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= psy14488
         (368 letters)

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

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



>pdb|1FXX|A Chain A, The Structure Of Exonuclease I Suggests How Processivity
           Is Achieved
 pdb|2QXF|A Chain A, Product Bound Structure Of Exonuclease I At 1.5 Angstrom
           Resolution
 pdb|3C94|A Chain A, ExoiSSB-Ct Complex
 pdb|3C95|A Chain A, Exonuclease I (Apo)
 pdb|3HL8|A Chain A, Crystal Structure Of Exonuclease I In Complex With
           Inhibitor Bcbp
 pdb|3HP9|A Chain A, Crystal Structure Of SsbEXONUCLEASE I IN COMPLEX WITH
           INHIBITOR CFAM
          Length = 482

 Score =  213 bits (541), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 119/374 (31%), Positives = 203/374 (54%), Gaps = 20/374 (5%)

Query: 1   MFWRNLINPYEREWKNNCSRWDLINVIKAFYVLSPYGITWPYKNNGKPSFKLEHLSFVNN 60
           +F+RN  +PY   W+++ SRWDL++V++A Y L P GI WP  ++G PSF+LEHL+  N 
Sbjct: 115 IFYRNFYDPYAWSWQHDNSRWDLLDVMRACYALRPEGINWPENDDGLPSFRLEHLTKANG 174

Query: 61  LSHKKAHDALSDVRATLGLARLIRNNNPRLFNFILSLRKKKYVLAEIGWPIARPFFYITH 120
           + H  AHDA++DV AT+ +A+L++   PRLF+++ + R K  ++A I  P  +P  +++ 
Sbjct: 175 IEHSNAHDAMADVYATIAMAKLVKTRQPRLFDYLFTHRNKHKLMALIDVPQMKPLVHVSG 234

Query: 121 MFSSKHSYISLMWPICIHPMNKNILITWNLLHDPKKFLLNDINKIRDYLCFKKNSFKED- 179
           MF +     S + P+  HP N+N +I  +L  D    L  D + +R+ L   K    ++ 
Sbjct: 235 MFGAWRGNTSWVAPLAWHPENRNAVIMVDLAGDISPLLELDSDTLRERLYTAKTDLGDNA 294

Query: 180 -IPISMIHLNRSPIVISNLKVLSSNLMFRYKFDLNCAFKNIKCASSILNNTYIWKK---I 235
            +P+ ++H+N+ P V++    L      R   +      N+K    +  N  + +K   I
Sbjct: 295 AVPVKLVHINKCP-VLAQANTLRPEDADRLGINRQHCLDNLKI---LRENPQVREKVVAI 350

Query: 236 FLDYK-INNSDLELNIDEELYNNFISKKDNLKLAILRSMSPKKLSNVNFCFENKKLEELI 294
           F + +    SD   N+D +LYN F S  D   + I+    P+ L  ++  F +K++E+L+
Sbjct: 351 FAEAEPFTPSD---NVDAQLYNGFFSDADRAAMKIVLETEPRNLPALDITFVDKRIEKLL 407

Query: 295 FLYRARNFIETLSYKELKRWKKYRISRFYNKKNNLYNINMFYLEIESLLKKANEHDTKI- 353
           F YRARNF  TL Y E +RW ++R   F  +      +  +  E++ L+++  +   K+ 
Sbjct: 408 FNYRARNFPGTLDYAEQQRWLEHRRQVFTPEF-----LQGYADELQMLVQQYADDKEKVA 462

Query: 354 -LNALLMYGKSITQ 366
            L AL  Y   I +
Sbjct: 463 LLKALWQYADEIVE 476


  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
   0.324    0.139    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,889,307
Number of Sequences: 62578
Number of extensions: 452225
Number of successful extensions: 1400
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1397
Number of HSP's gapped (non-prelim): 14
length of query: 368
length of database: 14,973,337
effective HSP length: 100
effective length of query: 268
effective length of database: 8,715,537
effective search space: 2335763916
effective search space used: 2335763916
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.6 bits)