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= psy4691
         (380 letters)

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

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



>pdb|2W4Y|A Chain A, Caulobacter Bacteriophage 5 - Virus-Like Particle
 pdb|2W4Y|B Chain B, Caulobacter Bacteriophage 5 - Virus-Like Particle
 pdb|2W4Y|C Chain C, Caulobacter Bacteriophage 5 - Virus-Like Particle
 pdb|2W4Z|A Chain A, Caulobacter Bacteriophage 5
 pdb|2W4Z|B Chain B, Caulobacter Bacteriophage 5
 pdb|2W4Z|C Chain C, Caulobacter Bacteriophage 5
          Length = 122

 Score = 29.3 bits (64), Expect = 4.3,   Method: Composition-based stats.
 Identities = 13/34 (38%), Positives = 18/34 (52%)

Query: 36 KKEKRPNSEDYIVANMEFHPMILQPGSTPSVMRQ 69
          K+  +PN   Y   N+EF   +   GSTP  +RQ
Sbjct: 49 KESVKPNQVQYERHNVEFTETVYASGSTPEFVRQ 82


>pdb|3AHR|A Chain A, Inactive Human Ero1
          Length = 465

 Score = 28.1 bits (61), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 32/127 (25%), Positives = 51/127 (40%), Gaps = 15/127 (11%)

Query: 212 WVLHHDNADPFADSSETKKPSLVDVDLDLSAYANAKRFFDLKRSAAKKQQKTIQSTEKAL 271
           W  H D++D FA++ + + P    VDL L    N +R+   K   A K    I   E   
Sbjct: 152 WTKHDDSSDNFAEADDIQSPEAEYVDLLL----NPERYTGYKGPDAWKIWNVIYE-ENCF 206

Query: 272 KSAEKKTKQTLKDVQTMTNINKARKVY-WFEK-------FYWFISSENYLGNVAWDAKVV 323
           K   +  K+ L  + +    ++    Y W E        FY  IS  +   NV   A+ +
Sbjct: 207 KP--QTIKRPLNPLASGQGTSEENTFYSWLEGLCVEKRAFYRLISGLHASINVHLSARYL 264

Query: 324 TNAWWVK 330
               W++
Sbjct: 265 LQETWLE 271


>pdb|3AHQ|A Chain A, Hyperactive Human Ero1
          Length = 465

 Score = 28.1 bits (61), Expect = 8.9,   Method: Compositional matrix adjust.
 Identities = 32/127 (25%), Positives = 51/127 (40%), Gaps = 15/127 (11%)

Query: 212 WVLHHDNADPFADSSETKKPSLVDVDLDLSAYANAKRFFDLKRSAAKKQQKTIQSTEKAL 271
           W  H D++D FA++ + + P    VDL L    N +R+   K   A K    I   E   
Sbjct: 152 WTKHDDSSDNFAEADDIQSPEAEYVDLLL----NPERYTGYKGPDAWKIWNVIYE-ENCF 206

Query: 272 KSAEKKTKQTLKDVQTMTNINKARKVY-WFEK-------FYWFISSENYLGNVAWDAKVV 323
           K   +  K+ L  + +    ++    Y W E        FY  IS  +   NV   A+ +
Sbjct: 207 KP--QTIKRPLNPLASGQGTSEENTFYSWLEGLCVEKRAFYRLISGLHASINVHLSARYL 264

Query: 324 TNAWWVK 330
               W++
Sbjct: 265 LQETWLE 271


  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
   0.315    0.128    0.364 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,235,663
Number of Sequences: 62578
Number of extensions: 387738
Number of successful extensions: 1217
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1213
Number of HSP's gapped (non-prelim): 19
length of query: 380
length of database: 14,973,337
effective HSP length: 101
effective length of query: 279
effective length of database: 8,652,959
effective search space: 2414175561
effective search space used: 2414175561
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: 52 (24.6 bits)