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= psy15037
         (149 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 = 30.8 bits (68), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 6/85 (7%)

Query: 66  HIGPCDPERTSMDQGGASTSDYAVDPTRAS---QARWDDASQVTIKVSTKPCPSCRTATE 122
           HI   DP+RT+ D+   + +D   D    S      ++ A  +  KVS    P      E
Sbjct: 11  HITKLDPDRTNTDEIIKAVADSGTDAVMISGTQNVTYEKARTLIEKVSQYGLP---IVVE 67

Query: 123 RAGKGVYAYDLYPMFIPLVLGVSSG 147
            +      YD+  +F+P VL  + G
Sbjct: 68  PSDPSNVVYDVDYLFVPTVLNSADG 92


>pdb|1A6C|A Chain A, Structure Of Tobacco Ringspot Virus
          Length = 513

 Score = 28.5 bits (62), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 4/47 (8%)

Query: 13 CTECGFVFCKDCLQGAHIGPCDPGRTSMDQGGASTSDY----AVDPT 55
          C    F   KD  +G H+G  D  +  MD GG  + ++     V+PT
Sbjct: 11 CGTLSFKVPKDAKKGKHLGTFDIRQAIMDYGGLHSQEWCAKGIVNPT 57


>pdb|2JMO|A Chain A, Ibr Domain Of Human Parkin
          Length = 80

 Score = 26.6 bits (57), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 9/18 (50%), Positives = 12/18 (66%)

Query: 16 CGFVFCKDCLQGAHIGPC 33
          CGF FC++C +  H G C
Sbjct: 56 CGFAFCRECKEAYHEGEC 73


>pdb|2LN0|A Chain A, Structure Of Moz
          Length = 110

 Score = 26.6 bits (57), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 17  GFVFCKDCLQGAHIGPCDPGRTSMDQG 43
             +FC  C +G H+  CDP  T M +G
Sbjct: 74  NMLFCDSCDRGFHMECCDPPLTRMPKG 100


>pdb|3V43|A Chain A, Crystal Structure Of Moz
          Length = 112

 Score = 26.6 bits (57), Expect = 5.6,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 17  GFVFCKDCLQGAHIGPCDPGRTSMDQG 43
             +FC  C +G H+  CDP  T M +G
Sbjct: 76  NMLFCDSCDRGFHMECCDPPLTRMPKG 102


  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
   0.317    0.134    0.428 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,604,120
Number of Sequences: 62578
Number of extensions: 167555
Number of successful extensions: 383
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 367
Number of HSP's gapped (non-prelim): 17
length of query: 149
length of database: 14,973,337
effective HSP length: 90
effective length of query: 59
effective length of database: 9,341,317
effective search space: 551137703
effective search space used: 551137703
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)