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= psy8442
         (130 letters)

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

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



>pdb|2P24|B Chain B, I-AuMBP125-135
          Length = 259

 Score = 28.9 bits (63), Expect = 0.77,   Method: Compositional matrix adjust.
 Identities = 21/69 (30%), Positives = 32/69 (46%), Gaps = 7/69 (10%)

Query: 28  YLRSGMETVLPNEPSYYLRSGMET----VLPNEPPYYLRRGKTLTFHVGDPIDLAPILTD 83
           + R+G E  +    +  +R+G  T    V+    P   RRG+  T HV  P   +PI  +
Sbjct: 182 WFRNGQEETVGVSSTQLIRNGDWTFQVLVMLEMTP---RRGEVYTCHVEHPSLKSPITVE 238

Query: 84  LRAANLSDR 92
            RA + S R
Sbjct: 239 WRAQSESAR 247


>pdb|3V76|A Chain A, The Crystal Structure Of A Flavoprotein From Sinorhizobium
           Meliloti
          Length = 417

 Score = 26.9 bits (58), Expect = 2.9,   Method: Composition-based stats.
 Identities = 26/86 (30%), Positives = 36/86 (41%), Gaps = 16/86 (18%)

Query: 60  YLRRGKTLTFHVGDPIDLAPILTDLRAANLSDREVRAA--------LTQFIQDE------ 105
           Y R G+ +   +   ID+A IL   R AN   + V+ A        L QF  DE      
Sbjct: 269 YWREGEEIVLRLXPDIDIASILKGXRRAN-GRQAVQTALADILPRRLAQFFADEAKLTGR 327

Query: 106 -LYALKARTEDLHAAHLKEDARMPKG 130
            L  L  +T D  A+ ++  A  P G
Sbjct: 328 XLADLSDKTIDALASSIQVWAVKPAG 353


>pdb|1X9R|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
          Oxidised Form
 pdb|1X9R|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
          Oxidised Form
 pdb|1X9U|A Chain A, Umecyanin From Horse Raddish- Crystal Structure Of The
          Reduced Form
 pdb|1X9U|B Chain B, Umecyanin From Horse Raddish- Crystal Structure Of The
          Reduced Form
          Length = 116

 Score = 26.2 bits (56), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 22/44 (50%), Gaps = 2/44 (4%)

Query: 43 YYLRSGMETVLPNEPPYYLRRGKTLTFHVGDPI--DLAPILTDL 84
          Y +   ME   P++P +Y+      TF VGD +  D A  + D+
Sbjct: 4  YDVGGDMEWKRPSDPKFYITWATGKTFRVGDELEFDFAAGMHDV 47


>pdb|2OWM|A Chain A, Motor Domain Of Neurospora Crassa Kinesin-3 (Nckin3)
 pdb|2OWM|B Chain B, Motor Domain Of Neurospora Crassa Kinesin-3 (Nckin3)
 pdb|2OWM|C Chain C, Motor Domain Of Neurospora Crassa Kinesin-3 (Nckin3)
 pdb|2OWM|D Chain D, Motor Domain Of Neurospora Crassa Kinesin-3 (Nckin3)
          Length = 443

 Score = 25.8 bits (55), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 9/19 (47%), Positives = 15/19 (78%)

Query: 44  YLRSGMETVLPNEPPYYLR 62
           ++R  +  V+PN+PPYYL+
Sbjct: 200 HVRDLLAPVVPNKPPYYLK 218


  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    0.136    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,840,798
Number of Sequences: 62578
Number of extensions: 146007
Number of successful extensions: 334
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 325
Number of HSP's gapped (non-prelim): 15
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
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: 45 (21.9 bits)