RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6706
         (119 letters)



>4fk8_A Ferredoxin--NADP reductase; ssgcid, NIH, niaid, structural
           genomics, national institute allergy and infectious
           diseases; HET: FAD; 2.10A {Burkholderia thailandensis}
           PDB: 4f7d_A*
          Length = 271

 Score = 28.6 bits (64), Expect = 0.36
 Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 9/74 (12%)

Query: 34  RFTGATGRAFLFHRVVNLNYSDVQDRVMLTG-RHMVRDVSCKNCNTKLGWVYEFALEETQ 92
           R T       LF  +    +S  QDRVML G   M++D +          + +  L E +
Sbjct: 205 RITDLIASGKLFTDLDMPPFSPEQDRVMLCGSTAMLKDTT--------ELLKKAGLVEGK 256

Query: 93  RYKEGRVILERALV 106
               G  ++ERA V
Sbjct: 257 NSAPGHYVIERAFV 270


>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 = 27.5 bits (60), Expect = 1.1
 Identities = 21/149 (14%), Positives = 46/149 (30%), Gaps = 48/149 (32%)

Query: 4   IFLDHIGGSRL---FSCAACDTILTNRRELISTRFTGATGRAF----------------L 44
           + L ++  ++    F+  +C  +LT R + ++   + AT                    L
Sbjct: 248 LVLLNVQNAKAWNAFN-LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306

Query: 45  FHRVVNLNYSDVQDRVMLTG------------RHMV------RDVSCKNCNTKLGWVYEF 86
             + ++    D+  R +LT             R  +      + V+C    T +      
Sbjct: 307 LLKYLDCRPQDLP-REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN- 364

Query: 87  ALE--ETQRYKEGRVILERALVTESDVKI 113
            LE  E ++  +   +            I
Sbjct: 365 VLEPAEYRKMFDRLSVF------PPSAHI 387


>1ztc_A Hypothetical protein TM0894; structural genomics, joint center for
           structural genomics, J protein structure initiative,
           PSI, hydrolase; HET: MSE; 2.10A {Thermotoga maritima}
           SCOP: d.157.1.11
          Length = 221

 Score = 26.6 bits (59), Expect = 1.7
 Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 7/65 (10%)

Query: 6   LDHIGGSRLFSCAACDTILTNRRELISTRFTGATGRAFLFHRVVNLNYSDVQDRVMLTGR 65
           LDHI  S LF  A   T   +         +  T    ++ +V++      ++ V+L G 
Sbjct: 84  LDHIFNSVLFENA---TFYVHEVYKTKNYLSFGTIVGRIYSKVISSW----KNVVLLKGE 136

Query: 66  HMVRD 70
             + D
Sbjct: 137 ESLFD 141


>3gox_A Restriction endonuclease HPY99I; endonuclease-DNA complex,
           restriction enzyme, HPY99I, pseudopalindrome; HET: 1PE;
           1.50A {Helicobacter pylori} PDB: 3fc3_A*
          Length = 200

 Score = 25.6 bits (55), Expect = 4.8
 Identities = 7/18 (38%), Positives = 9/18 (50%)

Query: 66  HMVRDVSCKNCNTKLGWV 83
              R+  C +CNT LG  
Sbjct: 164 GWGREWICDSCNTGLGRF 181


>3dha_A N-acyl homoserine lactone hydrolase; zinc bimetallohydrolase,
           quorum quenching; HET: C6L GOL; 0.95A {Bacillus
           thuringiensis serovar kurstakorganism_taxid} PDB:
           3dhb_A* 3dhc_A* 2a7m_A* 2br6_A 2btn_A
          Length = 254

 Score = 25.4 bits (56), Expect = 5.0
 Identities = 8/25 (32%), Positives = 11/25 (44%), Gaps = 3/25 (12%)

Query: 6   LDHIGGSRLFSCAACDTILTNRREL 30
            DH GG+  F+      I+  R E 
Sbjct: 111 FDHAGGNGAFTNT---PIIVQRTEY 132


>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative
           iron chelatin ABC transporter, nucleotide binding
           domain; 2.40A {Haemophilus influenzae}
          Length = 253

 Score = 25.2 bits (56), Expect = 6.7
 Identities = 5/18 (27%), Positives = 12/18 (66%)

Query: 98  RVILERALVTESDVKILD 115
            +++ RA+ +E  + +LD
Sbjct: 136 LILIARAIASECKLILLD 153


>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette,
           hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}
          Length = 279

 Score = 24.9 bits (55), Expect = 8.2
 Identities = 9/18 (50%), Positives = 13/18 (72%)

Query: 98  RVILERALVTESDVKILD 115
           RV++ RAL+ +  V ILD
Sbjct: 169 RVMIARALMGQPQVLILD 186


  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
   0.326    0.139    0.417 

Gapped
Lambda     K      H
   0.267   0.0645    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,863,585
Number of extensions: 99446
Number of successful extensions: 306
Number of sequences better than 10.0: 1
Number of HSP's gapped: 305
Number of HSP's successfully gapped: 13
Length of query: 119
Length of database: 6,701,793
Length adjustment: 81
Effective length of query: 38
Effective length of database: 4,440,192
Effective search space: 168727296
Effective search space used: 168727296
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 (23.6 bits)