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= 033894
         (109 letters)

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

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



>pdb|2HF6|A Chain A, Solution Structure Of Human Zeta-Cop
          Length = 149

 Score = 28.9 bits (63), Expect = 0.67,   Method: Compositional matrix adjust.
 Identities = 20/83 (24%), Positives = 40/83 (48%)

Query: 22  IVYTVLGDVSIFVVGKDEYDELALAEVIFAITSAVKDACGKIPTERLFLDKYGKICLCLD 81
           +VY    D+  +V+G    +EL L  V+  +  ++     K   +R  L+    + L +D
Sbjct: 67  VVYKSSIDLYFYVIGSSYENELMLMAVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVD 126

Query: 82  EIVWKGLLENTEKDRIRRLVRLK 104
           EIV  G++  ++  ++   V L+
Sbjct: 127 EIVDGGVILESDPQQVVHRVALR 149


>pdb|3TJZ|C Chain C, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core
           Complex
 pdb|3TJZ|F Chain F, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core
           Complex
          Length = 153

 Score = 28.9 bits (63), Expect = 0.70,   Method: Compositional matrix adjust.
 Identities = 20/83 (24%), Positives = 40/83 (48%)

Query: 22  IVYTVLGDVSIFVVGKDEYDELALAEVIFAITSAVKDACGKIPTERLFLDKYGKICLCLD 81
           +VY    D+  +V+G    +EL L  V+  +  ++     K   +R  L+    + L +D
Sbjct: 67  VVYKSSIDLYFYVIGSSYENELMLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVD 126

Query: 82  EIVWKGLLENTEKDRIRRLVRLK 104
           EIV  G++  ++  ++   V L+
Sbjct: 127 EIVDGGVILESDPQQVVHRVALR 149


>pdb|4I43|A Chain A, Crystal Structure Of Prp8:aar2 Complex
          Length = 384

 Score = 26.2 bits (56), Expect = 4.9,   Method: Composition-based stats.
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 4/44 (9%)

Query: 66  ERLFLDKYGKICLCLDEIVWKGLLENTEKDRIRRLVRLKPPNEF 109
           ER  +  Y KI    ++  W  L E  + D+IR++VR K  N+F
Sbjct: 98  ERQMMVSYPKID---EDDTWYNLTEFVQMDKIRKIVR-KDENQF 137


>pdb|3ZEF|A Chain A, Crystal Structure Of Prp8:aar2 Complex: Second Crystal
           Form At 3.1 Angstrom Resolution
 pdb|3ZEF|D Chain D, Crystal Structure Of Prp8:aar2 Complex: Second Crystal
           Form At 3.1 Angstrom Resolution
          Length = 355

 Score = 26.2 bits (56), Expect = 4.9,   Method: Composition-based stats.
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 4/44 (9%)

Query: 66  ERLFLDKYGKICLCLDEIVWKGLLENTEKDRIRRLVRLKPPNEF 109
           ER  +  Y KI    ++  W  L E  + D+IR++VR K  N+F
Sbjct: 98  ERQMMVSYPKID---EDDTWYNLTEFVQMDKIRKIVR-KDENQF 137


>pdb|3SBT|B Chain B, Crystal Structure Of A Aar2-prp8 Complex
 pdb|3SBS|A Chain A, Crystal Structure Of Aar2 Protein
          Length = 363

 Score = 26.2 bits (56), Expect = 4.9,   Method: Composition-based stats.
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 4/44 (9%)

Query: 66  ERLFLDKYGKICLCLDEIVWKGLLENTEKDRIRRLVRLKPPNEF 109
           ER  +  Y KI    ++  W  L E  + D+IR++VR K  N+F
Sbjct: 98  ERQMMVSYPKID---EDDTWYNLTEFVQMDKIRKIVR-KDENQF 137


>pdb|3I5G|A Chain A, Crystal Structure Of Rigor-Like Squid Myosin S1
 pdb|3I5H|A Chain A, The Crystal Structure Of Rigor Like Squid Myosin S1 In The
           Absence Of Nucleotide
 pdb|3I5I|A Chain A, The Crystal Structure Of Squid Myosin S1 In The Presence
           Of So4 2-
 pdb|3I5F|A Chain A, Crystal Structure Of Squid Mg.Adp Myosin S1
          Length = 839

 Score = 26.2 bits (56), Expect = 5.1,   Method: Composition-based stats.
 Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 7/73 (9%)

Query: 23  VYTVLGDVSIFVVGKDEYDELALAEVIFAITSAVKDACGKIPTERLFLDKYGKICLCLDE 82
           +Y  +   ++ V G D+ +E+ L +  F       D  G    E+L + K     L L E
Sbjct: 313 LYGFINQGTLTVDGIDDEEEMGLTDTAF-------DVLGFTDEEKLSMYKCTGCILHLGE 365

Query: 83  IVWKGLLENTEKD 95
           + WK   E  E D
Sbjct: 366 MKWKQRGEQAEAD 378


  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
   0.324    0.144    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,036,576
Number of Sequences: 62578
Number of extensions: 105142
Number of successful extensions: 182
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 180
Number of HSP's gapped (non-prelim): 14
length of query: 109
length of database: 14,973,337
effective HSP length: 73
effective length of query: 36
effective length of database: 10,405,143
effective search space: 374585148
effective search space used: 374585148
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)