RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780417|ref|YP_003064830.1| transcriptional regulator CarD
family protein [Candidatus Liberibacter asiaticus str. psy62]
         (188 letters)



>3mlq_E Transcription-repair coupling factor; tudor,
          transferase-transcription complex; 2.91A {Thermus
          thermophilus}
          Length = 71

 Score = 43.9 bits (104), Expect = 2e-05
 Identities = 15/49 (30%), Positives = 30/49 (61%), Gaps = 3/49 (6%)

Query: 14 FRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAF-DKDKMCLKVPV 61
             G+++++P HGVG    ++ +EV G+K ++ V+ +  + K  L +PV
Sbjct: 3  HMPGDYLIHPEHGVGQYLGLETREVLGVKRDYLVLRYKGEGK--LYLPV 49


>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 = 35.7 bits (82), Expect = 0.007
 Identities = 39/237 (16%), Positives = 59/237 (24%), Gaps = 108/237 (45%)

Query: 3   FQQKRDAMRQGFRTG--EHIVYP-------------AHGVGTIT---EIK--EQEVAGMK 42
           F   R A+   F  G   +  YP              +  G  +    I    QE    +
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE----Q 348

Query: 43  LEFFVIAFDKDKMCLKVPVGKAIDIG-----------------------MRKL------- 72
           ++ +V   +       +P GK ++I                        +RK        
Sbjct: 349 VQDYVNKTNSH-----LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD 403

Query: 73  -SEAHFVERALK----------------LVRGKARVKRTMWSRRAQEYDAKINSGDLIAI 115
            S   F ER LK                LV     + +        + +   N+ D+  I
Sbjct: 404 QSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINK-----DLVKNNVSFNAKDI-QI 457

Query: 116 AEVV------RDLHRTDSQPEKSYSERQLYESALNRMVREIA--AVNSISEPEAINL 164
              V       DL             R L  S   R+V  I    V           
Sbjct: 458 P--VYDTFDGSDL-------------RVLSGSISERIVDCIIRLPVKW---ETTTQF 496



 Score = 34.9 bits (80), Expect = 0.011
 Identities = 13/83 (15%), Positives = 26/83 (31%), Gaps = 32/83 (38%)

Query: 119 VRDLHRTDSQ----------PEKSYSERQLYESALNRMVREIAAVNS-----ISEPEAIN 163
           + +L +   Q          P      +Q+           I+ VN      +S P   +
Sbjct: 341 ISNLTQEQVQDYVNKTNSHLPA----GKQVE----------ISLVNGAKNLVVSGP-PQS 385

Query: 164 LIEVNLSSKSSKTEKSTSENQDK 186
           L    L+    K +  +  +Q +
Sbjct: 386 L--YGLNLTLRKAKAPSGLDQSR 406



 Score = 31.8 bits (72), Expect = 0.095
 Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 1/27 (3%)

Query: 110 GDLIA-IAEVVRDLHRTDSQPEKSYSE 135
           GDLI   AE + +L RT    EK +++
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQ 211


>2w5e_A Putative serine protease; coiled coil, transmembrane, thiol
           protease, RNA replication, ribosomal frameshifting,
           catalytic triad, membrane; 2.00A {Human astrovirus 1}
          Length = 163

 Score = 30.5 bits (68), Expect = 0.22
 Identities = 19/102 (18%), Positives = 29/102 (28%), Gaps = 3/102 (2%)

Query: 13  GFRTGEHIVYPAHGVGTITEIKEQEVAGMKLEFFVIAFDKDKMCLKVP--VGKAIDIGMR 70
           GF +G  IV  AH VG  T +       M         +KD   +  P  +     + + 
Sbjct: 25  GFFSGNDIVTAAHVVGNNTFVNVCYEGLMYEAKVRYMPEKDIAFITCPGDLHPTARLKLS 84

Query: 71  KLSEAHFVERALKLVRGK-ARVKRTMWSRRAQEYDAKINSGD 111
           K  +   V     +           M       Y  +   G 
Sbjct: 85  KNPDYSCVTVMAYVNEDLVVSTAAAMVYGNTLSYAVRTQDGM 126


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

 Score = 28.4 bits (62), Expect = 0.99
 Identities = 17/89 (19%), Positives = 40/89 (44%), Gaps = 16/89 (17%)

Query: 78  VERALKLVRGKARVKRTMWS----RRAQEYDAKINSGDLIAIAEVVRDLHRTDSQPE-KS 132
           + +A +L +    +++  W     +R QE DA          ++V+    R  ++ + + 
Sbjct: 74  IAQADRLTQEPESIRK--WREEQRKRLQELDAA---------SKVMEQEWREKAKKDLEE 122

Query: 133 YSERQLYESALNRMVREIAAVNSISEPEA 161
           +++RQ  +   N++   IA      +P+A
Sbjct: 123 WNQRQSEQVEKNKINNRIADKAFYQQPDA 151


>2pml_X PFPK7, Ser/Thr protein kinase; phosphorylation, transferase; HET:
           ANP; 2.60A {Plasmodium falciparum} PDB: 2pmn_X* 2pmo_X*
          Length = 348

 Score = 25.5 bits (55), Expect = 7.9
 Identities = 7/59 (11%), Positives = 19/59 (32%)

Query: 109 SGDLIAIAEVVRDLHRTDSQPEKSYSERQLYESALNRMVREIAAVNSISEPEAINLIEV 167
                A+ +  + L        KS +++   +S  +    E+  +  I     +    +
Sbjct: 53  DNKFYALKKYEKSLLEKKRDFTKSNNDKISIKSKYDDFKNELQIITDIKNEYCLTCEGI 111


>1efp_A ETF, protein (electron transfer flavoprotein); electron transport,
           glutaric acidemia type II; HET: FAD AMP; 2.60A
           {Paracoccus denitrificans} SCOP: c.26.2.3 c.31.1.2
          Length = 307

 Score = 25.2 bits (55), Expect = 8.5
 Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 3/34 (8%)

Query: 35  EQEVAGMKLEFFVIAFDKDKMCLKVPVGKAIDIG 68
            Q +AGMK    ++A +KD+     P+ +  D G
Sbjct: 261 IQHLAGMKDSKVIVAINKDEEA---PIFQIADYG 291


  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
   0.315    0.129    0.348 

Gapped
Lambda     K      H
   0.267   0.0469    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,456,529
Number of extensions: 63797
Number of successful extensions: 192
Number of sequences better than 10.0: 1
Number of HSP's gapped: 192
Number of HSP's successfully gapped: 15
Length of query: 188
Length of database: 5,693,230
Length adjustment: 87
Effective length of query: 101
Effective length of database: 3,584,002
Effective search space: 361984202
Effective search space used: 361984202
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: 54 (25.2 bits)