RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy2245
         (88 letters)



>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 = 0.17
 Identities = 13/82 (15%), Positives = 26/82 (31%), Gaps = 24/82 (29%)

Query: 26  DTKPPNDAEMTLQFLKSAIFYFLTDPV--NAQGHLTALL---------SILGYSD----- 69
           D +P   AE+  +FL      +++  V  +  G    +L           L  +D     
Sbjct: 51  DDEPTTPAELVGKFLG-----YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALA 105

Query: 70  ---AQKENIMKTQAHAWKYSYY 88
               Q+ +    +      +Y 
Sbjct: 106 AKLLQENDTTLVKTKELIKNYI 127



 Score = 28.1 bits (62), Expect = 0.38
 Identities = 11/36 (30%), Positives = 20/36 (55%), Gaps = 2/36 (5%)

Query: 48  LTDPV-NAQGHLTALLSILGYSDAQKEN-IMKTQAH 81
           L D + N +G  + +LSI   +  Q ++ + KT +H
Sbjct: 324 LEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359


>3jro_A Fusion protein of protein transport protein SEC13 and nucleoporin
           NUP145; protein complex, cytoplasmic vesicle,
           endoplasmic reticulum, ER-golgi transport, membrane,
           mRNA transport; 4.00A {Saccharomyces cerevisiae}
          Length = 753

 Score = 28.8 bits (64), Expect = 0.22
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 56  GHLTALLSILGYSDAQKENIMKTQAHAWK 84
           GHL+ L+S LG +D +  ++ + Q   W 
Sbjct: 515 GHLSVLISYLGSNDPRIRDLAELQLQKWS 543


>3bg1_B Nucleoporin NUP145; NPC, transport, WD repeat, autocatalytic
           cleavage, mRNA transport, nuclear pore complex, nucleus,
           phosphoprotein; 3.00A {Saccharomyces cerevisiae} PDB:
           3bg0_B 3iko_B
          Length = 442

 Score = 27.0 bits (59), Expect = 0.84
 Identities = 9/30 (30%), Positives = 16/30 (53%)

Query: 57  HLTALLSILGYSDAQKENIMKTQAHAWKYS 86
           HL+ L+S LG +D +  ++ + Q   W   
Sbjct: 207 HLSVLISYLGSNDPRIRDLAELQLQKWSTG 236


>3l0l_A Nuclear receptor ROR-gamma; nuclear receptor, rorgamma, alternative
           splicing, DNA-bindin binding, nucleus, receptor,
           zinc-finger, acetylation, activator; HET: HC3; 1.74A
           {Homo sapiens} PDB: 3b0w_A* 3kyt_A* 3l0j_A*
          Length = 248

 Score = 25.3 bits (55), Expect = 3.2
 Identities = 7/39 (17%), Positives = 14/39 (35%)

Query: 14  LIRHKRRYDALKDTKPPNDAEMTLQFLKSAIFYFLTDPV 52
           L+R  R Y+A   T         ++  ++     L   +
Sbjct: 103 LVRMCRAYNADNRTVFFEGKYGGMELFRALGCSELISSI 141


>1nq7_A Nuclear receptor ROR-beta; ligand-binding domain, retinoids,
           retinoic acid, synthetic ligand, antagonist,
           transcription; HET: ARL; 1.50A {Rattus norvegicus} SCOP:
           a.123.1.1 PDB: 1k4w_A* 1n4h_A*
          Length = 244

 Score = 24.0 bits (52), Expect = 8.4
 Identities = 8/39 (20%), Positives = 15/39 (38%)

Query: 14  LIRHKRRYDALKDTKPPNDAEMTLQFLKSAIFYFLTDPV 52
           L+R  R ++ L +T         +Q  K+     L +  
Sbjct: 97  LVRMCRAFNPLNNTVLFEGKYGGMQMFKALGSDDLVNEA 135


  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
   0.320    0.133    0.404 

Gapped
Lambda     K      H
   0.267   0.0580    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,288,564
Number of extensions: 58231
Number of successful extensions: 97
Number of sequences better than 10.0: 1
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 6
Length of query: 88
Length of database: 6,701,793
Length adjustment: 56
Effective length of query: 32
Effective length of database: 5,138,217
Effective search space: 164422944
Effective search space used: 164422944
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 (21.8 bits)
S2: 51 (23.8 bits)