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= 027661
         (220 letters)

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

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



>pdb|2GO9|A Chain A, Rrm Domains 1 And 2 Of Prp24 From S. Cerevisiae
          Length = 161

 Score = 35.0 bits (79), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 2/45 (4%)

Query: 128 DPAIAALTKYYSEVFPPSNTPGVSILDLCSSWVSHFPPGYKQDRI 172
           D A+AA+TK +  V    N   VS L  C+ W+++FPP Y Q  I
Sbjct: 55  DGALAAITKTHKVV--GQNEIIVSHLTECTLWMTNFPPSYTQRNI 97


>pdb|2GHP|A Chain A, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|B Chain B, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|C Chain C, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|D Chain D, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|E Chain E, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|F Chain F, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|G Chain G, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
 pdb|2GHP|H Chain H, Crystal Structure Of The N-Terminal 3 Rna Binding Domains
           Of The Yeast Splicing Factor Prp24
          Length = 292

 Score = 34.7 bits (78), Expect = 0.044,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 2/45 (4%)

Query: 128 DPAIAALTKYYSEVFPPSNTPGVSILDLCSSWVSHFPPGYKQDRI 172
           D A+AA+TK +  V    N   VS L  C+ W ++FPP Y Q  I
Sbjct: 92  DGALAAITKTHKVV--GQNEIIVSHLTECTLWXTNFPPSYTQRNI 134


>pdb|4FH1|A Chain A, S. Cerevisiae Ubc13-N79a
          Length = 153

 Score = 28.9 bits (63), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 92  VQWPEQFPFKEEDFQRFDESPDSLFYETP--RFVTHIDDPAIAALTKYYSEVFPPSNTPG 149
           ++ PEQ P+++  F+     PD    E P  RF+T I  PAI  L +   +V   + +P 
Sbjct: 39  IEGPEQSPYEDGIFELELYLPDDYPMEAPKVRFLTKIYHPAIDRLGRISLDVLKTNWSPA 98

Query: 150 VSI 152
           + I
Sbjct: 99  LQI 101


>pdb|2PYX|A Chain A, Crystal Structure Of Tryptophan Halogenase (Yp_750003.1)
           From Shewanella Frigidimarina Ncimb 400 At 1.50 A
           Resolution
 pdb|2PYX|B Chain B, Crystal Structure Of Tryptophan Halogenase (Yp_750003.1)
           From Shewanella Frigidimarina Ncimb 400 At 1.50 A
           Resolution
          Length = 526

 Score = 27.3 bits (59), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 20/61 (32%), Positives = 25/61 (40%), Gaps = 6/61 (9%)

Query: 102 EEDFQRFDESPDSLFYETPRFVTHIDDPAIAALTKYYSEVFPPSNTPGVSILDLCSSWVS 161
           E DF R     D+ F +  RF+    DP       Y   + P S   G   LDLC  W+ 
Sbjct: 77  ENDFIR---QCDASFKQGSRFINWCKDPQSNVADSY---LHPFSLPHGHQELDLCPYWLP 130

Query: 162 H 162
           H
Sbjct: 131 H 131


  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
   0.320    0.135    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,937,456
Number of Sequences: 62578
Number of extensions: 289321
Number of successful extensions: 732
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 729
Number of HSP's gapped (non-prelim): 7
length of query: 220
length of database: 14,973,337
effective HSP length: 95
effective length of query: 125
effective length of database: 9,028,427
effective search space: 1128553375
effective search space used: 1128553375
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)