RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy5109
         (145 letters)



>3emn_X Voltage-dependent anion-selective channel protein; VDAC1,
           eukaryotic membrane protein, beta barrel, AP ION
           transport, mitochondrion, outer membrane; HET: MC3;
           2.30A {Mus musculus} PDB: 2k4t_A 2jk4_A
          Length = 295

 Score =  116 bits (292), Expect = 5e-33
 Identities = 69/147 (46%), Positives = 93/147 (63%), Gaps = 3/147 (2%)

Query: 1   MAPPLYGDLGKHARDLFSKGYNIDVIKIDLKTKTDSGVEFNSGGTAQLESGKIFGTLESK 60
             PP Y DLGK ARD+F+KGY   +IK+DLKTK+++G+EF S G+A  E+ K+ G+LE+K
Sbjct: 14  AVPPTYADLGKSARDVFTKGYGFGLIKLDLKTKSENGLEFTSSGSANTETTKVNGSLETK 73

Query: 61  YKAKNYAGLTFSEKWNTDNVLTTE--VSSNIIDGARLAANTSFAPQTGDKTVKLSGEYKN 118
           Y+   Y GLTF+EKWNTDN L TE  V   +  G +L  ++SF+P TG K  K+   YK 
Sbjct: 74  YRWTEY-GLTFTEKWNTDNTLGTEITVEDQLARGLKLTFDSSFSPNTGKKNAKIKTGYKR 132

Query: 119 SLAAVNLESEFKSLNPVISAAGVLGYN 145
               +  + +F    P I  A VLGY 
Sbjct: 133 EHINLGCDVDFDIAGPSIRGALVLGYE 159


>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 = 40.8 bits (95), Expect = 6e-05
 Identities = 34/194 (17%), Positives = 58/194 (29%), Gaps = 99/194 (51%)

Query: 1    MAPPLYGDLGKHARDLFSK---------GYNI-DVIKIDLKTKTDSGVEFNSGGTAQLES 50
            M   LY    K A+D++++         G++I D++  +    T                
Sbjct: 1631 MGMDLY-KTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLT---------------- 1673

Query: 51   GKIFGTLESKYKAKNYAGLTF---------SEK-------------WN--------TDN- 79
               FG  + K   +NY+ + F         +EK             +         T   
Sbjct: 1674 -IHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFT 1732

Query: 80   ---VLTTEV-------SSNIIDGARLAANTSFAPQTGDKTVKLS-GEYKNSLAAVNLESE 128
               +   E        S  +I      A+ +FA   G      S GEY  +LA++     
Sbjct: 1733 QPALTLMEKAAFEDLKSKGLIP-----ADATFA---G-----HSLGEY-AALASL----- 1773

Query: 129  FKSLNPVISAAGVL 142
                      A V+
Sbjct: 1774 ----------ADVM 1777


>3oix_A Putative dihydroorotate dehydrogenase; dihydrooro oxidase; TIM
           barrel, oxidoreductase; HET: MLY FMN; 2.40A
           {Streptococcus mutans}
          Length = 345

 Score = 27.5 bits (61), Expect = 1.7
 Identities = 9/46 (19%), Positives = 17/46 (36%), Gaps = 3/46 (6%)

Query: 103 PQTGDKTVKLSGEYKNSLAAVNLESEFKSL---NPVISAAGVLGYN 145
           P+         G+     + V+  +   S    N +++AAGV    
Sbjct: 16  PRGSHMASMTGGQQMGRGSMVSTHTTIGSFDFDNCLMNAAGVYCMT 61


>2e6f_A Dihydroorotate dehydrogenase; chagas disease, pyrimidine
           biosynthesis, fumarate reductase, energy metabolism,
           redox homeostasis, flavoprotein; HET: FMN OXC; 1.26A
           {Trypanosoma cruzi} PDB: 2e6a_A* 2e6d_A* 2e68_A* 2djl_A*
           2djx_A* 3c3n_A* 2b4g_A* 3c61_A* 3mhu_A* 3mjy_A*
          Length = 314

 Score = 26.4 bits (59), Expect = 3.4
 Identities = 8/26 (30%), Positives = 12/26 (46%), Gaps = 3/26 (11%)

Query: 123 VNLESEFKSL---NPVISAAGVLGYN 145
           + L+         NP ++AAGVL   
Sbjct: 2   MCLKLNLLDHVFANPFMNAAGVLCST 27


>3gz3_A Dihydroorotate dehydrogenase, putative; dhodh, oxidoreductase; HET:
           FMN ORO; 1.90A {Leishmania major} PDB: 3gye_A*
          Length = 354

 Score = 26.4 bits (59), Expect = 3.5
 Identities = 7/18 (38%), Positives = 10/18 (55%), Gaps = 2/18 (11%)

Query: 128 EFKSLNPVISAAGVLGYN 145
            F   NP ++AAGV+   
Sbjct: 45  TFA--NPFMNAAGVMCTT 60


>1jub_A Dihydroorotate dehydrogenase A; homodimer, alpha-beta barrel,
           flavoprotein, mutant enzyme, oxidoreductase; HET: FMN;
           1.40A {Lactococcus lactis} SCOP: c.1.4.1 PDB: 1ovd_A*
           1jue_A* 1dor_A* 2bsl_A* 2bx7_A* 2dor_A* 1jqv_A* 1jrb_A*
           1jrc_A* 1jqx_A*
          Length = 311

 Score = 25.6 bits (57), Expect = 7.0
 Identities = 6/18 (33%), Positives = 10/18 (55%), Gaps = 2/18 (11%)

Query: 128 EFKSLNPVISAAGVLGYN 145
           +F   NP ++A+GV    
Sbjct: 10  KFA--NPFMNASGVHCMT 25


  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
   0.310    0.129    0.357 

Gapped
Lambda     K      H
   0.267   0.0549    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,061,463
Number of extensions: 107309
Number of successful extensions: 121
Number of sequences better than 10.0: 1
Number of HSP's gapped: 119
Number of HSP's successfully gapped: 12
Length of query: 145
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 60
Effective length of database: 4,328,508
Effective search space: 259710480
Effective search space used: 259710480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 52 (24.2 bits)