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= psy5301
         (132 letters)

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

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



>pdb|4GH9|A Chain A, Crystal Structure Of Marburg Virus Vp35 Rna Binding Domain
 pdb|4GHA|A Chain A, Crystal Structure Of Marburg Virus Vp35 Rna Binding Domain
           Bound To 12-Bp Dsrna
 pdb|4GHA|C Chain C, Crystal Structure Of Marburg Virus Vp35 Rna Binding Domain
           Bound To 12-Bp Dsrna
 pdb|4GHA|E Chain E, Crystal Structure Of Marburg Virus Vp35 Rna Binding Domain
           Bound To 12-Bp Dsrna
 pdb|4GHA|G Chain G, Crystal Structure Of Marburg Virus Vp35 Rna Binding Domain
           Bound To 12-Bp Dsrna
          Length = 146

 Score = 32.7 bits (73), Expect = 0.063,   Method: Compositional matrix adjust.
 Identities = 19/81 (23%), Positives = 34/81 (41%), Gaps = 8/81 (9%)

Query: 7   EKGPFIEDFYQCVTYGFYTEPWQEQLYSCFSLFFMFICPLLILVTTYVSTFLTISRKCFM 66
           + G F++ F+Q ++ G   +    +L   F  F   + P++      V  F T+ R C  
Sbjct: 61  KSGAFLDAFHQILSEGENAQAALTRLSRTFDAFLGVVPPVI-----RVKNFQTVPRPCQK 115

Query: 67  SFMVIFHIEKGPFIEDFYQCV 87
           S      +   P I+  + CV
Sbjct: 116 SLRA---VPPNPTIDKGWVCV 133


>pdb|4GHL|A Chain A, Structural Basis For Marburg Virus Vp35 Mediate Immune
           Evasion Mechanisms
 pdb|4GHL|B Chain B, Structural Basis For Marburg Virus Vp35 Mediate Immune
           Evasion Mechanisms
 pdb|4GHL|C Chain C, Structural Basis For Marburg Virus Vp35 Mediate Immune
           Evasion Mechanisms
 pdb|4GHL|D Chain D, Structural Basis For Marburg Virus Vp35 Mediate Immune
           Evasion Mechanisms
          Length = 133

 Score = 32.7 bits (73), Expect = 0.066,   Method: Compositional matrix adjust.
 Identities = 19/81 (23%), Positives = 34/81 (41%), Gaps = 8/81 (9%)

Query: 7   EKGPFIEDFYQCVTYGFYTEPWQEQLYSCFSLFFMFICPLLILVTTYVSTFLTISRKCFM 66
           + G F++ F+Q ++ G   +    +L   F  F   + P++      V  F T+ R C  
Sbjct: 48  KSGAFLDAFHQILSEGENAQAALTRLSRTFDAFMGVVPPVI-----RVKNFQTVPRPCQK 102

Query: 67  SFMVIFHIEKGPFIEDFYQCV 87
           S      +   P I+  + CV
Sbjct: 103 SLRA---VPPNPTIDKGWVCV 120


>pdb|2ACX|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 6
           Bound To Amppnp
 pdb|2ACX|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 6
           Bound To Amppnp
          Length = 576

 Score = 27.3 bits (59), Expect = 2.5,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 2/45 (4%)

Query: 68  FMVIFHIEKGPFIEDFYQCVTYGFYTEPWQEQLY--SCFSLFFMF 110
           F  +  +E  P  +DFYQ    G    PWQ ++    CF    +F
Sbjct: 483 FSTVKGVELEPTDQDFYQKFATGSVPIPWQNEMVETECFQELNVF 527



 Score = 26.6 bits (57), Expect = 4.4,   Method: Composition-based stats.
 Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 2/39 (5%)

Query: 6   IEKGPFIEDFYQCVTYGFYTEPWQEQLY--SCFSLFFMF 42
           +E  P  +DFYQ    G    PWQ ++    CF    +F
Sbjct: 489 VELEPTDQDFYQKFATGSVPIPWQNEMVETECFQELNVF 527


>pdb|3NYN|A Chain A, Crystal Structure Of G Protein-Coupled Receptor Kinase 6
           In Complex With Sangivamycin
 pdb|3NYN|B Chain B, Crystal Structure Of G Protein-Coupled Receptor Kinase 6
           In Complex With Sangivamycin
 pdb|3NYO|A Chain A, Crystal Structure Of G Protein-Coupled Receptor Kinase 6
           In Complex With Amp
 pdb|3NYO|B Chain B, Crystal Structure Of G Protein-Coupled Receptor Kinase 6
           In Complex With Amp
          Length = 576

 Score = 26.9 bits (58), Expect = 2.8,   Method: Composition-based stats.
 Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 2/45 (4%)

Query: 68  FMVIFHIEKGPFIEDFYQCVTYGFYTEPWQEQLY--SCFSLFFMF 110
           F  +  +E  P  +DFYQ    G    PWQ ++    CF    +F
Sbjct: 483 FSTVKGVELEPTDQDFYQKFATGSVPIPWQNEMVETECFQELNVF 527



 Score = 26.2 bits (56), Expect = 5.0,   Method: Composition-based stats.
 Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 2/39 (5%)

Query: 6   IEKGPFIEDFYQCVTYGFYTEPWQEQLY--SCFSLFFMF 42
           +E  P  +DFYQ    G    PWQ ++    CF    +F
Sbjct: 489 VELEPTDQDFYQKFATGSVPIPWQNEMVETECFQELNVF 527


  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
   0.338    0.148    0.504 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,810,813
Number of Sequences: 62578
Number of extensions: 136820
Number of successful extensions: 344
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 337
Number of HSP's gapped (non-prelim): 10
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.7 bits)
S2: 46 (22.3 bits)