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= 025535
         (251 letters)

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

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



>pdb|2ARZ|A Chain A, Crystal Structure Of Protein Of Unknown Function From
           Pseudomonas Aeruginosa
 pdb|2ARZ|B Chain B, Crystal Structure Of Protein Of Unknown Function From
           Pseudomonas Aeruginosa
          Length = 247

 Score = 51.6 bits (122), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 23/53 (43%), Positives = 34/53 (64%)

Query: 159 TVMSRMHHRREGYPFGSLVDFAPDSMGHPIFSFSPLAIHTRNLLADPRCTLVV 211
            V+S    +  G+PFGS+V +  D+ G P+   S +A HT NL ADPRC+++V
Sbjct: 22  AVLSTHSKKWPGFPFGSVVPYCLDAEGRPLILISRIAQHTHNLQADPRCSMLV 74


>pdb|3DNH|A Chain A, The Crystal Structure Of The Protein Atu2129 (Unknown
           Function) From Agrobacterium Tumefaciens Str. C58
 pdb|3DNH|B Chain B, The Crystal Structure Of The Protein Atu2129 (Unknown
           Function) From Agrobacterium Tumefaciens Str. C58
          Length = 258

 Score = 31.2 bits (69), Expect = 0.63,   Method: Compositional matrix adjust.
 Identities = 26/94 (27%), Positives = 44/94 (46%), Gaps = 7/94 (7%)

Query: 137 GLPRPALAV-RNLMEQARFAHLCTVMSRMHHRREGYPFGSLVDFAPDSMGHPIFSFSPLA 195
           G P  A+ V R+++  +R A L T+         GYP+ +  +   +  G P F  + L 
Sbjct: 23  GAPFEAVRVARDVLHTSRTAALATL-----DPVSGYPYTTATNIGIEPDGTPFFFAAGLT 77

Query: 196 IHTRNLLADPRCTLVVQIPGW-SGLSNARVTIFG 228
           +H RN   D R ++ +   G    L+  R+T+ G
Sbjct: 78  LHARNXETDARISVTLAPFGKGDALTLPRLTLVG 111


>pdb|1VL7|A Chain A, Crystal Structure Of A Putative Heme Oxygenase (Alr5027)
           From Nostoc Sp. Pcc 7120 At 1.50 A Resolution
 pdb|1VL7|B Chain B, Crystal Structure Of A Putative Heme Oxygenase (Alr5027)
           From Nostoc Sp. Pcc 7120 At 1.50 A Resolution
          Length = 157

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 14/43 (32%), Positives = 22/43 (51%)

Query: 168 REGYPFGSLVDFAPDSMGHPIFSFSPLAIHTRNLLADPRCTLV 210
            +G P GS   F  D   +     S LA+HT+N+ A+P   ++
Sbjct: 40  EQGIPNGSYAPFVIDDAKNIYIYVSGLAVHTKNIEANPLVNVL 82


>pdb|1P7B|A Chain A, Crystal Structure Of An Inward Rectifier Potassium Channel
 pdb|1P7B|B Chain B, Crystal Structure Of An Inward Rectifier Potassium Channel
 pdb|2WLL|B Chain B, Potassium Channel From Burkholderia Pseudomallei
          Length = 333

 Score = 28.9 bits (63), Expect = 3.0,   Method: Compositional matrix adjust.
 Identities = 27/89 (30%), Positives = 36/89 (40%), Gaps = 14/89 (15%)

Query: 138 LPRPALAVRNLMEQARFAHLCTVMSRMHHRREGYPFGSLVDFAPDSMGHPIFSF------ 191
           + R A A +N++ +AR       + R  H  EGY    + D       HPIF        
Sbjct: 174 MVRAANARQNVIAEAR---AKMRLMRREHSSEGYSLMKIHDLKLVRNEHPIFLLGWNMMH 230

Query: 192 -----SPLAIHTRNLLADPRCTLVVQIPG 215
                SPL   T   LA+ R  L+V I G
Sbjct: 231 VIDESSPLFGETPESLAEGRAMLLVMIEG 259


  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
   0.318    0.134    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,784,917
Number of Sequences: 62578
Number of extensions: 325402
Number of successful extensions: 664
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 661
Number of HSP's gapped (non-prelim): 6
length of query: 251
length of database: 14,973,337
effective HSP length: 96
effective length of query: 155
effective length of database: 8,965,849
effective search space: 1389706595
effective search space used: 1389706595
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)