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= psy16518
         (283 letters)

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

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



>pdb|4DGW|A Chain A, Crystal Structure Of The Sf3a Splicing Factor Complex Of
           U2 Snrnp
          Length = 402

 Score = 30.8 bits (68), Expect = 0.93,   Method: Compositional matrix adjust.
 Identities = 24/102 (23%), Positives = 50/102 (49%), Gaps = 8/102 (7%)

Query: 45  LCQHKYFVCPIEFSEKLGRMSIDCEPSQLFRPHEYSLPSFPGSFLSVKEELDSEDDKAQI 104
           L QH+  +   ++ EK    +    P +  +  +  LP+F      +++EL +ED+  ++
Sbjct: 87  LQQHEINIFLRDYQEKQQTFNKINRPEET-QEDDKDLPNFERKLQQLEKELKNEDENFEL 145

Query: 105 DLSSKINQ----GTNKVPSLLNRALQGFSERWKNWIIRGIFT 142
           D++SK ++     ++  PS   R     S+R ++  +  IFT
Sbjct: 146 DINSKKDKYALFSSSSDPS---RRTNILSDRARDLDLNEIFT 184


>pdb|3VSG|A Chain A, Crystal Structure Of Iron Free 1,6-apd,
           2-animophenol-1,6-dioxygenase
 pdb|3VSG|C Chain C, Crystal Structure Of Iron Free 1,6-apd,
           2-animophenol-1,6-dioxygenase
 pdb|3VSH|A Chain A, Crystal Structure Of Native 1,6-apd (with Iron),
           2-animophenol-1,6- Dioxygenase
 pdb|3VSH|C Chain C, Crystal Structure Of Native 1,6-apd (with Iron),
           2-animophenol-1,6- Dioxygenase
 pdb|3VSI|A Chain A, Crystal Structure Of Native 1,6-apd
           (2-animophenol-1,6-dioxygenase) Complex With
           4-nitrocatechol
 pdb|3VSI|C Chain C, Crystal Structure Of Native 1,6-apd
           (2-animophenol-1,6-dioxygenase) Complex With
           4-nitrocatechol
 pdb|3VSJ|A Chain A, Crystal Structure Of 1,6-apd
           (2-animophenol-1,6-dioxygenase) Complexed With
           Intermediate Products
 pdb|3VSJ|C Chain C, Crystal Structure Of 1,6-apd
           (2-animophenol-1,6-dioxygenase) Complexed With
           Intermediate Products
          Length = 271

 Score = 30.0 bits (66), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)

Query: 56  EFSEKLGRMSIDCEPSQLFRPHEYSLPSFPGSFLSVKEELDSEDDKAQIDLSSKINQ 112
           E +EKL  +++DC   Q  R     +    GS    +EE+D  +D+   +   K N+
Sbjct: 149 EITEKLAALAVDCAKDQNKRVAVVGVGGLSGSLF--REEIDPREDRIANEEDDKWNR 203


>pdb|1CR5|A Chain A, N-Terminal Domain Of Sec18p
 pdb|1CR5|B Chain B, N-Terminal Domain Of Sec18p
 pdb|1CR5|C Chain C, N-Terminal Domain Of Sec18p
          Length = 189

 Score = 28.9 bits (63), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 59  EKLGRMSIDCEPSQLFRPHEYSLPSFPGSFLSVKEELDSEDDKAQIDLSSKINQG 113
           ++L +  + C  SQ+F P +Y +  F G F  +K       D   I+ +S +  G
Sbjct: 116 DELAKQFVRCYESQIFSPTQYLIMEFQGHFFDLKIRNVQAIDLGDIEPTSAVATG 170


>pdb|4AW2|A Chain A, Crystal Structure Of Cdc42 Binding Protein Kinase Alpha
           (Mrck Alpha)
          Length = 437

 Score = 28.1 bits (61), Expect = 5.9,   Method: Compositional matrix adjust.
 Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 11/78 (14%)

Query: 205 WFRSLSWYFLICSNYFFYGESLVDYFGVLINRTRQNNF-----DRAGNRNRDFRRSLSWY 259
           W   +  Y ++     FY ESLV+ +G ++N   +  F     D + N     RR     
Sbjct: 265 WSLGVCMYEMLYGETPFYAESLVETYGKIMNHKERFQFPTQVTDVSENAKDLIRR----- 319

Query: 260 FLICSNYFFYGESLVDYF 277
            LICS     G++ ++ F
Sbjct: 320 -LICSREHRLGQNGIEDF 336


>pdb|2NWL|A Chain A, Crystal Structure Of Gltph In Complex With L-Asp
 pdb|2NWL|B Chain B, Crystal Structure Of Gltph In Complex With L-Asp
 pdb|2NWL|C Chain C, Crystal Structure Of Gltph In Complex With L-Asp
          Length = 422

 Score = 27.3 bits (59), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 9/93 (9%)

Query: 111 NQGTNKVPSLLNRALQGFSERWKNWIIRGIFTWIMIGFFVLIVYGGPLALMVTVSVKTAK 170
           N+   K    L  A+ G +E     I+ G+  +  IG F LI Y         ++ +   
Sbjct: 173 NEKVRKSAETLLDAINGLAEAMYK-IVNGVMQYAPIGVFALIAY--------VMAEQGVH 223

Query: 171 VWDSRAQTTLIVQVKCFEEIINIGYAVYKIHGL 203
           V    A+ T  V V    +I+ + + + KI+G+
Sbjct: 224 VVGELAKVTAAVYVGLTLQILLVYFVLLKIYGI 256


  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
   0.328    0.144    0.471 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,953,034
Number of Sequences: 62578
Number of extensions: 365554
Number of successful extensions: 902
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 900
Number of HSP's gapped (non-prelim): 10
length of query: 283
length of database: 14,973,337
effective HSP length: 98
effective length of query: 185
effective length of database: 8,840,693
effective search space: 1635528205
effective search space used: 1635528205
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.3 bits)