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= 040527
         (468 letters)

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

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



>pdb|4IFQ|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Nup192,
           Residues 2 To 960 [scnup192(2-960)]
          Length = 970

 Score = 30.4 bits (67), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 6/65 (9%)

Query: 52  SSRWKHLWTSLPCLCF-DDSLWFKDKRPGESTQDVLTRFANFVNKVLLFHSADINKFSVH 110
           SSR K  W+ L  L F D SL +  +    +  +VLT++++ +  + LFH    N  S+H
Sbjct: 668 SSRTK-FWSFLDSLIFKDSSLNYSSESYRNAFTNVLTKYSDVLGFLQLFH----NLISIH 722

Query: 111 CSEPN 115
             E N
Sbjct: 723 SRENN 727


>pdb|2ICU|A Chain A, Crystal Structure Of Hypothetical Protein Yedk From
           Escherichia Coli
 pdb|2ICU|B Chain B, Crystal Structure Of Hypothetical Protein Yedk From
           Escherichia Coli
          Length = 229

 Score = 30.0 bits (66), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

Query: 42  IKCAVQTCILSSRWKHLWTSLPCLCFDDSLWFKDKRPGESTQ 83
           I   V+T   S  +K LW     +CF D  WF+ K+ G+  Q
Sbjct: 81  INARVETAATSRXFKPLWQHGRAICFADG-WFEWKKEGDKKQ 121


>pdb|3TLJ|A Chain A, Crystal Structure Of Trm14 From Pyrococcus Furiosus In
           Complex With S- Adenosyl-L-Homocysteine
 pdb|3TLJ|B Chain B, Crystal Structure Of Trm14 From Pyrococcus Furiosus In
           Complex With S- Adenosyl-L-Homocysteine
 pdb|3TM4|A Chain A, Crystal Structure Of Trm14 From Pyrococcus Furiosus In
           Complex With S- Adenosylmethionine
 pdb|3TM4|B Chain B, Crystal Structure Of Trm14 From Pyrococcus Furiosus In
           Complex With S- Adenosylmethionine
 pdb|3TM5|A Chain A, Crystal Structure Of Trm14 From Pyrococcus Furiosus In
           Complex With Sinefungin
 pdb|3TM5|B Chain B, Crystal Structure Of Trm14 From Pyrococcus Furiosus In
           Complex With Sinefungin
          Length = 373

 Score = 28.5 bits (62), Expect = 8.7,   Method: Compositional matrix adjust.
 Identities = 17/51 (33%), Positives = 26/51 (50%)

Query: 393 EPQCVPNCLLLHVKKIEICGFEGLKHELELVKYLLKNSEVLDKMIIRSMKE 443
           +P  +   LLL  +K      +G K EL +  YL +NS +L ++II    E
Sbjct: 35  KPLGIEGRLLLEAEKAYYVDEKGRKRELSISTYLNENSRLLHRVIIEIASE 85


>pdb|3ELE|A Chain A, Crystal Structure Of Amino Transferase (rer070207001803)
           From Eubacterium Rectale At 2.10 A Resolution
 pdb|3ELE|B Chain B, Crystal Structure Of Amino Transferase (rer070207001803)
           From Eubacterium Rectale At 2.10 A Resolution
 pdb|3ELE|C Chain C, Crystal Structure Of Amino Transferase (rer070207001803)
           From Eubacterium Rectale At 2.10 A Resolution
 pdb|3ELE|D Chain D, Crystal Structure Of Amino Transferase (rer070207001803)
           From Eubacterium Rectale At 2.10 A Resolution
          Length = 398

 Score = 28.5 bits (62), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 28/119 (23%), Positives = 45/119 (37%), Gaps = 9/119 (7%)

Query: 253 HQVMIRAPNLEHLCIYDDTL----VSYMVHELHSLTEVHFDIEFDKYFVEDLQEFDPPNI 308
           +   I  P++    I +DT+      Y    LH  T    D+E      E L      + 
Sbjct: 38  YDFSIGNPSIPAPQIVNDTIKELVTDYDSVALHGYTSAQGDVETRAAIAEFLNNTHGTHF 97

Query: 309 PADRMLQLLKGITNTRFLSLSAGIISALDCAFEDYIPTFPYLTYLKVEIEESGFRLLPI 367
            AD +       T     SLS    +    A++++I   PY    KV +  +G RL+ +
Sbjct: 98  NADNLYX-----TXGAAASLSICFRALTSDAYDEFITIAPYFPEYKVFVNAAGARLVEV 151


  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
   0.325    0.140    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,115,558
Number of Sequences: 62578
Number of extensions: 518565
Number of successful extensions: 1200
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: 1198
Number of HSP's gapped (non-prelim): 8
length of query: 468
length of database: 14,973,337
effective HSP length: 102
effective length of query: 366
effective length of database: 8,590,381
effective search space: 3144079446
effective search space used: 3144079446
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)