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= psy12238
         (166 letters)

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

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



>pdb|2JRF|A Chain A, Solution Nmr Structure Of Tubulin Polymerization-Promoting
           Protein Family Member 3 From Homo Sapiens. Northeast
           Structural Genomics Target Hr387
          Length = 184

 Score =  101 bits (252), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 67/165 (40%), Positives = 92/165 (55%), Gaps = 18/165 (10%)

Query: 17  FLGFSSNFKLFSKFGDTKSDGKLLTLSQSDKWMKQAKVIDGKKVTTTDTGIHFKKFKSLK 76
             G   +F+ F+  GD K+ G+ +      K  K  KV DGK VT TD  I F K K   
Sbjct: 7   IAGLEESFRKFAIHGDPKASGQEMNGKNWAKLCKDCKVADGKSVTGTDVDIVFSKVKGKS 66

Query: 77  IGLSDYQKF---IESLA----KHKSVPE-YD----VWASKN------SEAQIQNTISRLT 118
             + +Y++F   +E LA    K KS  E +D    + A K       ++A+    + RLT
Sbjct: 67  ARVINYEEFKKALEELATKRFKGKSKEEAFDAICQLVAGKEPANVGVTKAKTGGAVDRLT 126

Query: 119 DPSRYTGSHKLRFDEAGKGKGLAGRKDSVEAAGYVQGYQNRNSYD 163
           D SRYTGSHK RFDE+GKGKG+AGR+D ++ +GYV  Y+N  +YD
Sbjct: 127 DTSRYTGSHKERFDESGKGKGIAGRQDILDDSGYVSAYKNAGTYD 171


>pdb|1WLM|A Chain A, Solution Structure Of Mouse Cgi-38 Protein
          Length = 151

 Score = 58.5 bits (140), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 47/132 (35%), Positives = 66/132 (50%), Gaps = 18/132 (13%)

Query: 17  FLGFSSNFKLFSKFGDTKSDGKLLTLSQSDKWMKQAKVIDGKKVTTTDTGIHFKKFKSLK 76
             G   +F+ F+  GD K+ G+ +      K  K  KV DGK VT TD  I F K K+  
Sbjct: 14  IAGLEESFRKFAIHGDPKASGQEMNGKNWAKLCKDCKVADGKAVTGTDVDIVFSKVKAKS 73

Query: 77  IGLSDYQKF---IESLA----KHKSVPE-YD----VWASKN------SEAQIQNTISRLT 118
             + +Y++F   +E LA    K KS  E +D    + A K       ++A+    + RLT
Sbjct: 74  ARVINYEEFKKALEELATKRFKGKSKEEAFDAICQLIAGKEPANIGVTKAKTGGAVDRLT 133

Query: 119 DPSRYTGSHKLR 130
           D S+YTGSHK R
Sbjct: 134 DTSKYTGSHKER 145


>pdb|1PUL|A Chain A, Solution Structure For The 21kda Caenorhabditis Elegans
          Protein Ce32e8.3. Northeast Structural Genomics
          Consortium Target Wr33
          Length = 125

 Score = 34.3 bits (77), Expect = 0.030,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 26/45 (57%), Gaps = 2/45 (4%)

Query: 27 FSKFGDTKSDGKLLTLSQSDKWMKQAKVIDGKKVTTTDTGIHFKK 71
          F+KFG   +    +T    DKW+K A V+D K +T T TGI F K
Sbjct: 31 FTKFG--AATATEMTGKNFDKWLKDAGVLDNKAITGTMTGIAFSK 73


>pdb|2RP5|A Chain A, Solution Structure Of The Oligomerization Domain In Cep-1
 pdb|2RP5|B Chain B, Solution Structure Of The Oligomerization Domain In Cep-1
          Length = 136

 Score = 29.3 bits (64), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

Query: 72  FKSLKIGLSDYQKFIESLAKHKSVPEYDVWASKNSEAQIQNT 113
           F++L +  ++Y K +E LA+   VP Y  W      + I  T
Sbjct: 24  FRTLTLSTAEYTKVVEFLAREAKVPRY-TWVPTQVVSHILPT 64


>pdb|3LU2|A Chain A, Structure Of Lmo2462, A Listeria Monocytogenes
           Amidohydrolase Family Putative Dipeptidase
 pdb|3LU2|B Chain B, Structure Of Lmo2462, A Listeria Monocytogenes
           Amidohydrolase Family Putative Dipeptidase
          Length = 311

 Score = 26.6 bits (57), Expect = 6.5,   Method: Compositional matrix adjust.
 Identities = 11/24 (45%), Positives = 17/24 (70%)

Query: 82  YQKFIESLAKHKSVPEYDVWASKN 105
           YQ F+E+L KH +  E + +AS+N
Sbjct: 281 YQNFLETLGKHYTKEEVEGFASRN 304


>pdb|3NEH|A Chain A, Crystal Structure Of The Protein Lmo2462 From Listeria
           Monocytogenes Complexed With Zn And Phosphonate Mimic Of
           Dipeptide L-Leu-D-Ala
 pdb|3NEH|B Chain B, Crystal Structure Of The Protein Lmo2462 From Listeria
           Monocytogenes Complexed With Zn And Phosphonate Mimic Of
           Dipeptide L-Leu-D-Ala
          Length = 318

 Score = 26.2 bits (56), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 11/24 (45%), Positives = 17/24 (70%)

Query: 82  YQKFIESLAKHKSVPEYDVWASKN 105
           YQ F+E+L KH +  E + +AS+N
Sbjct: 280 YQSFLETLEKHYTKEEIEGFASRN 303


  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
   0.316    0.132    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,022,678
Number of Sequences: 62578
Number of extensions: 193716
Number of successful extensions: 476
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 465
Number of HSP's gapped (non-prelim): 12
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)