RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12975
         (205 letters)



>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 = 40.2 bits (93), Expect = 3e-04
 Identities = 19/101 (18%), Positives = 31/101 (30%), Gaps = 15/101 (14%)

Query: 77  VTTTEPSITSKEPSVTTTEPSITSKEPSLTTTEPSITSKE--SSEITTEVSGTTTESCAT 134
           +TT    +T    + TTT  S+     +LT  E     K      +         E   T
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDE----VKSLLLKYLDCRPQDLPREVL-T 324

Query: 135 TEPSTT----ASHHEKYSPGQHDTYRHVTFEPCAR--KVCV 169
           T P        S  +       D ++HV  +      +  +
Sbjct: 325 TNPRRLSIIAESIRDG--LATWDNWKHVNCDKLTTIIESSL 363



 Score = 36.8 bits (84), Expect = 0.004
 Identities = 42/266 (15%), Positives = 67/266 (25%), Gaps = 86/266 (32%)

Query: 4   LIINDD---KKTSDTGD---QTYSETTEPSITSKEPSVTTTEPSITSKEPFVTTTEPSIT 57
           L++  +    K  +  +   +                +TT    +T      TTT  S+ 
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKIL--------------LTTRFKQVTDFLSAATTTHISLD 292

Query: 58  SKEPSVTTTEPSITSKE--------------PSVTTTEPSITS------KEPSVT----- 92
               ++T  E     K                 V TT P   S      ++   T     
Sbjct: 293 HHSMTLTPDE----VKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWK 348

Query: 93  --TTEPSITSKEPSLTTTEPSITSK---------ESSEITTEVSGTTTESCATTEPSTTA 141
               +   T  E SL   EP+   K          S+ I T +          ++     
Sbjct: 349 HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV 408

Query: 142 SHHEKYS-------PGQ---HDTY----RHVTFEPCARKVCVT----PRPRRSGTASPPL 183
           +   KYS                Y      +  E    +  V     P+   S    PP 
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468

Query: 184 VPKQI--------KAIGLDRDERHFR 201
           + +          K I        FR
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFR 494


>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 = 30.8 bits (69), Expect = 0.35
 Identities = 8/46 (17%), Positives = 17/46 (36%), Gaps = 8/46 (17%)

Query: 152 HDTYRHVTFEPCARKVCVTPRPRRSGTASPPLVPKQIKAIGLDRDE 197
           ++ Y + +  P   +  +       G  SP L    I    L +++
Sbjct: 311 YEAYPNTSLPPSILEDSLE---NNEGVPSPMLS---IS--NLTQEQ 348


>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
            multi-protein complex, DNA- binding, magnesium; 3.65A
            {Schizosaccharomyces pombe}
          Length = 1752

 Score = 27.7 bits (61), Expect = 3.3
 Identities = 40/146 (27%), Positives = 55/146 (37%), Gaps = 10/146 (6%)

Query: 12   TSDTGDQTYSETTEPSITSKEPSVTTTEPSITSKEPFVTT------TEPSITSKEPSVTT 65
             S          T P  ++  P    T PS +   P  +T      + PS +   PS + 
Sbjct: 1528 ASPYKGVQSPGYTSPFSSAMSPGYGLTSPSYSPSSPGYSTSPAYMPSSPSYSPTSPSYSP 1587

Query: 66   TEP--SITSKEPSVTTTEPSITSKEPSVTTTEPSITSKEPSLTTTEPSITSKESSEITTE 123
            T P  S TS   S T+   S TS   S T+   S TS  PS + T PS +    S   T 
Sbjct: 1588 TSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTS--PSYSPTSPSYSPTSPSYSPTS 1645

Query: 124  VSGTTTESCATTEPSTTASHHEKYSP 149
             S + T    +    + +     YSP
Sbjct: 1646 PSYSPTSPSYSPTSPSYSPTSPSYSP 1671


>1qzm_A ATP-dependent protease LA; oligomerization domain, AAA+ protein,
           hydrolase; 1.90A {Escherichia coli} SCOP: c.37.1.20
          Length = 94

 Score = 25.6 bits (57), Expect = 5.0
 Identities = 7/15 (46%), Positives = 10/15 (66%)

Query: 183 LVPKQIKAIGLDRDE 197
           L+PKQI+   L + E
Sbjct: 16  LLPKQIERNALKKGE 30


  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
   0.301    0.117    0.320 

Gapped
Lambda     K      H
   0.267   0.0580    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,503,522
Number of extensions: 122141
Number of successful extensions: 187
Number of sequences better than 10.0: 1
Number of HSP's gapped: 176
Number of HSP's successfully gapped: 25
Length of query: 205
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 116
Effective length of database: 4,216,824
Effective search space: 489151584
Effective search space used: 489151584
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 55 (25.3 bits)