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= psy6796
         (123 letters)

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

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



>pdb|2JXJ|A Chain A, Nmr Structure Of The Arid Domain From The Histone H3k4
          Demethylase Rbp2
          Length = 96

 Score = 30.8 bits (68), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 25/65 (38%), Positives = 34/65 (52%), Gaps = 10/65 (15%)

Query: 42 GFALNCPVVEYVTPEKYAHWEKVV------EYVTPEKYAHWEKVGNSMGFLY-TASGPLV 94
          G  L  PVVE    + YA   K+V      E VT EK   W KVG+ +G+L    +G L+
Sbjct: 23 GSTLKIPVVERKILDLYA-LSKIVASKGGFEMVTKEK--KWSKVGSRLGYLPGKGTGSLL 79

Query: 95 RSSYK 99
          +S Y+
Sbjct: 80 KSHYE 84


>pdb|3TLV|A Chain A, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Oxidized Mutant In A Locally-Closed Conformation (Lc3
           Subtype)
 pdb|3TLV|B Chain B, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Oxidized Mutant In A Locally-Closed Conformation (Lc3
           Subtype)
 pdb|3TLV|C Chain C, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Oxidized Mutant In A Locally-Closed Conformation (Lc3
           Subtype)
 pdb|3TLV|D Chain D, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Oxidized Mutant In A Locally-Closed Conformation (Lc3
           Subtype)
 pdb|3TLV|E Chain E, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Oxidized Mutant In A Locally-Closed Conformation (Lc3
           Subtype)
 pdb|3UU6|A Chain A, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Mutant Reduced In Solution
 pdb|3UU6|B Chain B, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Mutant Reduced In Solution
 pdb|3UU6|C Chain C, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Mutant Reduced In Solution
 pdb|3UU6|D Chain D, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Mutant Reduced In Solution
 pdb|3UU6|E Chain E, The Glic Pentameric Ligand-Gated Ion Channel Loop2-22'
           Mutant Reduced In Solution
          Length = 321

 Score = 28.9 bits (63), Expect = 0.74,   Method: Compositional matrix adjust.
 Identities = 12/46 (26%), Positives = 23/46 (50%)

Query: 9   VEFLLWDEVWQGSMGLNCPGGLSSMGSKLAYSMGFALNCPVVEYVT 54
           + F+ W   W  S   N    +S++ + +A+++    NCP   Y+T
Sbjct: 212 ILFISWTAFWSTSYEANVTLVVSTLIAHIAFNILVETNCPKTPYMT 257


>pdb|2JE2|A Chain A, Cytochrome P460 From Nitrosomonas Europaea - Probable
          Nonphysiological Oxidized Form
 pdb|2JE3|A Chain A, Cytochrome P460 From Nitrosomonas Europaea - Probable
          Physiological Form
          Length = 186

 Score = 28.1 bits (61), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 10/14 (71%), Positives = 11/14 (78%)

Query: 67 YVTPEKYAHWEKVG 80
          YV PE YAHW+K G
Sbjct: 48 YVDPESYAHWKKTG 61



 Score = 27.7 bits (60), Expect = 1.8,   Method: Compositional matrix adjust.
 Identities = 10/16 (62%), Positives = 12/16 (75%)

Query: 52 YVTPEKYAHWEKVVEY 67
          YV PE YAHW+K  E+
Sbjct: 48 YVDPESYAHWKKTGEF 63


>pdb|1KFI|A Chain A, Crystal Structure Of The Exocytosis-Sensitive
           Phosphoprotein, Pp63PARAFUSIN (PHOSPHOGLUCOMUTASE) FROM
           Paramecium
 pdb|1KFI|B Chain B, Crystal Structure Of The Exocytosis-Sensitive
           Phosphoprotein, Pp63PARAFUSIN (PHOSPHOGLUCOMUTASE) FROM
           Paramecium
 pdb|1KFQ|A Chain A, Crystal Structure Of Exocytosis-Sensitive Phosphoprotein,
           Pp63PARAFUSIN (PHOSPHOGLUCOMUTSE) FROM PARAMECIUM. OPEN
           Form
 pdb|1KFQ|B Chain B, Crystal Structure Of Exocytosis-Sensitive Phosphoprotein,
           Pp63PARAFUSIN (PHOSPHOGLUCOMUTSE) FROM PARAMECIUM. OPEN
           Form
          Length = 572

 Score = 25.0 bits (53), Expect = 9.6,   Method: Composition-based stats.
 Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 13/69 (18%)

Query: 25  NCPGGL-----SSMGSKLAYSMGFALN----CPVVEYVTPEKYAHWEKVVEYVTP----E 71
           NC GG+      + G K     G   N     P  E  T + Y H  K+ EY+T     E
Sbjct: 116 NCIGGIILTASHNPGGKEHGDFGIKFNVRTGAPAPEDFTDQIYTHTTKIKEYLTVDYEFE 175

Query: 72  KYAHWEKVG 80
           K+ + +++G
Sbjct: 176 KHINLDQIG 184


  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
   0.317    0.133    0.420 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,045,379
Number of Sequences: 62578
Number of extensions: 163573
Number of successful extensions: 414
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 411
Number of HSP's gapped (non-prelim): 5
length of query: 123
length of database: 14,973,337
effective HSP length: 85
effective length of query: 38
effective length of database: 9,654,207
effective search space: 366859866
effective search space used: 366859866
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)