RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy4850
         (64 letters)



>3oco_A Hemolysin-like protein containing CBS domains; structural
          genomics, PSI-2, protein structure initiative, MI
          center for structural genomics, MCSG; 2.20A {Oenococcus
          oeni}
          Length = 153

 Score = 28.9 bits (66), Expect = 0.064
 Identities = 8/52 (15%), Positives = 25/52 (48%), Gaps = 1/52 (1%)

Query: 10 NDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKS 61
          ++ ++++ N +  A E+  K+  DVM     + ++  D  +  + +   ++ 
Sbjct: 1  SNADEEDANFMQRAFEMNDKVASDVMVDRTSMSVVDVDETIA-DALLLYLEE 51


>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 = 28.9 bits (64), Expect = 0.078
 Identities = 14/55 (25%), Positives = 22/55 (40%), Gaps = 10/55 (18%)

Query: 5  VTTEFNDLEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAIL-----DFET 54
           T  F     DE    +   EL  K +G V + +E   +  +D +L     +FE 
Sbjct: 44 PTEGFA--ADDE---PTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFEN 93


>3lhh_A CBS domain protein; structural genomics, PSI-2, protein structure
          initiative, midwest center for structural genomics,
          MCSG, cell membrane; HET: MSE AMP; 2.10A {Shewanella
          oneidensis}
          Length = 172

 Score = 28.2 bits (64), Expect = 0.12
 Identities = 10/50 (20%), Positives = 22/50 (44%), Gaps = 1/50 (2%)

Query: 12 LEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKS 61
          +E +E  ++     L  + +  +M    D+  L  +  LD   +  +M+S
Sbjct: 25 IEHNEHAMVKNVFRLDERTISSLMVPRSDIVFLDLNLPLD-ANLRTVMQS 73


>3oi8_A Uncharacterized protein; structural genomics, PSI-2, protein
          structure initiative, MI center for structural
          genomics, MCSG; HET: ADN; 1.99A {Neisseria meningitidis
          serogroup B}
          Length = 156

 Score = 27.8 bits (63), Expect = 0.13
 Identities = 6/50 (12%), Positives = 19/50 (38%), Gaps = 1/50 (2%)

Query: 12 LEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKS 61
           + D +  +   L+     V D M     + +L  +  ++    + ++ +
Sbjct: 21 FDADTLLRLEKVLDFSDLEVRDAMITRSRMNVLKENDSIE-RITAYVIDT 69


>3ocm_A Putative membrane protein; structural genomics, PSI-2, protein
          structure initiative, MI center for structural
          genomics, MCSG; HET: ADP; 1.80A {Bordetella
          parapertussis}
          Length = 173

 Score = 27.5 bits (62), Expect = 0.18
 Identities = 11/50 (22%), Positives = 22/50 (44%), Gaps = 1/50 (2%)

Query: 12 LEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKS 61
             +E N++SG L L  + +  +MT   DV  ++ D         ++  +
Sbjct: 19 FGVEERNMVSGVLTLAERSIRSIMTPRTDVSWVNIDDDAA-TIRQQLTAA 67


>3lv9_A Putative transporter; CBS domain, PSI, MCSG, structural genomics,
          protein structur initiative, midwest center for
          structural genomics; 2.40A {Clostridium difficile 630}
          Length = 148

 Score = 27.0 bits (61), Expect = 0.30
 Identities = 5/50 (10%), Positives = 21/50 (42%), Gaps = 1/50 (2%)

Query: 12 LEKDEVNIISGALELRRKIVGDVMTKLEDVYMLSYDAILDFETVSEIMKS 61
          +++ E  ++    E   K + ++M    D+  +      + + ++ + + 
Sbjct: 6  IDESEQRLVDNIFEFEEKKIREIMVPRTDMVCIYESDSEE-KILAILKEE 54


>1q1l_A Chorismate synthase; beta alpha beta sandwich, structural
          genomics, PSI, protein structure initiative, midwest
          center for structural genomics; 2.05A {Aquifex
          aeolicus} SCOP: d.258.1.1
          Length = 401

 Score = 23.3 bits (51), Expect = 8.0
 Identities = 6/10 (60%), Positives = 7/10 (70%)

Query: 13 EKDEVNIISG 22
          EKD   I+SG
Sbjct: 60 EKDTAEILSG 69


>1qxo_A Chorismate synthase; beta-alpha-beta, flavoprotein, shikimate,
          anti-infective, lyase; HET: FMN EPS; 2.00A
          {Streptococcus pneumoniae} SCOP: d.258.1.1
          Length = 388

 Score = 23.2 bits (51), Expect = 8.3
 Identities = 5/10 (50%), Positives = 6/10 (60%)

Query: 13 EKDEVNIISG 22
          E D+V   SG
Sbjct: 52 ENDQVVFTSG 61


  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
   0.315    0.134    0.341 

Gapped
Lambda     K      H
   0.267   0.0777    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 968,275
Number of extensions: 46316
Number of successful extensions: 98
Number of sequences better than 10.0: 1
Number of HSP's gapped: 98
Number of HSP's successfully gapped: 24
Length of query: 64
Length of database: 6,701,793
Length adjustment: 35
Effective length of query: 29
Effective length of database: 5,724,558
Effective search space: 166012182
Effective search space used: 166012182
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.3 bits)