RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy13898
         (185 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 = 33.0 bits (74), Expect = 0.025
 Identities = 6/30 (20%), Positives = 13/30 (43%), Gaps = 5/30 (16%)

Query: 84  QQIAKLLDLPSSVQP-CP-SPPLYTLRGQI 111
           Q + K   L +S++     S P   ++  +
Sbjct: 20  QALKK---LQASLKLYADDSAPALAIKATM 46


>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 = 31.2 bits (70), Expect = 0.21
 Identities = 28/162 (17%), Positives = 48/162 (29%), Gaps = 55/162 (33%)

Query: 5    QGS---------YKTSSL--NIQD--DRST----GF-LQDIEVTGDKDDSKCLHVTIQKT 46
            QGS         YKTS    ++ +  D       GF + DI      ++   L +     
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDI----VINNPVNLTIH---- 1675

Query: 47   NAGPLTQA------KFIFDDHIRCMAAKQRLNRGRTQARLAKM-QQIAKLLDLPSSVQPC 99
              G   +         IF+  +      +++ +   +   +   +    LL      QP 
Sbjct: 1676 FGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPA 1735

Query: 100  PSPPLYTL----------RGQINEWVTVA----NEYGLKFSA 127
                L  +          +G I    T A     EY    +A
Sbjct: 1736 ----LTLMEKAAFEDLKSKGLIPADATFAGHSLGEY----AA 1769


>2wiu_B HTH-type transcriptional regulator HIPB; transferase transcription
           complex, serine kinase, DNA-bindin mercury derivative,
           repressor; 2.35A {Escherichia coli} PDB: 3dnv_B* 3dnw_B*
           3hzi_B*
          Length = 88

 Score = 26.7 bits (59), Expect = 1.6
 Identities = 7/45 (15%), Positives = 14/45 (31%)

Query: 70  RLNRGRTQARLAKMQQIAKLLDLPSSVQPCPSPPLYTLRGQINEW 114
                     L    +I + L+L  ++    +    +   Q  EW
Sbjct: 44  NFENNPDNTTLTTFFKILQSLELSMTLCDAKNASPESTEQQNLEW 88


>2jpi_A Hypothetical protein; alpha-helix/beta-sheet, structural genomics,
           ontario centre for structural proteomics, OCSP; NMR
           {Pseudomonas aeruginosa}
          Length = 118

 Score = 27.2 bits (60), Expect = 1.9
 Identities = 6/33 (18%), Positives = 15/33 (45%)

Query: 39  LHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRL 71
           + + +   +   L   + +  DH++ MA  + L
Sbjct: 77  VLMILNSPDEDSLAHMQNVVADHLQRMANSESL 109


>2nap_A Protein (periplasmic nitrate reductase); nitrogenous acceptor,
           dissimilatory nitrate reductase; HET: MGD MES; 1.90A
           {Desulfovibrio desulfuricans} SCOP: b.52.2.2 c.81.1.1
           PDB: 2jim_A* 2jir_A* 2jip_A* 2v45_A* 2v3v_A* 2jiq_A*
           2jio_A*
          Length = 723

 Score = 26.8 bits (60), Expect = 5.5
 Identities = 10/47 (21%), Positives = 16/47 (34%), Gaps = 11/47 (23%)

Query: 57  IFDDHIRCMAAKQRLNRGRTQARLAKMQQIAKLLDLPSSVQ-PCPSP 102
           ++++             G T+ RL K           S +  PCPS 
Sbjct: 520 VWNEWRMVSKGTTYDFWGMTRERLRKE----------SGLIWPCPSE 556


>1m1f_A KID toxin protein; toxin-antitoxin, plasmid maintenance, post
           segregational killing, DNA replication, mutational
           analysis, CCDB; 1.40A {Escherichia coli} SCOP: b.34.6.2
           PDB: 2c06_A
          Length = 110

 Score = 25.5 bits (56), Expect = 6.2
 Identities = 11/72 (15%), Positives = 23/72 (31%), Gaps = 1/72 (1%)

Query: 19  RSTGFLQDIEVTGDKDDSKCLHVTIQKTNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQA 78
           R T     + VT   + ++     +     G +     +  D  R +  K R  +   + 
Sbjct: 35  RVTRLPVVVPVTSGGNFARTAGFAVSLDGVG-IRTTGVVRCDQPRTIDMKARGGKRLERV 93

Query: 79  RLAKMQQIAKLL 90
               M ++   L
Sbjct: 94  PETIMNEVLGRL 105


>1r71_A Transcriptional repressor protein KORB; INCP, plasmid
          partitioning, protein-DNA complex, heilx-turn- helix
          motif, transcription factor; HET: BRU; 2.20A
          {Escherichia coli} SCOP: a.4.14.1
          Length = 178

 Score = 26.0 bits (57), Expect = 7.0
 Identities = 15/63 (23%), Positives = 23/63 (36%), Gaps = 18/63 (28%)

Query: 43 IQKTNAGPLTQAKFIFDDHIRCMAAKQRLNRGRTQARLAKM-----QQIA---KLLDLPS 94
          +Q+    P   A FI           + L +G+ +  +AK        I     LLDLP 
Sbjct: 31 LQRNELTPREIADFI----------GRELAKGKKKGDIAKEIGKSPAFITQHVTLLDLPE 80

Query: 95 SVQ 97
           + 
Sbjct: 81 KIA 83


  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
   0.316    0.132    0.376 

Gapped
Lambda     K      H
   0.267   0.0633    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,655,519
Number of extensions: 145851
Number of successful extensions: 306
Number of sequences better than 10.0: 1
Number of HSP's gapped: 306
Number of HSP's successfully gapped: 7
Length of query: 185
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 97
Effective length of database: 4,244,745
Effective search space: 411740265
Effective search space used: 411740265
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (24.8 bits)