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= 029030
         (200 letters)

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

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



>pdb|3DOM|A Chain A, Crystal Structure Of The Complex Between Tfb5 And The
           C-Terminal Domain Of Tfb2
 pdb|3DOM|C Chain C, Crystal Structure Of The Complex Between Tfb5 And The
           C-Terminal Domain Of Tfb2
          Length = 108

 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 43/83 (51%)

Query: 114 PRVADRIPSVPENVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLW 173
           P   + +  +P  V DQIRLW+ +L+RV       Y +F +   +     YA+D   LLW
Sbjct: 19  PNCKEPLQVLPPTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLW 78

Query: 174 EDSKKMRLVVNAEIHMHMREFLR 196
           +D KK +  ++ E +  + +F +
Sbjct: 79  KDDKKKKFFISKEGNSQVLDFAK 101


>pdb|3DGP|A Chain A, Crystal Structure Of The Complex Between Tfb5 And The
           C-Terminal Domain Of Tfb2
          Length = 80

 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/71 (32%), Positives = 38/71 (53%)

Query: 126 NVCDQIRLWESDLNRVEMTPAHYYEEFPSRDVFEAACDYARDRSGLLWEDSKKMRLVVNA 185
            V DQIRLW+ +L+RV       Y +F +   +     YA+D   LLW+D KK +  ++ 
Sbjct: 3   TVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLWKDDKKKKFFISK 62

Query: 186 EIHMHMREFLR 196
           E +  + +F +
Sbjct: 63  EGNSQVLDFAK 73


>pdb|3CDK|B Chain B, Crystal Structure Of The Co-Expressed Succinyl-Coa
           Transferase A And B Complex From Bacillus Subtilis
 pdb|3CDK|D Chain D, Crystal Structure Of The Co-Expressed Succinyl-Coa
           Transferase A And B Complex From Bacillus Subtilis
          Length = 219

 Score = 30.0 bits (66), Expect = 0.79,   Method: Compositional matrix adjust.
 Identities = 19/77 (24%), Positives = 36/77 (46%), Gaps = 5/77 (6%)

Query: 4   DFADLGLVKLQQVGRKESWFIPTKLATNL--SMSLTDSSARKEGFVVVETNFRMYAYSTS 61
           D A LG +++ + G   +W IP K+   +  +M L + + R    VV+  +   +  S  
Sbjct: 101 DLAILGGMEVSEQGDLANWMIPGKMVKGMGGAMDLVNGAKR---IVVIMEHVNKHGESKV 157

Query: 62  KLHCEILRLFSKIEYQL 78
           K  C +     K+ ++L
Sbjct: 158 KKTCSLPLTGQKVVHRL 174


>pdb|3L8K|A Chain A, Crystal Structure Of A Dihydrolipoyl Dehydrogenase From
           Sulfolobus Solfataricus
 pdb|3L8K|B Chain B, Crystal Structure Of A Dihydrolipoyl Dehydrogenase From
           Sulfolobus Solfataricus
          Length = 466

 Score = 27.3 bits (59), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 28/102 (27%), Positives = 50/102 (49%), Gaps = 13/102 (12%)

Query: 24  IPTKLATNLSMS---LTDSSARKEGFVVVETNFRMYAYSTSKLHCE---ILRL-FSKIEY 76
           IP  + T  S+S   +  S ARK G  +VE  + M    +++++ +   +L+L F +   
Sbjct: 345 IPVTIYTIPSLSYVGILPSKARKMGIEIVEAEYNMEEDVSAQIYGQKEGVLKLIFERGSM 404

Query: 77  QLPNLIVGAITKESLYN----AFENGITAEQIISFLQQNAHP 114
           +L    +  +  + L N    A   G+ A+Q+ SF +Q  HP
Sbjct: 405 RLIGAWMIGVHSQYLINELGLAVAYGLNAKQLASFAEQ--HP 444


  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
   0.321    0.134    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,713,231
Number of Sequences: 62578
Number of extensions: 214362
Number of successful extensions: 434
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 429
Number of HSP's gapped (non-prelim): 11
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)