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= 011510
         (484 letters)

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

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



>pdb|3AYX|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In An H2-Reduced Condition
 pdb|3AYX|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In An H2-Reduced Condition
 pdb|3AYY|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In A Ferricyanide-Oxidized
           Condition
 pdb|3AYY|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In A Ferricyanide-Oxidized
           Condition
 pdb|3AYZ|A Chain A, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In An Air-Oxidized Condition
 pdb|3AYZ|C Chain C, Membrane-Bound Respiratory [nife] Hydrogenase From
           Hydrogenovibrio Marinus In An Air-Oxidized Condition
          Length = 596

 Score = 32.7 bits (73), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 15/88 (17%)

Query: 260 LGLFKSPIAQGLQFKSSV------------QDFIICIEMAIASIVHLYVFPAKPYEQMGE 307
           L   KS I QG  F ++V            +D++    ++  +++    +P  PY++  +
Sbjct: 259 LNFVKSLIEQGRTFNTNVYVPDVIAIAAFYRDWLYGGGLSATNVMDYGAYPKTPYDKSTD 318

Query: 308 CFSGDISVLGDYSADCPLDPDEIRDSER 335
              G   + GD+    P+DP   RD E+
Sbjct: 319 QLPGGAIINGDWGKIHPVDP---RDPEQ 343


>pdb|1AJ8|A Chain A, Citrate Synthase From Pyrococcus Furiosus
 pdb|1AJ8|B Chain B, Citrate Synthase From Pyrococcus Furiosus
          Length = 371

 Score = 31.6 bits (70), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 30/102 (29%), Positives = 43/102 (42%), Gaps = 19/102 (18%)

Query: 231 IKPLAKFLTFKSIVFLTWWQGVAIALLYSLGLFKSPIAQGLQFKSSVQDFIICIEMAIAS 290
           ++ LA+  TF+ +V+L WW    +  L  L  FK  +A+       V    I I  A+  
Sbjct: 32  VEELAELSTFEEVVYLLWWG--KLPSLSELENFKKELAKSRGLPKEV----IEIMEALPK 85

Query: 291 IVHLYVFPAKPYEQMGECFSGDISVLG--DYSADCPLDPDEI 330
             H           MG      IS LG  D S D P+ P+E+
Sbjct: 86  NTH----------PMG-ALRTIISYLGNIDDSGDIPVTPEEV 116


  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    0.140    0.432 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,422,351
Number of Sequences: 62578
Number of extensions: 514833
Number of successful extensions: 990
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 990
Number of HSP's gapped (non-prelim): 3
length of query: 484
length of database: 14,973,337
effective HSP length: 103
effective length of query: 381
effective length of database: 8,527,803
effective search space: 3249092943
effective search space used: 3249092943
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)