RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy6048
         (285 letters)



>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 = 41.6 bits (97), Expect = 2e-04
 Identities = 51/304 (16%), Positives = 91/304 (29%), Gaps = 92/304 (30%)

Query: 31  LITAFIGLVFIRHNDTPVVKAAGRELSYVLLTGILMCYLVTFVLVMKPTDIVCGVQRFGT 90
           L+  F+G  ++     P       ++  + LT    CYL       +  DI         
Sbjct: 60  LVGKFLG--YVSSLVEPSKVGQFDQVLNLCLTEFENCYL-------EGNDI--------- 101

Query: 91  GFCFTVVYAAL-------LTKTNRISRIFNAGKRTVKRPSFISPKSQLI--ICTGMIITN 141
                +  A L       L KT  + + +   +   KRP      S L   +  G     
Sbjct: 102 ---HALA-AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQL- 156

Query: 142 FLLGFRFG----TGFCFT----------------VVYAA-----LLTKTNRISRIFNAG- 175
             +   FG    T   F                 + ++A     L+  T    ++F  G 
Sbjct: 157 VAI---FGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL 213

Query: 176 --KRTVKRPSFISPKSQLIICTGMITFGYPIVLIVVCTVYAVLTRNI---PEAFNESKHI 230
                ++ PS    K  L+     I+   P++ ++    Y V  + +   P         
Sbjct: 214 NILEWLENPSNTPDKDYLLSIP--ISC--PLIGVIQLAHYVVTAKLLGFTPGELRSYLK- 268

Query: 231 GFTMYTTCVI----------WLAF-------VPLYFGTGNHMPLRITTMSVTISLSASVT 273
           G T ++  ++          W +F       + + F  G    +R        SL  S+ 
Sbjct: 269 GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG----VRCYEAYPNTSLPPSIL 324

Query: 274 VACL 277
              L
Sbjct: 325 EDSL 328


>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 = 37.1 bits (85), Expect = 0.006
 Identities = 25/156 (16%), Positives = 50/156 (32%), Gaps = 39/156 (25%)

Query: 103 TKTNRISRIF----NAGKRTVKRPSFISPKSQLIICTGMIITNFLLGFRFGTGFCFTVVY 158
              +   R+F    +  +  V++  F+  +  L I    +++      R  +    T +Y
Sbjct: 59  DAVSGTLRLFWTLLSKQEEMVQK--FV--EEVLRINYKFLMSPIKTEQRQPSMM--TRMY 112

Query: 159 AALLTKTNRISRIFNAGKRTVKRPSFI----------SPKSQLIICTGMITFGYPIVLIV 208
                +    +++F   K  V R               P   ++I  G++  G   V + 
Sbjct: 113 IEQRDRLYNDNQVFA--KYNVSRLQPYLKLRQALLELRPAKNVLID-GVLGSGKTWVALD 169

Query: 209 VCTVYAVLTRNIPEAFNESKHIGFTMYTTCVIWLAF 244
           VC  Y V  +             F ++     WL  
Sbjct: 170 VCLSYKVQCKM-----------DFKIF-----WLNL 189


>1g8a_A Fibrillarin-like PRE-rRNA processing protein; rRNA binding, RNA
           binding, structural genomics, BSGC structure funded by
           NIH; 1.40A {Pyrococcus horikoshii} SCOP: c.66.1.3 PDB:
           2nnw_B 3nmu_F* 3nvk_I* 3nvm_B 1pry_A
          Length = 227

 Score = 26.9 bits (59), Expect = 7.4
 Identities = 12/88 (13%), Positives = 30/88 (34%), Gaps = 2/88 (2%)

Query: 35  FIGLVFIRHNDTPVVKAAGRELSYVLLTGILMCYLVTFVLVMKPTDIVCGVQRFGT--GF 92
            + +V  R N  P++  A +   Y  L   +           +   ++   + +    G+
Sbjct: 114 LVPIVEERRNIVPILGDATKPEEYRALVPKVDVIFEDVAQPTQAKILIDNAEVYLKRGGY 173

Query: 93  CFTVVYAALLTKTNRISRIFNAGKRTVK 120
               V +  +  T    ++F   +R + 
Sbjct: 174 GMIAVKSRSIDVTKEPEQVFREVERELS 201


>3mk7_A Cytochrome C oxidase, CBB3-type, subunit N; TM helices,
           oxidoreductase; HET: HEM HEC FC6; 3.20A {Pseudomonas
           stutzeri}
          Length = 474

 Score = 27.0 bits (60), Expect = 8.5
 Identities = 5/24 (20%), Positives = 9/24 (37%)

Query: 232 FTMYTTCVIWLAFVPLYFGTGNHM 255
             ++T  VI+       F T  + 
Sbjct: 57  RPLHTNAVIFAFGGCALFATSYYS 80


  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
   0.330    0.141    0.430 

Gapped
Lambda     K      H
   0.267   0.0825    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,265,007
Number of extensions: 251448
Number of successful extensions: 486
Number of sequences better than 10.0: 1
Number of HSP's gapped: 485
Number of HSP's successfully gapped: 13
Length of query: 285
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 192
Effective length of database: 4,105,140
Effective search space: 788186880
Effective search space used: 788186880
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 57 (25.6 bits)