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= 014833
         (417 letters)

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

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



>pdb|3LMD|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
           From Corynebacterium Glutamicum Atcc 13032
 pdb|3Q2Q|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
           From Corynebacterium Glutamicum Complexed With Calcium
           And Isoprenyl Diphosphate
          Length = 360

 Score = 30.4 bits (67), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 5/42 (11%)

Query: 214 RKSNVVASLAQSV-----SGLGVQLGSDGIGHCLSTFGQVVC 250
           R  N VA LA  +     SGL  QLG+D + H   TFG++V 
Sbjct: 133 RWDNSVAILAGDILLAHASGLMSQLGTDTVAHFAETFGELVT 174


>pdb|3QX3|A Chain A, Human Topoisomerase Iibeta In Complex With Dna And
           Etoposide
 pdb|3QX3|B Chain B, Human Topoisomerase Iibeta In Complex With Dna And
           Etoposide
          Length = 803

 Score = 28.9 bits (63), Expect = 5.1,   Method: Compositional matrix adjust.
 Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 6/98 (6%)

Query: 99  DALDRAEVRTGIHTRFTFETTMRQNDTLVADFVACQEGGKNVGNISGRSLSLAKLSYVAN 158
           + L +AE   G+H  F  +TT+  N  ++ D + C +  + V +I      L +LSY   
Sbjct: 573 EKLAQAEA-AGLHKVFKLQTTLTCNSMVLFDHMGCLKKYETVQDILKEFFDL-RLSYYGL 630

Query: 159 VGDWFYAIAVPVGAQCRDF-DIARNYSHKAKGLTTISS 195
             +W   +   +GA+     + AR    K +G  TI +
Sbjct: 631 RKEWLVGM---LGAESTKLNNQARFILEKIQGKITIEN 665


>pdb|1TD2|A Chain A, Crystal Structure Of The Pdxy Protein From Escherichia
           Coli
 pdb|1TD2|B Chain B, Crystal Structure Of The Pdxy Protein From Escherichia
           Coli
          Length = 287

 Score = 28.1 bits (61), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 8/92 (8%)

Query: 20  HRSQNSYSRNPIEILK-------RLQRESFSEQMKQRDRLDKVERLLSFYKLSKGSPFQE 72
           H ++  YSR+  E+L         + R      M+Q   +  V   L   KL +G+  QE
Sbjct: 183 HLARAGYSRDRFEMLLVTADEAWHISRPLVDFGMRQPVGVGDVTSGLLLVKLLQGATLQE 242

Query: 73  ASTHVRAEV-DVLGAVLMMGDIDQQHADALDR 103
           A  HV A V +++     M + + Q   A DR
Sbjct: 243 ALEHVTAAVYEIMVTTKAMQEYELQVVAAQDR 274


  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
   0.318    0.133    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,473,171
Number of Sequences: 62578
Number of extensions: 455113
Number of successful extensions: 962
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 961
Number of HSP's gapped (non-prelim): 5
length of query: 417
length of database: 14,973,337
effective HSP length: 101
effective length of query: 316
effective length of database: 8,652,959
effective search space: 2734335044
effective search space used: 2734335044
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)