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= 032810
         (133 letters)

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

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



>pdb|2V4J|A Chain A, The Crystal Structure Of Desulfovibrio Vulgaris
           Dissimilatory Sulfite Reductase Bound To Dsrc Provides
           Novel Insights Into The Mechanism Of Sulfate Respiration
 pdb|2V4J|D Chain D, The Crystal Structure Of Desulfovibrio Vulgaris
           Dissimilatory Sulfite Reductase Bound To Dsrc Provides
           Novel Insights Into The Mechanism Of Sulfate Respiration
          Length = 437

 Score = 27.3 bits (59), Expect = 2.6,   Method: Composition-based stats.
 Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 2/39 (5%)

Query: 10  SIATPISNTPSVNRTTKYC--KSKVEFACCNRRRCCYNL 46
           ++ T +  + S  RT + C  KS+ EFAC + +  CY L
Sbjct: 159 NLNTDLGGSGSNLRTPESCLGKSRCEFACYDSQAACYEL 197


>pdb|2BA1|A Chain A, Archaeal Exosome Core
 pdb|2BA1|B Chain B, Archaeal Exosome Core
 pdb|2BA1|C Chain C, Archaeal Exosome Core
 pdb|3M7N|A Chain A, Archaeoglobus Fulgidus Exosome With Rna Bound To The
           Active Site
 pdb|3M7N|B Chain B, Archaeoglobus Fulgidus Exosome With Rna Bound To The
           Active Site
 pdb|3M7N|C Chain C, Archaeoglobus Fulgidus Exosome With Rna Bound To The
           Active Site
 pdb|3M85|A Chain A, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
           Active Site
 pdb|3M85|B Chain B, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
           Active Site
 pdb|3M85|C Chain C, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
           Active Site
          Length = 179

 Score = 26.6 bits (57), Expect = 4.7,   Method: Compositional matrix adjust.
 Identities = 9/14 (64%), Positives = 11/14 (78%)

Query: 114 VLREKDYFKCPECG 127
           ++RE D  KCPECG
Sbjct: 150 MVREGDILKCPECG 163


>pdb|1NRI|A Chain A, Crystal Structure Of Putative Phosphosugar Isomerase
           Hi0754 From Haemophilus Influenzae
          Length = 306

 Score = 26.2 bits (56), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 10/24 (41%), Positives = 20/24 (83%), Gaps = 1/24 (4%)

Query: 77  IIVG-AIAGVTPFVVAGIEFSKRI 99
           ++VG A +G TP+V+AG++++K +
Sbjct: 143 VLVGIAASGRTPYVIAGLQYAKSL 166


>pdb|1AWP|A Chain A, Rat Outer Mitochondrial Membrane Cytochrome B5
 pdb|1AWP|B Chain B, Rat Outer Mitochondrial Membrane Cytochrome B5
          Length = 92

 Score = 25.8 bits (55), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 62 VSSVAGPVTAEVTWQIIVGAIAGVTPFV 89
          +  VA   TAE TW +I G +  +T F+
Sbjct: 14 LEEVAKRNTAEETWMVIHGRVYDITRFL 41


>pdb|1EUE|A Chain A, Rat Outer Mitochondrial Membrane Cytochrome B5
 pdb|1EUE|B Chain B, Rat Outer Mitochondrial Membrane Cytochrome B5
          Length = 86

 Score = 25.8 bits (55), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 12/35 (34%), Positives = 18/35 (51%)

Query: 55 PSAASNDVSSVAGPVTAEVTWQIIVGAIAGVTPFV 89
          P+     +  VA   TAE TW +I G +  +T F+
Sbjct: 2  PAVTYYRLEEVAKRNTAEETWMVIHGRVYDITRFL 36


>pdb|3MUS|A Chain A, 2a Resolution Structure Of Rat Type B Cytochrome B5
 pdb|3MUS|B Chain B, 2a Resolution Structure Of Rat Type B Cytochrome B5
          Length = 87

 Score = 25.4 bits (54), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 12/35 (34%), Positives = 18/35 (51%)

Query: 55 PSAASNDVSSVAGPVTAEVTWQIIVGAIAGVTPFV 89
          P+     +  VA   TAE TW +I G +  +T F+
Sbjct: 2  PAVTYYRLEEVAKRNTAEETWMVIHGRVYDITRFL 36


  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
   0.323    0.134    0.426 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,837,793
Number of Sequences: 62578
Number of extensions: 132489
Number of successful extensions: 355
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 351
Number of HSP's gapped (non-prelim): 8
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)