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= psy12917
         (198 letters)

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

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



>pdb|3KO2|A Chain A, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
           (-7c)
 pdb|3KO2|B Chain B, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
           (-7c)
 pdb|3KO2|F Chain F, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
           (-7c)
 pdb|3KO2|G Chain G, I-Msoi Re-Designed For Altered Dna Cleavage Specificity
           (-7c)
          Length = 170

 Score = 30.0 bits (66), Expect = 0.78,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 1/33 (3%)

Query: 135 GIQGVIRKTVSDDLVE-NIWESTHMEKIIPSLL 166
           G +G +RK   D + +  IW STH+  I+P L+
Sbjct: 66  GKRGTLRKDRGDGIADYTIWGSTHLSIILPDLV 98


>pdb|3R2W|A Chain A, Crystal Strucutre Of Udp-Glucose Pyrophosphorylase Of Homo
           Sapiens
 pdb|3R2W|B Chain B, Crystal Strucutre Of Udp-Glucose Pyrophosphorylase Of Homo
           Sapiens
 pdb|3R2W|C Chain C, Crystal Strucutre Of Udp-Glucose Pyrophosphorylase Of Homo
           Sapiens
 pdb|3R2W|D Chain D, Crystal Strucutre Of Udp-Glucose Pyrophosphorylase Of Homo
           Sapiens
 pdb|3R3I|A Chain A, Crystal Structure Of C-Terminal Truncation Of Udp-Glucose
           Pyrophosphorylase Of Homo Sapiens
 pdb|3R3I|B Chain B, Crystal Structure Of C-Terminal Truncation Of Udp-Glucose
           Pyrophosphorylase Of Homo Sapiens
 pdb|3R3I|C Chain C, Crystal Structure Of C-Terminal Truncation Of Udp-Glucose
           Pyrophosphorylase Of Homo Sapiens
 pdb|3R3I|D Chain D, Crystal Structure Of C-Terminal Truncation Of Udp-Glucose
           Pyrophosphorylase Of Homo Sapiens
          Length = 528

 Score = 27.7 bits (60), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 24/110 (21%), Positives = 47/110 (42%), Gaps = 11/110 (10%)

Query: 29  DISRRRNGYVVIAMEAMDQLLAACHS-------QTLNLFVESFLKIVQKLLESLDPDLQI 81
           +IS   N  VV+ +         C         +  N F++  ++ ++ L ++ + D+ +
Sbjct: 120 NISSVLNKLVVVKLNGGLGTSMGCKGPKSLIGVRNENTFLDLTVQQIEHLNKTYNTDVPL 179

Query: 82  LATNSFVRFANIEEDTPSYHRRYDFFVSKFSALCHSNYADVTKRNKLRLA 131
           +  NSF    N +EDT    ++Y+    K      S Y  + K + L +A
Sbjct: 180 VLMNSF----NTDEDTKKILQKYNHCRVKIYTFNQSRYPRINKESLLPVA 225


>pdb|2Z6E|A Chain A, Crystal Structure Of Human Daam1 Fh2
 pdb|2Z6E|B Chain B, Crystal Structure Of Human Daam1 Fh2
 pdb|2Z6E|C Chain C, Crystal Structure Of Human Daam1 Fh2
 pdb|2Z6E|D Chain D, Crystal Structure Of Human Daam1 Fh2
          Length = 419

 Score = 26.9 bits (58), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 25/47 (53%)

Query: 92  NIEEDTPSYHRRYDFFVSKFSALCHSNYADVTKRNKLRLAGIRGIQG 138
           ++E    +Y R+ DFFV+  S    ++  D T  +KL++  +  I G
Sbjct: 51  DLERTFSAYQRQQDFFVNSNSKQKEADAIDDTLSSKLKVKELSVIDG 97


>pdb|2J1D|G Chain G, Crystallization Of Hdaam1 C-Terminal Fragment
          Length = 483

 Score = 26.6 bits (57), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 14/47 (29%), Positives = 25/47 (53%)

Query: 92  NIEEDTPSYHRRYDFFVSKFSALCHSNYADVTKRNKLRLAGIRGIQG 138
           ++E    +Y R+ DFFV+  S    ++  D T  +KL++  +  I G
Sbjct: 49  DLERTFSAYQRQQDFFVNSNSKQKEADAIDDTLSSKLKVKELSVIDG 95


  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
   0.319    0.134    0.380 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,499,988
Number of Sequences: 62578
Number of extensions: 202385
Number of successful extensions: 545
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 543
Number of HSP's gapped (non-prelim): 10
length of query: 198
length of database: 14,973,337
effective HSP length: 94
effective length of query: 104
effective length of database: 9,091,005
effective search space: 945464520
effective search space used: 945464520
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)