RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy12031
         (128 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 = 34.5 bits (78), Expect = 0.003
 Identities = 7/29 (24%), Positives = 15/29 (51%), Gaps = 7/29 (24%)

Query: 80  KAIP-LESTDGERLEK-APECAHPSLCVN 106
           +A+  L++     L+  A + A P+L + 
Sbjct: 20  QALKKLQA----SLKLYADDSA-PALAIK 43


>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 = 31.7 bits (71), Expect = 0.048
 Identities = 16/110 (14%), Positives = 33/110 (30%), Gaps = 17/110 (15%)

Query: 17  LLGKLRKDITQECR--EDFVLSITGKKPAMCVLSNPDQKGKMRRI-DCLR--QADKVWR- 70
                  +   +C+  +D   SI  K+    ++ + D      R+   L   Q + V + 
Sbjct: 25  FEDAFVDNF--DCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF 82

Query: 71  ----LDLVMVILFKAIPLESTDGERLEKAPECAHPSLC-----VNPYHIN 111
               L +    L   I  E      + +        L         Y+++
Sbjct: 83  VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132



 Score = 26.4 bits (57), Expect = 3.6
 Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 8/36 (22%)

Query: 100 HPSLCVNPYHI-------NVSVRELDLYLANYINSH 128
           H S+ V+ Y+I       ++    LD Y  ++I  H
Sbjct: 446 HRSI-VDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH 480


>1ozj_A SMAD 3; MAD homology domain 1, DNA recognition, TGF-beta signaling,
           zinc-binding module, transcription/DNA complex; 2.40A
           {Homo sapiens} SCOP: d.164.1.1 PDB: 1mhd_A*
          Length = 144

 Score = 26.8 bits (59), Expect = 1.5
 Identities = 20/107 (18%), Positives = 36/107 (33%), Gaps = 16/107 (14%)

Query: 11  QKWASRLLGKLRKDI-TQECREDFVLSIT-GKKPAMCVLSNPDQKGKMRRIDCLRQADKV 68
           +KW  + +  L K +      ++   +IT       C+       G       L+ + + 
Sbjct: 28  EKWCEKAVKSLVKKLKKTGQLDELEKAITTQNVNTKCITIPRSLDG------RLQVSHRK 81

Query: 69  WRLDLVMVILFKAIPLESTDGERLEKAPECAHP------SLCVNPYH 109
               ++   L++   L S     L     C          +CVNPYH
Sbjct: 82  GLPHVIYCRLWRWPDLHSHH--ELRAMELCEFAFNMKKDEVCVNPYH 126


>3qsv_A SMAD4, mothers against decapentaplegic homolog 4; MH1,
           transcription factor, DNA binding; HET: DNA; 2.71A {Mus
           musculus}
          Length = 132

 Score = 26.5 bits (58), Expect = 1.8
 Identities = 22/108 (20%), Positives = 41/108 (37%), Gaps = 19/108 (17%)

Query: 12  KWASR----LLGKLRKDITQECREDFVLSITGKKPAMCVLSNPDQKGKMRRIDCLRQADK 67
            +A R    L+ KL++   +       ++  G  P+ CV       G       L+ A +
Sbjct: 26  TFAKRAIESLVKKLKEKKDELDSLITAITTNGAHPSKCVTIQRTLDG------RLQVAGR 79

Query: 68  VWRLDLVMVILFKAIPLESTDGERLEKAPECAHP------SLCVNPYH 109
                ++   L++   L   + + +     C +       S+CVNPYH
Sbjct: 80  KGFPHVIYARLWRWPDLHKNELKHV---KYCQYAFDLKCDSVCVNPYH 124


>3kmp_A SMAD1-MH1; protein-DNA complex, SMAD1, SBE DNA, MH1 domain, beta
           hairpin, nucleus, transcription; 2.70A {Mus musculus}
          Length = 124

 Score = 25.7 bits (56), Expect = 3.4
 Identities = 23/109 (21%), Positives = 45/109 (41%), Gaps = 21/109 (19%)

Query: 12  KWASR----LLGKLRKDITQECREDFVLSIT-GKKPAMCVLSNPDQKGKMRRIDCLRQAD 66
           KWA +    L+ KL+K   +   E+   +++   +P+ CV       G       L+ + 
Sbjct: 20  KWAEKAVDALVKKLKK--KKGAMEELEKALSCPGQPSNCVTIPRSLDG------RLQVSH 71

Query: 67  KVWRLDLVMVILFKAIPLESTDGERLEKAPECAHP------SLCVNPYH 109
           +     ++   +++   L+S     L+    C  P       +C+NPYH
Sbjct: 72  RKGLPHVIYCRVWRWPDLQS--HHELKPLECCEFPFGSKQKEVCINPYH 118


>1p1x_A Deoxyribose-phosphate aldolase; alpha-beta barrel, TIM barrel,
           lyase; 0.99A {Escherichia coli} SCOP: c.1.10.1 PDB:
           1jcl_A 1jcj_A* 1ktn_A 3npv_B 3npu_A 3npw_A 3nq2_A 3npx_A
           3nq8_A 3q2d_A* 3nr0_A 3nqv_A
          Length = 260

 Score = 25.0 bits (55), Expect = 9.2
 Identities = 10/60 (16%), Positives = 21/60 (35%), Gaps = 11/60 (18%)

Query: 67  KVWRLDLVMVI---LFKAIPLESTDG--ERL-EKAPECAHP--SLCVNPYHINVSVRELD 118
           K   L  + ++          + TD     L  +A        ++C+ P  I ++ + L 
Sbjct: 6   KASSLRALKLMDLTTLND---DDTDEKVIALCHQAKTPVGNTAAICIYPRFIPIARKTLK 62


  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
   0.321    0.136    0.413 

Gapped
Lambda     K      H
   0.267   0.0567    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,965,714
Number of extensions: 104002
Number of successful extensions: 138
Number of sequences better than 10.0: 1
Number of HSP's gapped: 138
Number of HSP's successfully gapped: 7
Length of query: 128
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 45
Effective length of database: 4,384,350
Effective search space: 197295750
Effective search space used: 197295750
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 (23.8 bits)