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= 022130
         (302 letters)

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

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



>pdb|3IZR|BB Chain b, Localization Of The Large Subunit Ribosomal Proteins Into
           A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
           Ribosome
          Length = 147

 Score = 31.6 bits (70), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 17/97 (17%), Positives = 44/97 (45%), Gaps = 7/97 (7%)

Query: 4   DEVIWQVIRHNHCSFMAKIETG----KFCRNPYNVTGICNRSSCPLANSRYATIRDH--- 56
           + +IW++++ N+C  + +        +F + P N+  + +     LAN +  TI+     
Sbjct: 6   EPLIWEIVKKNNCFLVKQFGNSNAKVQFTKEPNNLYNVHSYKHSGLANKKTVTIQPSGVK 65

Query: 57  DGVFYLYMKTIERAHQPNQLWERVKLPRNYEKALEII 93
           D    L     ++ + P +L+ +  + + + K  + +
Sbjct: 66  DAAVVLSTTKTKKQNAPAKLYHKSVMRKEFRKMAKAV 102


>pdb|2GRV|A Chain A, Crystal Structure Of Lpqw
 pdb|2GRV|B Chain B, Crystal Structure Of Lpqw
 pdb|2GRV|C Chain C, Crystal Structure Of Lpqw
          Length = 621

 Score = 31.2 bits (69), Expect = 0.67,   Method: Compositional matrix adjust.
 Identities = 11/22 (50%), Positives = 16/22 (72%)

Query: 23  ETGKFCRNPYNVTGICNRSSCP 44
           E+G+  + P N+TGIC+RS  P
Sbjct: 531 ESGELVQAPSNITGICDRSIQP 552


>pdb|3O9Z|A Chain A, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
           Thermus Thermophilus In Complex With Nad And
           Alpha-Ketoglutarate At 1.45 Angstrom Resolution
 pdb|3O9Z|B Chain B, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
           Thermus Thermophilus In Complex With Nad And
           Alpha-Ketoglutarate At 1.45 Angstrom Resolution
 pdb|3O9Z|C Chain C, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
           Thermus Thermophilus In Complex With Nad And
           Alpha-Ketoglutarate At 1.45 Angstrom Resolution
 pdb|3O9Z|D Chain D, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
           Thermus Thermophilus In Complex With Nad And
           Alpha-Ketoglutarate At 1.45 Angstrom Resolution
 pdb|3OA0|A Chain A, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
           Thermus Thermophilus In Complex With Nad And Udp-Glcnaca
 pdb|3OA0|B Chain B, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
           Thermus Thermophilus In Complex With Nad And Udp-Glcnaca
 pdb|3OA0|C Chain C, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
           Thermus Thermophilus In Complex With Nad And Udp-Glcnaca
 pdb|3OA0|D Chain D, Crystal Structure Of The Wlba (Wbpb) Dehydrogenase From
           Thermus Thermophilus In Complex With Nad And Udp-Glcnaca
          Length = 312

 Score = 28.5 bits (62), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 13/85 (15%)

Query: 53  IRDH-DGVFYLYMKTIERAHQPNQLWERVKLPRNYEKALEIIDKNLMYWP------KFLV 105
           +RD  +GV YL + +    H P Q+   ++L  N      + +K L+ WP      K L 
Sbjct: 66  LRDRGEGVDYLSIASPNHLHYP-QIRMALRLGAN-----ALSEKPLVLWPEEIARLKELE 119

Query: 106 HKTKQRLTKMTQMRIRMRKLALKTR 130
            +T +R+  + Q+R+    LALK R
Sbjct: 120 ARTGRRVYTVLQLRVHPSLLALKER 144


  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    0.134    0.395 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,958,925
Number of Sequences: 62578
Number of extensions: 218071
Number of successful extensions: 479
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 478
Number of HSP's gapped (non-prelim): 4
length of query: 302
length of database: 14,973,337
effective HSP length: 98
effective length of query: 204
effective length of database: 8,840,693
effective search space: 1803501372
effective search space used: 1803501372
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: 51 (24.3 bits)