RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2469
         (220 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 = 35.6 bits (81), Expect = 0.013
 Identities = 34/184 (18%), Positives = 57/184 (30%), Gaps = 43/184 (23%)

Query: 38  LILDCAVEKLPLRRRD---------GARVIDGPKHAH---KLTCEP-DEVF-----HLKR 79
             LDC  + LP                 + DG         + C+    +       L+ 
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE- 367

Query: 80  PEGIERQHRFKCKKCGLFLYYKHDPSSNIIFIVQGAV-VKSSGEMPKMDIYNQVAVAKPK 138
           P   E +  F   +  +F      PS++I  I+   +          M + N++     K
Sbjct: 368 PA--EYRKMF--DRLSVF-----PPSAHIPTILLSLIWFDVIKSDV-MVVVNKLH----K 413

Query: 139 KIMVTKHTKNMGKFS--SVTVSTIDEEEDEIEA-REIADSYANNARIIEKQLERKGMNKR 195
             +V K  K     S  S+ +    + E+E    R I D Y      I K  +   +   
Sbjct: 414 YSLVEKQPKE-STISIPSIYLELKVKLENEYALHRSIVDHYN-----IPKTFDSDDLIPP 467

Query: 196 KSDS 199
             D 
Sbjct: 468 YLDQ 471



 Score = 31.7 bits (71), Expect = 0.18
 Identities = 43/214 (20%), Positives = 70/214 (32%), Gaps = 57/214 (26%)

Query: 1   MPKVISRSIVCSDTKDKEEYGEEKPLHIYYCVCGQMTLILDCAVEKLP-LRRRDGARVID 59
           + K+   S+V    K+         +   Y       L L   +E    L R     ++D
Sbjct: 408 VNKLHKYSLVEKQPKESTIS-----IPSIY-------LELKVKLENEYALHRS----IVD 451

Query: 60  ---GPKHAHKLTCEPDEV---------FHLKRPEGIERQHRFKCKKCGLFLYYKHDPSSN 107
               PK        P  +          HLK  E  ER   F+     +FL ++      
Sbjct: 452 HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR----MVFLDFR------ 501

Query: 108 IIFIVQGAVVKSSGEMPKMDIYNQVAVAKPKKIMVTKH-TKNMGKFSSVTVSTID----E 162
             F+ Q     S+       I N +   K  K     +   N  K+  +  + +D     
Sbjct: 502 --FLEQKIRHDSTAWNASGSILNTLQQLKFYK----PYICDNDPKYERLVNAILDFLPKI 555

Query: 163 EEDEIEARE-----IADSYANNARIIE--KQLER 189
           EE+ I ++      IA    + A   E  KQ++R
Sbjct: 556 EENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589


>1x6m_A GFA, glutathione-dependent formaldehyde-activating ENZ; Zn-enzyme,
           3_10 helix, lyase; 2.35A {Paracoccus denitrificans}
           SCOP: b.88.1.4 PDB: 1xa8_A*
          Length = 196

 Score = 30.9 bits (69), Expect = 0.25
 Identities = 16/115 (13%), Positives = 38/115 (33%), Gaps = 23/115 (20%)

Query: 22  EEKPLHIYYCVCGQMTLILDCAVEKLPLRRRDGA---RVIDGPKHAHKLTCEPDEVFHLK 78
             +  H + C C +               + +GA   +V    + A ++    +    L+
Sbjct: 45  RAQTAHNHVCGCTKC-------------WKPEGAIFSQVAVVGRDALEVLEGAE---KLE 88

Query: 79  RPEGIERQHRFKCKKCGLFLYYKHD----PSSNIIFIVQGAVVKSSGEMPKMDIY 129
                    R +C+ CG+ +Y + +    P   + F+      +     P+   +
Sbjct: 89  IVNAEAPIQRHRCRDCGVHMYGRIENRDHPFYGLDFVHTELSDEDGWSAPEFAAF 143


>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 = 0.44
 Identities = 21/108 (19%), Positives = 45/108 (41%), Gaps = 17/108 (15%)

Query: 113  QGAVVKSSGEMPKMDIYNQVAVAKPKKI--MVTKHTKNMGKFSSVTVSTIDEEEDEI--- 167
            QG+  +  G M  MD+Y     A  + +      H K+   FS + +   +     I   
Sbjct: 1624 QGS--QEQG-M-GMDLYKTSKAA--QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFG 1677

Query: 168  --EAREIADSYANN--ARIIEKQLERKGMNKRKSDSTTLNT--GETEV 209
              + + I ++Y+      I++ +L+ + + K  ++ +T  T   E  +
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL 1725


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 28.2 bits (62), Expect = 1.5
 Identities = 7/59 (11%), Positives = 19/59 (32%), Gaps = 15/59 (25%)

Query: 162 EEEDEIEAR-----------EIADSYANNARIIEKQLERKGMNKRKSDSTTLNTGETEV 209
           +E D                ++ +          +Q+E+  +N R +D       + ++
Sbjct: 99  QELDAASKVMEQEWREKAKKDLEEWNQR----QSEQVEKNKINNRIADKAFYQQPDADI 153


>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
          transcription factor, DNA-binding, DNA-directed RNA
          polymerase; 4.30A {Saccharomyces cerevisiae}
          Length = 197

 Score = 27.3 bits (60), Expect = 3.2
 Identities = 15/57 (26%), Positives = 19/57 (33%), Gaps = 16/57 (28%)

Query: 48 PLRRRDGARVIDGPKHAHKLTC------EPDEVFHLKRPEGIERQHRFKCKKCGLFL 98
           + +R G R   GP     LTC       P  V      + +       C  CGL L
Sbjct: 6  SIDKRAGRR---GPNLNIVLTCPECKVYPPKIVERFSEGDVV-------CALCGLVL 52


>3fac_A Putative uncharacterized protein; complete proteome, structural
           genomics, PSI-2, protein structure initiative; 2.50A
           {Rhodobacter sphaeroides 2}
          Length = 118

 Score = 25.7 bits (56), Expect = 8.1
 Identities = 12/88 (13%), Positives = 30/88 (34%), Gaps = 9/88 (10%)

Query: 31  CVCGQMTLILDCAVEKLPLR-------RRDGARVIDGPKHAHKLTCEPDEVFHLKRPEGI 83
           C CG + + ++        R       RR GA          ++    + +   +   G 
Sbjct: 5   CHCGAVEIEVELLNGFADARRCDCSFCRRRGAIAATARLSDLRVVRGAENLTLYQF--GT 62

Query: 84  ERQHRFKCKKCGLFLYYKHDPSSNIIFI 111
                + C+ CG++ +++   +     +
Sbjct: 63  RTAKHWFCRTCGIYTHHQRRSNPEEYGV 90


  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
   0.317    0.134    0.387 

Gapped
Lambda     K      H
   0.267   0.0501    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,320,865
Number of extensions: 199406
Number of successful extensions: 469
Number of sequences better than 10.0: 1
Number of HSP's gapped: 466
Number of HSP's successfully gapped: 13
Length of query: 220
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 130
Effective length of database: 4,188,903
Effective search space: 544557390
Effective search space used: 544557390
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: 55 (25.5 bits)