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= 016957
         (380 letters)

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

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



>pdb|2YU6|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
           Containing Protein 2
          Length = 141

 Score =  113 bits (282), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 62/138 (44%), Positives = 81/138 (58%), Gaps = 5/138 (3%)

Query: 70  NTRYFIIKSLNHQNIQLSIEKEIWATQVMNEPILEEAFHNSGKVILIFSVNMSGFFQGYA 129
             RYFI+KS N +N+++S +K IW+T   NE  L  AF  S  V L+FSV  SG FQG++
Sbjct: 7   GVRYFIMKSSNLRNLEISQQKGIWSTTPSNERKLNRAFWESSIVYLVFSVQGSGHFQGFS 66

Query: 130 QMMSSVGWRRDNVWSQGNGKNNPWGRSFKVKWLRLNTLPFQKTLHLKNPLNDYKPVKISR 189
           +M S +G  +   W          G  FKV+W+R  +LPFQ   HL NP ND K V+ISR
Sbjct: 67  RMSSEIGREKSQDWGSAG-----LGGVFKVEWIRKESLPFQFAHHLLNPWNDNKKVQISR 121

Query: 190 DCQELPQDIGEALCHLLD 207
           D QEL   +GE L  L +
Sbjct: 122 DGQELEPQVGEQLLQLWE 139


>pdb|2YUD|A Chain A, Solution Structure Of The Yth Domain In Yth Domain-
           Containing Protein 1 (Putative Splicing Factor Yt521)
          Length = 180

 Score =  110 bits (275), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 64/162 (39%), Positives = 91/162 (56%), Gaps = 2/162 (1%)

Query: 58  ENSTDNNKGKLYNTRYFIIKSLNHQNIQLSIEKEIWATQVMNEPILEEAFHNSGKVILIF 117
           ++ T   K  L + R+F+IKS NH+N+ L+  K +W+T  +NE  L  AF ++  VILIF
Sbjct: 13  KDQTSKLKYVLQDARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARSVILIF 72

Query: 118 SVNMSGFFQGYAQMMSSVGWRRDNV-WSQGNGKNNPW-GRSFKVKWLRLNTLPFQKTLHL 175
           SV  SG FQG+A++ S        + W    G +    G  FK+ W+    LPF K+ HL
Sbjct: 73  SVRESGKFQGFARLSSESHHGGSPIHWVLPAGMSAKMLGGVFKIDWICRRELPFTKSAHL 132

Query: 176 KNPLNDYKPVKISRDCQELPQDIGEALCHLLDGKDDVDGIQT 217
            NP N++KPVKI RD QE+  + G  LC L    + +D  Q 
Sbjct: 133 TNPWNEHKPVKIGRDGQEIELECGTQLCLLFPPDESIDLYQV 174


>pdb|3OC4|A Chain A, Crystal Structure Of A Pyridine Nucleotide-Disulfide
           Family Oxidoreductase From The Enterococcus Faecalis
           V583
 pdb|3OC4|B Chain B, Crystal Structure Of A Pyridine Nucleotide-Disulfide
           Family Oxidoreductase From The Enterococcus Faecalis
           V583
          Length = 452

 Score = 33.9 bits (76), Expect = 0.16,   Method: Compositional matrix adjust.
 Identities = 25/88 (28%), Positives = 43/88 (48%), Gaps = 10/88 (11%)

Query: 46  KEAKAGHSNGQLENSTDNNKGKLYNTRYFIIKSLNHQNIQLSIEKEIWATQVMNEPIL-- 103
           K+A  G+ +G L    ++   +L+  RY   + L  Q IQL + +E+ A  V N+ I   
Sbjct: 35  KQATVGYLSGGLSAYFNHTINELHEARYITEEELRRQKIQLLLNREVVAXDVENQLIAWT 94

Query: 104 ---EEAFHNSGKVILI-----FSVNMSG 123
              E+ +++  K+IL      FS  + G
Sbjct: 95  RKEEQQWYSYDKLILATGASQFSTQIRG 122


>pdb|1KT9|A Chain A, Crystal Structure Of C. Elegans Ap4a Hydrolase
 pdb|1KTG|A Chain A, Crystal Structure Of A C. Elegans Ap4a Hydrolase Binary
           Complex
 pdb|1KTG|B Chain B, Crystal Structure Of A C. Elegans Ap4a Hydrolase Binary
           Complex
          Length = 138

 Score = 30.4 bits (67), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 17/60 (28%), Positives = 31/60 (51%)

Query: 65  KGKLYNTRYFIIKSLNHQNIQLSIEKEIWATQVMNEPILEEAFHNSGKVILIFSVNMSGF 124
           KGK  + +Y++ K  N  ++QLS E + W    + + I    +   G ++  FS  ++GF
Sbjct: 79  KGKPKSVKYWLAKLNNPDDVQLSHEHQNWKWCELEDAIKIADYAEMGSLLRKFSAFLAGF 138


  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    0.133    0.405 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,093,618
Number of Sequences: 62578
Number of extensions: 532237
Number of successful extensions: 1107
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1101
Number of HSP's gapped (non-prelim): 7
length of query: 380
length of database: 14,973,337
effective HSP length: 101
effective length of query: 279
effective length of database: 8,652,959
effective search space: 2414175561
effective search space used: 2414175561
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: 52 (24.6 bits)