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= 004985
         (721 letters)

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

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



>pdb|3OEC|A Chain A, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Thermoresistibile
 pdb|3OEC|B Chain B, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Thermoresistibile
 pdb|3OEC|C Chain C, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Thermoresistibile
 pdb|3OEC|D Chain D, Crystal Structure Of Carveol Dehydrogenase From
           Mycobacterium Thermoresistibile
          Length = 317

 Score = 31.6 bits (70), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 44/85 (51%), Gaps = 7/85 (8%)

Query: 60  LDLKRASAEEMRKSVYANYAAFIRTSKEISDLEGELSSIRNLLSTQATLIHGLAEGVHID 119
           LD  + S EE++++V        R     +D       +R+L S QA +   LAE  HID
Sbjct: 85  LDYAQGSPEELKETVRLVEEQGRRIIARQAD-------VRDLASLQAVVDEALAEFGHID 137

Query: 120 SLKGSESFASKNDLLNLENKEPSDL 144
            L  +   +++ ++++L +++ SD+
Sbjct: 138 ILVSNVGISNQGEVVSLTDQQWSDI 162


>pdb|3MMP|G Chain G, Structure Of The Qb Replicase, An Rna-Dependent Rna
           Polymerase Consisting Of Viral And Host Proteins
 pdb|3MMP|F Chain F, Structure Of The Qb Replicase, An Rna-Dependent Rna
           Polymerase Consisting Of Viral And Host Proteins
          Length = 589

 Score = 28.9 bits (63), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 13/43 (30%), Positives = 26/43 (60%), Gaps = 1/43 (2%)

Query: 264 TSYGGAYTAALSQLVFSAIAQAACDSLAIFGKE-TAYTSELVM 305
           +S G  YT  L  L+F+++A++ C+ L +   E T Y  ++++
Sbjct: 321 SSMGNGYTFELESLIFASLARSVCEILDLDSSEVTVYGDDIIL 363


>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I
 pdb|3AGQ|A Chain A, Structure Of Viral Polymerase Form Ii
 pdb|3AVT|A Chain A, Structure Of Viral Rna Polymerase Complex 1
 pdb|3AVU|A Chain A, Structure Of Viral Rna Polymerase Complex 2
 pdb|3AVV|A Chain A, Structure Of Viral Rna Polymerase Complex 3
 pdb|3AVW|A Chain A, Structure Of Viral Rna Polymerase Complex 4
 pdb|3AVX|A Chain A, Structure Of Viral Rna Polymerase Complex 5
 pdb|3AVY|A Chain A, Structure Of Viral Rna Polymerase Complex 6
 pdb|3VNU|A Chain A, Complex Structure Of Viral Rna Polymerase I
 pdb|3VNV|A Chain A, Complex Structure Of Viral Rna Polymerase Ii
 pdb|4FWT|A Chain A, Complex Structure Of Viral Rna Polymerase Form Iii
          Length = 1289

 Score = 28.9 bits (63), Expect = 10.0,   Method: Compositional matrix adjust.
 Identities = 13/43 (30%), Positives = 26/43 (60%), Gaps = 1/43 (2%)

Query: 264  TSYGGAYTAALSQLVFSAIAQAACDSLAIFGKE-TAYTSELVM 305
            +S G  YT  L  L+F+++A++ C+ L +   E T Y  ++++
Sbjct: 1015 SSMGNGYTFELESLIFASLARSVCEILDLDSSEVTVYGDDIIL 1057


  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    0.133    0.383 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,510,018
Number of Sequences: 62578
Number of extensions: 697628
Number of successful extensions: 1659
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: 1658
Number of HSP's gapped (non-prelim): 6
length of query: 721
length of database: 14,973,337
effective HSP length: 106
effective length of query: 615
effective length of database: 8,340,069
effective search space: 5129142435
effective search space used: 5129142435
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: 55 (25.8 bits)