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= psy10805
         (253 letters)

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

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



>pdb|2X3L|A Chain A, Crystal Structure Of The Orn_lys_arg Decarboxylase Family
           Protein Sar0482 From Methicillin-Resistant
           Staphylococcus Aureus
 pdb|2X3L|B Chain B, Crystal Structure Of The Orn_lys_arg Decarboxylase Family
           Protein Sar0482 From Methicillin-Resistant
           Staphylococcus Aureus
          Length = 446

 Score = 30.0 bits (66), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 22/91 (24%), Positives = 42/91 (46%), Gaps = 6/91 (6%)

Query: 86  FRKNAEYMSPSNRVPFIKVGQFLVAELDPIVKFTQNKNYITWCDPTTYREVTKVRHGAVA 145
            RK  + + P   V  +K  Q L  E +   K  +   Y+TWCD    +     RH  + 
Sbjct: 346 LRKIEDMILPKKSVSKVKQTQLLTTEGNYKPKRFE---YVTWCDLKKAKGKVLARH--IV 400

Query: 146 PWPLNIYLTYKKKLTVQHRLKTL-KWLEKSL 175
           P+P  I + +K +   ++ ++ + ++LE  +
Sbjct: 401 PYPPGIPIIFKGETITENMIELVNEYLETGM 431


>pdb|3ERR|A Chain A, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
           As A Fusion With Seryl-Trna Synthetase
 pdb|3ERR|B Chain B, Microtubule Binding Domain From Mouse Cytoplasmic Dynein
           As A Fusion With Seryl-Trna Synthetase
          Length = 536

 Score = 29.6 bits (65), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 42/169 (24%), Positives = 71/169 (42%), Gaps = 34/169 (20%)

Query: 56  EVEQILLPDNAHCLAVQAYLKMLGLKYTVDFRKNAEYMSPSNRVPFIKVGQFLVAELDPI 115
           EV  +  P  A  LA+++   +LG + T D+++    +   N +P I    F   E+   
Sbjct: 79  EVRSMANPPAAVKLALESIALLLG-ESTTDWKQIRSIIMRENFIPTIV--NFSAEEISDA 135

Query: 116 VKFTQNKNYITWCDPTTYREVTKVRHGAVAPWPLNIYLTYKKKLTVQHRLKTLKWLEKSL 175
           ++    KNY++  +P+   E+  V   ++A  P+                  +KW    L
Sbjct: 136 IREKMKKNYMS--NPSYNYEI--VNRASLAAGPM------------------VKWAIAQL 173

Query: 176 DQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLP 224
           +  Y D+ K  + L   L+K     KD   +L+ALL       L  PLP
Sbjct: 174 N--YADMLKRVEPLRNELQKLEDDAKDNQQKLEALL-------LQVPLP 213


>pdb|3ISO|A Chain A, Crystal Structure Of 26 Kda Gst Of Clonorchis Sinensis In
           P3221 Symmetry
 pdb|3ISO|B Chain B, Crystal Structure Of 26 Kda Gst Of Clonorchis Sinensis In
           P3221 Symmetry
          Length = 218

 Score = 29.3 bits (64), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 29/150 (19%), Positives = 65/150 (43%), Gaps = 22/150 (14%)

Query: 99  VPFIKVGQFLVAELDPIVKFTQNKNYITWCDPTTYREVTKVRHGAVAPWPLNIYLTYKKK 158
           +P+ K G F + +   I+++  +K+ +    P    +++ +  G V        + Y++ 
Sbjct: 55  LPYYKDGNFSLTQSLAILRYIADKHNMIGNTPVERAKISMIEGGLVDLRAGVSRIAYQET 114

Query: 159 LTVQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAV 218
              Q ++  L+ L  +L           +  S+ L  N++     PT LD + +  +  +
Sbjct: 115 FE-QLKVPYLQQLPSTL-----------RMWSQFLGNNSYLHGSTPTHLDFMFYEALDVI 162

Query: 219 LTTPLPNNRF--ASTIRAYPNLVEHCTRIE 246
                   R+   +++ A+PNL++   RIE
Sbjct: 163 --------RYLDPTSVEAFPNLMQFIHRIE 184


>pdb|3P56|B Chain B, The Structure Of The Human Rnase H2 Complex Defines Key
           Interaction Interfaces Relevant To Enzyme Function And
           Human Disease
 pdb|3P56|E Chain E, The Structure Of The Human Rnase H2 Complex Defines Key
           Interaction Interfaces Relevant To Enzyme Function And
           Human Disease
          Length = 237

 Score = 28.9 bits (63), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)

Query: 167 TLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPT---ELDALLFGH 214
           TLKWLEK ++Q    +     ++S R++   FF  D+ +   E D + + H
Sbjct: 174 TLKWLEKKVNQTVAALKTNNVNVSSRVQSTAFFSGDQASTDKEEDYIRYAH 224


>pdb|3PUF|B Chain B, Crystal Structure Of Human Rnase H2 Complex
 pdb|3PUF|E Chain E, Crystal Structure Of Human Rnase H2 Complex
 pdb|3PUF|H Chain H, Crystal Structure Of Human Rnase H2 Complex
 pdb|3PUF|K Chain K, Crystal Structure Of Human Rnase H2 Complex
 pdb|3PUF|N Chain N, Crystal Structure Of Human Rnase H2 Complex
 pdb|3PUF|Q Chain Q, Crystal Structure Of Human Rnase H2 Complex
          Length = 224

 Score = 28.9 bits (63), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)

Query: 167 TLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPT---ELDALLFGH 214
           TLKWLEK ++Q    +     ++S R++   FF  D+ +   E D + + H
Sbjct: 154 TLKWLEKKVNQTVAALKTNNVNVSSRVQSTAFFSGDQASTDKEEDYIRYAH 204


>pdb|2IRM|A Chain A, Crystal Structure Of Mitogen-Activated Protein Kinase
           Kinase Kinase 7 Interacting Protein 1 From Anopheles
           Gambiae
          Length = 358

 Score = 28.9 bits (63), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 173 KSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGH 214
           ++++Q+YKD  + C+    R +K      D  T L A+L GH
Sbjct: 19  EAINQIYKDDGRRCEGYESR-DKKCLCISDNNTSLYAILSGH 59


>pdb|3GY1|A Chain A, Crystal Structure Of Putative Mandelate RacemaseMUCONATE
           LACTONIZING Protein From Clostridium Beijerinckii Ncimb
           8052
 pdb|3GY1|B Chain B, Crystal Structure Of Putative Mandelate RacemaseMUCONATE
           LACTONIZING Protein From Clostridium Beijerinckii Ncimb
           8052
          Length = 408

 Score = 28.1 bits (61), Expect = 4.3,   Method: Compositional matrix adjust.
 Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 30  HLLHVVF-IFFPAREI-WPDDVKLYQPYEVEQILLPDNAHCLA 70
           H+LH V    FP + + +  DV+ Y+PY +E IL PD    L 
Sbjct: 203 HILHDVHERLFPNQAVQFAKDVEKYKPYFIEDILPPDQNEWLG 245


>pdb|3S47|A Chain A, Crystal Structure Of Enolase Superfamily Member From
           Clostridium Beijerincki Complexed With Mg
 pdb|3S47|B Chain B, Crystal Structure Of Enolase Superfamily Member From
           Clostridium Beijerincki Complexed With Mg
          Length = 401

 Score = 28.1 bits (61), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)

Query: 30  HLLHVVF-IFFPAREI-WPDDVKLYQPYEVEQILLPDNAHCLA 70
           H+LH V    FP + + +  DV+ Y+PY +E IL PD    L 
Sbjct: 203 HILHDVHERLFPNQAVQFAKDVEKYKPYFIEDILPPDQNEWLG 245


  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
   0.322    0.137    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,692,937
Number of Sequences: 62578
Number of extensions: 327852
Number of successful extensions: 706
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 703
Number of HSP's gapped (non-prelim): 11
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)