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= psy17574
         (143 letters)

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

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



>pdb|3TUO|A Chain A, Crystal Structure Of N-Terminal Domain Of Dna-Binding
           Protein Satb1
 pdb|3TUO|B Chain B, Crystal Structure Of N-Terminal Domain Of Dna-Binding
           Protein Satb1
 pdb|3TUO|C Chain C, Crystal Structure Of N-Terminal Domain Of Dna-Binding
           Protein Satb1
 pdb|3TUO|D Chain D, Crystal Structure Of N-Terminal Domain Of Dna-Binding
           Protein Satb1
          Length = 105

 Score = 62.4 bits (150), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 35/107 (32%), Positives = 57/107 (53%), Gaps = 7/107 (6%)

Query: 2   GKSLPVHCVVEAVYSVHHWKSAKNSRKAILETDTYVITPTNTNFQDLVPVALQRLGYSKE 61
           G  LPV CVVE     H+  + +   K   E   +V+   +  F  L+ +AL  LGYS  
Sbjct: 5   GTMLPVFCVVE-----HYENAIEYDCKE--EHAEFVLVRKDMLFNQLIEMALLSLGYSHS 57

Query: 62  NFYSAKGYVGIKNWKPISISKISENPATTVGDILGELTTVATLRIKI 108
           +   AKG + +  W P+ +S +++ P  TV D+L ++  V TL+I++
Sbjct: 58  SAAQAKGLIQVGKWNPVPLSYVTDAPDATVADMLQDVYHVVTLKIQL 104


>pdb|1CWV|A Chain A, Crystal Structure Of Invasin: A Bacterial Integrin-Binding
           Protein
          Length = 492

 Score = 28.9 bits (63), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 23/79 (29%), Positives = 35/79 (44%), Gaps = 4/79 (5%)

Query: 67  KGYVGIKNWKPISISKISENP----ATTVGDILGELTTVATLRIKIFRTRPCILAEMKDK 122
           +G    +N  P+SIS I+E P    AT VG+ +G++T    +   I  T    ++     
Sbjct: 243 QGLSFTQNGVPVSISPITEQPDSYTATVVGNSVGDVTITPQVDTLILSTLQKKISLFPVP 302

Query: 123 LLRLLLVQSQTQIIASGCP 141
            L  +LV  Q      G P
Sbjct: 303 TLTGILVNGQNFATDKGFP 321


>pdb|1DL5|A Chain A, Protein-L-Isoaspartate O-Methyltransferase
 pdb|1DL5|B Chain B, Protein-L-Isoaspartate O-Methyltransferase
          Length = 317

 Score = 27.7 bits (60), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 22/94 (23%), Positives = 40/94 (42%), Gaps = 5/94 (5%)

Query: 53  LQRLGYSKENFYSAKGYVGIKNWKPISI----SKISENPATTVGDILGELTTVATLRIKI 108
           ++RLG     F    GY G+  + P  +      + E P T    +      +  + +K+
Sbjct: 120 VERLGIENVIFVCGDGYYGVPEFSPYDVIFVTVGVDEVPETWFTQLKEGGRVIVPINLKL 179

Query: 109 FRTRPCILAEMKDKLLRLLLVQSQTQIIASGCPL 142
            R +P  L + KD  L +   + +T+ I +G  L
Sbjct: 180 SRRQPAFLFKKKDPYL-VGNYKLETRFITAGGNL 212


>pdb|3JS8|A Chain A, Solvent-Stable Cholesterol Oxidase
          Length = 540

 Score = 27.3 bits (59), Expect = 2.8,   Method: Composition-based stats.
 Identities = 20/82 (24%), Positives = 38/82 (46%), Gaps = 6/82 (7%)

Query: 21  KSAKNSRKAILETDTYVITPTNTNFQDLVPVALQRLGYSKENFYSAKGYVGIKNWKPISI 80
           +S KN    I   D +   P + +  ++V VA     ++K+N Y  +    + NW P+++
Sbjct: 17  QSFKNWAGDIKVDDVWTCAPRSAD--EVVKVA----NWAKDNGYKVRARGMMHNWSPLTL 70

Query: 81  SKISENPATTVGDILGELTTVA 102
           +     PA  + D    LT ++
Sbjct: 71  AAGVSCPAVVLLDTTRYLTAMS 92


  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
   0.318    0.134    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,046,858
Number of Sequences: 62578
Number of extensions: 149600
Number of successful extensions: 261
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 260
Number of HSP's gapped (non-prelim): 5
length of query: 143
length of database: 14,973,337
effective HSP length: 89
effective length of query: 54
effective length of database: 9,403,895
effective search space: 507810330
effective search space used: 507810330
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)