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= psy17986
         (147 letters)

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

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



>pdb|3LWJ|A Chain A, Crystal Structure Of Putative Tetr-family Transcriptional
           Regulator (yp_752756.1) From Syntrophomonas Wolfei Str.
           Goettingen At 2.07 A Resolution
          Length = 202

 Score = 27.7 bits (60), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 6/69 (8%)

Query: 49  EHSGNVLSNTSQSEASINQWKKTRLDRML------IEYFLRKGYYSTAQKLAQASNITDL 102
           E    + S  + S A I+Q  K   DR+L      IEY ++KG +        A +I  +
Sbjct: 104 ETLSEIYSRVAGSSAPIDQCLKQFEDRLLEFYSRNIEYGIKKGVFKNVPVSPIAHSILAI 163

Query: 103 TNIDLREWI 111
               L +W+
Sbjct: 164 EKFSLYKWV 172


>pdb|3E0J|A Chain A, X-Ray Structure Of The Complex Of Regulatory Subunits Of
           Human Dna Polymerase Delta
 pdb|3E0J|C Chain C, X-Ray Structure Of The Complex Of Regulatory Subunits Of
           Human Dna Polymerase Delta
 pdb|3E0J|E Chain E, X-Ray Structure Of The Complex Of Regulatory Subunits Of
           Human Dna Polymerase Delta
 pdb|3E0J|G Chain G, X-Ray Structure Of The Complex Of Regulatory Subunits Of
           Human Dna Polymerase Delta
          Length = 476

 Score = 27.7 bits (60), Expect = 2.5,   Method: Composition-based stats.
 Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 6/39 (15%)

Query: 31  GEELQAGHVIKRRIEHLKEHSGNVLSNTSQSEASINQWK 69
           GE+  A HV +  +      +GN+LS+++QS  SIN+ K
Sbjct: 237 GEQCSAAHVSRVIL------AGNLLSHSTQSRDSINKAK 269


>pdb|3DXR|B Chain B, Crystal Structure Of The Yeast Inter-Membrane Space
          Chaperone Assembly Tim9.10
          Length = 95

 Score = 26.6 bits (57), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 57 NTSQSEASINQWKKTRLDRMLIEYF 81
          NTS SE  +N+ + + LDR + +YF
Sbjct: 48 NTSYSEGELNKNESSCLDRCVAKYF 72


  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
   0.311    0.127    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,344,084
Number of Sequences: 62578
Number of extensions: 153178
Number of successful extensions: 337
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 335
Number of HSP's gapped (non-prelim): 8
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 47 (22.7 bits)