RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy14933
         (100 letters)



>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 = 33.8 bits (76), Expect = 0.004
 Identities = 11/30 (36%), Positives = 14/30 (46%), Gaps = 11/30 (36%)

Query: 67 QAEPELEARVAALAIHLQLYVSDYSAADFP 96
          QA  +L+A        L+LY  D SA   P
Sbjct: 20 QALKKLQAS-------LKLYADD-SA---P 38


>2qjy_A Cytochrome B; cytochrome B, 8 TM helixces cytochrome C1, 1 C-TERM
          TM helix 1 N-TERM TM helix; HET: BGL HEM SMA LOP UQ2;
          2.40A {Rhodobacter sphaeroides} PDB: 2fyn_A* 2qjk_A*
          2qjp_A* 1zrt_C* 2yiu_A*
          Length = 445

 Score = 30.1 bits (68), Expect = 0.081
 Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 12/41 (29%)

Query: 28 TGDLDQAFKSIAFITRLDVACICLGNMRDIQGIWTLRYAQA 68
          T  +D AF S+  I            MR++ G + LRY  A
Sbjct: 70 TPHVDLAFASVEHI------------MRNVNGGFMLRYLHA 98


>1vf5_A Cytochrome B6; photosynthesis, membrane protein complex, electron
          transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A
          {Mastigocladus laminosus} SCOP: f.21.1.2 PDB: 2d2c_A*
          2e74_A* 2e75_A* 2e76_A* 2zt9_A* 1q90_B*
          Length = 215

 Score = 30.0 bits (68), Expect = 0.082
 Identities = 6/41 (14%), Positives = 14/41 (34%), Gaps = 12/41 (29%)

Query: 28 TGDLDQAFKSIAFITRLDVACICLGNMRDIQGIWTLRYAQA 68
             + +A+ S+ +I            M ++   W +R    
Sbjct: 59 KPTVTEAYASVQYI------------MNEVSFGWLIRSIHR 87


>3cx5_C Cytochrome B-C1 complex subunit 8; complex III, electron transfer
          complex, cytochrome BC1 complex,
          mitochondrialtransmembrane complex; HET: M3L SUC 6PH
          UMQ HEM SMA 8PE 9PE CN5 7PH CN3; 1.90A {Saccharomyces
          cerevisiae} SCOP: f.32.1.1 f.21.1.2 PDB: 3cxh_C*
          1ezv_C* 1kb9_C* 1kyo_C* 1p84_C* 2ibz_C*
          Length = 385

 Score = 25.7 bits (57), Expect = 2.8
 Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 12/41 (29%)

Query: 28 TGDLDQAFKSIAFITRLDVACICLGNMRDIQGIWTLRYAQA 68
          + +++ AF S+  I            MRD+   + LRY  A
Sbjct: 55 SSNIELAFSSVEHI------------MRDVHNGYILRYLHA 83


>3adr_A Putative uncharacterized protein ST1585; quorum sensing, quinolone
           signal, metallo-beta-lactamase FOL conserved
           hypothetical protein; HET: EPE; 1.80A {Sulfolobus
           tokodaii}
          Length = 261

 Score = 25.5 bits (56), Expect = 3.5
 Identities = 3/25 (12%), Positives = 6/25 (24%)

Query: 28  TGDLDQAFKSIAFITRLDVACICLG 52
             D     +S+     L    +   
Sbjct: 182 VIDYKMYMESLKRQIELKPKVVGFA 206


>1y8c_A S-adenosylmethionine-dependent methyltransferase; structural
           genomics, protein structure initiative, PSI; 2.50A
           {Clostridium acetobutylicum} SCOP: c.66.1.43
          Length = 246

 Score = 24.7 bits (54), Expect = 7.0
 Identities = 7/38 (18%), Positives = 20/38 (52%), Gaps = 1/38 (2%)

Query: 2   MRDFVGIECCDEVTRSAVINFSYYLNTGDLDQAFKSIA 39
           + +       D +T   + + +Y +++ DL + FK+++
Sbjct: 93  ISNLNINRKFDLIT-CCLDSTNYIIDSDDLKKYFKAVS 129


>1pp9_C Cytochrome B; cytochrome BC1, membrane protein, heme protein,
          rieske iron protein, cytochrome B, complex III; HET:
          BHG HEM HEC SMA UQ CDL PEE; 2.10A {Bos taurus} SCOP:
          f.32.1.1 f.21.1.2 PDB: 1bgy_C* 1be3_C* 1l0n_C* 1ntk_C*
          1ntm_C* 1ntz_C* 1nu1_C* 1l0l_C* 1ppj_C* 1sqb_C* 1sqp_C*
          1sqq_C* 1sqv_C* 1sqx_C* 2a06_C* 2fyu_C* 2ybb_C* 1qcr_C*
          3l70_C* 2bcc_C* ...
          Length = 379

 Score = 24.2 bits (53), Expect = 8.8
 Identities = 12/41 (29%), Positives = 15/41 (36%), Gaps = 12/41 (29%)

Query: 28 TGDLDQAFKSIAFITRLDVACICLGNMRDIQGIWTLRYAQA 68
          T D   AF S+  I             RD+   W +RY  A
Sbjct: 56 TSDTTTAFSSVTHIC------------RDVNYGWIIRYMHA 84


>3euj_B Chromosome partition protein MUKF; MUKB, MUKE, chromosome
          condensation, condensin, SMC, N subunit, ABC-type
          ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus
          ducreyi} PDB: 3euk_E*
          Length = 152

 Score = 24.1 bits (52), Expect = 9.8
 Identities = 7/22 (31%), Positives = 11/22 (50%)

Query: 61 WTLRYAQAEPELEARVAALAIH 82
          W L  A+AE  L+ R     ++
Sbjct: 23 WLLYTAKAEALLDLRDDEAMLN 44


  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
   0.327    0.139    0.420 

Gapped
Lambda     K      H
   0.267   0.0617    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,538,106
Number of extensions: 78565
Number of successful extensions: 247
Number of sequences better than 10.0: 1
Number of HSP's gapped: 245
Number of HSP's successfully gapped: 14
Length of query: 100
Length of database: 6,701,793
Length adjustment: 66
Effective length of query: 34
Effective length of database: 4,859,007
Effective search space: 165206238
Effective search space used: 165206238
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 (21.7 bits)
S2: 51 (23.7 bits)