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= 025474
         (252 letters)

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

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



>pdb|3SXU|B Chain B, Structure Of The E. Coli Ssb-Dna Polymerase Iii Interface
          Length = 138

 Score = 32.3 bits (72), Expect = 0.23,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 3/61 (4%)

Query: 192 MEGYRQDWKLS---FERDTVSRGGWQQGGIIVAGPGKSNISYIHRDKEAGDDPDIQDILK 248
           M   R+DW+L      + ++ R G  QG I +A P    +  +  D  A  DP + D+L+
Sbjct: 1   MGTSRRDWQLQQLGITQWSLRRPGALQGEIAIAIPAHVRLVMVANDLPALTDPLVSDVLR 60

Query: 249 A 249
           A
Sbjct: 61  A 61


>pdb|2H1B|A Chain A, Resa E80q
 pdb|2H1B|B Chain B, Resa E80q
 pdb|2H1B|C Chain C, Resa E80q
 pdb|2H1B|D Chain D, Resa E80q
          Length = 143

 Score = 29.3 bits (64), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 6/61 (9%)

Query: 82  DVNGNAIPISDLWKDRKAVVAFARHFG--CVLCRKRADYLAAKKDVMDASGVALVLIGPG 139
           D NG  I +SDL    K    F   +G  C  C+K+  Y+A +     + GV +V +  G
Sbjct: 13  DTNGKRIELSDL----KGKGVFLNFWGTWCEPCKKQFPYMANQYKHFKSQGVEIVAVNVG 68

Query: 140 S 140
            
Sbjct: 69  E 69


>pdb|3C73|A Chain A, Structure Of Cehc Variant Resa
 pdb|3C73|B Chain B, Structure Of Cehc Variant Resa
          Length = 140

 Score = 29.3 bits (64), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 6/61 (9%)

Query: 82  DVNGNAIPISDLWKDRKAVVAFARHFG--CVLCRKRADYLAAKKDVMDASGVALVLIGPG 139
           D NG  I +SDL    K    F   +G  C  C+K   Y+A +     + GV +V +  G
Sbjct: 10  DTNGKRIELSDL----KGKGVFLNFWGTWCEHCKKEFPYMANQYKHFKSQGVEIVAVNVG 65

Query: 140 S 140
            
Sbjct: 66  E 66


>pdb|3C71|A Chain A, Struture Of A Resa Variant With A Dsba-Like Active Site
           Motif (Cphc)
          Length = 143

 Score = 28.9 bits (63), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 6/65 (9%)

Query: 82  DVNGNAIPISDLWKDRKAVVAFARHFG--CVLCRKRADYLAAKKDVMDASGVALVLIGPG 139
           D NG  I +SDL    K    F   +G  C  C+K   Y+A +     + GV +V +  G
Sbjct: 13  DTNGKRIELSDL----KGKGVFLNFWGTWCPHCKKEFPYMANQYKHFKSQGVEIVAVNVG 68

Query: 140 SVEQA 144
             + A
Sbjct: 69  ESKIA 73


>pdb|1ST9|A Chain A, Crystal Structure Of A Soluble Domain Of Resa In The
           Oxidised Form
 pdb|1ST9|B Chain B, Crystal Structure Of A Soluble Domain Of Resa In The
           Oxidised Form
 pdb|1SU9|A Chain A, Reduced Structure Of The Soluble Domain Of Resa
 pdb|1SU9|B Chain B, Reduced Structure Of The Soluble Domain Of Resa
 pdb|2H1D|A Chain A, Resa Ph 9.25
 pdb|2H1D|B Chain B, Resa Ph 9.25
          Length = 143

 Score = 28.9 bits (63), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 6/61 (9%)

Query: 82  DVNGNAIPISDLWKDRKAVVAFARHFG--CVLCRKRADYLAAKKDVMDASGVALVLIGPG 139
           D NG  I +SDL    K    F   +G  C  C+K   Y+A +     + GV +V +  G
Sbjct: 13  DTNGKRIELSDL----KGKGVFLNFWGTWCEPCKKEFPYMANQYKHFKSQGVEIVAVNVG 68

Query: 140 S 140
            
Sbjct: 69  E 69


  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    0.135    0.414 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,380,234
Number of Sequences: 62578
Number of extensions: 281860
Number of successful extensions: 486
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 485
Number of HSP's gapped (non-prelim): 6
length of query: 252
length of database: 14,973,337
effective HSP length: 97
effective length of query: 155
effective length of database: 8,903,271
effective search space: 1380007005
effective search space used: 1380007005
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: 50 (23.9 bits)