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= psy12530
         (189 letters)

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

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



>pdb|1KKD|A Chain A, Solution Structure Of The Calmodulin Binding Domain
           (Cambd) Of Small Conductance Ca2+-Activated Potassium
           Channels (Sk2)
 pdb|4G27|B Chain B, Calcium-Calmodulin Complexed With The Calmodulin Binding
           Domain From A Small Conductance Potassium Channel Splice
           Variant And Phenylurea
 pdb|4G28|B Chain B, Calcium-Calmodulin Complexed With The Calmodulin Binding
           Domain From A Small Conductance Potassium Channel Splice
           Variant And Ebio-1
          Length = 102

 Score = 98.2 bits (243), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 52/97 (53%), Positives = 63/97 (64%), Gaps = 29/97 (29%)

Query: 93  VSRKMELTRAEKHVHNFMMDTQLTKRLKNAAANVLRETWLIYKHTRLVKRVNAGRLKNAA 152
           + RK+ELT+AEKHVHNFMMDTQLTKR+KNAAANVLRETWLIYK+T               
Sbjct: 1   MGRKLELTKAEKHVHNFMMDTQLTKRVKNAAANVLRETWLIYKNT--------------- 45

Query: 153 ANVLRETWLIYKHTRLVKRVNAGRVRTHQRKFLLAIY 189
                         +LVK+++  +VR HQRKFL AI+
Sbjct: 46  --------------KLVKKIDHAKVRKHQRKFLQAIH 68


>pdb|1G4Y|B Chain B, 1.60 A Crystal Structure Of The Gating Domain From Small
           Conductance Potassium Channel Complexed With
           Calcium-Calmodulin
          Length = 101

 Score = 97.4 bits (241), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 52/97 (53%), Positives = 63/97 (64%), Gaps = 29/97 (29%)

Query: 93  VSRKMELTRAEKHVHNFMMDTQLTKRLKNAAANVLRETWLIYKHTRLVKRVNAGRLKNAA 152
           + RK+ELT+AEKHVHNFMMDTQLTKR+KNAAANVLRETWLIYK+T               
Sbjct: 1   MGRKLELTKAEKHVHNFMMDTQLTKRVKNAAANVLRETWLIYKNT--------------- 45

Query: 153 ANVLRETWLIYKHTRLVKRVNAGRVRTHQRKFLLAIY 189
                         +LVK+++  +VR HQRKFL AI+
Sbjct: 46  --------------KLVKKIDHAKVRKHQRKFLQAIH 68


>pdb|1QX7|D Chain D, Crystal Structure Of Apocam Bound To The Gating Domain Of
           Small Conductance Ca2+-Activated Potassium Channel
          Length = 85

 Score = 69.7 bits (169), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 39/80 (48%), Positives = 47/80 (58%), Gaps = 29/80 (36%)

Query: 110 MMDTQLTKRLKNAAANVLRETWLIYKHTRLVKRVNAGRLKNAAANVLRETWLIYKHTRLV 169
           MMDTQLTKR+KNA                             AANVLRETWLIYK+T+LV
Sbjct: 1   MMDTQLTKRVKNA-----------------------------AANVLRETWLIYKNTKLV 31

Query: 170 KRVNAGRVRTHQRKFLLAIY 189
           K+++  +VR HQRKFL AI+
Sbjct: 32  KKIDHAKVRKHQRKFLQAIH 51


>pdb|3SJQ|C Chain C, Crystal Structure Of A Small Conductance Potassium Channel
           Splice Variant Complexed With Calcium-Calmodulin
 pdb|3SJQ|D Chain D, Crystal Structure Of A Small Conductance Potassium Channel
           Splice Variant Complexed With Calcium-Calmodulin
          Length = 87

 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 35/53 (66%), Positives = 43/53 (81%), Gaps = 5/53 (9%)

Query: 137 TRLVKRVNAGRLKNAAANVLRETWLIYKHTRLVKRVNAGRVRTHQRKFLLAIY 189
           T+L KRV     KNAAANVLRETWLIYK+T+LVK+++  +VR HQRKFL AI+
Sbjct: 3   TQLTKRV-----KNAAANVLRETWLIYKNTKLVKKIDHAKVRKHQRKFLQAIH 50


>pdb|3GOD|A Chain A, Structural Basis For Dnase Activity Of A Conserved Protein
           Implicated In Crispr-Mediated Antiviral Defense
 pdb|3GOD|B Chain B, Structural Basis For Dnase Activity Of A Conserved Protein
           Implicated In Crispr-Mediated Antiviral Defense
 pdb|3GOD|C Chain C, Structural Basis For Dnase Activity Of A Conserved Protein
           Implicated In Crispr-Mediated Antiviral Defense
 pdb|3GOD|D Chain D, Structural Basis For Dnase Activity Of A Conserved Protein
           Implicated In Crispr-Mediated Antiviral Defense
          Length = 328

 Score = 30.4 bits (67), Expect = 0.65,   Method: Compositional matrix adjust.
 Identities = 26/82 (31%), Positives = 33/82 (40%), Gaps = 10/82 (12%)

Query: 74  SWIRPCYLREG-----CTALLVAVVSRKMELTRAEKHVHNFMMDTQLTKRLKNAAANVLR 128
           SW+    LR+       TAL VAV      L +A  H H    + +L+KRL   AA   R
Sbjct: 151 SWLEDRVLRDAGFAVDATALAVAVEDSARALEQAPNHEHLLTEEARLSKRLFKLAAQATR 210

Query: 129 ETWLIYKHTRLVKRVNAGRLKN 150
                Y      KR + G   N
Sbjct: 211 -----YGEFVRAKRGSGGDPAN 227


  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
   0.329    0.135    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,833,265
Number of Sequences: 62578
Number of extensions: 101860
Number of successful extensions: 282
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 273
Number of HSP's gapped (non-prelim): 11
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 48 (23.1 bits)