RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780203|ref|YP_003064616.1| hypothetical protein
CLIBASIA_00440 [Candidatus Liberibacter asiaticus str. psy62]
         (82 letters)



>2ea9_A JW2626, hypothetical protein YFJZ; structural genomics, NPPSFA,
          national project on protein structural and functional
          analyses; 2.10A {Escherichia coli} SCOP: d.110.8.1 PDB:
          2jn7_A
          Length = 105

 Score = 28.1 bits (63), Expect = 0.49
 Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 3/30 (10%)

Query: 9  SKEEVRD---AFPELIKALEKGLSTFDVEP 35
          S  E       FP  I  +E  L+T ++ P
Sbjct: 41 SDAECPKLDVVFPHFISQIESMLTTGELNP 70


>3hsy_A Glutamate receptor 2; ligand-gated ION channel, synapse, alter
           splicing, cell junction, cell membrane, endoplasmic
           reticul glycoprotein; HET: NAG BMA; 1.75A {Rattus
           norvegicus} PDB: 3h5v_A* 3h5w_A 2wjw_A* 2wjx_A
          Length = 376

 Score = 27.9 bits (61), Expect = 0.63
 Identities = 7/57 (12%), Positives = 13/57 (22%)

Query: 13  VRDAFPELIKALEKGLSTFDVEPLKNPVKSHGKGYESYISHVCELIELLKNKDFDGV 69
             DA   + +A             +                  E+   LK    +G+
Sbjct: 276 TYDAVQVMTEAFRNLRKQRIEISRRGNAGDCLANPAVPWGQGVEIERALKQVQVEGL 332


>2inw_A Putative structural protein; Q83JN9 X-RAY NESG SFR137, structural
          genomics, PSI-2, protein structure initiative; 1.50A
          {Shigella flexneri} SCOP: d.110.8.1 PDB: 2h28_A
          Length = 133

 Score = 27.8 bits (62), Expect = 0.65
 Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 3/30 (10%)

Query: 9  SKEEVRD---AFPELIKALEKGLSTFDVEP 35
          S  +      AFP L+K LE  L+  ++ P
Sbjct: 55 SDVDAYHLDQAFPLLMKQLELMLTGGELNP 84


>1omo_A Alanine dehydrogenase; two-domain, beta-sandwich-dimer,
          rossmann-fold NAD domain, human MU crystallin homolog;
          HET: NAD; 2.32A {Archaeoglobus fulgidus} SCOP: c.2.1.13
          PDB: 1vll_A
          Length = 322

 Score = 27.8 bits (61), Expect = 0.67
 Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 2/37 (5%)

Query: 9  SKEEVRDA--FPELIKALEKGLSTFDVEPLKNPVKSH 43
          ++EEV       E + A+E+    + +   + P K +
Sbjct: 7  TQEEVESLISMDEAMNAVEEAFRLYALGKAQMPPKVY 43


>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
           acyl-carrier-protein, beta-ketoacyl reductase,
           beta-ketoacyl synthase, dehydratase; 4.00A
           {Saccharomyces cerevisiae}
          Length = 2006

 Score = 26.4 bits (58), Expect = 1.7
 Identities = 9/54 (16%), Positives = 18/54 (33%), Gaps = 12/54 (22%)

Query: 14  RDAFPELIKALEKGLSTFDVEPLKNPV---------KSHGKGYESYISHVCELI 58
             A   + K L K   +F+ + ++ PV         +       S    + + I
Sbjct: 433 VPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLS---GSISERIVDCI 483


>2nyv_A Pgpase, PGP, phosphoglycolate phosphatase; structural genomics,
           PSI-2, protein structure initiative; 2.10A {Aquifex
           aeolicus} PDB: 2yy6_A
          Length = 222

 Score = 25.5 bits (54), Expect = 3.0
 Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 4/58 (6%)

Query: 13  VRDAFPELIKALEKGLSTFDVEPLKNPVKSHGKGYESYISHVCELIELLKNK--DFDG 68
           V D   ++      G  T         + S    +   +S   +L++L+ N   +F+G
Sbjct: 162 VGDTDADIEAGKRAGTKTALALWGYVKLNSQIPDF--TLSRPSDLVKLMDNHIVEFEG 217


>2d4u_A Methyl-accepting chemotaxis protein I; helix-turn-helix, signaling
           protein; 1.95A {Escherichia coli}
          Length = 176

 Score = 25.2 bits (55), Expect = 3.5
 Identities = 12/66 (18%), Positives = 27/66 (40%), Gaps = 5/66 (7%)

Query: 8   PSKEEVRDAFPELIKALEKGLSTFDVEPLKNPVKSHG-----KGYESYISHVCELIELLK 62
            +  E+ ++    +K  EK  + ++  P      +       + Y+ Y + + ELI+LL 
Sbjct: 65  STVAELMESASISLKQAEKNWADYEALPRDPRQSTAAAAEIKRNYDIYHNALAELIQLLG 124

Query: 63  NKDFDG 68
               + 
Sbjct: 125 AGKINE 130


>1vls_A TAR, aspartate receptor; chemotaxis, bacterial chemotaxis receptor,
           unbound; 1.85A {Salmonella typhimurium} SCOP: a.24.2.1
           PDB: 1vlt_A 1was_A 1wat_A 1jmw_A
          Length = 146

 Score = 24.8 bits (54), Expect = 4.6
 Identities = 8/24 (33%), Positives = 14/24 (58%)

Query: 45  KGYESYISHVCELIELLKNKDFDG 68
           + Y+ Y + + ELI+ L N + D 
Sbjct: 91  EKYQRYQAALAELIQFLDNGNMDA 114


>1vpr_A Luciferase; beta barrel, fatty acid binding protein, lipocalin,
          PH regulation, luminescent protein; 1.80A
          {Lingulodinium polyedrum} SCOP: b.60.1.7
          Length = 374

 Score = 24.1 bits (52), Expect = 7.4
 Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 1/37 (2%)

Query: 30 TFDVEPLKNPVKSHGKGYESYISHVCELIEL-LKNKD 65
           F  + L  P++  GK +ES   ++ E  EL  KN  
Sbjct: 37 EFHEDGLHKPMEVGGKKFESGFHYLLECHELGGKNAS 73


>3cz8_A Putative sporulation-specific glycosylase YDHD; structural
           genomics, uncharacterized protein, protein structure
           initiative, PSI-2; 2.20A {Bacillus subtilis subsp}
          Length = 319

 Score = 23.9 bits (51), Expect = 8.5
 Identities = 4/17 (23%), Positives = 10/17 (58%)

Query: 56  ELIELLKNKDFDGVEIE 72
            + +L+  + + GV I+
Sbjct: 102 NIYDLVSTRGYGGVTID 118


  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
   0.313    0.135    0.381 

Gapped
Lambda     K      H
   0.267   0.0460    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 735,915
Number of extensions: 30014
Number of successful extensions: 128
Number of sequences better than 10.0: 1
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 14
Length of query: 82
Length of database: 5,693,230
Length adjustment: 50
Effective length of query: 32
Effective length of database: 4,481,030
Effective search space: 143392960
Effective search space used: 143392960
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 50 (23.7 bits)