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= 008082
         (578 letters)

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

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



>pdb|3MIX|A Chain A, Crystal Structure Of The Cytosolic Domain Of B. Subtilis
           Flha
          Length = 382

 Score = 30.4 bits (67), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 26/88 (29%), Positives = 47/88 (53%), Gaps = 8/88 (9%)

Query: 164 MQNLRIELTETLSLVEKLKNELSYCKESESQALEDVRKSQ-------MQLETANANLEML 216
           ++NL + + ETL+   KL  +     E   QAL     +Q       +++ T +  +E  
Sbjct: 237 IRNL-VTIFETLADYGKLTTDSDLLTEYTRQALAKQITAQFAKENEVLKVVTCSGRVEKA 295

Query: 217 RSDGIKATEAYNTLSLELELSKARVKSL 244
            +DG++ TE  N LSLE ++S++ V+S+
Sbjct: 296 IADGVQQTEHGNYLSLEPDISESIVRSV 323


>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 434

 Score = 30.0 bits (66), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 28/84 (33%), Positives = 46/84 (54%), Gaps = 8/84 (9%)

Query: 327 LERAKSESSQREADLETELKNVKAQIEELRANLLDKE-----TELQSISEENEGLNLKIK 381
           LE   +++   + +L+ E+ N+  Q  + RA LLD E     +ELQ +S EN  +  KIK
Sbjct: 4   LEELDAQTLPGDDELDQEILNLSTQELQTRAKLLDNEIRIFRSELQRLSHENNVMLEKIK 63

Query: 382 TNESNQRDSKLAVELNKLEAEVVE 405
            N+   ++++   +L  L A VVE
Sbjct: 64  DNKEKIKNNR---QLPYLVANVVE 84


>pdb|3QPH|A Chain A, The Three-Dimensional Structure Of Trmb, A Global
           Transcriptional Regulator Of The Hyperthermophilic
           Archaeon Pyrococcus Furiosus In Complex With Sucrose
          Length = 342

 Score = 30.0 bits (66), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 22/87 (25%), Positives = 41/87 (47%), Gaps = 11/87 (12%)

Query: 7   GSPKVVERKSPRSPALEKQRPSRVSELESQLAQLQEDLKKAKEQLNASDSWKRRAQQEAE 66
           G+PKV    SPR      ++     ELE  + +L+ +L   K++      W+ R+  EA 
Sbjct: 67  GTPKVYAAYSPRIAFFRFKK-----ELEDIMKKLEIELNNVKKEEQRPAIWRSRSFDEAI 121

Query: 67  EAKKQLSAMSARLEESQQQLLEITTSE 93
           E  ++       L  ++ +++ +T SE
Sbjct: 122 EMFRE------SLYSAKNEVIVVTPSE 142


>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
            Chicken Gizzard Smooth Muscle Myosin With Regulatory
            Light Chain In The Dephosphorylated State. Only C Alphas
            Provided For Regulatory Light Chain. Only Backbone Atoms
            Provided For S2 Fragment.
 pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
            Chicken Gizzard Smooth Muscle Myosin With Regulatory
            Light Chain In The Dephosphorylated State. Only C Alphas
            Provided For Regulatory Light Chain. Only Backbone Atoms
            Provided For S2 Fragment
          Length = 1184

 Score = 28.9 bits (63), Expect = 7.3,   Method: Compositional matrix adjust.
 Identities = 17/44 (38%), Positives = 28/44 (63%)

Query: 325  EQLERAKSESSQREADLETELKNVKAQIEELRANLLDKETELQS 368
            ++LE+ K +     +DL  ++  ++AQI EL+A L  KE ELQ+
Sbjct: 1056 QELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQA 1099


  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
   0.303    0.120    0.300 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,135,304
Number of Sequences: 62578
Number of extensions: 463330
Number of successful extensions: 1697
Number of sequences better than 100.0: 137
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 108
Number of HSP's that attempted gapping in prelim test: 1494
Number of HSP's gapped (non-prelim): 261
length of query: 578
length of database: 14,973,337
effective HSP length: 104
effective length of query: 474
effective length of database: 8,465,225
effective search space: 4012516650
effective search space used: 4012516650
T: 11
A: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 54 (25.4 bits)