RPS-BLAST 2.2.26 [Sep-21-2011]

Database: pdb70 
           27,921 sequences; 6,701,793 total letters

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

Query= psy4035
         (121 letters)



>2gso_A Phosphodiesterase-nucleotide pyrophosphatase; alpha beta, NPP,
           hydrolase; 1.30A {Xanthomonas axonopodis PV} PDB: 2gsn_A
           2gsu_A* 2rh6_A*
          Length = 393

 Score = 42.8 bits (100), Expect = 6e-06
 Identities = 11/71 (15%), Positives = 23/71 (32%), Gaps = 7/71 (9%)

Query: 43  AKRVVIFFADGVRSEKFYEVTDRNSSHSPYIRTLLANNEACGGIAHTQVPTETRPGAIAM 102
              +++   DG+R++            +P +  L         +     P+ T P    +
Sbjct: 6   PHALLLISIDGLRADMLDR------GITPNLSHLAREGVRARWM-APSYPSLTFPNHYTL 58

Query: 103 LAGFYEDPSAI 113
           + G   D   I
Sbjct: 59  VTGLRPDHHGI 69


>3arc_H Photosystem II reaction center protein H; PSII, membrane-protein
          complex, transmembrane alpha-helix, E transport,
          photosynthesis; HET: OEX CLA PHO BCR PL9 SQD LMG UNL
          LMT HTG DGD LHG HEM; 1.90A {Thermosynechococcus
          vulcanus} PDB: 3kzi_H* 3bz1_H* 1s5l_H* 2axt_H* 3bz2_H*
          3prq_H* 3prr_H* 3a0b_H* 3a0h_H*
          Length = 65

 Score = 32.7 bits (74), Expect = 0.004
 Identities = 18/39 (46%), Positives = 23/39 (58%), Gaps = 3/39 (7%)

Query: 1  MNVFIVLFFIHVLFFLSIFEIYFKSPIIDNIPVSVKAQG 39
          M VF+ LF +   F L I EIY  + I+D + VS KA G
Sbjct: 30 MAVFMGLFLV---FLLIILEIYNSTLILDGVNVSWKALG 65


>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
           programmed cell death; HET: DTP; 6.90A {Drosophila
           melanogaster} PDB: 3iz8_A*
          Length = 1221

 Score = 31.7 bits (71), Expect = 0.046
 Identities = 14/101 (13%), Positives = 31/101 (30%), Gaps = 16/101 (15%)

Query: 27  IIDNI--PVSVKAQGIQLAK-------RVVIFFADGVRSEKFYEVTDRNSSHSPYIRTLL 77
           ++ N+    +  A  +   K       + V  F     +          +     +++LL
Sbjct: 249 VLLNVQNAKAWNAFNLS-CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL 307

Query: 78  ANNEACGGIAHTQVPTE---TRPGAIAMLAGFYEDPSAIFK 115
                        +P E   T P  ++++A    D  A + 
Sbjct: 308 LK---YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD 345


  Database: pdb70
    Posted date:  Sep 4, 2012  3:40 AM
  Number of letters in database: 6,701,793
  Number of sequences in database:  27,921
  
Lambda     K      H
   0.329    0.142    0.424 

Gapped
Lambda     K      H
   0.267   0.0675    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,856,170
Number of extensions: 98731
Number of successful extensions: 238
Number of sequences better than 10.0: 1
Number of HSP's gapped: 236
Number of HSP's successfully gapped: 4
Length of query: 121
Length of database: 6,701,793
Length adjustment: 82
Effective length of query: 39
Effective length of database: 4,412,271
Effective search space: 172078569
Effective search space used: 172078569
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (23.5 bits)