RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy3469
         (154 letters)



>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
           major facilitator superfamily, secondary active membrane
           transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
          Length = 451

 Score = 41.2 bits (97), Expect = 5e-05
 Identities = 18/104 (17%), Positives = 31/104 (29%), Gaps = 1/104 (0%)

Query: 7   GPAVCLVAASYTGCDPYLTVGILTIGLGFNGAVYSGFKVNHLDISPRFAGILMSFTNCLA 66
             A  +   +  G      + ++ IG    G V             + AG    FT    
Sbjct: 332 TIATIVYWMNPAGNPTVDMICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLFG 391

Query: 67  NLAG-LLAPIIAGYVIQGKPTQAAWRVVFVAAAVVYLFSSTFYI 109
            L G + A  I GY +        + V+   + +  +      I
Sbjct: 392 YLGGSVAASAIVGYTVDFFGWDGGFMVMIGGSILAVILLIVVMI 435



 Score = 31.9 bits (73), Expect = 0.071
 Identities = 9/45 (20%), Positives = 16/45 (35%), Gaps = 3/45 (6%)

Query: 56  GILMSFTNCLANLAGLLAPIIAGYVIQGKPTQAAWRVVFVAAAVV 100
           G ++S  NC  N+ G + P++    +        W       A  
Sbjct: 154 GGIVSVWNCAHNVGGGIPPLLFLLGMA---WFNDWHAALYMPAFC 195


>4aps_A DI-OR tripeptide H+ symporter; transport protein, peptide
           transport, major facilitator SUPE transporter, MFS;
           3.30A {Streptococcus thermophilus}
          Length = 491

 Score = 30.1 bits (68), Expect = 0.30
 Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 4/44 (9%)

Query: 67  NLAGLLAPIIAGYVIQGKPTQAAWRVVFVAAAVVYLFSSTFYIF 110
           NL   +AP+I G   +     A + V F  AA+        Y F
Sbjct: 156 NLGAFIAPLIVGAAQE----AAGYHVAFSLAAIGMFIGLLVYYF 195


>3q3w_A 3-isopropylmalate dehydratase small subunit; structural genomics,
           center for structural genomics of infec diseases, csgid,
           isomerase; HET: MSE; 1.89A {Campylobacter jejuni}
          Length = 203

 Score = 29.4 bits (67), Expect = 0.37
 Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 8/35 (22%)

Query: 42  GFKVNHLDISPRFAGILMSFTNCLANLAGLLAPII 76
           G +     I+P FA I     N L N  GLL  I 
Sbjct: 99  GIRAI---IAPSFADIF--KNNALGN--GLL-TIE 125


>2hcu_A 3-isopropylmalate dehydratase small subunit; beta barrel, lyase;
           2.10A {Streptococcus mutans}
          Length = 213

 Score = 29.1 bits (66), Expect = 0.50
 Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 8/35 (22%)

Query: 42  GFKVNHLDISPRFAGILMSFTNCLANLAGLLAPII 76
           GFKV    ++  F  I   + N L N  G+L PII
Sbjct: 112 GFKVI---VAGSFGDIH--YNNDLNN--GIL-PII 138


>3h5j_A 3-isopropylmalate dehydratase small subunit; leucine biosynthesis,
           isopropylmalate isomerase, LEUD, amino-acid
           biosynthesis; 1.20A {Mycobacterium tuberculosis} PDB:
           3h5h_A 3h5e_A
          Length = 171

 Score = 28.3 bits (64), Expect = 0.80
 Identities = 12/35 (34%), Positives = 13/35 (37%), Gaps = 8/35 (22%)

Query: 42  GFKVNHLDISPRFAGILMSFTNCLANLAGLLAPII 76
           GF+V    IS RF  I     N      GLL    
Sbjct: 91  GFRVV---ISSRFGDIF--RGNAGKA--GLL-AAE 117


>2cb2_A Sulfur oxygenase reductase; oxidoreductase, mononuclear non-heme
          iron, biogeochemical sulfur cycle, extremophIle,
          thermophilic, acidophilic; 1.7A {Acidianus ambivalens}
          SCOP: d.58.4.17 PDB: 2yav_A 2yaw_A 2yax_A* 2yax_B*
          3bxv_A
          Length = 318

 Score = 27.4 bits (60), Expect = 1.9
 Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 3/40 (7%)

Query: 2  ILGQYGPAVCLVAAS---YTGCDPYLTVGILTIGLGFNGA 38
          +    GP VC+V A    + G   ++ +GIL  G  + GA
Sbjct: 22 MFASVGPKVCMVTARHPGFVGFQNHIQIGILPFGNRYGGA 61


>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
           transporter; 3.50A {Escherichia coli}
          Length = 375

 Score = 27.2 bits (61), Expect = 2.2
 Identities = 11/43 (25%), Positives = 18/43 (41%), Gaps = 4/43 (9%)

Query: 58  LMSFTNCLANLAGLLAPIIAGYVIQGKPTQAAWRVVFVAAAVV 100
             S  N    ++ LLAP+I G +         WR  ++   V+
Sbjct: 125 ANSLLNMGILVSPLLAPLIGGLLDT----MWNWRACYLFLLVL 163


>2xut_A Proton/peptide symporter family protein; transport protein,
           membrane protein, major facilitator super transporter;
           3.62A {Shewanella oneidensis}
          Length = 524

 Score = 26.9 bits (60), Expect = 3.1
 Identities = 11/76 (14%), Positives = 19/76 (25%), Gaps = 15/76 (19%)

Query: 67  NLAGLLAPIIAGYVIQGKPTQAAWRVVFVAAAV-------VYLFSSTFYIFAASGDRQPW 119
           N     A +    +++         V F    V        +      YI          
Sbjct: 158 NFGSFFASLSMPLLLK----NFGAAVAFGIPGVLMFVATVFFWLGRKRYIHMPPEP---- 209

Query: 120 DNPNNDAPTPRAATKR 135
            +P+   P  R+A   
Sbjct: 210 KDPHGFLPVIRSALLT 225


>1xjt_A Lysozyme; open conformation, hydrolase; HET: CIT; 1.75A
          {Enterobacteria phage P1} SCOP: d.2.1.3
          Length = 191

 Score = 25.5 bits (55), Expect = 6.8
 Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 3/57 (5%)

Query: 15 ASYTGC--DPYL-TVGILTIGLGFNGAVYSGFKVNHLDISPRFAGILMSFTNCLANL 68
           +  GC  DPY+   G+ T G+G    V  G +     I+  +   ++    C+   
Sbjct: 39 GNAEGCRRDPYMCPAGVWTDGIGNTHGVTPGVRKTDQQIAADWEKNILIAERCINQH 95


  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
   0.322    0.136    0.419 

Gapped
Lambda     K      H
   0.267   0.0675    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,344,774
Number of extensions: 133455
Number of successful extensions: 296
Number of sequences better than 10.0: 1
Number of HSP's gapped: 293
Number of HSP's successfully gapped: 15
Length of query: 154
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 69
Effective length of database: 4,328,508
Effective search space: 298667052
Effective search space used: 298667052
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: 53 (24.3 bits)