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= 025684
         (249 letters)

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

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



>pdb|4B9X|A Chain A, Structure Of Extended Tudor Domain Td3 From Mouse Tdrd1
          Length = 226

 Score = 36.6 bits (83), Expect = 0.014,   Method: Compositional matrix adjust.
 Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 50  NQEKLAVGTKVQAVYSEDGEWYDATIEAITPNGYY-VTYDSWGNKEEV 96
           N  K  +G    A +S DG WY A ++ I P+G   V +  +GN EEV
Sbjct: 62  NGFKAEIGRPCCAFFSGDGNWYRALVKEILPSGNVKVHFVDYGNVEEV 109


>pdb|4B9W|A Chain A, Structure Of Extended Tudor Domain Td3 From Mouse Tdrd1 In
           Complex With Mili Peptide Containing Dimethylarginine
           45.
 pdb|4B9W|B Chain B, Structure Of Extended Tudor Domain Td3 From Mouse Tdrd1 In
           Complex With Mili Peptide Containing Dimethylarginine 45
          Length = 201

 Score = 35.8 bits (81), Expect = 0.021,   Method: Compositional matrix adjust.
 Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 50  NQEKLAVGTKVQAVYSEDGEWYDATIEAITPNGYY-VTYDSWGNKEEV 96
           N  K  +G    A +S DG WY A ++ I P+G   V +  +GN EEV
Sbjct: 62  NGFKAEIGRPCCAFFSGDGNWYRALVKEILPSGNVKVHFVDYGNVEEV 109


>pdb|3S6W|A Chain A, Crystal Structure Of Tudor Domain Of Human Tdrd3
          Length = 54

 Score = 35.4 bits (80), Expect = 0.031,   Method: Composition-based stats.
 Identities = 18/50 (36%), Positives = 31/50 (62%), Gaps = 2/50 (4%)

Query: 57  GTKVQAVYSEDGEWYDATIEAITPNGY--YVTYDSWGNKEEVDPANVRPV 104
           G +  A+Y ED ++Y A +EA+  +G    V +  +GN EEV  +N++P+
Sbjct: 5   GDECFALYWEDNKFYRAEVEALHSSGMTAVVKFIDYGNYEEVLLSNIKPI 54


>pdb|2LTO|A Chain A, Tdrd3 Complex
          Length = 58

 Score = 35.0 bits (79), Expect = 0.035,   Method: Composition-based stats.
 Identities = 18/50 (36%), Positives = 31/50 (62%), Gaps = 2/50 (4%)

Query: 57  GTKVQAVYSEDGEWYDATIEAITPNGY--YVTYDSWGNKEEVDPANVRPV 104
           G +  A+Y ED ++Y A +EA+  +G    V +  +GN EEV  +N++P+
Sbjct: 7   GDECFALYWEDNKFYRAEVEALHSSGMTAVVKFIDYGNYEEVLLSNIKPI 56


>pdb|3PMT|A Chain A, Crystal Structure Of The Tudor Domain Of Human Tudor
           Domain-Containing Protein 3
          Length = 59

 Score = 34.7 bits (78), Expect = 0.046,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 31/50 (62%), Gaps = 2/50 (4%)

Query: 57  GTKVQAVYSEDGEWYDATIEAITPNGY--YVTYDSWGNKEEVDPANVRPV 104
           G +  A+Y ED ++Y A +EA+  +G    V +  +GN EEV  +N++P+
Sbjct: 7   GDECFALYWEDNKFYRAEVEALHSSGMTAVVKFIDYGNYEEVLLSNIKPI 56


>pdb|1MHN|A Chain A, High Resolution Crystal Structure Of The Smn Tudor
          Domain
          Length = 59

 Score = 34.3 bits (77), Expect = 0.073,   Method: Composition-based stats.
 Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 2/46 (4%)

Query: 52 EKLAVGTKVQAVYSEDGEWYDATIEAI--TPNGYYVTYDSWGNKEE 95
          ++  VG K  A++SEDG  Y ATI +I        V Y  +GN+EE
Sbjct: 2  QQWKVGDKCSAIWSEDGCIYPATIASIDFKRETCVVVYTGYGNREE 47


>pdb|3PNW|C Chain C, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
           Complex With An Anti-tdrd3 Fab
 pdb|3PNW|F Chain F, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
           Complex With An Anti-tdrd3 Fab
 pdb|3PNW|I Chain I, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
           Complex With An Anti-tdrd3 Fab
 pdb|3PNW|L Chain L, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
           Complex With An Anti-tdrd3 Fab
 pdb|3PNW|O Chain O, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
           Complex With An Anti-tdrd3 Fab
 pdb|3PNW|R Chain R, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
           Complex With An Anti-tdrd3 Fab
 pdb|3PNW|U Chain U, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
           Complex With An Anti-tdrd3 Fab
 pdb|3PNW|X Chain X, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
           Complex With An Anti-tdrd3 Fab
          Length = 77

 Score = 33.9 bits (76), Expect = 0.078,   Method: Compositional matrix adjust.
 Identities = 18/50 (36%), Positives = 31/50 (62%), Gaps = 2/50 (4%)

Query: 57  GTKVQAVYSEDGEWYDATIEAITPNGY--YVTYDSWGNKEEVDPANVRPV 104
           G +  A+Y ED ++Y A +EA+  +G    V +  +GN EEV  +N++P+
Sbjct: 21  GDECFALYWEDNKFYRAEVEALHSSGMTAVVKFIDYGNYEEVLLSNIKPI 70


>pdb|2D9T|A Chain A, Solution Structure Of The Tudor Domain Of Tudor Domain
           Containing Protein 3 From Mouse
          Length = 78

 Score = 33.9 bits (76), Expect = 0.082,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 31/50 (62%), Gaps = 2/50 (4%)

Query: 57  GTKVQAVYSEDGEWYDATIEAITPNGY--YVTYDSWGNKEEVDPANVRPV 104
           G +  A+Y ED ++Y A +EA+  +G    V +  +GN EEV  +N++PV
Sbjct: 13  GDECFALYWEDNKFYRAEVEALHSSGMTAVVKFTDYGNYEEVLLSNIKPV 62


>pdb|4A4E|A Chain A, Solution Structure Of Smn Tudor Domain In Complex With
          Symmetrically Dimethylated Arginine
 pdb|4A4G|A Chain A, Solution Structure Of Smn Tudor Domain In Complex With
          Asymmetrically Dimethylated Arginine
          Length = 64

 Score = 33.5 bits (75), Expect = 0.12,   Method: Composition-based stats.
 Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 2/46 (4%)

Query: 52 EKLAVGTKVQAVYSEDGEWYDATIEAI--TPNGYYVTYDSWGNKEE 95
          ++  VG K  A++SEDG  Y ATI +I        V Y  +GN+EE
Sbjct: 7  QQWKVGDKCSAIWSEDGCIYPATIASIDFKRETCVVVYTGYGNREE 52


>pdb|1G5V|A Chain A, Solution Structure Of The Tudor Domain Of The Human Smn
          Protein
          Length = 88

 Score = 33.5 bits (75), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 2/42 (4%)

Query: 56 VGTKVQAVYSEDGEWYDATIEAI--TPNGYYVTYDSWGNKEE 95
          VG K  A++SEDG  Y ATI +I        V Y  +GN+EE
Sbjct: 13 VGDKCSAIWSEDGCIYPATIASIDFKRETCVVVYTGYGNREE 54


>pdb|3BDL|A Chain A, Crystal Structure Of A Truncated Human Tudor-Sn
          Length = 570

 Score = 32.3 bits (72), Expect = 0.26,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)

Query: 67  DGEWYDATIEAI-TPNGYYVTYDSWGNKE 94
           DGEWY A +E + +P   +V Y  +GN+E
Sbjct: 424 DGEWYRARVEKVESPAKIHVFYIDYGNRE 452


>pdb|2WAC|A Chain A, Extended Tudor Domain Of Drosophila Melanogaster Tudor-Sn
           ( P100)
 pdb|2WAC|B Chain B, Extended Tudor Domain Of Drosophila Melanogaster Tudor-Sn
           ( P100)
          Length = 218

 Score = 31.6 bits (70), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 1/44 (2%)

Query: 57  GTKVQAVYSEDGEWYDATIEAITPNGYYVTYDSWGNKEEVDPAN 100
           G  V A ++ D +WY A +E +  +   V Y  +GNKE + P N
Sbjct: 55  GDLVAAQFTLDNQWYRAKVERVQGSNATVLYIDYGNKETL-PTN 97


>pdb|2HQX|A Chain A, Crystal Structure Of Human P100 Tudor Domain Conserved
           Region
 pdb|2HQX|B Chain B, Crystal Structure Of Human P100 Tudor Domain Conserved
           Region
 pdb|2HQE|A Chain A, Crystal Structure Of Human P100 Tudor Domain: Large
           Fragment
 pdb|2HQE|B Chain B, Crystal Structure Of Human P100 Tudor Domain: Large
           Fragment
          Length = 246

 Score = 31.6 bits (70), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 15/78 (19%)

Query: 23  ETGTSASASPNLLQSKENKTES-----GSISDNQEKLAVGTKVQAVYSEDGEWYDATIEA 77
           ETGT       L+++  N   S     GS +  + +  +   V      DGEWY A +E 
Sbjct: 38  ETGTQFQ---KLMENMRNDIASHPPVEGSYAPRRGEFCIAKFV------DGEWYRARVEK 88

Query: 78  I-TPNGYYVTYDSWGNKE 94
           + +P   +V Y  +GN+E
Sbjct: 89  VESPAKIHVFYIDYGNRE 106


>pdb|3OMG|A Chain A, Structure Of Human Snd1 Extended Tudor Domain In Complex
           With The Symmetrically Dimethylated Arginine Piwil1
           Peptide R14me2s
 pdb|3OMG|B Chain B, Structure Of Human Snd1 Extended Tudor Domain In Complex
           With The Symmetrically Dimethylated Arginine Piwil1
           Peptide R14me2s
 pdb|3OMC|A Chain A, Structure Of Human Snd1 Extended Tudor Domain In Complex
           With The Symmetrically Dimethylated Arginine Piwil1
           Peptide R4me2s
 pdb|3OMC|B Chain B, Structure Of Human Snd1 Extended Tudor Domain In Complex
           With The Symmetrically Dimethylated Arginine Piwil1
           Peptide R4me2s
          Length = 261

 Score = 31.2 bits (69), Expect = 0.52,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 15/78 (19%)

Query: 23  ETGTSASASPNLLQSKENKTES-----GSISDNQEKLAVGTKVQAVYSEDGEWYDATIEA 77
           ETGT       L+++  N   S     GS +  + +  +   V      DGEWY A +E 
Sbjct: 53  ETGTQLE---KLMENMRNDIASHPPVEGSYAPRRGEFCIAKFV------DGEWYRARVEK 103

Query: 78  I-TPNGYYVTYDSWGNKE 94
           + +P   +V Y  +GN+E
Sbjct: 104 VESPAKIHVFYIDYGNRE 121


>pdb|2O4X|A Chain A, Crystal Structure Of Human P100 Tudor Domain
          Length = 217

 Score = 31.2 bits (69), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)

Query: 67 DGEWYDATIEAI-TPNGYYVTYDSWGNKE 94
          DGEWY A +E + +P   +V Y  +GN+E
Sbjct: 64 DGEWYRARVEKVESPAKIHVFYIDYGNRE 92


>pdb|2O4X|B Chain B, Crystal Structure Of Human P100 Tudor Domain
          Length = 91

 Score = 31.2 bits (69), Expect = 0.63,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)

Query: 67 DGEWYDATIEAI-TPNGYYVTYDSWGNKE 94
          DGEWY A +E + +P   +V Y  +GN+E
Sbjct: 38 DGEWYRARVEKVESPAKIHVFYIDYGNRE 66


>pdb|2E6N|A Chain A, Solution Structure Of The Tudor Domain Of Staphylococcal
          Nuclease Domain-Containing Protein 1
          Length = 104

 Score = 30.8 bits (68), Expect = 0.69,   Method: Compositional matrix adjust.
 Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)

Query: 67 DGEWYDATIEAI-TPNGYYVTYDSWGNKE 94
          DGEWY A +E + +P   +V Y  +GN+E
Sbjct: 46 DGEWYRARVEKVESPAKIHVFYIDYGNRE 74


>pdb|2OZJ|A Chain A, Crystal Structure Of A Cupin Superfamily Protein (Dsy2733)
           From Desulfitobacterium Hafniense Dcb-2 At 1.60 A
           Resolution
 pdb|2OZJ|B Chain B, Crystal Structure Of A Cupin Superfamily Protein (Dsy2733)
           From Desulfitobacterium Hafniense Dcb-2 At 1.60 A
           Resolution
          Length = 114

 Score = 29.6 bits (65), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 13/27 (48%), Positives = 16/27 (59%)

Query: 149 PEDVKAAKRKKIHAFKSKMRFEQLEVT 175
           PEDV      KIHA   K RF+ L++T
Sbjct: 82  PEDVLXVPAHKIHAIAGKGRFKXLQIT 108


>pdb|4A4F|A Chain A, Solution Structure Of Spf30 Tudor Domain In Complex With
           Symmetrically Dimethylated Arginine
 pdb|4A4H|A Chain A, Solution Structure Of Spf30 Tudor Domain In Complex With
           Asymmetrically Dimethylated Arginine
          Length = 64

 Score = 29.3 bits (64), Expect = 2.4,   Method: Composition-based stats.
 Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 2/51 (3%)

Query: 56  VGTKVQAVYSEDGEWY-DATIEAITPNGY-YVTYDSWGNKEEVDPANVRPV 104
           VG K  AV+SEDG+ Y     E    NG   +T+  +GN E     N++PV
Sbjct: 11  VGDKCMAVWSEDGQCYEAEIEEIDEENGTAAITFAGYGNAEVTPLLNLKPV 61


>pdb|3FQD|A Chain A, Crystal Structure Of The S. Pombe Rat1-Rai1 Complex
          Length = 899

 Score = 28.5 bits (62), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 9/23 (39%), Positives = 15/23 (65%)

Query: 141 KLHINPDDPEDVKAAKRKKIHAF 163
           K HI+PD+PE ++ A +  +H  
Sbjct: 602 KFHISPDEPEKIREAVKHYVHGL 624


>pdb|3TLX|A Chain A, Crystal Structure Of Pf10_0086, Adenylate Kinase From
           Plasmodium Falciparum
 pdb|3TLX|B Chain B, Crystal Structure Of Pf10_0086, Adenylate Kinase From
           Plasmodium Falciparum
 pdb|3TLX|C Chain C, Crystal Structure Of Pf10_0086, Adenylate Kinase From
           Plasmodium Falciparum
 pdb|3TLX|D Chain D, Crystal Structure Of Pf10_0086, Adenylate Kinase From
           Plasmodium Falciparum
          Length = 243

 Score = 27.7 bits (60), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 2/45 (4%)

Query: 202 RKRESIFKSPDDPYGKVGVTGSGKGLTDFQKREKH--LHLKGGGI 244
           ++R +    PD  Y  +G  GSGKG      ++ H   HL  G +
Sbjct: 19  KRRYACLSKPDGRYIFLGAPGSGKGTQSLNLKKSHCYCHLSTGDL 63


>pdb|3DDM|A Chain A, Crystal Structure Of Mandelate RacemaseMUCONATE
           Lactonizing Enzyme From Bordetella Bronchiseptica Rb50
 pdb|3DDM|B Chain B, Crystal Structure Of Mandelate RacemaseMUCONATE
           Lactonizing Enzyme From Bordetella Bronchiseptica Rb50
 pdb|3DDM|C Chain C, Crystal Structure Of Mandelate RacemaseMUCONATE
           Lactonizing Enzyme From Bordetella Bronchiseptica Rb50
 pdb|3DDM|D Chain D, Crystal Structure Of Mandelate RacemaseMUCONATE
           Lactonizing Enzyme From Bordetella Bronchiseptica Rb50
          Length = 392

 Score = 27.7 bits (60), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 1/35 (2%)

Query: 144 INPDDPEDVKAAKRKKIH-AFKSKMRFEQLEVTQN 177
           INP++PEDV A K  + + AFK K+ F+     +N
Sbjct: 154 INPENPEDVVARKAAEGYRAFKLKVGFDDARDVRN 188


  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
   0.307    0.125    0.344 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,862,008
Number of Sequences: 62578
Number of extensions: 259139
Number of successful extensions: 654
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 30
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 50 (23.9 bits)