RPS-BLAST 2.2.26 [Sep-21-2011]

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

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

Query= psy1892
         (64 letters)



>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 = 32.6 bits (73), Expect = 0.003
 Identities = 6/17 (35%), Positives = 8/17 (47%)

Query: 34 KKDEGSYALEEPKRSPA 50
          KK + S  L     +PA
Sbjct: 23 KKLQASLKLYADDSAPA 39


>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
           vesicle, membrane, Ca structural protein; 7.94A {Bos
           taurus}
          Length = 190

 Score = 32.8 bits (74), Expect = 0.003
 Identities = 11/51 (21%), Positives = 17/51 (33%), Gaps = 17/51 (33%)

Query: 31  RMRKKDEGSYALEEPKRSPASNS----YM---------KNSNR----EFYA 64
           R+++ D  S  +E+  R  A                  K +NR     FY 
Sbjct: 97  RLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQ 147


>1cd1_A CD1, MCD1D.1; immunology, MHC, TCR, glycoprotein, signal,
           immunoglobulin fold, T-cell; 2.67A {Mus musculus} SCOP:
           b.1.1.2 d.19.1.1
          Length = 315

 Score = 31.1 bits (71), Expect = 0.011
 Identities = 7/35 (20%), Positives = 16/35 (45%)

Query: 4   PLATSTVIGGAVVGLLCAILVVMFIVYRMRKKDEG 38
             A   +I   V+ +L  +  V++ ++R R   + 
Sbjct: 279 RQAPVGLIVFIVLIMLVVVGAVVYYIWRRRSAYQD 313


>1ejp_A Syndecan-4; symmetric-parallel-interwinded dimer, signaling
          protein; NMR {Synthetic} SCOP: j.80.1.1 PDB: 1ejq_A
          Length = 28

 Score = 27.9 bits (61), Expect = 0.041
 Identities = 17/34 (50%), Positives = 19/34 (55%), Gaps = 6/34 (17%)

Query: 31 RMRKKDEGSYALEEPKRSPASNSYMKNSNREFYA 64
          RM+KKDEGSY L    + P    Y K    EFYA
Sbjct: 1  RMKKKDEGSYDL---GKKPI---YKKAPTNEFYA 28


>2wy3_A MHC class I polypeptide-related sequence B; immune system-viral
           protein complex, immune response, innate immunity,
           structural mimicry; HET: NAG PEU; 1.80A {Homo sapiens}
           PDB: 1je6_A 1hyr_C 1b3j_A*
          Length = 319

 Score = 27.3 bits (61), Expect = 0.23
 Identities = 3/35 (8%), Positives = 12/35 (34%), Gaps = 2/35 (5%)

Query: 4   PLATSTVIGGAVVGLLCAILVVMFIVYRMRKKDEG 38
                  +  A+   +  I++++ +    +K    
Sbjct: 284 QRTDFPYVSAAMPCFV--IIIILCVPCCKKKTSAA 316


>1s7q_A H-2KB, H-2 class I histocompatibility antigen, K-B alpha chain;
           LCMV, MHC class I, immune escape, immune system; 1.99A
           {Mus musculus} SCOP: b.1.1.2 d.19.1.1 PDB: 1s7r_A 1s7s_A
           1s7t_A 1bii_A 3qul_A 1s7v_A 1s7w_A 1s7x_A 3quk_A 1s7u_A
           1nez_A*
          Length = 348

 Score = 27.1 bits (60), Expect = 0.35
 Identities = 11/37 (29%), Positives = 15/37 (40%), Gaps = 4/37 (10%)

Query: 9   TVIGGAVVGLLCAIL-VVMFIVYRMRK---KDEGSYA 41
           TV    V+G       VV F++   R+      G YA
Sbjct: 286 TVAVLVVLGAAIVTGAVVAFVMKMRRRNTGGKGGDYA 322


>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 = 26.6 bits (58), Expect = 0.62
 Identities = 10/43 (23%), Positives = 20/43 (46%), Gaps = 10/43 (23%)

Query: 10   VIGGAVVGL--LCAILVVMFIVYRMRKKD----EGSYALEEPK 46
            V  G +  L  +  +L  +    +++K D    + S +LEE +
Sbjct: 1854 VAAGDLRALDTVTNVLNFI----KLQKIDIIELQKSLSLEEVE 1892


>1c0p_A D-amino acid oxidase; alpha-beta-alpha motif, flavin containing
          protein, oxidoreductase; HET: FAD; 1.20A
          {Rhodosporidium toruloides} SCOP: c.4.1.2 d.16.1.3 PDB:
          1c0i_A* 1c0l_A* 1c0k_A*
          Length = 363

 Score = 24.6 bits (53), Expect = 2.3
 Identities = 6/14 (42%), Positives = 9/14 (64%)

Query: 9  TVIGGAVVGLLCAI 22
           V+G  V+GL  A+
Sbjct: 10 VVLGSGVIGLSSAL 23


>3g3e_A D-amino-acid oxidase; FAD, flavoprotein, oxidoreductase, PER;
          HET: FAD G3E; 2.20A {Homo sapiens} PDB: 3cuk_A* 2e48_A*
          2e49_A* 2e4a_A* 2e82_A* 2du8_A* 1ve9_A* 1dao_A* 1ddo_A*
          1kif_A* 1an9_A* 1evi_A*
          Length = 351

 Score = 24.3 bits (52), Expect = 3.1
 Identities = 7/14 (50%), Positives = 9/14 (64%)

Query: 9  TVIGGAVVGLLCAI 22
           VIG  V+GL  A+
Sbjct: 4  VVIGAGVIGLSTAL 17


>3dme_A Conserved exported protein; structural genomics, PSI-2, PROT
          structure initiative, northeast structural genomics
          consort NESG; HET: FAD TLA; 1.70A {Bordetella
          pertussis}
          Length = 369

 Score = 23.3 bits (51), Expect = 7.0
 Identities = 8/12 (66%), Positives = 8/12 (66%)

Query: 10 VIGGAVVGLLCA 21
          VIG  VVGL  A
Sbjct: 9  VIGAGVVGLAIA 20


  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    0.374 

Gapped
Lambda     K      H
   0.267   0.0734    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 900,983
Number of extensions: 38015
Number of successful extensions: 150
Number of sequences better than 10.0: 1
Number of HSP's gapped: 150
Number of HSP's successfully gapped: 13
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (23.4 bits)