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= 001141
         (1142 letters)

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

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



>pdb|1XTE|A Chain A, Crystal Structure Of Cisk-Px Domain
          Length = 154

 Score = 45.1 bits (105), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 10/83 (12%)

Query: 682 KEYTVYKIRVWSGKDQWEVERRYRDFYTLYRRLKSLSADEGWSLPSPWSSVEKESRKIFG 741
           K +TVYK+ V  G+ +W V RRY +F  LY  LK         +P         +++IFG
Sbjct: 23  KRFTVYKVLVSVGRSEWFVFRRYAEFDKLYNSLKKQFPAMALKIP---------AKRIFG 73

Query: 742 -NVSPLVVAHRSVLIQECLQSIL 763
            N  P  +  R   + E +Q+++
Sbjct: 74  DNFDPDFIKQRRAGLNEFIQNLV 96


>pdb|3P0C|A Chain A, Nischarin Px-Domain
 pdb|3P0C|B Chain B, Nischarin Px-Domain
          Length = 130

 Score = 44.3 bits (103), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 32/99 (32%), Positives = 46/99 (46%), Gaps = 22/99 (22%)

Query: 673 SLSERLVG---VKEYTVYKIRVWSGKDQWEVERRYRDFYTLYRRLKSLSADEGWSLPSPW 729
           S+  R+VG   V  YTVY I+V  G  +W V+ RY DF+ L+ +L +    +   LP P 
Sbjct: 22  SMEARVVGSELVDTYTVYIIQVTDGSHEWTVKHRYSDFHDLHEKLVAERKIDKNLLP-PK 80

Query: 730 SSVEKESRKI------------------FGNVSPLVVAH 750
             + K SR +                  F  V+P V+AH
Sbjct: 81  KIIGKNSRSLVEKREKDLEVYLQKLLAAFPGVTPRVLAH 119


>pdb|1XTN|A Chain A, Crystal Structure Of Cisk-Px Domain With Sulfates
 pdb|1XTN|B Chain B, Crystal Structure Of Cisk-Px Domain With Sulfates
          Length = 120

 Score = 43.5 bits (101), Expect = 7e-04,   Method: Composition-based stats.
 Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 10/83 (12%)

Query: 682 KEYTVYKIRVWSGKDQWEVERRYRDFYTLYRRLKSLSADEGWSLPSPWSSVEKESRKIFG 741
           K +TVYK+ V  G+ +W V RRY +F  LY  LK            P  +++  +++IFG
Sbjct: 23  KRFTVYKVLVSVGRSEWFVFRRYAEFDKLYNSLKK---------QFPAMALKIPAKRIFG 73

Query: 742 -NVSPLVVAHRSVLIQECLQSIL 763
            N  P  +  R   + E +Q+++
Sbjct: 74  DNFDPDFIKQRRAGLNEFIQNLV 96


>pdb|2I4K|A Chain A, Solution Structure Of The Px Domain Of Sorting Nexin 1
          Length = 128

 Score = 33.9 bits (76), Expect = 0.57,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 5/54 (9%)

Query: 680 GVKEYTVYKIRVWSG-----KDQWEVERRYRDFYTLYRRLKSLSADEGWSLPSP 728
           G+  Y  YK+   +        Q+ V+RR+ DF  LY +L    +  G+ +P P
Sbjct: 17  GMNAYVAYKVTTQTSLPLFRSKQFAVKRRFSDFLGLYEKLSEKHSQNGFIVPPP 70


>pdb|3BLE|A Chain A, Crystal Structure Of The Catalytic Domain Of Licms In
           Complexed With Malonate
 pdb|3BLF|A Chain A, Crystal Structure Of The Catalytic Domain Of Licms In
           Complexed With Pyruvate
 pdb|3BLI|A Chain A, Crystal Structure Of The Catalytic Domain Of Licms In
           Complexed With Pyruvate And Acetyl-Coa
          Length = 337

 Score = 32.0 bits (71), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 28/95 (29%), Positives = 42/95 (44%), Gaps = 20/95 (21%)

Query: 612 SPRARLSQVNQMSQSQISL-----PLRDG----GSTASTSGTDDAYPLTLVPLRIDGVEV 662
           S   R  +V+QM++ +  L      LRDG    G + STS   +     L  L +D VE+
Sbjct: 2   SHMGRSQKVSQMTKVETRLEILDVTLRDGEQTRGVSFSTSEKLNIAKFLLQKLNVDRVEI 61

Query: 663 IGAKQKKGDVSLSERLVGVKEYTVYKIRVWSGKDQ 697
             A+  KG++            TV KI  W+  +Q
Sbjct: 62  ASARVSKGELE-----------TVQKIMEWAATEQ 85


>pdb|4AZ9|A Chain A, Crystal Structure Of Phox Homology Domain Of Human Sorting
           Nexin 24
 pdb|4AZ9|B Chain B, Crystal Structure Of Phox Homology Domain Of Human Sorting
           Nexin 24
          Length = 129

 Score = 31.6 bits (70), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 684 YTVYKIRVWSGKDQWEVERRYRDFYTLYRRLKS 716
           YTV+KI V     +  VE+RY +F+ L+++LK 
Sbjct: 41  YTVFKIEVLMNGRKHFVEKRYSEFHALHKKLKK 73


  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
   0.314    0.132    0.386 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,658,799
Number of Sequences: 62578
Number of extensions: 1587535
Number of successful extensions: 2681
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 2676
Number of HSP's gapped (non-prelim): 9
length of query: 1142
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1033
effective length of database: 8,152,335
effective search space: 8421362055
effective search space used: 8421362055
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 57 (26.6 bits)