RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15516
         (107 letters)



>2c5u_A RNA ligase, T4 RNA ligase 1; nucleotidyl transferase, ATP-binding;
           HET: APC; 2.21A {Bacteriophage T4}
          Length = 375

 Score = 26.7 bits (58), Expect = 1.9
 Identities = 13/82 (15%), Positives = 31/82 (37%), Gaps = 2/82 (2%)

Query: 25  VPDIPEGLEFKIKRERYLAKQALQDSETMMNHVVFGIC-RMIDILVPDIPEGLEFKIKRE 83
           V  + +G  FKIK + Y++  + + S      +   I     D L     +  E+  ++ 
Sbjct: 231 VAVMKDGSHFKIKSDWYVSLHSTKSSLDNPEKLFKTIIDGASDDLKAMYADD-EYSYRKI 289

Query: 84  RYLAKQALQDSETMMNILENVF 105
                  L+  +  + ++ +  
Sbjct: 290 EAFETTYLKYLDRALFLVLDCH 311


>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell
           division, cell cycle; 2.60A {Archaeoglobus fulgidus}
           SCOP: c.37.1.10
          Length = 263

 Score = 26.0 bits (58), Expect = 2.2
 Identities = 17/70 (24%), Positives = 30/70 (42%), Gaps = 11/70 (15%)

Query: 12  HVVFGICRMIDILVPDIPEGLEFKIKRERYLAKQALQD----SETMMNHVVFGICRMIDI 67
           +V+ G  R+ + +    P G++         A  +L+     +   +  V+  I    DI
Sbjct: 61  NVLAGEARIDEAIYVG-PGGVKV------VPAGVSLEGLRKANPEKLEDVLTQIMESTDI 113

Query: 68  LVPDIPEGLE 77
           L+ D P GLE
Sbjct: 114 LLLDAPAGLE 123


>3fij_A LIN1909 protein; 11172J, uncharacterized protein, nysgrc, PSI-II,
           structural genomics, protein structure initiative; 2.30A
           {Listeria innocua}
          Length = 254

 Score = 24.9 bits (55), Expect = 5.4
 Identities = 7/34 (20%), Positives = 15/34 (44%), Gaps = 8/34 (23%)

Query: 14  VFGICR---MIDI-----LVPDIPEGLEFKIKRE 39
           +F ICR   ++++     L  DI +     ++  
Sbjct: 111 IFAICRGMQLVNVALGGTLYQDISQVETKALQHL 144



 Score = 24.9 bits (55), Expect = 5.4
 Identities = 7/34 (20%), Positives = 15/34 (44%), Gaps = 8/34 (23%)

Query: 58  VFGICR---MIDI-----LVPDIPEGLEFKIKRE 83
           +F ICR   ++++     L  DI +     ++  
Sbjct: 111 IFAICRGMQLVNVALGGTLYQDISQVETKALQHL 144


  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    0.144    0.426 

Gapped
Lambda     K      H
   0.267   0.0743    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,713,687
Number of extensions: 96441
Number of successful extensions: 267
Number of sequences better than 10.0: 1
Number of HSP's gapped: 265
Number of HSP's successfully gapped: 9
Length of query: 107
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 35
Effective length of database: 4,691,481
Effective search space: 164201835
Effective search space used: 164201835
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 (23.4 bits)