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= psy12929
         (198 letters)

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

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



>pdb|2JPE|A Chain A, Fha Domain Of Nipp1
          Length = 140

 Score =  119 bits (298), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/96 (60%), Positives = 70/96 (72%), Gaps = 2/96 (2%)

Query: 93  SSMSMRGGAKVGANFSIDNSLTFAGAGKPPVGLHLDVLKEDKLVQKLMLDEKKCYLFGRN 152
           S  SM      G++  + +  T+AG  KPP GLHLDV+K DKL++KL++DEKK YLFGRN
Sbjct: 5   SPNSMAAAVNSGSSLPLFDCPTWAG--KPPPGLHLDVVKGDKLIEKLIIDEKKYYLFGRN 62

Query: 153 KDLCDICIDHQSCSRVHAAFVYHTALERAFLVDLGS 188
            DLCD  IDHQSCSRVHAA VYH  L+R FL+DL S
Sbjct: 63  PDLCDFTIDHQSCSRVHAALVYHKHLKRVFLIDLNS 98


>pdb|3VPY|A Chain A, Crystal Structure Of Arabidopsis Ddl Fha Domain
          Length = 145

 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/83 (34%), Positives = 40/83 (48%), Gaps = 12/83 (14%)

Query: 118 AGKPPVGLHLDVLKE-DKLVQKLMLDEKKCYLFGRNKDLCDICIDHQSCSRVHAAFVYHT 176
           A KP     L V K+ + L + L L  + CYLFGR + + DI  DH SCS+ HA   Y  
Sbjct: 10  ARKPSERWRLYVFKDGEPLNEPLCLHRQSCYLFGRERRIADIPTDHPSCSKQHAVIQYRE 69

Query: 177 ALE-----------RAFLVDLGS 188
             +           + ++ DLGS
Sbjct: 70  XEKEKPDGXXGKQVKPYIXDLGS 92


>pdb|4H87|A Chain A, Crystal Structure Of A Fha Domain Of Kanadaptin (Slc4a1ap)
           From Homo Sapiens At 1.55 A Resolution
 pdb|4H87|B Chain B, Crystal Structure Of A Fha Domain Of Kanadaptin (Slc4a1ap)
           From Homo Sapiens At 1.55 A Resolution
          Length = 130

 Score = 33.9 bits (76), Expect = 0.065,   Method: Compositional matrix adjust.
 Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 10/72 (13%)

Query: 127 LDVLKEDKLVQKLMLDEKKCYLFGRNKDLCDICIDHQSCSRVHAAFVYHTALERA----- 181
           L+ LK   ++    L      LFGR    CD+C++H S SR HA   +  +         
Sbjct: 23  LETLKGGTILGTRSLKGTSYCLFGRLSG-CDVCLEHPSVSRYHAVLQHRASGPDGECDSN 81

Query: 182 ----FLVDLGSI 189
               +L DLGS 
Sbjct: 82  GPGFYLYDLGST 93


>pdb|3GQS|A Chain A, Crystal Structure Of The Fha Domain Of Ct664 Protein From
           Chlamydia Trachomatis
 pdb|3GQS|B Chain B, Crystal Structure Of The Fha Domain Of Ct664 Protein From
           Chlamydia Trachomatis
          Length = 106

 Score = 31.6 bits (70), Expect = 0.32,   Method: Compositional matrix adjust.
 Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 127 LDVLKEDKLVQKLMLDEKKCYLFGRNKDLCDICIDHQSCSRVHAAFVYHTALERAFLVDL 186
           L VL    +  +  LD  K Y+ G +  + DI +   S SR HA  +         + DL
Sbjct: 7   LKVLAGANIGAEFHLDSGKTYIVGSDPQVADIVLSDMSISRQHAKIIIGND-NSVLIEDL 65

Query: 187 GS 188
           GS
Sbjct: 66  GS 67


>pdb|4IFD|J Chain J, Crystal Structure Of An 11-subunit Eukaryotic Exosome
           Complex Bound To Rna
          Length = 1003

 Score = 28.5 bits (62), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 3/51 (5%)

Query: 133 DKLVQKLMLDE--KKCY-LFGRNKDLCDICIDHQSCSRVHAAFVYHTALER 180
           D +V +++LDE   K Y ++ R + LC    DH+     H  F  HT +ER
Sbjct: 112 DVIVPQIVLDEVRNKSYPVYTRLRTLCRDSDDHKRFIVFHNEFSEHTFVER 162


>pdb|2WP8|J Chain J, Yeast Rrp44 Nuclease
          Length = 977

 Score = 28.5 bits (62), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 3/51 (5%)

Query: 133 DKLVQKLMLDE--KKCY-LFGRNKDLCDICIDHQSCSRVHAAFVYHTALER 180
           D +V +++LDE   K Y ++ R + LC    DH+     H  F  HT +ER
Sbjct: 86  DVIVPQIVLDEVRNKSYPVYTRLRTLCRDSDDHKRFIVFHNEFSEHTFVER 136


>pdb|3OP0|A Chain A, Crystal Structure Of Cbl-C (Cbl-3) Tkb Domain In Complex
           With Egfr Py1069 Peptide
 pdb|3OP0|B Chain B, Crystal Structure Of Cbl-C (Cbl-3) Tkb Domain In Complex
           With Egfr Py1069 Peptide
          Length = 323

 Score = 27.3 bits (59), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 9/19 (47%), Positives = 15/19 (78%)

Query: 27  LFIRLARRWPALVRDWQLV 45
           +F RL + WP L+++WQL+
Sbjct: 206 VFTRLFQPWPTLLKNWQLL 224


  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
   0.325    0.140    0.441 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,960,475
Number of Sequences: 62578
Number of extensions: 237454
Number of successful extensions: 482
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 477
Number of HSP's gapped (non-prelim): 7
length of query: 198
length of database: 14,973,337
effective HSP length: 94
effective length of query: 104
effective length of database: 9,091,005
effective search space: 945464520
effective search space used: 945464520
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 49 (23.5 bits)