RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy15443
         (73 letters)



>3grl_A General vesicular transport factor P115; vesicle transport,
           membrane trafficking, membrane tethering, fusion, snare,
           RAB GTPase, armadillo repeats; 2.00A {Bos taurus} PDB:
           3gq2_A 2w3c_A
          Length = 651

 Score = 54.7 bits (131), Expect = 7e-11
 Identities = 26/69 (37%), Positives = 40/69 (57%)

Query: 2   EMFLDKLSEVSRHEVYSRAAKKPQLDPERAHEPLLDYEFCKLYKALEAQSADWIYAKAKL 61
           E F++KL  +S+HE+YSRA++KPQ +       + D+EF KL K LE      IY  ++ 
Sbjct: 575 ENFIEKLGFISKHELYSRASQKPQPNFPSPEYMIFDHEFTKLVKELEGVITKAIYKSSEE 634

Query: 62  PKSAIEHQE 70
            K   E ++
Sbjct: 635 DKKEEEVKK 643


>1f76_A Dihydroorotate dehydrogenase; monomer, alpha-beta-barrel, FMN
          binding domain, orotate complex, oxidoreductase; HET:
          MSE FMN ORO; 2.50A {Bacteria} SCOP: c.1.4.1
          Length = 336

 Score = 24.8 bits (55), Expect = 2.5
 Identities = 9/9 (100%), Positives = 9/9 (100%)

Query: 25 QLDPERAHE 33
          QLDPERAHE
Sbjct: 12 QLDPERAHE 20


>3zwt_A Dihydroorotate dehydrogenase (quinone), mitochond;
          oxidoreductase; HET: FMN ORO KFZ; 1.55A {Homo sapiens}
          PDB: 1d3h_A* 2bxv_A* 2prh_A* 2prl_A* 2prm_A* 3f1q_A*
          3fj6_A* 3fjl_A* 3g0u_A* 3g0x_A* 3zws_A* 1d3g_A* 3u2o_A*
          2fpv_A* 2fpt_A* 2fpy_A* 2fqi_A* 3kvl_A* 3kvk_A* 3kvj_A*
          ...
          Length = 367

 Score = 24.4 bits (54), Expect = 3.7
 Identities = 7/20 (35%), Positives = 8/20 (40%), Gaps = 3/20 (15%)

Query: 17 YSRAAKKP---QLDPERAHE 33
          Y+          LDPE AH 
Sbjct: 9  YAEHLMPTLQGLLDPESAHR 28


>3i65_A Dihydroorotate dehydrogenase homolog, mitochondrial;
          triazolopyrimidine,inhibitor, DSM1, FAD, flavoprotein,
          membrane, mitochondrion; HET: JZ8 FMN ORO LDA; 2.00A
          {Plasmodium falciparum 3D7} PDB: 3i68_A* 3i6r_A*
          3o8a_A* 3sfk_A*
          Length = 415

 Score = 24.1 bits (53), Expect = 4.2
 Identities = 3/9 (33%), Positives = 5/9 (55%)

Query: 25 QLDPERAHE 33
           +D E  H+
Sbjct: 54 YIDGEICHD 62


>1tv5_A Dhodehase, dihydroorotate dehydrogenase homolog, mitochondri,
          dihydroorotate; alpha-beta barrel, TIM barrel,
          oxidoreductase; HET: A26 FMN ORO N8E; 2.40A {Plasmodium
          falciparum} SCOP: c.1.4.1
          Length = 443

 Score = 24.3 bits (53), Expect = 4.6
 Identities = 3/9 (33%), Positives = 5/9 (55%)

Query: 25 QLDPERAHE 33
           +D E  H+
Sbjct: 52 YIDGEICHD 60


>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 = 24.1 bits (51), Expect = 5.3
 Identities = 8/27 (29%), Positives = 12/27 (44%), Gaps = 6/27 (22%)

Query: 45 KALEAQSADWIYAKAKLP----KSAIE 67
          K L+A     +YA    P    K+ +E
Sbjct: 23 KKLQASLK--LYADDSAPALAIKATME 47


>1t6c_A Exopolyphosphatase; alpha/beta protein, actin-like fold, hydrolase;
           1.53A {Aquifex aeolicus} SCOP: c.55.1.8 c.55.1.8 PDB:
           1t6d_A 2j4r_A*
          Length = 315

 Score = 23.7 bits (52), Expect = 6.2
 Identities = 7/31 (22%), Positives = 15/31 (48%), Gaps = 3/31 (9%)

Query: 1   MEMFLDKLSEVSRHEVYSRAAKKPQLDPERA 31
           ++ + D   E+   E   R+ +  Q++  RA
Sbjct: 244 IKKWFDTFKEIPSEE---RSKRFRQVEDRRA 271


  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
   0.314    0.129    0.372 

Gapped
Lambda     K      H
   0.267   0.0814    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,089,041
Number of extensions: 48102
Number of successful extensions: 72
Number of sequences better than 10.0: 1
Number of HSP's gapped: 72
Number of HSP's successfully gapped: 10
Length of query: 73
Length of database: 6,701,793
Length adjustment: 43
Effective length of query: 30
Effective length of database: 5,501,190
Effective search space: 165035700
Effective search space used: 165035700
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.3 bits)