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= 028127
         (213 letters)

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

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



>pdb|3MCB|A Chain A, Crystal Structure Of Nac Domains Of Human Nascent
           Polypeptide- Associated Complex (Nac)
          Length = 54

 Score = 84.7 bits (208), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 37/52 (71%), Positives = 48/52 (92%)

Query: 75  AMLKLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 126
           AM KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED
Sbjct: 1   AMSKLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIED 52


>pdb|3MCE|A Chain A, Crystal Structure Of The Nac Domain Of Alpha Subunit Of
           Nascent Polypeptide-Associated Complex(Nac)
 pdb|3MCE|B Chain B, Crystal Structure Of The Nac Domain Of Alpha Subunit Of
           Nascent Polypeptide-Associated Complex(Nac)
 pdb|3MCE|C Chain C, Crystal Structure Of The Nac Domain Of Alpha Subunit Of
           Nascent Polypeptide-Associated Complex(Nac)
 pdb|3MCE|D Chain D, Crystal Structure Of The Nac Domain Of Alpha Subunit Of
           Nascent Polypeptide-Associated Complex(Nac)
          Length = 61

 Score = 80.5 bits (197), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 35/49 (71%), Positives = 46/49 (93%)

Query: 78  KLGMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 126
           KLG++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED
Sbjct: 10  KLGLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIED 58


>pdb|3LKX|B Chain B, Human Nac Dimerization Domain
          Length = 54

 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 33/47 (70%), Positives = 44/47 (93%)

Query: 80  GMKPVTGVSRVTIKRTKNILFFISKPDVFKSPNSETYVIFGEAKIED 126
           G++ VTGV+RVTI+++KNILF I+KPDV+KSP S+TY++FGEAKIED
Sbjct: 2   GLRQVTGVTRVTIRKSKNILFVITKPDVYKSPASDTYIVFGEAKIED 48


>pdb|1TR8|A Chain A, Crystal Structure Of Archaeal Nascent
           Polypeptide-Associated Complex (Aenac)
 pdb|1TR8|B Chain B, Crystal Structure Of Archaeal Nascent
           Polypeptide-Associated Complex (Aenac)
          Length = 102

 Score = 36.2 bits (82), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 16/35 (45%), Positives = 21/35 (60%)

Query: 178 DIDLVMTQAGVSRSKAVKALKTHNGDIVSAIMELT 212
           DI+LV  Q G SR  A +AL+   GD+  AI  L+
Sbjct: 68  DIELVXNQTGASREDATRALQETGGDLAEAIXRLS 102


  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
   0.316    0.132    0.377 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,348,670
Number of Sequences: 62578
Number of extensions: 68322
Number of successful extensions: 146
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 137
Number of HSP's gapped (non-prelim): 9
length of query: 213
length of database: 14,973,337
effective HSP length: 95
effective length of query: 118
effective length of database: 9,028,427
effective search space: 1065354386
effective search space used: 1065354386
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: 49 (23.5 bits)