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= 045525
         (295 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

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



>pdb|1JKE|A Chain A, D-Tyr Trnatyr Deacylase From Escherichia Coli
 pdb|1JKE|B Chain B, D-Tyr Trnatyr Deacylase From Escherichia Coli
 pdb|1JKE|C Chain C, D-Tyr Trnatyr Deacylase From Escherichia Coli
 pdb|1JKE|D Chain D, D-Tyr Trnatyr Deacylase From Escherichia Coli
          Length = 145

 Score = 33.1 bits (74), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 20/54 (37%), Positives = 32/54 (59%), Gaps = 2/54 (3%)

Query: 174 QPQVNILRQQGNGNHLANGQAN-DADTDRTLFATFSKGHPISRAE-LFEFFIRR 225
           + ++N+  QQ  G+ L   Q    ADT+R +  +FSKG    RAE L+++F+ R
Sbjct: 59  EGKMNLNVQQAGGSVLVVSQFTLAADTERGMRPSFSKGASPDRAEALYDYFVER 112


>pdb|2ZJB|A Chain A, Crystal Structure Of The Human Dmc1-M200v Polymorphic
           Variant
 pdb|2ZJB|B Chain B, Crystal Structure Of The Human Dmc1-M200v Polymorphic
           Variant
          Length = 343

 Score = 30.4 bits (67), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 6/49 (12%)

Query: 139 LREVCDRAFIDYDLVLGNNLH------NHQVQVLEPAAELLQPQVNILR 181
           LR++ DR  +D+D VL N L+       HQV++L+  A     +  I +
Sbjct: 173 LRDIADRFNVDHDAVLDNVLYARAYTSEHQVELLDYVAAKFHEEAGIFK 221


>pdb|1GO3|F Chain F, Structure Of An Archeal Homolog Of The Eukaryotic Rna
          Polymerase Ii Rpb4RPB7 COMPLEX
 pdb|1GO3|N Chain N, Structure Of An Archeal Homolog Of The Eukaryotic Rna
          Polymerase Ii Rpb4RPB7 COMPLEX
          Length = 107

 Score = 29.6 bits (65), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 3/48 (6%)

Query: 6  STVPELQEENAIPLTDFQSFHNIDREAYAKLV---IQLGLDSDTSKKI 50
          + + EL  E    L   Q F  +D+E   KLV   I LG+D  T+ KI
Sbjct: 25 AQIGELSYEQGCALDYLQKFAKLDKEEAKKLVEELISLGIDEKTAVKI 72


>pdb|1V5W|A Chain A, Crystal Structure Of The Human Dmc1 Protein
 pdb|1V5W|B Chain B, Crystal Structure Of The Human Dmc1 Protein
          Length = 343

 Score = 29.3 bits (64), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 6/49 (12%)

Query: 139 LREVCDRAFIDYDLVLGNNLH------NHQVQVLEPAAELLQPQVNILR 181
           LR++ DR  +D+D VL N L+       HQ+++L+  A     +  I +
Sbjct: 173 LRDIADRFNVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAGIFK 221


>pdb|2QFJ|A Chain A, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
           Ssdna From A Portion Of Fuse
 pdb|2QFJ|B Chain B, Crystal Structure Of First Two Rrm Domains Of Fir Bound To
           Ssdna From A Portion Of Fuse
          Length = 216

 Score = 28.1 bits (61), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 18/27 (66%)

Query: 268 FDIHGKDIRVRRFVPKPAPVASPSTSG 294
           FD+ G+ +RV + V  P P+ +P+T G
Sbjct: 190 FDLGGQYLRVGKAVTPPMPLLTPATPG 216


>pdb|3C7J|A Chain A, Crystal Structure Of Transcriptional Regulator (Gntr
           Family Member) From Pseudomonas Syringae Pv. Tomato Str.
           Dc3000
 pdb|3C7J|B Chain B, Crystal Structure Of Transcriptional Regulator (Gntr
           Family Member) From Pseudomonas Syringae Pv. Tomato Str.
           Dc3000
          Length = 237

 Score = 27.7 bits (60), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 23/54 (42%)

Query: 113 RVCDRELSLAFVLGNKQSANANVNIFLREVCDRAFIDYDLVLGNNLHNHQVQVL 166
           R  DRE  L+ VLGN+Q         + E    A ID  L  G  L   ++  L
Sbjct: 5   RKSDREAFLSSVLGNEQPPAHLARTVIEEKLRNAIIDGSLPSGTALRQQELATL 58


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.321    0.137    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,391,183
Number of Sequences: 62578
Number of extensions: 331510
Number of successful extensions: 668
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 666
Number of HSP's gapped (non-prelim): 6
length of query: 295
length of database: 14,973,337
effective HSP length: 98
effective length of query: 197
effective length of database: 8,840,693
effective search space: 1741616521
effective search space used: 1741616521
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: 51 (24.3 bits)