RPS-BLAST 2.2.22 [Sep-27-2009]

Database: mmdb70 
           33,805 sequences; 4,956,049 total letters

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

Query= gi|254780431|ref|YP_003064844.1| hypothetical protein
CLIBASIA_01580 [Candidatus Liberibacter asiaticus str. psy62]
         (178 letters)



>1gdt_A GD resolvase, protein (gamma delta resolvase); protein-DNA
          complex, double helix, overhanging base, DNA binding
          protein/DNA complex; 3.00A {Escherichia coli}
          (A:142-183)
          Length = 42

 Score = 27.3 bits (61), Expect = 1.2
 Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 2/33 (6%)

Query: 4  TVERIDKLKKFWSEGLSASQIAVQLGGVTRNAV 36
           ++R D +   W +GL AS I+  +  + R+ V
Sbjct: 4  KIDR-DAVLNMWQQGLGASHISKTM-NIARSTV 34


>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc binding
          transcription factor; 2.40A {Rhodobacter sphaeroides 2}
          PDB: 2z2s_A (A:103-184)
          Length = 82

 Score = 26.0 bits (57), Expect = 3.0
 Identities = 3/26 (11%), Positives = 11/26 (42%), Gaps = 1/26 (3%)

Query: 17 EGLSASQIAVQLGGVTRNAVIGKLHR 42
            L+  ++A +  G+    +  ++  
Sbjct: 48 GDLTHRELAAET-GLPLGTIKSRIRL 72


>1ydh_A AT5G11950; structural genomics, protein structure
           initiative, center for eukaryotic structural genomics,
           CESG; 2.15A {Arabidopsis thaliana} (A:)
          Length = 216

 Score = 26.1 bits (57), Expect = 3.2
 Identities = 6/21 (28%), Positives = 9/21 (42%)

Query: 144 FCGSDVCNDSPYCDYHKKLAY 164
           FCGS   +   + D   +L  
Sbjct: 15  FCGSHSGHREVFSDAAIELGN 35


>2oz4_A Intercellular adhesion molecule 1; IGSF domain, structural
          plasticity, cell-surface dimerization, cell adhesion;
          HET: NAG FUC; 2.70A {Homo sapiens} (A:1-99)
          Length = 99

 Score = 25.9 bits (57), Expect = 3.4
 Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 4/64 (6%)

Query: 20 SASQIAVQLGGVTRNAVIGKLHRLFLSNRVKVNENKQSDGNRK---NVTLGSTSPKTRQS 76
          S +Q+ + LG    N  +        S +  V+   + +G ++    V LG+ S +T Q+
Sbjct: 34 SEAQVHLALGDQRLNPTV-TYGNDSFSAKASVSVTAEDEGTQRLTCAVILGNQSQETLQT 92

Query: 77 SNVY 80
            +Y
Sbjct: 93 VTIY 96


>2a33_A Hypothetical protein; structural genomics, protein structure
           initiative, center for eukaryotic structural genomics,
           CESG, AT2G37210; 1.95A {Arabidopsis thaliana} (A:)
          Length = 215

 Score = 25.7 bits (56), Expect = 3.5
 Identities = 8/21 (38%), Positives = 8/21 (38%)

Query: 144 FCGSDVCNDSPYCDYHKKLAY 164
           FCGS     S Y D    L  
Sbjct: 19  FCGSSQGKKSSYQDAAVDLGN 39


>1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix,
          putative DNA-binding protein, signal recognition
          particle, unknown function; 1.70A {Staphylococcus
          aureus subsp} (A:1-76)
          Length = 76

 Score = 25.9 bits (57), Expect = 3.8
 Identities = 10/26 (38%), Positives = 13/26 (50%), Gaps = 1/26 (3%)

Query: 17 EGLSASQIAVQLGGVTRNAVIGKLHR 42
          E  S S+IA     V+R AV   + R
Sbjct: 40 EDYSLSEIADTF-NVSRQAVYDNIRR 64


>1z7z_I Intercellular adhesion molecule-1;
          ICAM-1,kilifi,CD54,human coxsackievirus A21,
          cryo-electron microscopy,virus-receptor complex,
          icosahedral virus; HET: NAG NDG; 8.00A {Homo sapiens}
          (I:188-283)
          Length = 96

 Score = 25.5 bits (56), Expect = 3.8
 Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 4/64 (6%)

Query: 20 SASQIAVQLGGVTRNAVIGKLHRLFLSNRVKVNENKQSDGNRK---NVTLGSTSPKTRQS 76
          S +Q+ + LG    N  +        S +  V+   + +G ++    V LG+ S +T Q+
Sbjct: 32 SEAQVHLALGDQRLNPTV-TYGNDSFSAKASVSVTAEDEGTQRLTCAVILGNQSQETLQT 90

Query: 77 SNVY 80
            +Y
Sbjct: 91 VTIY 94


>1s7o_A Hypothetical UPF0122 protein
          SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA
          binding protein, structural genomics; 2.31A
          {Streptococcus pyogenes serotype M3} (A:1-73)
          Length = 73

 Score = 25.4 bits (56), Expect = 4.2
 Identities = 9/26 (34%), Positives = 15/26 (57%), Gaps = 1/26 (3%)

Query: 17 EGLSASQIAVQLGGVTRNAVIGKLHR 42
          +  S ++IA +  GV+R AV   + R
Sbjct: 37 DDYSLAEIADEF-GVSRQAVYDNIKR 61


>1t35_A Hypothetical protein YVDD, putative lysine decarboxylase;
           structural genomics target, NYSGXRC, PSI, protein
           structure initiative; 2.72A {Bacillus subtilis} (A:)
          Length = 191

 Score = 25.7 bits (56), Expect = 4.2
 Identities = 5/21 (23%), Positives = 8/21 (38%)

Query: 144 FCGSDVCNDSPYCDYHKKLAY 164
           F GS+   +  Y     +L  
Sbjct: 7   FAGSNPGGNEAYKRKAAELGV 27


>1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation,
          DNA-binding, transmembrane, transcription; 2.00A
          {Escherichia coli} (A:117-194)
          Length = 78

 Score = 25.5 bits (56), Expect = 4.7
 Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 1/26 (3%)

Query: 17 EGLSASQIAVQLGGVTRNAVIGKLHR 42
          +GLS  +IA  +       V  ++ R
Sbjct: 39 DGLSYEEIAAIM-DCPVGTVRSRIFR 63


>2o8x_A Probable RNA polymerase sigma-C factor; promoter
          recognition, transcription regulation, helix-turn-
          helix motif; 3.00A {Mycobacterium tuberculosis H37RV}
          (A:)
          Length = 70

 Score = 25.4 bits (56), Expect = 4.8
 Identities = 6/26 (23%), Positives = 10/26 (38%), Gaps = 1/26 (3%)

Query: 17 EGLSASQIAVQLGGVTRNAVIGKLHR 42
           GLS +  A    G     +  ++ R
Sbjct: 30 LGLSYADAAAVC-GCPVGTIRSRVAR 54


  Database: mmdb70
    Posted date:  Jun 20, 2010  3:12 AM
  Number of letters in database: 4,956,049
  Number of sequences in database:  33,805
  
Lambda     K      H
   0.317    0.132    0.395 

Gapped
Lambda     K      H
   0.267   0.0666    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33805
Number of Hits to DB: 1,242,008
Number of extensions: 48143
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: 13
Length of query: 178
Length of database: 4,956,049
Length adjustment: 83
Effective length of query: 95
Effective length of database: 2,150,234
Effective search space: 204272230
Effective search space used: 204272230
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (23.9 bits)