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= psy7951
         (122 letters)

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

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



>pdb|3A98|A Chain A, Crystal Structure Of The Complex Of The Interacting
           Regions Of Dock2 And Elmo1
 pdb|3A98|C Chain C, Crystal Structure Of The Complex Of The Interacting
           Regions Of Dock2 And Elmo1
          Length = 184

 Score = 67.4 bits (163), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 49/77 (63%), Gaps = 1/77 (1%)

Query: 47  STEMSLTEEMTCVLREWLVLWKSLYLSDRKS-FKALEKRMHELIQLRSKILSQTLPVDEL 105
             E+ L +E+T  L EW  +WK LY++ +K  F  ++   ++L + RS++LS TLP DEL
Sbjct: 89  PAEIPLAQEVTTTLWEWGSIWKQLYVASKKERFLQVQSXXYDLXEWRSQLLSGTLPKDEL 148

Query: 106 KRVKHSVTSTMDVGNKF 122
           K +K  VTS +D GNK 
Sbjct: 149 KELKQKVTSKIDYGNKI 165


>pdb|1VJ0|A Chain A, Crystal Structure Of Alcohol Dehydrogenase (Tm0436) From
           Thermotoga Maritima At 2.00 A Resolution
 pdb|1VJ0|B Chain B, Crystal Structure Of Alcohol Dehydrogenase (Tm0436) From
           Thermotoga Maritima At 2.00 A Resolution
 pdb|1VJ0|C Chain C, Crystal Structure Of Alcohol Dehydrogenase (Tm0436) From
           Thermotoga Maritima At 2.00 A Resolution
 pdb|1VJ0|D Chain D, Crystal Structure Of Alcohol Dehydrogenase (Tm0436) From
           Thermotoga Maritima At 2.00 A Resolution
          Length = 380

 Score = 28.1 bits (61), Expect = 1.3,   Method: Composition-based stats.
 Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)

Query: 62  EWLVL----WKSLYLSDRKSFKALEKRMHELIQLRSKILSQTLPVDELKR 107
           EWLVL    +K +++SD   F           QL SK+++  LP+ E  +
Sbjct: 312 EWLVLKNATFKGIWVSDTSHFVKTVSITSRNYQLLSKLITHRLPLKEANK 361


>pdb|1OFC|X Chain X, Nucleosome Recognition Module Of Iswi Atpase
          Length = 304

 Score = 25.8 bits (55), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 18/79 (22%), Positives = 40/79 (50%), Gaps = 2/79 (2%)

Query: 14  TPHQNIRVLFTDLNTRD-TDREKVFLVCYVIRIGSTEMSLTEEMTCVLREWLVLWKSLYL 72
            P   +R+ + +   ++ T+ E  FLVC + ++G  + ++ EE+   +R         ++
Sbjct: 198 APFHQLRLQYGNNKGKNYTEIEDRFLVCMLHKLGFDKENVYEELRAAIRASPQFRFDWFI 257

Query: 73  SDRKSFKALEKRMHELIQL 91
             R + + L++R + LI L
Sbjct: 258 KSRTALE-LQRRCNTLITL 275


  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    0.133    0.379 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,081,544
Number of Sequences: 62578
Number of extensions: 101531
Number of successful extensions: 208
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 203
Number of HSP's gapped (non-prelim): 7
length of query: 122
length of database: 14,973,337
effective HSP length: 84
effective length of query: 38
effective length of database: 9,716,785
effective search space: 369237830
effective search space used: 369237830
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)