RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy931
         (108 letters)



>3l1l_A Arginine/agmatine antiporter; TCDB 2.A.3.2.5, ADIC, Arg-bound,
           amino-acid transport, cell inner membrane, cell
           membrane, membrane; HET: ARG BNG; 3.00A {Escherichia
           coli} PDB: 3h5m_A* 3h6b_A 3lrb_A 3lrc_A 3ob6_A* 3hqk_A
           3ncy_A
          Length = 445

 Score = 52.0 bits (125), Expect = 2e-09
 Identities = 17/82 (20%), Positives = 29/82 (35%), Gaps = 3/82 (3%)

Query: 17  LGTMIPKSGGDYAYINEAFGPLPAFLYMWVALFVIMPTGNAVTALTFAQYILQPIWPHCD 76
           +  + P  GG YAY    FGP   +       ++    GN    +    Y L   +P   
Sbjct: 63  MSFLDPSPGGSYAYARRCFGPFLGYQTNV-LYWLACWIGNIAMVVIGVGY-LSYFFPILK 120

Query: 77  PPYSAVRLLAAVITCLLTAINC 98
            P+    +   V+  +   +N 
Sbjct: 121 DPWVLT-ITCVVVLWIFVLLNI 141


>3gia_A Uncharacterized protein MJ0609; membrane protein, transporter, cell
           membrane, membrane, transmembrane, transport protein;
           HET: D10 BCN; 2.32A {Methanocaldococcus jannaschii} PDB:
           3gi9_C* 3gi8_C
          Length = 444

 Score = 47.3 bits (113), Expect = 1e-07
 Identities = 20/84 (23%), Positives = 33/84 (39%), Gaps = 4/84 (4%)

Query: 17  LGTMIPKSGGDYAYINEAFGP-LPAFLYMWVALFVIMPTGNAVTALTFAQYILQPIWPHC 75
           LG  I  + G  A+I++A G  +         L++      A+ A  FA Y L  I  + 
Sbjct: 62  LGAKIVSNAGPIAFIHKAIGDNIITGALSI-LLWMSYVISIALFAKGFAGYFLPLI--NA 118

Query: 76  DPPYSAVRLLAAVITCLLTAINCY 99
                 + +    I    TA+N +
Sbjct: 119 PINTFNIAITEIGIVAFFTALNFF 142


>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT,
           glutamate-GABA antiporter, transport protein; 3.10A
           {Escherichia coli} PDB: 4dji_A
          Length = 511

 Score = 40.6 bits (95), Expect = 2e-05
 Identities = 13/84 (15%), Positives = 29/84 (34%), Gaps = 3/84 (3%)

Query: 17  LGTMIP-KSGGDYAYINEAFGPLPAFLYMWVALFVIMPTGNAVTALTFAQYILQPI-WPH 74
           + T+   + GG +A+++   GP   F  +    ++ +  G           +   + WP 
Sbjct: 64  MATVDGWEEGGVFAWVSNTLGPRWGFAAISF-GYLQIAIGFIPMLYFVLGALSYILKWPA 122

Query: 75  CDPPYSAVRLLAAVITCLLTAINC 98
            +       + A +I   L     
Sbjct: 123 LNEDPITKTIAALIILWALALTQF 146


>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 = 26.2 bits (57), Expect = 2.9
 Identities = 23/116 (19%), Positives = 32/116 (27%), Gaps = 43/116 (37%)

Query: 4    LREAYYRM-FPPESLGTMIPKSGGDYAYINEA-----F-GP---L-------PAFLYMWV 46
            +RE Y  M F  E++     K+   +  INE      F      L       PA   M  
Sbjct: 1684 IRENYSAMIF--ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK 1741

Query: 47   ALFVIM------PTGNAV--------TALT-FAQYILQPIWPHCDPPYSAVRLLAA 87
            A F  +      P              AL   A  +            S V ++  
Sbjct: 1742 AAFEDLKSKGLIPADATFAGHSLGEYAALASLADVM---------SIESLVEVVFY 1788



 Score = 24.6 bits (53), Expect = 9.0
 Identities = 8/41 (19%), Positives = 14/41 (34%), Gaps = 8/41 (19%)

Query: 53 PTGNAVTAL----TFAQYILQP---IWPHCDPPYSAVRLLA 86
          PT +   A      F + + +P        D P +   L+ 
Sbjct: 23 PTASFFIASQLQEQFNKILPEPTEGFAAD-DEPTTPAELVG 62


>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
          repair, nucleotide-binding, DNA-binding, polymorphism,
          nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
          PDB: 2wwy_A*
          Length = 591

 Score = 24.9 bits (55), Expect = 7.7
 Identities = 5/7 (71%), Positives = 7/7 (100%)

Query: 49 FVIMPTG 55
          F++MPTG
Sbjct: 63 FLVMPTG 69


  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
   0.328    0.141    0.468 

Gapped
Lambda     K      H
   0.267   0.0616    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,737,309
Number of extensions: 91169
Number of successful extensions: 203
Number of sequences better than 10.0: 1
Number of HSP's gapped: 202
Number of HSP's successfully gapped: 13
Length of query: 108
Length of database: 6,701,793
Length adjustment: 72
Effective length of query: 36
Effective length of database: 4,691,481
Effective search space: 168893316
Effective search space used: 168893316
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (23.7 bits)