RPS-BLAST 2.2.22 [Sep-27-2009]

Database: pdb70 
           24,244 sequences; 5,693,230 total letters

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

Query= gi|254780883|ref|YP_003065296.1| hypothetical protein
CLIBASIA_03900 [Candidatus Liberibacter asiaticus str. psy62]
         (139 letters)



>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation,
          antigen processing, hydrolase, protease; 1.90A
          {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D*
          1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D*
          3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 2z5c_C
          3bdm_D* 1z7q_E 1fnt_E* 2zcy_D* 1g0u_D
          Length = 242

 Score = 26.6 bits (58), Expect = 2.2
 Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 6/30 (20%)

Query: 12 DRYLTTFS------QSSYALPIQKKGSPLL 35
          DR ++TFS      Q  Y+L   K GS  +
Sbjct: 1  DRGVSTFSPEGRLFQVEYSLEAIKLGSTAI 30


>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome
          activator 11S, hydrolase/hydrolase activator complex;
          1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB:
          1ya7_A 1pma_A 3c91_A 3c92_A 1yau_A 3jrm_A 3jse_A 3jtl_A
          Length = 233

 Score = 26.2 bits (57), Expect = 2.9
 Identities = 12/34 (35%), Positives = 14/34 (41%), Gaps = 6/34 (17%)

Query: 8  STSSDRYLTTFS------QSSYALPIQKKGSPLL 35
            +  R +T FS      Q  YA    KKGS  L
Sbjct: 5  QMAYSRAITVFSPDGRLFQVEYAREAVKKGSTAL 38


>1iru_D 20S proteasome; cell cycle, immune response, proteolysis,
          ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP:
          d.153.1.4
          Length = 248

 Score = 25.7 bits (56), Expect = 3.9
 Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 6/30 (20%)

Query: 12 DRYLTTFS------QSSYALPIQKKGSPLL 35
          DR +T FS      Q  YA    KKGS  +
Sbjct: 4  DRAITVFSPDGHLFQVEYAQEAVKKGSTAV 33


>1s58_A B19 parvovirus capsid; icosahedral capsid, beta-barrel,
          icosahedral virus; 3.50A {Human parvovirus B19} SCOP:
          b.121.5.2
          Length = 554

 Score = 25.3 bits (55), Expect = 5.0
 Identities = 10/69 (14%), Positives = 21/69 (30%)

Query: 7  DSTSSDRYLTTFSQSSYALPIQKKGSPLLLKNNTPKSRNWNGKFPKTLGRLIGIGIIRIY 66
           +T S   +T      + +P   +    +         N +GK  K       +G    +
Sbjct: 28 GATFSANSVTCTFSRQFLIPYDPEHHYKVFSPAASSCHNASGKEAKVCTITPIMGYSTPW 87

Query: 67 QLIFSNVFG 75
          + +  N   
Sbjct: 88 RYLDFNALN 96


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

 Score = 25.3 bits (55), Expect = 5.2
 Identities = 10/38 (26%), Positives = 16/38 (42%)

Query: 52  KTLGRLIGIGIIRIYQLIFSNVFGNSCRYLPTCSEYGY 89
            T G  I   I +IY+L+  + F          SE+ +
Sbjct: 234 STGGCSIDKNISKIYKLLSGSPFEGLFSLKELESEFSW 271


>3jrt_A Integron cassette protein VPC_CASS2; mobIle metagenome,
          structural genomics, PSI-2 protein structure
          initiative; 2.30A {Vibrio paracholerae}
          Length = 192

 Score = 24.2 bits (52), Expect = 9.5
 Identities = 7/26 (26%), Positives = 14/26 (53%)

Query: 65 IYQLIFSNVFGNSCRYLPTCSEYGYE 90
          I++L   ++  N  +Y+    +YG E
Sbjct: 70 IWRLCVYSIVINCRKYVELNQKYGKE 95


  Database: pdb70
    Posted date:  Jan 26, 2011 11:21 AM
  Number of letters in database: 5,693,230
  Number of sequences in database:  24,244
  
Lambda     K      H
   0.319    0.140    0.443 

Gapped
Lambda     K      H
   0.267   0.0545    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,306,718
Number of extensions: 58213
Number of successful extensions: 87
Number of sequences better than 10.0: 1
Number of HSP's gapped: 87
Number of HSP's successfully gapped: 8
Length of query: 139
Length of database: 5,693,230
Length adjustment: 83
Effective length of query: 56
Effective length of database: 3,680,978
Effective search space: 206134768
Effective search space used: 206134768
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 (21.7 bits)
S2: 52 (24.2 bits)