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= psy8916
         (520 letters)

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

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



>pdb|2PJH|A Chain A, Strctural Model Of The P97 N Domain- Npl4 Ubd Complex
          Length = 80

 Score = 54.3 bits (129), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 25/73 (34%), Positives = 44/73 (60%), Gaps = 1/73 (1%)

Query: 175 ILRIQSPVGIVKRININRSDTCKDLFEKINKEFELNTYNFALFKQRNKTDEIFSSRDQTI 234
           I+R+QSP G VKRI   + +T     +K+ KEF      F+++  RNKT EI +S  +++
Sbjct: 6   IIRVQSPDG-VKRITATKRETAATFLKKVAKEFGFQNNGFSVYINRNKTGEITASSSKSL 64

Query: 235 ASVGLSNGDFVYM 247
             + + +GD +++
Sbjct: 65  HLLKIKHGDLLFL 77


>pdb|3L6N|A Chain A, Crystal Structure Of Metallo-Beta-Lactamase Ind-7
          Length = 219

 Score = 29.6 bits (65), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 11/23 (47%), Positives = 18/23 (78%)

Query: 145 GCLIPTKDAPELGYIKESSDKQY 167
           GCL+ +  A +LGYIKE++ +Q+
Sbjct: 157 GCLVKSNSATDLGYIKEANVEQW 179


>pdb|3SY9|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
 pdb|3SY9|B Chain B, Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
 pdb|3SY9|C Chain C, Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
 pdb|3SY9|D Chain D, Crystal Structure Of Pseudomonas Aeruginosa Occd2 (Opdc)
          Length = 430

 Score = 29.3 bits (64), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 5/43 (11%)

Query: 409 QVYRHVD--NVEFENRTLVE---RFLEYWRVTGHQRLGLLYGK 446
           Q +R V   N  FE+ TL      F +Y+  +GH+RLG  YG+
Sbjct: 139 QTFRGVSLTNNSFEDLTLTAGQVSFTKYYNQSGHRRLGSYYGE 181


>pdb|2GA8|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
           Putative P-Loop Containing Kinase With A Circular
           Permutation.
 pdb|2GAA|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
           Putative P-Loop Containing Kinase With A Circular
           Permutation
          Length = 359

 Score = 29.3 bits (64), Expect = 5.8,   Method: Compositional matrix adjust.
 Identities = 17/81 (20%), Positives = 40/81 (49%), Gaps = 9/81 (11%)

Query: 127 VHMEGYQVSNQCMALVRDGCLIPTKDAPELGYIKESSDKQYVPDVFYKILRIQSPVGIVK 186
           V M+G+ +S +C+ L +D         P+  + +  S   +  + F ++ +I +   + K
Sbjct: 159 VPMDGFHLSRRCLDLFKD---------PQTAHKRRGSPSTFDSNNFLQLCKILAKTSLXK 209

Query: 187 RININRSDTCKDLFEKINKEF 207
             + ++  +   +FEK++K F
Sbjct: 210 VSSHHKFYSTSSVFEKLSKTF 230


  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
   0.320    0.136    0.419 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,833,414
Number of Sequences: 62578
Number of extensions: 667258
Number of successful extensions: 1153
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: 1151
Number of HSP's gapped (non-prelim): 6
length of query: 520
length of database: 14,973,337
effective HSP length: 103
effective length of query: 417
effective length of database: 8,527,803
effective search space: 3556093851
effective search space used: 3556093851
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)