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= 030884
         (170 letters)

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

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



>pdb|1H3Q|A Chain A, Crystal Sturcture Of Sedl At 2.4 Angstroms Resolution
          Length = 140

 Score = 31.2 bits (69), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 29/99 (29%), Positives = 44/99 (44%), Gaps = 25/99 (25%)

Query: 7  VVGHQNNPLYIQSF------TEADDALKLHH-IVHCSLDVVDERV----NNPKKSGPTLN 55
          +VGH +NP++   F         DD   L+  I H +LD+VDE +    N   K+    N
Sbjct: 9  IVGHHDNPVFEMEFLPPGKAESKDDHRHLNQFIAHAALDLVDENMWLSNNMYLKTVDKFN 68

Query: 56 ETFLGLLYPTENYKVYGYLTNTKVKFILVTTDLDVRDAD 94
          E F           V  ++T   ++FI++    DVR  D
Sbjct: 69 EWF-----------VSAFVTAGHMRFIMLH---DVRQED 93


>pdb|2J3W|A Chain A, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex.
 pdb|2J3W|C Chain C, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex
          Length = 142

 Score = 31.2 bits (69), Expect = 0.29,   Method: Compositional matrix adjust.
 Identities = 29/99 (29%), Positives = 44/99 (44%), Gaps = 25/99 (25%)

Query: 7  VVGHQNNPLYIQSF------TEADDALKLHH-IVHCSLDVVDERV----NNPKKSGPTLN 55
          +VGH +NP++   F         DD   L+  I H +LD+VDE +    N   K+    N
Sbjct: 11 IVGHHDNPVFEMEFLPPGKAESKDDHRHLNQFIAHAALDLVDENMWLSNNMYLKTVDKFN 70

Query: 56 ETFLGLLYPTENYKVYGYLTNTKVKFILVTTDLDVRDAD 94
          E F           V  ++T   ++FI++    DVR  D
Sbjct: 71 EWF-----------VSAFVTAGHMRFIMLH---DVRQED 95


>pdb|1P9E|A Chain A, Crystal Structure Analysis Of Methyl Parathion Hydrolase
           From Pseudomonas Sp Wbc-3
 pdb|1P9E|B Chain B, Crystal Structure Analysis Of Methyl Parathion Hydrolase
           From Pseudomonas Sp Wbc-3
          Length = 331

 Score = 27.7 bits (60), Expect = 3.4,   Method: Compositional matrix adjust.
 Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 40  VDERVNNP-KKSGPTLNETFLGLLYPTENYKVYGYLTNTKVKFILVTT 86
           VD+R+N P  K+   L ++F     P E   V GYL NT  K +LV T
Sbjct: 69  VDKRLNQPAPKTQSALAKSFQ--KAPLET-SVTGYLVNTGSKLVLVDT 113


>pdb|4DY9|A Chain A, Leishmania Major Peroxidase Is A Cytochrome C Peroxidase
 pdb|4GED|B Chain B, Crystal Structure Of The Leishmania Major
           Peroxidase-Cytochrome C Complex
          Length = 113

 Score = 26.9 bits (58), Expect = 5.3,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 20/41 (48%)

Query: 38  DVVDERVNNPKKSGPTLNETFLGLLYPTENYKVYGYLTNTK 78
           +V+D  + NPKK  P    +F G+  P E   V  YL   K
Sbjct: 73  EVLDVYLENPKKFMPGTKMSFAGIKKPQERADVIAYLETLK 113


>pdb|2YK3|A Chain A, Crithidia Fasciculata Cytochrome C
 pdb|2YK3|B Chain B, Crithidia Fasciculata Cytochrome C
 pdb|2YK3|C Chain C, Crithidia Fasciculata Cytochrome C
          Length = 114

 Score = 26.9 bits (58), Expect = 6.0,   Method: Compositional matrix adjust.
 Identities = 15/41 (36%), Positives = 19/41 (46%)

Query: 38  DVVDERVNNPKKSGPTLNETFLGLLYPTENYKVYGYLTNTK 78
           DV+D  + NP K  P    +F G+  P E   V  YL   K
Sbjct: 73  DVLDVYLENPXKFMPGTKMSFAGMKKPQERADVIAYLETLK 113


  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
   0.324    0.138    0.429 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,194,136
Number of Sequences: 62578
Number of extensions: 201755
Number of successful extensions: 576
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 571
Number of HSP's gapped (non-prelim): 8
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)