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= psy7234
         (164 letters)

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

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



>pdb|2P04|A Chain A, 2.1 Ang Structure Of The Dimerized Pas Domain Of Signal
           Transduction Histidine Kinase From Nostoc Punctiforme
           Pcc 73102 With Homology To The H-NoxaH-Noba Domain Of
           The Soluble Guanylyl Cyclase
 pdb|2P04|B Chain B, 2.1 Ang Structure Of The Dimerized Pas Domain Of Signal
           Transduction Histidine Kinase From Nostoc Punctiforme
           Pcc 73102 With Homology To The H-NoxaH-Noba Domain Of
           The Soluble Guanylyl Cyclase
          Length = 121

 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 63/117 (53%), Gaps = 12/117 (10%)

Query: 20  CKAFPWHFIVDRKLELVQLGAGYMRLFGRCLKHLGSSVNNYFEIRRPNLLTVTFSSILKR 79
            KAFP+HF   R  E+VQ G    R+    L  +G  +  +F+I RP +L + F +I K+
Sbjct: 14  AKAFPFHFAFSRNREIVQTGEVLERISPEPL--VGKLIEQHFQINRPKIL-IDFDAISKQ 70

Query: 80  VNSPFVIAIRLPQSLQNSPVEGLEFKGQMVYCPESESLLFVASPFLDALDNLTSRGL 136
             + F++     + L N    G++ KGQM+Y PE E + F+ SP++    +L   G+
Sbjct: 71  PRALFIL-----EFLHN----GMQLKGQMMYQPEEEVIFFLGSPWITDTTSLAPLGI 118


>pdb|2P08|A Chain A, Structure Of The N-Terminally Truncated Pas Domain Of
           Signal Transduction Histidine Kinase From Nostoc
           Punctiforme Pcc 73102 With Homology To The H-NoxaH-Noba
           Domain Of The Soluble Guanylyl Cyclase
 pdb|2P08|B Chain B, Structure Of The N-Terminally Truncated Pas Domain Of
           Signal Transduction Histidine Kinase From Nostoc
           Punctiforme Pcc 73102 With Homology To The H-NoxaH-Noba
           Domain Of The Soluble Guanylyl Cyclase
          Length = 115

 Score = 64.7 bits (156), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 39/117 (33%), Positives = 63/117 (53%), Gaps = 12/117 (10%)

Query: 20  CKAFPWHFIVDRKLELVQLGAGYMRLFGRCLKHLGSSVNNYFEIRRPNLLTVTFSSILKR 79
            KAFP+HF   R  E+VQ G    R+    L  +G  +  +F+I RP +L + F +I K+
Sbjct: 8   AKAFPFHFAFSRNREIVQTGEVLERISPEPL--VGKLIEQHFQINRPKIL-IDFDAISKQ 64

Query: 80  VNSPFVIAIRLPQSLQNSPVEGLEFKGQMVYCPESESLLFVASPFLDALDNLTSRGL 136
             + F++     + L N    G++ KGQM+Y PE E + F+ SP++    +L   G+
Sbjct: 65  PRALFIL-----EFLHN----GMQLKGQMMYQPEEEVIFFLGSPWITDTTSLAPLGI 112


>pdb|3TW5|A Chain A, Crystal Structure Of The Gp42 Transglutaminase From
           Phytophthora Sojae
 pdb|3TW5|B Chain B, Crystal Structure Of The Gp42 Transglutaminase From
           Phytophthora Sojae
          Length = 367

 Score = 31.2 bits (69), Expect = 0.30,   Method: Compositional matrix adjust.
 Identities = 27/105 (25%), Positives = 40/105 (38%), Gaps = 17/105 (16%)

Query: 52  HLGSSVNNYFEIRRPNLLTVTFSSILKRVNSPFVIAIRLPQSLQNSPVEG---------- 101
             G   NN +    P    +  ++IL ++NS FV  +     + N PV G          
Sbjct: 188 EYGRHSNNAYRDLNPAYFHIASANILGKLNSTFVADVTAGAEVWNQPVRGFKVYEQTEMT 247

Query: 102 LEFKGQMVYCPE-------SESLLFVASPFLDALDNLTSRGLFIS 139
           LE   Q  Y  E       ++SL++V S      +  T  GL  S
Sbjct: 248 LEEGAQTFYGLEAYPWNAAAKSLVYVKSRLSWIYETYTDGGLVSS 292


>pdb|1K4J|A Chain A, Crystal Structure Of The Acyl-Homoserinelactone Synthase
           Esai Complexed With Rhenate
 pdb|1KZF|A Chain A, Crystal Structure Of The Acyl-Homoserine Lactone Synthase,
           Esai
          Length = 230

 Score = 29.6 bits (65), Expect = 0.88,   Method: Compositional matrix adjust.
 Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 2/72 (2%)

Query: 13  KIGVASFCKAFPWHFIVDRKLELVQL-GAGYMRLFGRCLKHLGSSVNNYFEIRRPNLLTV 71
           K+   +F     W  I  + +E  +  G G   + G C   L  SV  +  + RPN++T 
Sbjct: 42  KLRKKTFSDRLGWEVICSQGMESDEFDGPGTRYILGICEGQLVCSVR-FTSLDRPNMITH 100

Query: 72  TFSSILKRVNSP 83
           TF      V  P
Sbjct: 101 TFQHCFSDVTLP 112


>pdb|3K6H|A Chain A, Crystal Structure Of A Nitroreductase Family Protein
          From Agrobacterium Tumefaciens Str. C58
 pdb|3K6H|B Chain B, Crystal Structure Of A Nitroreductase Family Protein
          From Agrobacterium Tumefaciens Str. C58
          Length = 197

 Score = 28.1 bits (61), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 13/39 (33%), Positives = 20/39 (51%)

Query: 7  QSVLDLKIGVASFCKAFPWHFIVDRKLELVQLGAGYMRL 45
          + +L L + V    K  PW F+V R  E V+L    +R+
Sbjct: 37 EEILRLAVRVPDHGKLAPWRFVVYRGEERVRLSEAALRI 75


>pdb|3HLS|A Chain A, Crystal Structure Of The Signaling Helix Coiled-Coil
           Doimain Of The Beta-1 Subunit Of The Soluble Guanylyl
           Cyclase
 pdb|3HLS|B Chain B, Crystal Structure Of The Signaling Helix Coiled-Coil
           Doimain Of The Beta-1 Subunit Of The Soluble Guanylyl
           Cyclase
 pdb|3HLS|C Chain C, Crystal Structure Of The Signaling Helix Coiled-Coil
           Doimain Of The Beta-1 Subunit Of The Soluble Guanylyl
           Cyclase
 pdb|3HLS|D Chain D, Crystal Structure Of The Signaling Helix Coiled-Coil
           Doimain Of The Beta-1 Subunit Of The Soluble Guanylyl
           Cyclase
 pdb|3HLS|E Chain E, Crystal Structure Of The Signaling Helix Coiled-Coil
           Doimain Of The Beta-1 Subunit Of The Soluble Guanylyl
           Cyclase
 pdb|3HLS|F Chain F, Crystal Structure Of The Signaling Helix Coiled-Coil
           Doimain Of The Beta-1 Subunit Of The Soluble Guanylyl
           Cyclase
 pdb|3HLS|G Chain G, Crystal Structure Of The Signaling Helix Coiled-Coil
           Doimain Of The Beta-1 Subunit Of The Soluble Guanylyl
           Cyclase
 pdb|3HLS|H Chain H, Crystal Structure Of The Signaling Helix Coiled-Coil
           Doimain Of The Beta-1 Subunit Of The Soluble Guanylyl
           Cyclase
          Length = 66

 Score = 26.9 bits (58), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 10/17 (58%), Positives = 14/17 (82%)

Query: 144 HDATRDVILVGEQARAQ 160
           H ATRD++L+GEQ R +
Sbjct: 3   HXATRDLVLLGEQFREE 19


  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
   0.324    0.138    0.406 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,272,583
Number of Sequences: 62578
Number of extensions: 153888
Number of successful extensions: 384
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: 375
Number of HSP's gapped (non-prelim): 6
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 47 (22.7 bits)