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= psy9737
         (368 letters)

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

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



>pdb|3ICY|A Chain A, The Crystal Structure Of Sensory Box Histidine
           KinaseRESPONSE REGULATOR DOMAIN FROM CHLOROBIUM TEPIDUM
           Tls
 pdb|3ICY|B Chain B, The Crystal Structure Of Sensory Box Histidine
           KinaseRESPONSE REGULATOR DOMAIN FROM CHLOROBIUM TEPIDUM
           Tls
          Length = 118

 Score = 30.8 bits (68), Expect = 1.1,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 36/64 (56%), Gaps = 6/64 (9%)

Query: 307 LRFRPPSFLEESTQDILSDQYG--QLDTVNNLNDSLTDRLCNRYSTVHKKEESREMITRP 364
           +RFRPP+FL    + ++S+  G  +L+T++ ++      L N YS + + + S  ++ R 
Sbjct: 28  IRFRPPAFL----KTLVSEHAGTTRLNTLSXIHHDDRHXLSNAYSKLREAKHSLTLVYRI 83

Query: 365 HCPK 368
             P+
Sbjct: 84  VTPE 87


>pdb|2YKN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
           Complex With A Difluoromethylbenzoxazole (Dfmb)
           Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
           Inhibitor (Nnrti)
          Length = 562

 Score = 28.1 bits (61), Expect = 8.4,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 160 LVKEIQERSSNSQISFKFLWCPSHVGISGNDQAD 193
           LV +I E+    +  +   W P+H GI GN+Q D
Sbjct: 517 LVNQIIEQLIKKEKVY-LAWVPAHKGIGGNEQVD 549


>pdb|2YKM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
           Complex With A Difluoromethylbenzoxazole (Dfmb)
           Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
           Inhibitor (Nnrti)
          Length = 562

 Score = 28.1 bits (61), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 160 LVKEIQERSSNSQISFKFLWCPSHVGISGNDQAD 193
           LV +I E+    +  +   W P+H GI GN+Q D
Sbjct: 517 LVNQIIEQLIKKEKVY-LAWVPAHKGIGGNEQVD 549


  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
   0.314    0.134    0.403 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,517,370
Number of Sequences: 62578
Number of extensions: 523970
Number of successful extensions: 1032
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1024
Number of HSP's gapped (non-prelim): 19
length of query: 368
length of database: 14,973,337
effective HSP length: 100
effective length of query: 268
effective length of database: 8,715,537
effective search space: 2335763916
effective search space used: 2335763916
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)