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= 013058
         (450 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 = 42.4 bits (98), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 25/83 (30%), Positives = 42/83 (50%)

Query: 364 PRVADRMPSVPENVCDQIRLWESDLNRVEMTPAHYYDEFPSRDVFEAACDYARDQSGLLW 423
           P   + +  +P  V DQIRLW+ +L+RV       Y +F +   +     YA+D   LLW
Sbjct: 19  PNCKEPLQVLPPTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLW 78

Query: 424 EDPKKMRLVVKAEIHMHMREFLR 446
           +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 = 38.1 bits (87), Expect = 0.009,   Method: Composition-based stats.
 Identities = 24/74 (32%), Positives = 39/74 (52%)

Query: 377 VCDQIRLWESDLNRVEMTPAHYYDEFPSRDVFEAACDYARDQSGLLWEDPKKMRLVVKAE 436
           V DQIRLW+ +L+RV       Y +F +   +     YA+D   LLW+D KK +  +  E
Sbjct: 4   VVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQDIGVLLWKDDKKKKFFISKE 63

Query: 437 IHMHMREFLRGQNK 450
            +  + +F + + K
Sbjct: 64  GNSQVLDFAKRKLK 77


>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 = 36.6 bits (83), Expect = 0.028,   Method: Compositional matrix adjust.
 Identities = 32/116 (27%), Positives = 54/116 (46%), Gaps = 9/116 (7%)

Query: 218 GINQADLISFLLELSFHVAGEAY--NLNTLSEIQKSMIKDFADLGLVKL-QQGRKENWFI 274
           G   ADLI+   E    V G +Y  +  + + I+   I D A LG +++ +QG   NW I
Sbjct: 63  GTEDADLINAGKETITEVTGASYFDSAESFAMIRGGHI-DLAILGGMEVSEQGDLANWMI 121

Query: 275 PTKLATNL--SMSLTDSSARKEGFIVVETNFRMYAYSTSKLHCEILRLFSKVEYQL 328
           P K+   +  +M L + + R    +V+  +   +  S  K  C +     KV ++L
Sbjct: 122 PGKMVKGMGGAMDLVNGAKR---IVVIMEHVNKHGESKVKKTCSLPLTGQKVVHRL 174


>pdb|1KL7|A Chain A, Crystal Structure Of Threonine Synthase From Yeast
 pdb|1KL7|B Chain B, Crystal Structure Of Threonine Synthase From Yeast
          Length = 514

 Score = 32.0 bits (71), Expect = 0.75,   Method: Compositional matrix adjust.
 Identities = 18/57 (31%), Positives = 32/57 (56%), Gaps = 4/57 (7%)

Query: 162 TNFSSSMMKVFQRGLLSRRDKEAPRLTESGFQFLLMDTNAQ--LWYIVREYISNSQE 216
           TN +  + +  + GL  R DK A  L+ +    +L+ +N +  LWY+ REY++N  +
Sbjct: 302 TNENDILDRFLKSGLYERSDKVAATLSPA--XDILISSNFERLLWYLAREYLANGDD 356


>pdb|1SJI|A Chain A, Comparing Skeletal And Cardiac Calsequestrin Structures
           And Their Calcium Binding: A Proposed Mechanism For
           Coupled Calcium Binding And Protein Polymerization
 pdb|1SJI|B Chain B, Comparing Skeletal And Cardiac Calsequestrin Structures
           And Their Calcium Binding: A Proposed Mechanism For
           Coupled Calcium Binding And Protein Polymerization
          Length = 350

 Score = 28.5 bits (62), Expect = 7.7,   Method: Compositional matrix adjust.
 Identities = 20/89 (22%), Positives = 36/89 (40%), Gaps = 11/89 (12%)

Query: 350 TAEQIISFLQQNAHPRVADRMPSVPENVCDQIRLWESDLNRVEMTPAHYYDEFPSRDVFE 409
           T E+++ F++++  P +    P       D    WE DLN + +       +    +  E
Sbjct: 212 TEEELVEFVKEHQRPTLRRLRPE------DMFETWEDDLNGIHIVAFAERSDPDGYEFLE 265

Query: 410 AACDYARDQS-----GLLWEDPKKMRLVV 433
                ARD +      ++W DP    L+V
Sbjct: 266 ILKQVARDNTDNPDLSIVWIDPDDFPLLV 294


  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    0.135    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,513,761
Number of Sequences: 62578
Number of extensions: 489372
Number of successful extensions: 978
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 974
Number of HSP's gapped (non-prelim): 7
length of query: 450
length of database: 14,973,337
effective HSP length: 102
effective length of query: 348
effective length of database: 8,590,381
effective search space: 2989452588
effective search space used: 2989452588
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: 53 (25.0 bits)