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= 007977
         (582 letters)

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

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



>pdb|2F6U|A Chain A, Crystal Structure Of (S)-3-O-Geranylgeranylglyceryl
           Phosphate Synthase Complexed With Citrate
 pdb|2F6U|B Chain B, Crystal Structure Of (S)-3-O-Geranylgeranylglyceryl
           Phosphate Synthase Complexed With Citrate
 pdb|2F6X|A Chain A, Crystal Structure Of (S)-3-O-Geranylgeranylglyceryl
           Phosphate Synthase Complexed With Sn-G1p And Mpd
 pdb|2F6X|B Chain B, Crystal Structure Of (S)-3-O-Geranylgeranylglyceryl
           Phosphate Synthase Complexed With Sn-G1p And Mpd
          Length = 234

 Score = 29.6 bits (65), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 25/78 (32%), Positives = 35/78 (44%), Gaps = 8/78 (10%)

Query: 334 LQIASEDAVYDFALKWARTHYPKLEERREILGSRL----GRLIRFPYMTCRKLKKVLTCN 389
           L  A  D +     +W R HY  L++  EI+ S      G ++  P     ++ K L CN
Sbjct: 87  LNSADGDWITGKHAQWVRMHYENLQKFTEIIESEFIQIEGYIVLNPDSAVARVTKAL-CN 145

Query: 390 DFDPELASKVVL--ESLF 405
             D ELA+   L  E LF
Sbjct: 146 -IDKELAASYALVGEKLF 162


>pdb|4AP2|A Chain A, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
           Resolution
 pdb|4APF|A Chain A, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
           Resolution
          Length = 297

 Score = 28.9 bits (63), Expect = 8.2,   Method: Compositional matrix adjust.
 Identities = 28/133 (21%), Positives = 53/133 (39%), Gaps = 10/133 (7%)

Query: 245 DVLMAADKFEVASCMRYCSRLLRNLPMTCESALLYLDLPSSVLMADAVQPLTDTAKQFLA 304
           +VL  AD+F +     +C   L+   +   + +    L     ++       D  ++   
Sbjct: 132 EVLELADRFLLIRLKEFCGEFLKK-KLHLSNCVAIHSLAHMYTLSQLALKAADMIRRNFH 190

Query: 305 ARYKDISKFQEEVLNLPLAGIEAVLASDDLQIASEDAVYDFALKWARTHYPKLEERREIL 364
              +D     EE   LP   I   L+  ++ + SE+ +++  LKW + +     E RE  
Sbjct: 191 KVIQD-----EEFYTLPFHLIRDWLSDLEITVDSEEVLFETVLKWVQRN----AEERERY 241

Query: 365 GSRLGRLIRFPYM 377
              L +L+R   M
Sbjct: 242 FEELFKLLRLSQM 254


  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
   0.322    0.136    0.404 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,513,199
Number of Sequences: 62578
Number of extensions: 596186
Number of successful extensions: 1012
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1012
Number of HSP's gapped (non-prelim): 4
length of query: 582
length of database: 14,973,337
effective HSP length: 104
effective length of query: 478
effective length of database: 8,465,225
effective search space: 4046377550
effective search space used: 4046377550
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: 54 (25.4 bits)