RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780981|ref|YP_003065394.1| hypothetical protein
CLIBASIA_04410 [Candidatus Liberibacter asiaticus str. psy62]
         (122 letters)



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

 Score = 42.2 bits (98), Expect = 3e-05
 Identities = 20/79 (25%), Positives = 36/79 (45%), Gaps = 12/79 (15%)

Query: 23  EEDNLKSSPLPHIALESLSA--ENEKKELSEHE--KKVIESQ--ENPKKQFSEHEKKETD 76
           + D L   P      ES+    E ++K L E +   KV+E +  E  KK   E  +++++
Sbjct: 76  QADRLTQEP------ESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSE 129

Query: 77  DPKSARKENIVMKKTFSQK 95
             +  +  N +  K F Q+
Sbjct: 130 QVEKNKINNRIADKAFYQQ 148



 Score = 30.3 bits (67), Expect = 0.10
 Identities = 12/42 (28%), Positives = 26/42 (61%), Gaps = 6/42 (14%)

Query: 59  SQENPK--KQFSEHEKKETDDPKSARKENIVMKKTFSQKSKK 98
           +QE P+  +++ E ++K   +  +A K   VM++ + +K+KK
Sbjct: 81  TQE-PESIRKWREEQRKRLQELDAASK---VMEQEWREKAKK 118


>1c17_M ATP synthase subunit A; membrane protein, helix, complex; NMR
           {Escherichia coli} SCOP: f.18.1.1
          Length = 177

 Score = 26.4 bits (58), Expect = 1.5
 Identities = 5/14 (35%), Positives = 10/14 (71%)

Query: 5   FTILTMLFVSSAIN 18
           F +LT++++S A  
Sbjct: 162 FMVLTIVYLSMASE 175


>2iut_A DNA translocase FTSK; nucleotide-binding, chromosome partition,
          ATP-binding, DNA- binding, cell division,
          transmembrane, inner membrane; HET: DNA ATG; 2.25A
          {Pseudomonas aeruginosa} PDB: 2iuu_A*
          Length = 574

 Score = 26.2 bits (57), Expect = 2.2
 Identities = 14/56 (25%), Positives = 28/56 (50%), Gaps = 2/56 (3%)

Query: 45 EKKELSEHEKKVIESQENPKKQFSEHEKKETD--DPKSARKENIVMKKTFSQKSKK 98
          +++E S+ +++++E +E   K  SE EK+     DP  + K     K+   +K   
Sbjct: 4  DRREQSKAKERLLEREEALAKHMSEREKRPPPKIDPPPSPKAPEPSKRVLKEKQAP 59


>1w7f_A Beta-lactamase; hydrolase, isocitrate, bacillus licheniformis
          hydrolase; HET: ICT; 1.80A {Bacillus licheniformis}
          Length = 307

 Score = 25.6 bits (55), Expect = 2.9
 Identities = 13/59 (22%), Positives = 24/59 (40%), Gaps = 10/59 (16%)

Query: 1  MKKYFTILTM-------LFVSSAINPCGIEEDNLKSSPLPHIALESLSAENEKKELSEH 52
          MK +F+ L +       LF   A+  C    +N  ++  P    E    +++  +L E 
Sbjct: 1  MKLWFSTLKLKKAAAVLLFSCVALAGCA---NNQTNASQPAEKNEKTEMKDDFAKLEEQ 56


>2vug_A PAB1020; RNA, ligase, AMPPNP, nucleotidyl- transferase; HET: ANP;
           2.9A {Pyrococcus abyssi GE5}
          Length = 389

 Score = 25.8 bits (56), Expect = 3.0
 Identities = 13/62 (20%), Positives = 21/62 (33%)

Query: 40  LSAENEKKELSEHEKKVIESQENPKKQFSEHEKKETDDPKSARKENIVMKKTFSQKSKKY 99
           L  E   K   E+    +E      K   +   +  +      +E I+MK    +K  KY
Sbjct: 190 LPVEERLKIAEEYGINHVEVFGKYTKDDVDELYQLIERLSKEGREGIIMKSPDMKKIVKY 249

Query: 100 TP 101
             
Sbjct: 250 VT 251


>2ks9_A Substance-P receptor; water, autodock, NK1, neuropeptide
           receptor-NEU complex; NMR {Homo sapiens} PDB: 2ksa_A
           2ksb_A
          Length = 364

 Score = 25.4 bits (55), Expect = 3.6
 Identities = 5/16 (31%), Positives = 8/16 (50%)

Query: 4   YFTILTMLFVSSAINP 19
           Y  I+ +   S+  NP
Sbjct: 287 YLAIMWLAMSSTMYNP 302


>3lwa_A Secreted thiol-disulfide isomerase; thioredoxin, PSI, MCSG,
          structural genomics, midwest center for structural
          genomics; 1.75A {Corynebacterium glutamicum}
          Length = 183

 Score = 24.9 bits (54), Expect = 5.0
 Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 1/49 (2%)

Query: 9  TMLFVSSAINPCGIEEDNLKSSPLPHIALESLSAENEKKELSEHEKKVI 57
          T  F S       I  D      LP I  +SL  E  +  LS+ E +V+
Sbjct: 15 TFQFHSPDGKM-EIFYDEADRQQLPDIGGDSLMEEGTQINLSDFENQVV 62


  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
   0.308    0.126    0.350 

Gapped
Lambda     K      H
   0.267   0.0573    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 984,221
Number of extensions: 39487
Number of successful extensions: 128
Number of sequences better than 10.0: 1
Number of HSP's gapped: 124
Number of HSP's successfully gapped: 38
Length of query: 122
Length of database: 5,693,230
Length adjustment: 81
Effective length of query: 41
Effective length of database: 3,729,466
Effective search space: 152908106
Effective search space used: 152908106
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 50 (23.4 bits)