RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy10139
         (106 letters)



>2e5n_A RNA polymerase II elongation factor ELL2; ELL_N2 domain,
          structural genomics, NPPSFA; NMR {Homo sapiens}
          Length = 100

 Score =  104 bits (261), Expect = 5e-31
 Identities = 36/81 (44%), Positives = 57/81 (70%), Gaps = 2/81 (2%)

Query: 2  LQDRIIHLLAVRPYKKPELYAALTRDGIRDRDRNQMMAILNGIAF--ARDNTYHLQRHVW 59
           +DR+IHLLA++ YKKPEL A L +DG+  +D+N + AIL  +A   ++D +Y L+ +V+
Sbjct: 14 YRDRVIHLLALKAYKKPELLARLQKDGVNQKDKNSLGAILQQVANLNSKDLSYTLKDYVF 73

Query: 60 NDVQDDWPFYSQQDKNMLKSR 80
           ++Q DWP YS+ D+  L+S 
Sbjct: 74 KELQRDWPGYSEIDRRSLESV 94


>2doa_A RNA polymerase II elongation factor ELL; C19ORF17, structural
           genomics, NPPSFA, national project on protein structural
           and functional analyses; NMR {Homo sapiens} SCOP:
           a.4.5.81
          Length = 104

 Score =  104 bits (260), Expect = 8e-31
 Identities = 38/92 (41%), Positives = 58/92 (63%), Gaps = 3/92 (3%)

Query: 2   LQDRIIHLLAVRPYKKPELYAALTRDGIRDRDRNQMMAILNGIAF--ARDNTYHLQRHVW 59
            +DR++HLLA+RPY+K EL   L +DG+   D++ +  +L  +A   A+D T  LQ  ++
Sbjct: 13  FRDRVLHLLALRPYRKAELLLRLQKDGLTQADKDALDGLLQQVANMSAKDGTCTLQDCMY 72

Query: 60  NDVQDDWPFYSQQDKNMLKSRELLQNFSENHS 91
            DVQ DWP YS+ D+ +LK R L++  S   S
Sbjct: 73  KDVQKDWPGYSEGDQQLLK-RVLVRKLSGPSS 103


>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 = 30.4 bits (68), Expect = 0.093
 Identities = 21/130 (16%), Positives = 39/130 (30%), Gaps = 47/130 (36%)

Query: 2   LQDRIIHLLAV----------------------------RPYKKPE---LYAALTRDGIR 30
           L+   IH LA                             RP+ K     L+ A+     +
Sbjct: 96  LEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQ 155

Query: 31  DRDRNQMMAILNGIAFARDNTYHLQRHVWNDVQDDWPFYSQQDKNMLK-SRELLQNFSEN 89
                 ++AI  G      + Y      + +++D +  Y     +++K S E L      
Sbjct: 156 ------LVAIFGG--QGNTDDY------FEELRDLYQTYHVLVGDLIKFSAETLSELIRT 201

Query: 90  -HSITPFYSQ 98
                  ++Q
Sbjct: 202 TLDAEKVFTQ 211


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

 Score = 26.7 bits (58), Expect = 1.3
 Identities = 7/41 (17%), Positives = 20/41 (48%), Gaps = 7/41 (17%)

Query: 64  DDWPFYSQQDKNMLKSRELLQNFSENHSITPFYSQQDKNML 104
           ++W    +Q + + K++   +  ++      FY Q D +++
Sbjct: 121 EEW--NQRQSEQVEKNKINNRI-ADKA----FYQQPDADII 154


>1xes_A Dihydropinosylvin synthase; native structure, transferase; HET:
          3IO; 1.70A {Pinus sylvestris} PDB: 1xet_A* 1u0u_A
          Length = 413

 Score = 26.1 bits (57), Expect = 3.0
 Identities = 6/26 (23%), Positives = 9/26 (34%)

Query: 22 AALTRDGIRDRDRNQMMAILNGIAFA 47
            +  +G R   R    A +  I  A
Sbjct: 22 GGVDFEGFRKLQRADGFASILAIGTA 47


>2d3m_A Pentaketide chromone synthase; chalcone synthase, polyketide
           synthase, transferase; HET: COA; 1.60A {Aloe
           arborescens} PDB: 2d51_A 2d52_A*
          Length = 406

 Score = 25.4 bits (55), Expect = 4.8
 Identities = 14/82 (17%), Positives = 27/82 (32%), Gaps = 5/82 (6%)

Query: 25  TRDGIRDRDRNQMMAILNGIAFARDNTYHLQRHVWNDVQDDWPFYSQQDKNMLKSRELLQ 84
              GIR   +    A +  I  A       Q         D  F +   ++ ++ ++   
Sbjct: 16  DVQGIRKAQKADGTATVMAIGTAHPPHIFPQDTYA-----DVYFRATNSEHKVELKKKFD 70

Query: 85  NFSENHSITPFYSQQDKNMLKR 106
           +  +   I   Y   D+  LK+
Sbjct: 71  HICKKTMIGKRYFNYDEEFLKK 92


>3u7b_A Endo-1,4-beta-xylanase; TIM barrel, hydrolase; HET: NAG BMA MAN;
           1.94A {Fusarium oxysporum}
          Length = 327

 Score = 24.7 bits (54), Expect = 6.5
 Identities = 9/39 (23%), Positives = 14/39 (35%), Gaps = 2/39 (5%)

Query: 44  IAFARDNTYHLQRH--VWNDVQDDWPFYSQQDKNMLKSR 80
            A A    Y L+ H  VW+     W      +   L++ 
Sbjct: 69  AAAATSRGYELRCHTLVWHSQLPSWVANGNWNNQTLQAV 107


  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
   0.323    0.135    0.411 

Gapped
Lambda     K      H
   0.267   0.0661    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,597,795
Number of extensions: 81274
Number of successful extensions: 224
Number of sequences better than 10.0: 1
Number of HSP's gapped: 222
Number of HSP's successfully gapped: 21
Length of query: 106
Length of database: 6,701,793
Length adjustment: 71
Effective length of query: 35
Effective length of database: 4,719,402
Effective search space: 165179070
Effective search space used: 165179070
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 (22.0 bits)
S2: 51 (23.6 bits)