RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780946|ref|YP_003065359.1| hypothetical protein
CLIBASIA_04225 [Candidatus Liberibacter asiaticus str. psy62]
         (98 letters)



>1puz_A Conserved hypothetical protein; NMA1147, MR19, structural
          genomics, PSI, protein structure initiative; NMR
          {Neisseria meningitidis MC58} SCOP: a.218.1.1
          Length = 82

 Score = 74.7 bits (184), Expect = 4e-15
 Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 1/71 (1%)

Query: 10 RKIVYRCWRRGTREMDLILGSFVDHFILELSSVELTMLESIIEEDDSNLFKWFTGMEKPP 69
          RKI ++  RRG  E+DLI G F++     LS  EL+    I+E  D  L     G  +  
Sbjct: 10 RKIRFQT-RRGLLELDLIFGRFMEKEFEHLSDKELSEFSEILEFQDQELLALINGHSETD 68

Query: 70 EYLRTPIFKKI 80
          +    P+ +KI
Sbjct: 69 KGHLIPMLEKI 79


>2jr5_A UPF0350 protein VC_2471; structure, structural genomics, PSI,
          protein structure initiative, northeast structural
          genomics consortium, NESG; NMR {Vibrio cholerae}
          Length = 94

 Score = 73.2 bits (180), Expect = 1e-14
 Identities = 19/79 (24%), Positives = 36/79 (45%), Gaps = 1/79 (1%)

Query: 10 RKIVYRCWRRGTREMDLILGSFVDHFILELSSVELTMLESIIEEDDSNLFKWFTGMEKPP 69
           +I + C RRG  E+D+++  F +     L+  E     +++E DD +LF W  G  +  
Sbjct: 8  ARIKWAC-RRGMLELDVVIMPFFEECFDSLTESEQDDFVALLESDDPDLFAWVMGHGRCE 66

Query: 70 EYLRTPIFKKIYDYYSNNL 88
                +  KI  +  + +
Sbjct: 67 NLGLAAMVDKIVAHNLSKV 85


>1x6i_A Hypothetical protein YGFY; structural genomics, transcriptional
          regulation, structure 2 function project, S2F, unknown
          function; 1.20A {Escherichia coli} PDB: 1x6j_A
          Length = 91

 Score = 70.9 bits (174), Expect = 6e-14
 Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 10 RKIVYRCWRRGTREMDLILGSFVDHFILELSSVELTMLESIIEEDDSNLFKWFTGMEKPP 69
           +I + C RRG RE+D+ +  F +H    LS  E  +   ++E DD +LF W     KP 
Sbjct: 10 ARIHWAC-RRGMRELDISIMPFFEHEYDSLSDDEKRIFIRLLECDDPDLFNWLMNHGKPA 68

Query: 70 EYLRTPIFKKIYDYYSN 86
          +     + + I      
Sbjct: 69 DAELEMMVRLIQTRNRE 85


>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 = 38.0 bits (88), Expect = 6e-04
 Identities = 12/67 (17%), Positives = 20/67 (29%), Gaps = 16/67 (23%)

Query: 22  REMDLILGSFVDHFILELSSVELTMLESIIEEDDS---------NLFKWFTGMEKPP--E 70
           R++       V   I   +      L  +I              N+ +W       P  +
Sbjct: 174 RDLYQTYHVLVGDLIKFSAE----TLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229

Query: 71  YLRT-PI 76
           YL + PI
Sbjct: 230 YLLSIPI 236


>1nt0_A MAsp2, mannose-binding protein associated serine protease-2; CUB
           domain, EGF like domain., hydrolase, sugar binding
           protein; HET: NAG EDO; 2.70A {Rattus norvegicus} SCOP:
           b.23.1.1 b.23.1.1 g.3.11.1
          Length = 286

 Score = 26.2 bits (56), Expect = 2.1
 Identities = 12/56 (21%), Positives = 20/56 (35%)

Query: 17  WRRGTREMDLILGSFVDHFILELSSVELTMLESIIEEDDSNLFKWFTGMEKPPEYL 72
           +     E   I   FV+ F +E+        +S+  + D   +  F G   PP   
Sbjct: 194 YNIRLEEGFSITLDFVESFDVEMHPEAQCPYDSLKIQTDKREYGPFCGKTLPPRIE 249


>2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB;
           retinoblastoma protein, E2F displacement, transcription
           repressor; 1.67A {Homo sapiens} SCOP: a.74.1.3 a.74.1.3
           PDB: 1n4m_A 1gh6_B 1gux_A 1o9k_A 1ad6_A 1gux_B 1o9k_B
          Length = 347

 Score = 24.8 bits (54), Expect = 5.0
 Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)

Query: 39  LSSVELTMLESIIEEDDSNLFKWFTGMEKPPEYLRTPI---FKKIY 81
           L   E  ++ES+    DS LF       K  E   T +   +KK+Y
Sbjct: 171 LERCEHRIMESLAWLSDSPLF-DLIKQSKDREGKSTSLSLFYKKVY 215


>2jyl_A Capsid protein P24 (Ca); HIV-1, carboxy-terminal, dimerization
          domain, CTD, 3D- NMR, capsid protein (Ca), double
          mutant; NMR {Human immunodeficiency virus 1} PDB:
          2k1c_A*
          Length = 105

 Score = 24.4 bits (53), Expect = 6.5
 Identities = 7/24 (29%), Positives = 10/24 (41%), Gaps = 1/24 (4%)

Query: 3  KNMNLQCRKIVYRCWRRGT-REMD 25
          +N N  C+ I+       T  EM 
Sbjct: 66 QNANPDCKTILKALGPGATLEEMM 89


>2eqo_A TNF receptor-associated factor 3-interacting protein 1;
          STN_TRAF3IP1_ND domain, interleukin 13 receptor alpha
          1-binding protein-1 [HOMO sapiens]; NMR {Homo sapiens}
          Length = 140

 Score = 24.0 bits (52), Expect = 8.3
 Identities = 9/44 (20%), Positives = 18/44 (40%), Gaps = 6/44 (13%)

Query: 46 MLESIIEEDDSNLFKWFTGMEKPP---EYLRTPIFKKIYDYYSN 86
          M  +++      L K      +PP   + L  P F+ ++D  + 
Sbjct: 8  MNAAVVRRTQEALGKVI---RRPPLTEKLLSKPPFRYLHDIITE 48


  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
   0.323    0.139    0.425 

Gapped
Lambda     K      H
   0.267   0.0623    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 907,954
Number of extensions: 37669
Number of successful extensions: 132
Number of sequences better than 10.0: 1
Number of HSP's gapped: 132
Number of HSP's successfully gapped: 17
Length of query: 98
Length of database: 5,693,230
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,141,614
Effective search space: 140814876
Effective search space used: 140814876
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.3 bits)