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= psy14468
         (108 letters)

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

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



>pdb|3M66|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
           Termination Factor 3
          Length = 270

 Score = 94.0 bits (232), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 40/95 (42%), Positives = 63/95 (66%)

Query: 14  LSLDATELVKTFNYVHSDMKVPHERILEFPNILTSRRFRIENRHSYLKSLGRDQYDPCKE 73
           L+ +  +L +TF++VH+ M +PH  I++FP +  +R F+++ RH +L  LGR QYDP K 
Sbjct: 176 LTANKMKLTETFDFVHNVMSIPHHIIVKFPQVFNTRLFKVKERHLFLTYLGRAQYDPAKP 235

Query: 74  NYVSMKSLVSGTDAEFCANVAKTTPETYNLFLKSL 108
           NY+S+  LVS  D  FC  +AK + + +  FLK+L
Sbjct: 236 NYISLDKLVSIPDEIFCEEIAKASVQDFEKFLKTL 270


>pdb|3OPG|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
           Termination Factor 3
          Length = 298

 Score = 94.0 bits (232), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 40/95 (42%), Positives = 63/95 (66%)

Query: 14  LSLDATELVKTFNYVHSDMKVPHERILEFPNILTSRRFRIENRHSYLKSLGRDQYDPCKE 73
           L+ +  +L +TF++VH+ M +PH  I++FP +  +R F+++ RH +L  LGR QYDP K 
Sbjct: 204 LTANKMKLTETFDFVHNVMSIPHHIIVKFPQVFNTRLFKVKERHLFLTYLGRAQYDPAKP 263

Query: 74  NYVSMKSLVSGTDAEFCANVAKTTPETYNLFLKSL 108
           NY+S+  LVS  D  FC  +AK + + +  FLK+L
Sbjct: 264 NYISLDKLVSIPDEIFCEEIAKASVQDFEKFLKTL 298


>pdb|4FZV|B Chain B, Crystal Structure Of The Human Mterf4:nsun4:sam Ternary
           Complex
          Length = 239

 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 31/102 (30%), Positives = 48/102 (47%), Gaps = 17/102 (16%)

Query: 17  DATELVKTFNYVHSDMKVPHERILEFPNILTSRRF-----RIENRHSYLKSLGRDQYDPC 71
           D  +L   F Y +  M + H      P+I+ S        +I+ RH YL+ LGR Q  P 
Sbjct: 135 DLGQLEYKFQYAYFRMGIKH------PDIVKSEYLQYSLTKIKQRHIYLERLGRYQ-TPD 187

Query: 72  KENYVS-----MKSLVSGTDAEFCANVAKTTPETYNLFLKSL 108
           K+         +K ++  ++AEF A  A T+ E + +F K L
Sbjct: 188 KKGQTQIPNPLLKDILRVSEAEFLARTACTSVEEFQVFKKLL 229


>pdb|4FP9|B Chain B, Human Mterf4-Nsun4 Protein Complex
 pdb|4FP9|E Chain E, Human Mterf4-Nsun4 Protein Complex
 pdb|4FP9|G Chain G, Human Mterf4-Nsun4 Protein Complex
 pdb|4FP9|H Chain H, Human Mterf4-Nsun4 Protein Complex
          Length = 335

 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 31/102 (30%), Positives = 48/102 (47%), Gaps = 17/102 (16%)

Query: 17  DATELVKTFNYVHSDMKVPHERILEFPNILTSRRF-----RIENRHSYLKSLGRDQYDPC 71
           D  +L   F Y +  M + H      P+I+ S        +I+ RH YL+ LGR Q  P 
Sbjct: 180 DLGQLEYKFQYAYFRMGIKH------PDIVKSEYLQYSLTKIKQRHIYLERLGRYQ-TPD 232

Query: 72  KENYVS-----MKSLVSGTDAEFCANVAKTTPETYNLFLKSL 108
           K+         +K ++  ++AEF A  A T+ E + +F K L
Sbjct: 233 KKGQTQIPNPLLKDILRVSEAEFLARTACTSVEEFQVFKKLL 274


>pdb|2KVR|A Chain A, Solution Nmr Structure Of Human Ubiquitin Specific
          Protease Usp7 Ubl Domain (Residues 537-664). Nesg
          Target Hr4395c SGC-Toronto
          Length = 130

 Score = 25.4 bits (54), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 11/71 (15%)

Query: 37 ERILEFPNILTSRRFRIENRHSYLK-----------SLGRDQYDPCKENYVSMKSLVSGT 85
          ER+ E   I   +R   +  H Y++             G D YD  K  Y   K L + +
Sbjct: 8  ERLQEEKRIEAQKRKERQEAHLYMQVQIVAEDQFCGHQGNDMYDEEKVKYTVFKVLKNSS 67

Query: 86 DAEFCANVAKT 96
           AEF  ++++T
Sbjct: 68 LAEFVQSLSQT 78


  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
   0.319    0.131    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,824,316
Number of Sequences: 62578
Number of extensions: 100221
Number of successful extensions: 255
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 252
Number of HSP's gapped (non-prelim): 6
length of query: 108
length of database: 14,973,337
effective HSP length: 72
effective length of query: 36
effective length of database: 10,467,721
effective search space: 376837956
effective search space used: 376837956
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)