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= psy5937
         (201 letters)

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

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



>pdb|3RLS|A Chain A, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
 pdb|3RLS|B Chain B, Crystal Structure Of Yeast Af-9 Homolog Protein Yaf9
          Length = 175

 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 33/72 (45%), Positives = 45/72 (62%)

Query: 16 ASVRNKRTPEGFTHDWEVFVRGVDNADIHNFIDKVVFHLHETFPKPKRILKEPPYVVKES 75
           SV+    P   TH W +FVRG  N DI  FI KVVF LH+T+P P R ++ PP+ + E+
Sbjct: 20 GSVKPPNAPAEHTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYPNPVRSIEAPPFELTET 79

Query: 76 GYAGFTLPIEVY 87
          G+  F + I+VY
Sbjct: 80 GWGEFDINIKVY 91



 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 31/65 (47%), Positives = 42/65 (64%)

Query: 105 PEGFTHDWEVFVRGVDNADIHNFIDKVVFHLHETFPKPKRILKEPPYVVKESGYAGFTLP 164
           P   TH W +FVRG  N DI  FI KVVF LH+T+P P R ++ PP+ + E+G+  F + 
Sbjct: 28  PAEHTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYPNPVRSIEAPPFELTETGWGEFDIN 87

Query: 165 IEVYL 169
           I+VY 
Sbjct: 88  IKVYF 92


>pdb|3FK3|A Chain A, Structure Of The Yeats Domain, Yaf9
 pdb|3FK3|B Chain B, Structure Of The Yeats Domain, Yaf9
 pdb|3FK3|C Chain C, Structure Of The Yeats Domain, Yaf9
          Length = 164

 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 33/72 (45%), Positives = 45/72 (62%)

Query: 16 ASVRNKRTPEGFTHDWEVFVRGVDNADIHNFIDKVVFHLHETFPKPKRILKEPPYVVKES 75
           SV+    P   TH W +FVRG  N DI  FI KVVF LH+T+P P R ++ PP+ + E+
Sbjct: 23 GSVKPPNAPAEHTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYPNPVRSIEAPPFELTET 82

Query: 76 GYAGFTLPIEVY 87
          G+  F + I+VY
Sbjct: 83 GWGEFDINIKVY 94



 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 31/65 (47%), Positives = 42/65 (64%)

Query: 105 PEGFTHDWEVFVRGVDNADIHNFIDKVVFHLHETFPKPKRILKEPPYVVKESGYAGFTLP 164
           P   TH W +FVRG  N DI  FI KVVF LH+T+P P R ++ PP+ + E+G+  F + 
Sbjct: 31  PAEHTHLWTIFVRGPQNEDISYFIKKVVFKLHDTYPNPVRSIEAPPFELTETGWGEFDIN 90

Query: 165 IEVYL 169
           I+VY 
Sbjct: 91  IKVYF 95


>pdb|3QRL|A Chain A, Crystal Structure Of The Taf14 Yeats Domain
          Length = 140

 Score = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 23/50 (46%), Positives = 31/50 (62%)

Query: 129 DKVVFHLHETFPKPKRILKEPPYVVKESGYAGFTLPIEVYLKNNNEPRKI 178
           DKV++HLH TF  P R   +PP+ ++E G+ GF L I V+L      RKI
Sbjct: 55  DKVIYHLHPTFANPNRTFTDPPFRIEEQGWGGFPLDISVFLLEKAGERKI 104



 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 27/40 (67%)

Query: 48 DKVVFHLHETFPKPKRILKEPPYVVKESGYAGFTLPIEVY 87
          DKV++HLH TF  P R   +PP+ ++E G+ GF L I V+
Sbjct: 55 DKVIYHLHPTFANPNRTFTDPPFRIEEQGWGGFPLDISVF 94


>pdb|2L7E|A Chain A, The Structure Of A Domain From Yeast
          Length = 131

 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 23/50 (46%), Positives = 31/50 (62%)

Query: 129 DKVVFHLHETFPKPKRILKEPPYVVKESGYAGFTLPIEVYLKNNNEPRKI 178
           DKV++HLH TF  P R   +PP+ ++E G+ GF L I V+L      RKI
Sbjct: 52  DKVIYHLHPTFANPNRTFTDPPFRIEEQGWGGFPLDISVFLLEKAGERKI 101



 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 27/40 (67%)

Query: 48 DKVVFHLHETFPKPKRILKEPPYVVKESGYAGFTLPIEVY 87
          DKV++HLH TF  P R   +PP+ ++E G+ GF L I V+
Sbjct: 52 DKVIYHLHPTFANPNRTFTDPPFRIEEQGWGGFPLDISVF 91


>pdb|3RF2|A Chain A, Crystal Structure Of 30s Ribosomal Protein S8 From Aquifex
           Aeolicus
          Length = 168

 Score = 31.2 bits (69), Expect = 0.44,   Method: Compositional matrix adjust.
 Identities = 29/85 (34%), Positives = 36/85 (42%), Gaps = 14/85 (16%)

Query: 90  LIVPKSKRTTYIF--IKPEGFTHDWEVFVRGVDNADIHNFIDKVVFHLHETFPKP--KRI 145
           L VP SK    I   +K EGF  DWE         + +    K +  L E  P P  KR 
Sbjct: 25  LYVPSSKLKERILDVLKKEGFIQDWEAL-----KGEKYEEEYKKMKELAEKSPNPKMKRY 79

Query: 146 LKEPPYVVKESGYAGFTLPIEVYLK 170
           LK+      E    G   PI++YLK
Sbjct: 80  LKQL-----EEYNKGTQYPIKIYLK 99


>pdb|3B9N|A Chain A, Crystal Structure Of Long-Chain Alkane Monooxygenase
           (Lada)
 pdb|3B9N|B Chain B, Crystal Structure Of Long-Chain Alkane Monooxygenase
           (Lada)
 pdb|3B9O|A Chain A, Long-Chain Alkane Monooxygenase (Lada) In Complex With
           Coenzyme Fmn
 pdb|3B9O|B Chain B, Long-Chain Alkane Monooxygenase (Lada) In Complex With
           Coenzyme Fmn
          Length = 440

 Score = 28.1 bits (61), Expect = 3.7,   Method: Compositional matrix adjust.
 Identities = 18/65 (27%), Positives = 34/65 (52%), Gaps = 7/65 (10%)

Query: 61  PKRILKEPPYVVKESGYAGFTLPIEV-------YGDLIVPKSKRTTYIFIKPEGFTHDWE 113
           PK++  E  Y+V+E+G  GF L   V       + +L+VP+ ++     +  E  T+  +
Sbjct: 356 PKKVADEMQYLVEEAGIDGFNLVQYVSPGTFVDFIELVVPELQKRGLYRVDYEEGTYREK 415

Query: 114 VFVRG 118
           +F +G
Sbjct: 416 LFGKG 420


>pdb|2GL6|A Chain A, Crystal Structure Of Human Sarcomeric Mitochondrial
          Creatine Kinase
 pdb|2GL6|B Chain B, Crystal Structure Of Human Sarcomeric Mitochondrial
          Creatine Kinase
 pdb|2GL6|C Chain C, Crystal Structure Of Human Sarcomeric Mitochondrial
          Creatine Kinase
 pdb|2GL6|D Chain D, Crystal Structure Of Human Sarcomeric Mitochondrial
          Creatine Kinase
 pdb|2GL6|E Chain E, Crystal Structure Of Human Sarcomeric Mitochondrial
          Creatine Kinase
 pdb|2GL6|F Chain F, Crystal Structure Of Human Sarcomeric Mitochondrial
          Creatine Kinase
 pdb|2GL6|G Chain G, Crystal Structure Of Human Sarcomeric Mitochondrial
          Creatine Kinase
 pdb|2GL6|H Chain H, Crystal Structure Of Human Sarcomeric Mitochondrial
          Creatine Kinase
          Length = 392

 Score = 27.3 bits (59), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 17/35 (48%), Positives = 20/35 (57%), Gaps = 2/35 (5%)

Query: 16 ASVRNKRTPEGFTHDWEVFVRGVDNADIHNFIDKV 50
          A +RNK TP G+T D +    GVDN   H FI  V
Sbjct: 50 AKLRNKVTPNGYTLD-QCIQTGVDNPG-HPFIKTV 82


>pdb|3B6R|A Chain A, Crystal Structure Of Human Brain-Type Creatine Kinase
 pdb|3B6R|B Chain B, Crystal Structure Of Human Brain-Type Creatine Kinase
 pdb|3DRB|A Chain A, Crystal Structure Of Human Brain-Type Creatine Kinase
 pdb|3DRB|B Chain B, Crystal Structure Of Human Brain-Type Creatine Kinase
 pdb|3DRE|A Chain A, Crystal Structure Of Human Brain-Type Creatine Kinase
 pdb|3DRE|B Chain B, Crystal Structure Of Human Brain-Type Creatine Kinase
          Length = 381

 Score = 26.9 bits (58), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 14/25 (56%), Positives = 16/25 (64%), Gaps = 1/25 (4%)

Query: 16 ASVRNKRTPEGFTHDWEVFVRGVDN 40
          A +R K TP GFT D +V   GVDN
Sbjct: 40 AELRAKSTPSGFTLD-DVIQTGVDN 63


>pdb|1PEZ|A Chain A, Bacillus Circulans Strain 251 Mutant A230v
          Length = 686

 Score = 26.9 bits (58), Expect = 8.0,   Method: Composition-based stats.
 Identities = 11/27 (40%), Positives = 15/27 (55%)

Query: 87  YGDLIVPKSKRTTYIFIKPEGFTHDWE 113
           Y D+ VP  K   + F+K +G T  WE
Sbjct: 637 YYDVSVPAGKTIEFKFLKKQGSTATWE 663


>pdb|1I0E|A Chain A, Crystal Structure Of Creatine Kinase From Human Muscle
 pdb|1I0E|B Chain B, Crystal Structure Of Creatine Kinase From Human Muscle
 pdb|1I0E|C Chain C, Crystal Structure Of Creatine Kinase From Human Muscle
 pdb|1I0E|D Chain D, Crystal Structure Of Creatine Kinase From Human Muscle
          Length = 381

 Score = 26.6 bits (57), Expect = 9.3,   Method: Compositional matrix adjust.
 Identities = 16/33 (48%), Positives = 21/33 (63%), Gaps = 3/33 (9%)

Query: 8  ITLEIGHEASVRNKRTPEGFTHDWEVFVRGVDN 40
          +TLE+     +R+K TP GFT D +V   GVDN
Sbjct: 34 LTLEL--YKKLRDKETPSGFTVD-DVIQTGVDN 63


>pdb|1G0W|A Chain A, Crystal Structure Of Bovine Retinal Creatine Kinase
          Length = 380

 Score = 26.6 bits (57), Expect = 9.6,   Method: Compositional matrix adjust.
 Identities = 14/25 (56%), Positives = 16/25 (64%), Gaps = 1/25 (4%)

Query: 16 ASVRNKRTPEGFTHDWEVFVRGVDN 40
          A +R K TP GFT D +V   GVDN
Sbjct: 39 AELRAKSTPSGFTVD-DVIQTGVDN 62


  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
   0.321    0.140    0.435 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,165,990
Number of Sequences: 62578
Number of extensions: 319399
Number of successful extensions: 500
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 488
Number of HSP's gapped (non-prelim): 21
length of query: 201
length of database: 14,973,337
effective HSP length: 94
effective length of query: 107
effective length of database: 9,091,005
effective search space: 972737535
effective search space used: 972737535
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)