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= psy14926
         (140 letters)

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

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



>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
 pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
          Length = 767

 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 32/66 (48%), Positives = 48/66 (72%)

Query: 12  QVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVK 71
           QV+ RR DLK+I+ SAT+DA+KF  +F + P   +PGRT+PV++++      DY+DSA++
Sbjct: 233 QVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQRDYLDSAIR 292

Query: 72  QALQIH 77
             LQIH
Sbjct: 293 TVLQIH 298


>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
           Complex With Adp
 pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
           Complex With Adp
          Length = 773

 Score = 78.2 bits (191), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 32/66 (48%), Positives = 48/66 (72%)

Query: 12  QVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVK 71
           QV+ RR DLK+I+ SAT+DA+KF  +F + P   +PGRT+PV++++      DY+DSA++
Sbjct: 233 QVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQRDYLDSAIR 292

Query: 72  QALQIH 77
             LQIH
Sbjct: 293 TVLQIH 298


>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
 pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
          Length = 235

 Score = 30.8 bits (68), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 13/46 (28%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 2   FTADFFLIYLQ-VIARRQDLKLIVTSATMDADKFSNFFGNVPTFHI 46
              DF L+ L+ V+    ++++++ SAT+D   F  +F N P   +
Sbjct: 190 INTDFLLVVLRDVVQAYPEVRIVLXSATIDTSXFCEYFFNCPIIEV 235


>pdb|1AYN|1 Chain 1, Human Rhinovirus 16 Coat Protein
 pdb|1AYM|1 Chain 1, Human Rhinovirus 16 Coat Protein At High Resolution
 pdb|1QJU|1 Chain 1, Human Rhinovirus 16 Coat Protein In Complex With
          Antiviral Compound Vp61209
 pdb|1QJX|1 Chain 1, Human Rhinovirus 16 Coat Protein In Complex With
          Antiviral Compound Win68934
 pdb|1QJY|1 Chain 1, Human Rhinovirus 16 Coat Protein In Complex With
          Antiviral Compound Vp65099
 pdb|1C8M|1 Chain 1, Refined Crystal Structure Of Human Rhinovirus 16
          Complexed With Vp63843 (Pleconaril), An
          Anti-Picornaviral Drug Currently In Clinical Trials
 pdb|1NCR|A Chain A, The Structure Of Rhinovirus 16 When Complexed With
          Pleconaril, An Antiviral Compound
 pdb|1ND2|A Chain A, The Structure Of Rhinovirus 16
 pdb|1ND3|A Chain A, The Structure Of Hrv16, When Complexed With Pleconaril,
          An Antiviral Compound
          Length = 285

 Score = 27.7 bits (60), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 18/28 (64%), Gaps = 3/28 (10%)

Query: 60 NPVEDYVDSAVKQALQIHLIPNPDQKYP 87
          NPVE YVD  + + L   ++PN +Q +P
Sbjct: 1  NPVERYVDEVLNEVL---VVPNINQSHP 25


>pdb|3AX1|A Chain A, Molecular Insights Into Mirna Processing By Arabidopsis
           Serrate
          Length = 358

 Score = 27.3 bits (59), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 4/37 (10%)

Query: 52  PVDVFFAKNPVEDYVDSAVKQALQIHLIPNPDQKYPW 88
           P++V  AK    + +D+A  +AL  H+    D+KY W
Sbjct: 271 PLEVMAAK----EKIDAAATEALDPHVRKIRDEKYGW 303


>pdb|4FE3|A Chain A, Structure Of Murine Cytosolic 5'-Nucleotidase Iii
           Complexed With Uridinine Monophosphate
          Length = 297

 Score = 26.9 bits (58), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 18/76 (23%), Positives = 33/76 (43%), Gaps = 7/76 (9%)

Query: 2   FTADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNP 61
           +T    L+  Q I + +  +++  S  M  + + NFFG +    IP       VF     
Sbjct: 114 YTKSHGLLIEQGIPKAKLKEIVADSDVMLKEGYENFFGKLQQHGIP-------VFIFSAG 166

Query: 62  VEDYVDSAVKQALQIH 77
           + D ++  ++QA   H
Sbjct: 167 IGDVLEEVIRQAGVYH 182


  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
   0.327    0.142    0.439 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,051,017
Number of Sequences: 62578
Number of extensions: 161309
Number of successful extensions: 323
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: 320
Number of HSP's gapped (non-prelim): 6
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 46 (22.3 bits)