RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy16154
         (105 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 = 29.5 bits (65), Expect = 0.12
 Identities = 5/35 (14%), Positives = 16/35 (45%), Gaps = 6/35 (17%)

Query: 8  DRREVESIWQSVCQPPVGYELAPLGVPFLPVNRSL 42
          +++ ++ + Q+  +    Y  A    P L +  ++
Sbjct: 18 EKQALKKL-QASLKL---Y--ADDSAPALAIKATM 46


>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 = 27.1 bits (59), Expect = 1.1
 Identities = 11/113 (9%), Positives = 32/113 (28%), Gaps = 21/113 (18%)

Query: 3   VYDELDRREVESIWQSVCQ--------PPVGYELAPLGVPFLPVNRSLSSMRNQGRQKLG 54
           ++ ++ + +V  +   + +              +  + +       +  ++         
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454

Query: 55  RLNEEDFNTLVTDII--YIAVQRGSH------GELDFDFSTIFLSGHARDYSW 99
                D + L+   +  Y     G H       E    F  +FL     D+ +
Sbjct: 455 IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL-----DFRF 502


>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 = 26.9 bits (59), Expect = 1.6
 Identities = 12/64 (18%), Positives = 20/64 (31%), Gaps = 20/64 (31%)

Query: 59  EDFNTLVTDIIYIAVQR-GSHGELDFDFSTIFLSG-------------HARDY------S 98
           + ++ LV D+I  + +          D   +F  G               +DY      S
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS 237

Query: 99  WPFI 102
            P I
Sbjct: 238 CPLI 241


>1z7u_A Hypothetical protein EF0647; winged-helix-turn-helix, MARR,
           structural genomics, PSI, Pro structure initiative;
           2.20A {Enterococcus faecalis} SCOP: a.4.5.69
          Length = 112

 Score = 24.5 bits (54), Expect = 6.2
 Identities = 16/41 (39%), Positives = 19/41 (46%), Gaps = 7/41 (17%)

Query: 22  PP-VGYELAPLGVPFLPVNRSLSSMRNQG---RQKLGRLNE 58
           PP V Y L P G         LSS+ + G    QK  RLN+
Sbjct: 75  PPRVEYTLTPEGYALYDA---LSSLCHWGETFAQKKARLNK 112


>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 = 24.8 bits (55), Expect = 7.0
 Identities = 4/18 (22%), Positives = 8/18 (44%)

Query: 1   MDVYDELDRREVESIWQS 18
             + +   R E+E +W  
Sbjct: 367 RAIPNAKHRAEMEKLWGL 384


>3rii_A Ubiquitin carboxyl-terminal hydrolase isozyme L5; alpha-beta-alpha
           fold, thiol hydroalse, cysteine protease,
           deubiquitinating enzyme; 2.00A {Homo sapiens} PDB:
           3ris_A 3sqa_A 3tb3_A 3a7s_A
          Length = 233

 Score = 24.7 bits (53), Expect = 7.1
 Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 2/53 (3%)

Query: 33  VPFLPVNRSLSSM--RNQGRQKLGRLNEEDFNTLVTDIIYIAVQRGSHGELDF 83
           V ++PVN  L  +    +G   LG  N++D+ + V  +I   +Q+ S GE+ F
Sbjct: 171 VSYVPVNGRLYELDGLREGPIDLGACNQDDWISAVRPVIEKRIQKYSEGEIRF 223


>3ml1_A NAPA, periplasmic nitrate reductase; heterodimer, oxidoreductase;
           HET: MGD HEC; 1.60A {Ralstonia eutropha} PDB: 3o5a_A*
           1ogy_A* 2nya_A*
          Length = 802

 Score = 24.7 bits (54), Expect = 8.3
 Identities = 7/17 (41%), Positives = 9/17 (52%)

Query: 1   MDVYDELDRREVESIWQ 17
           M V +   R E E IW+
Sbjct: 405 MVVTNPKHREEAERIWK 421


  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
   0.322    0.141    0.432 

Gapped
Lambda     K      H
   0.267   0.0711    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,651,335
Number of extensions: 83260
Number of successful extensions: 148
Number of sequences better than 10.0: 1
Number of HSP's gapped: 148
Number of HSP's successfully gapped: 16
Length of query: 105
Length of database: 6,701,793
Length adjustment: 70
Effective length of query: 35
Effective length of database: 4,747,323
Effective search space: 166156305
Effective search space used: 166156305
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 (21.9 bits)
S2: 51 (23.5 bits)