Posted date:  Mar 23, 2013  2:32 AM
  Number of letters in database: 191,569,459
  Number of sequences in database:  539,616
  
Lambda     K      H
   0.322    0.137    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 95,833,705
Number of Sequences: 539616
Number of extensions: 4096508
Number of successful extensions: 11406
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 11187
Number of HSP's gapped (non-prelim): 220
length of query: 260
length of database: 191,569,459
effective HSP length: 115
effective length of query: 145
effective length of database: 129,513,619
effective search space: 18779474755
effective search space used: 18779474755
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (27.7 bits)