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= 018180
         (359 letters)

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

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



>pdb|2DIR|A Chain A, Solution Structure Of The Thump Domain Of Thump Domain-
           Containing Protein 1
          Length = 98

 Score = 42.4 bits (98), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 22/57 (38%), Positives = 40/57 (70%), Gaps = 5/57 (8%)

Query: 306 QSPQK--FAVLYEARANSGIDRMKIINAVAK---SVPAPHKVDLSNPDKTIVVEIVK 357
           ++P K  F ++Y++R NS ++R ++I  +A    ++ + +KVDL+NP  T+VVEI+K
Sbjct: 27  KAPNKGTFQIVYKSRNNSHVNREEVIRELAGIVCTLNSENKVDLTNPQYTVVVEIIK 83


>pdb|1HCU|A Chain A, Alpha-1,2-Mannosidase From Trichoderma Reesei
 pdb|1HCU|B Chain B, Alpha-1,2-Mannosidase From Trichoderma Reesei
 pdb|1HCU|C Chain C, Alpha-1,2-Mannosidase From Trichoderma Reesei
 pdb|1HCU|D Chain D, Alpha-1,2-Mannosidase From Trichoderma Reesei
          Length = 503

 Score = 30.0 bits (66), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 22  KGAYPLRPGIQGFFITCDGGRERQASHEAIYVLDSFYEELV 62
           KG+    PG+ G F++   G  + +S     ++DSFYE L+
Sbjct: 212 KGSPEAWPGLIGTFVSTSNGTFQDSSGSWSGLMDSFYEYLI 252


>pdb|3M8O|L Chain L, Human Iga1 Fab Fragment
 pdb|3QNX|A Chain A, Orthorhombic Form Of Human Iga1 Fab Fragment, Sharing Same
           Fv As Igg
 pdb|3QNY|A Chain A, Monoclinic Form Of Human Iga1 Fab Fragment, Sharing Same
           Fv As Igg
 pdb|3QNY|C Chain C, Monoclinic Form Of Human Iga1 Fab Fragment, Sharing Same
           Fv As Igg
 pdb|3QNZ|A Chain A, Orthorhombic Form Of Igg1 Fab Fragment (in Complex With
           Antigenic Tubulin Peptide) Sharing Same Fv As Iga
 pdb|3QO0|A Chain A, Monoclinic Form Of Igg1 Fab Fragment (In Complex With
           Antigenic Peptide) Sharing Same Fv As Iga
 pdb|3QO1|A Chain A, Monoclinic Form Of Igg1 Fab Fragment (apo Form) Sharing
           Same Fv As Iga
          Length = 219

 Score = 28.5 bits (62), Expect = 5.7,   Method: Compositional matrix adjust.
 Identities = 18/66 (27%), Positives = 29/66 (43%)

Query: 261 VASTRKPISRSILRVLPIELACYTSEEEISRAIKPLVAQYFPLETQSPQKFAVLYEARAN 320
           +  T+ P+S S+    P  ++C +S+  + R     +  Y     QSPQ    L   RA+
Sbjct: 2   IVMTQSPLSLSVTPGEPASISCRSSQSLLRRDGHNDLEWYLQKPGQSPQPLIYLGSTRAS 61

Query: 321 SGIDRM 326
              DR 
Sbjct: 62  GVPDRF 67


>pdb|4B08|A Chain A, Crystal Structure Of Yeast Dna Polymerase Alpha,
           Selenomethionine Protein
          Length = 910

 Score = 28.1 bits (61), Expect = 7.4,   Method: Compositional matrix adjust.
 Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 5/46 (10%)

Query: 227 INLDSGCNGVAVVQMRKIDGD-----PSPKDIVQHMMTSVASTRKP 267
           +NLD   NG  V++++ +D       P  +D+  H++ ++ S + P
Sbjct: 706 VNLDKNGNGTTVLEVKGLDXKRREFCPLSRDVSIHVLNTILSDKDP 751


  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
   0.312    0.130    0.369 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,478,634
Number of Sequences: 62578
Number of extensions: 358155
Number of successful extensions: 709
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 703
Number of HSP's gapped (non-prelim): 10
length of query: 359
length of database: 14,973,337
effective HSP length: 100
effective length of query: 259
effective length of database: 8,715,537
effective search space: 2257324083
effective search space used: 2257324083
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)