RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy14241
         (136 letters)



>1d8j_A General transcription factor TFIIE-beta; winged helix-turn-helix,
          riken structural genomics/proteomics initiative, RSGI,
          structural genomics; NMR {Homo sapiens} SCOP: a.4.5.18
          PDB: 1d8k_A
          Length = 81

 Score = 48.0 bits (114), Expect = 1e-08
 Identities = 20/31 (64%), Positives = 25/31 (80%), Gaps = 1/31 (3%)

Query: 2  KWLSTEALQNNPKIEVIEGNKYIFKPVFKIK 32
          +WL TEAL NNPKIEVI+G KY FKP + ++
Sbjct: 52 QWLMTEALVNNPKIEVIDG-KYAFKPKYNVR 81


>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 = 32.9 bits (74), Expect = 0.026
 Identities = 22/122 (18%), Positives = 36/122 (29%), Gaps = 31/122 (25%)

Query: 3   WLS----------TEALQN------NPKIEVIEGNKYIFKPVFKIKDRKGLLKLLKQHDL 46
           WL+           E LQ              + +  I   +  I+    L +LLK    
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE--LRRLLKSKPY 243

Query: 47  KGIGGILLDDVRESLPHCEKALKNE--IIYVTR--------PADKRKVMFYNDKSAQLDL 96
           +    ++L +V+        A      I+  TR         A     +  +  S  L  
Sbjct: 244 E-NCLLVLLNVQN--AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300

Query: 97  DE 98
           DE
Sbjct: 301 DE 302


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
           synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
          Length = 2006

 Score = 31.9 bits (72), Expect = 0.052
 Identities = 26/113 (23%), Positives = 42/113 (37%), Gaps = 28/113 (24%)

Query: 8   ALQNNPKIEVIEGNKYIFKPVFKIKDRKGLLKLLKQHDLKGIGGILLDDVRESLPHCEKA 67
           +L N  K  V+ G      P    +   GL   L     K   G  LD  R  +P  E+ 
Sbjct: 369 SLVNGAKNLVVSGP-----P----QSLYGLNLTL--RKAKAPSG--LDQSR--IPFSERK 413

Query: 68  LKNEIIY--VTRPADKRKVMFYND--KSAQLDLDEDFQKLWRSISVDGMILRI 116
           LK    +  V  P       F++     A   +++D  K   ++S +   ++I
Sbjct: 414 LKFSNRFLPVASP-------FHSHLLVPASDLINKDLVK--NNVSFNAKDIQI 457


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
          photosynthetic reaction center, peripheral antenna;
          HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 26.8 bits (58), Expect = 2.1
 Identities = 6/24 (25%), Positives = 13/24 (54%), Gaps = 5/24 (20%)

Query: 58 RESLPHCEKALKNEIIYV--TRPA 79
          +++L   + +LK   +Y   + PA
Sbjct: 19 KQALKKLQASLK---LYADDSAPA 39


>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA
          polymerase, disease mutation, DNA replication,
          DNA-binding, DNA-directed DNA polymerase; HET: DNA;
          3.24A {Homo sapiens}
          Length = 1172

 Score = 26.4 bits (57), Expect = 4.5
 Identities = 11/44 (25%), Positives = 20/44 (45%), Gaps = 3/44 (6%)

Query: 22 KYIFKPVFKIKDRKGL---LKLLKQHDLKGIGGILLDDVRESLP 62
          + IF    ++     +   ++ L++H L G   + L DV   LP
Sbjct: 16 EQIFGQGGEMPGEAAVRRSVEHLQKHGLWGQPAVPLPDVELRLP 59


>3m97_X Cytochrome C-552, cytochrome C552; electron transport chain
           (cytochrome), electron transfer, P. denitrificans,
           electron donor; HET: HEC; 1.33A {Paracoccus
           denitrificans} PDB: 1c7m_A* 1i6d_A* 1i6e_A* 1ql3_A*
           1ql4_A*
          Length = 140

 Score = 25.4 bits (56), Expect = 6.1
 Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)

Query: 12  NPKIEVIEGNKYIFKPVFKIKDRKGLLKLLKQH 44
           NPK  V++G K  F  + KI+DR  L+  L+  
Sbjct: 108 NPK-AVVKGTKMAFAGLPKIEDRANLIAYLEGQ 139


>155c_A Cytochrome C550; electron transport; HET: HEM; 2.50A {Paracoccus
           denitrificans} SCOP: a.3.1.1
          Length = 135

 Score = 24.7 bits (54), Expect = 8.2
 Identities = 7/47 (14%), Positives = 12/47 (25%), Gaps = 9/47 (19%)

Query: 2   KWLSTEALQNNPKIEVIEGNKYIFKPVFKIKDRKGLLKLLKQHDLKG 48
             +                 K  FK     K++  ++  L Q D   
Sbjct: 85  PLVKKMTDDKGA------KTKMTFK---MGKNQADVVAFLAQDDPDA 122


  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
   0.320    0.139    0.405 

Gapped
Lambda     K      H
   0.267   0.0554    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,153,913
Number of extensions: 121016
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 295
Number of HSP's successfully gapped: 21
Length of query: 136
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 52
Effective length of database: 4,356,429
Effective search space: 226534308
Effective search space used: 226534308
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.2 bits)