RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy8588
         (265 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 = 29.8 bits (66), Expect = 1.1
 Identities = 31/219 (14%), Positives = 65/219 (29%), Gaps = 52/219 (23%)

Query: 71  HYWDLEYDLELMTDPVGLDILYAQAVSDVHRESIVVHKDTKTILNQLEASGAKKEYVDL- 129
           H+  ++++          DIL       V  ++ V + D K + +  ++  +K+E   + 
Sbjct: 3   HHHHMDFETGEHQYQYK-DIL------SVFEDAFVDNFDCKDVQDMPKSILSKEEIDHII 55

Query: 130 ---ARKLKYYGFIEFEPCTCDFPKPNTKVVVNIGLREINF-------RIRSSEGEIREGT 179
                                  +   +  V   LR IN+       +    +  +    
Sbjct: 56  MSKDAVSGTLRLFW---TLLSKQEEMVQKFVEEVLR-INYKFLMSPIKTEQRQPSMMTRM 111

Query: 180 FKVTRMRCW-------KITINKEED-----NDASNARHN-------------TSQANQTQ 214
           +   R R +       K  +++ +            R               T  A    
Sbjct: 112 YIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC 171

Query: 215 LSFEYLLAK-NKLQWITI---QSNQAIL-MSNLLQSIID 248
           LS++       K+ W+ +    S + +L M   L   ID
Sbjct: 172 LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210



 Score = 27.9 bits (61), Expect = 5.1
 Identities = 20/136 (14%), Positives = 38/136 (27%), Gaps = 32/136 (23%)

Query: 18  DLARKL--KYYGFIEFEPCTCDFPKPNISSYWDLEYDLELMCYVA--LISFNMSS----- 68
            L R +   Y     F   + D   P +  Y+   Y      ++   L +          
Sbjct: 444 ALHRSIVDHYNIPKTF--DSDDLIPPYLDQYF---Y-----SHIGHHLKNIEHPERMTLF 493

Query: 69  PLHYWDLEY--------DLELMTDPVGLDIL-----YAQAVSDVHRESIVVHKDTKTILN 115
            + + D  +                  L+ L     Y   + D   +   +       L 
Sbjct: 494 RMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLP 553

Query: 116 QLEASGAKKEYVDLAR 131
           ++E +    +Y DL R
Sbjct: 554 KIEENLICSKYTDLLR 569



 Score = 27.5 bits (60), Expect = 5.3
 Identities = 32/234 (13%), Positives = 63/234 (26%), Gaps = 82/234 (35%)

Query: 59  VALISFNMSSPLHYWDLEYDLELMTDPVGLDILYAQAVSDVHRESIVVHKDTKTILNQLE 118
           +++I+ ++   L  WD                 +     D     I      ++ LN LE
Sbjct: 330 LSIIAESIRDGLATWD--N--------------WKHVNCDKLTTII------ESSLNVLE 367

Query: 119 ASGAKKEYVDLA-----------------------------RKLKYYGFIEFEPCTCDFP 149
            +  +K +  L+                              KL  Y  +E        P
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE-----KQ-P 421

Query: 150 KPNTKVVVNIGLREINFRIRSSEGEIRE------GTFKVTRMRCWKITINKEEDNDASN- 202
           K +T     I +  I   ++                + + +       I    D    + 
Sbjct: 422 KEST-----ISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH 476

Query: 203 -ARHNTSQANQTQ---------LSFEYLLAKNKLQWITIQSNQAILMSNLLQSI 246
              H        +         L F +L  + K++  +   N +  + N LQ +
Sbjct: 477 IGHH-LKNIEHPERMTLFRMVFLDFRFL--EQKIRHDSTAWNASGSILNTLQQL 527


>3rj1_C Mediator of RNA polymerase II transcription subun; RNA polymeras
           II, POL II, head module, head, regulator, helical
           bundle; 4.30A {Saccharomyces cerevisiae}
          Length = 223

 Score = 28.8 bits (63), Expect = 1.6
 Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 2/48 (4%)

Query: 204 RHNTSQANQTQLSFEYLLAKNKL-QWITIQSNQAILMSNLLQSIIDEL 250
           R   +Q   +       ++K +L QW T+QS   + +S  L S+   L
Sbjct: 37  RMRLAQLTHSLRRIRDEMSKAELPQWYTLQSQLNVTLSQ-LVSVTSTL 83


>3ivf_A Talin-1; FERM domain, cell membrane, cell projection, cytoskeleton,
           M phosphoprotein, cell adhesion, structural protein;
           1.94A {Mus musculus} PDB: 2kma_A 2kc1_A
          Length = 371

 Score = 27.9 bits (62), Expect = 3.3
 Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 1/48 (2%)

Query: 114 LNQLEASGAKKEYVDLARKLKYYGFIEFEPCTCDFPKPNTKVVVNIGL 161
             Q+    AK  YV LAR LK YG + F          N  V   +G+
Sbjct: 257 CGQMSEIEAKVRYVKLARSLKTYG-VSFFLVKEKMKGKNKLVPRLLGI 303


>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and
           splicing factor,...; protein-RNA complex RRM alpha-beta
           sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR
           {Streptococcus SP} PDB: 2i38_A
          Length = 150

 Score = 27.2 bits (60), Expect = 4.4
 Identities = 8/20 (40%), Positives = 12/20 (60%)

Query: 13  PFQYVDLARKLKYYGFIEFE 32
           P + V +AR    + F+EFE
Sbjct: 99  PLRSVWVARNPPGFAFVEFE 118


>1m1s_A WR4; structural genomics, major sperm protein, bioinformatics, PSI,
           protein structure initiative; 1.80A {Caenorhabditis
           elegans} SCOP: b.1.11.2
          Length = 116

 Score = 26.0 bits (57), Expect = 7.5
 Identities = 7/46 (15%), Positives = 19/46 (41%), Gaps = 3/46 (6%)

Query: 129 LARKLKYYGFIEFEPCTCDFPKPNTKV---VVNIGLREINFRIRSS 171
           +     ++  I  +P T ++P         + +     + F+++SS
Sbjct: 1   MGHHHHHHSMINVDPPTGNYPATGGNSTHNITSESDSRLAFKVKSS 46


  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
   0.320    0.135    0.410 

Gapped
Lambda     K      H
   0.267   0.0622    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,092,184
Number of extensions: 238245
Number of successful extensions: 448
Number of sequences better than 10.0: 1
Number of HSP's gapped: 447
Number of HSP's successfully gapped: 19
Length of query: 265
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 173
Effective length of database: 4,133,061
Effective search space: 715019553
Effective search space used: 715019553
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 (21.8 bits)
S2: 56 (25.6 bits)