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= 030448
         (177 letters)

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

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



>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 =  116 bits (291), Expect = 5e-27,   Method: Compositional matrix adjust.
 Identities = 61/146 (41%), Positives = 89/146 (60%), Gaps = 4/146 (2%)

Query: 6   SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVI 65
           ++K IL+LD++G R+  KYY + +P+   ++AFEK +F KT     RT++EIA+LEG  +
Sbjct: 12  TVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTH----RTDSEIALLEGLTV 67

Query: 66  VYKFVQDLHFFVTGGEDENELILATVLQGFFDAVGLLLRGNVDKKEAXXXXXXXXXXXXX 125
           VYK   DL+F+V G   ENEL+L TVL   FD++  +LR NV+K+               
Sbjct: 68  VYKSSIDLYFYVIGSSYENELMLMTVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDE 127

Query: 126 XVDGGIILETDANVIAGKVASHSVDV 151
            VDGG+ILE+D   +  +VA    DV
Sbjct: 128 IVDGGVILESDPQQVVHRVALRGEDV 153


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

 Score =  113 bits (283), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 58/140 (41%), Positives = 86/140 (61%), Gaps = 4/140 (2%)

Query: 6   SIKNILLLDSEGKRVAVKYYSNDWPTNSAKEAFEKAVFTKTQKTNARTEAEIAMLEGNVI 65
           ++K IL+LD++G R+  KYY + +P+   ++AFEK +F KT     RT++EIA+LEG  +
Sbjct: 12  TVKAILILDNDGDRLFAKYYDDTYPSVKEQKAFEKNIFNKTH----RTDSEIALLEGLTV 67

Query: 66  VYKFVQDLHFFVTGGEDENELILATVLQGFFDAVGLLLRGNVDKKEAXXXXXXXXXXXXX 125
           VYK   DL+F+V G   ENEL+L  VL   FD++  +LR NV+K+               
Sbjct: 68  VYKSSIDLYFYVIGSSYENELMLMAVLNCLFDSLSQMLRKNVEKRALLENMEGLFLAVDE 127

Query: 126 XVDGGIILETDANVIAGKVA 145
            VDGG+ILE+D   +  +VA
Sbjct: 128 IVDGGVILESDPQQVVHRVA 147


  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
   0.315    0.132    0.362 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,200,343
Number of Sequences: 62578
Number of extensions: 142047
Number of successful extensions: 413
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 407
Number of HSP's gapped (non-prelim): 2
length of query: 177
length of database: 14,973,337
effective HSP length: 92
effective length of query: 85
effective length of database: 9,216,161
effective search space: 783373685
effective search space used: 783373685
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)