RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781137|ref|YP_003065550.1| hypothetical protein
CLIBASIA_05195 [Candidatus Liberibacter asiaticus str. psy62]
         (195 letters)



>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 = 34.1 bits (78), Expect = 0.020
 Identities = 21/98 (21%), Positives = 27/98 (27%), Gaps = 45/98 (45%)

Query: 63  PFHLPQDYYRPLLGGA--MVMLDL----------SLARPVINAVDWG------------- 97
           PFH        LL  A  ++  DL           +  PV +  D G             
Sbjct: 426 PFH------SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFD-GSDLRVLSGSISER 478

Query: 98  IVKRISHTPWYWIDGRMIHLSINSPATFRYFSKNWIID 135
           IV  I   P  W        +    AT        I+D
Sbjct: 479 IVDCIIRLPVKWE------TTTQFKATH-------ILD 503



 Score = 30.3 bits (68), Expect = 0.29
 Identities = 10/43 (23%), Positives = 11/43 (25%), Gaps = 15/43 (34%)

Query: 22  VYQNQDESTVLLVSFLQQAGEEI---------CLKVDWPQLLQ 55
           VY   D S       L+     I          L V W    Q
Sbjct: 459 VYDTFDGSD------LRVLSGSISERIVDCIIRLPVKWETTTQ 495



 Score = 28.0 bits (62), Expect = 1.4
 Identities = 22/145 (15%), Positives = 39/145 (26%), Gaps = 63/145 (43%)

Query: 19  FETVYQNQDESTVLLVSFLQQAGEEICLKVDWPQLLQEIKIDHWPFHLPQDYYRPLLGGA 78
           F  V    + +  L+  F  Q   +        + L+++             Y  L+G  
Sbjct: 146 FRAV---GEGNAQLVAIFGGQGNTDDYF-----EELRDL----------YQTYHVLVG-- 185

Query: 79  MVMLDLSLARPVINAVDWGIVKRISHTPWYWIDGRMIHLSINSPATFRYFSK-----NWI 133
               DL              +K  +          +  L   +    + F++      W+
Sbjct: 186 ----DL--------------IKFSA--------ETLSELIRTTLDAEKVFTQGLNILEWL 219

Query: 134 IDSNKEAKHHITADDDSTLLPTYLL 158
              N       T D D      YLL
Sbjct: 220 --ENPSN----TPDKD------YLL 232


>2g1p_A DNA adenine methylase; DAM methylation, GATC recognition, base
           flipping, bacterial virulence factor, transferase/DNA
           complex; HET: DNA SAH; 1.89A {Escherichia coli} PDB:
           2ore_D*
          Length = 278

 Score = 29.9 bits (66), Expect = 0.39
 Identities = 11/98 (11%), Positives = 30/98 (30%), Gaps = 6/98 (6%)

Query: 52  QLLQEIKIDHWPFHLPQDYYRPLLGGAMVMLDLSLARPVINAVD---WGIVKRISHTPWY 108
            LL +I   H P    +    P +G   V L+   +R ++  ++     +   +      
Sbjct: 16  PLLDDI-KRHLPKG--ECLVEPFVGAGSVFLNTDFSRYILADINSDLISLYNIVKMRTDE 72

Query: 109 WIDGRMIHLSINSPATFRYFSKNWIIDSNKEAKHHITA 146
           ++          +     Y+      + +++       
Sbjct: 73  YVQAARELFVPETNCAEVYYQFREEFNKSQDPFRRAVL 110


>2dpm_A M.dpnii 1, protein (adenine-specific methyltransferase dpnii 1);
           DNA adenine methyltransferase, methylase; HET: SAM;
           1.80A {Streptococcus pneumoniae} SCOP: c.66.1.28
          Length = 284

 Score = 29.1 bits (64), Expect = 0.67
 Identities = 21/98 (21%), Positives = 35/98 (35%), Gaps = 5/98 (5%)

Query: 52  QLLQEIKIDHWPFHLPQDYYRPLLGGAMVMLDLSLARPVINAVDWGIV---KRISHTPWY 108
           QLL  I  +  P      Y+ P +GG  +  DL+    VIN  +  ++   ++I   P  
Sbjct: 23  QLLPVI-RELIPKTY-NRYFEPFVGGGALFFDLAPKDAVINDFNAELINCYQQIKDNPQE 80

Query: 109 WIDGRMIHLSINSPATFRYFSKNWIIDSNKEAKHHITA 146
            I+   +H   NS   +         +          A
Sbjct: 81  LIEILKVHQEYNSKEYYLDLRSADRDERIDMMSEVQRA 118


>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
           photosynthetic reaction center, peripheral antenna; HET:
           CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
          Length = 154

 Score = 27.7 bits (60), Expect = 1.6
 Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 4/22 (18%)

Query: 139 EAKHHITADDDSTLLPTYLLIK 160
           +A   + ADD +   P  L IK
Sbjct: 26  QASLKLYADDSA---PA-LAIK 43


>2dce_A KIAA1915 protein; swirm domain, structural genomics, NPPSFA,
           national project on protein structural and functional
           analyses; NMR {Homo sapiens}
          Length = 111

 Score = 27.4 bits (61), Expect = 2.0
 Identities = 14/82 (17%), Positives = 26/82 (31%), Gaps = 7/82 (8%)

Query: 119 INSPATFRYFSKNWIIDSNKEAKHHITADDDSTLLPTYLLIKDII---WRWRRAQGLSFD 175
           +  P       +N I +  K+A         +     YL I++ I   W   + + L+  
Sbjct: 13  LKPPEQEIEIDRNIIQEEEKQAIPEFFEGRQAKTPERYLKIRNYILDQWEICKPKYLNKT 72

Query: 176 DCLRE----FDLALIAEKILWL 193
                     D+  I     +L
Sbjct: 73  SVRPGLKNCGDVNCIGRIHTYL 94


>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix,
            antiparallel-coiled-COI domain, ATP-binding, helicase,
            hydrolase; 3.39A {Saccharomyces cerevisiae}
          Length = 1108

 Score = 26.8 bits (58), Expect = 3.6
 Identities = 5/49 (10%), Positives = 17/49 (34%), Gaps = 2/49 (4%)

Query: 136  SNKEAKHHITADDDSTLLPTYLLIKDIIWRWRRAQGLSFDDCLREFDLA 184
            +       I   +   +      + ++++ W   +G +F    +  D+ 
Sbjct: 1009 AKIMKDSKIEVVEKDYVESFRHELMEVVYEW--CRGATFTQICKMTDVY 1055


>2hbw_A NLP/P60 protein; YP_323898.1, structural genomics, PSI-2, protein
           structure initiative, joint center for structural
           genomics; HET: UNL; 1.05A {Anabaena variabilis atcc
           29413} PDB: 2evr_A 2fg0_A
          Length = 235

 Score = 26.2 bits (57), Expect = 4.5
 Identities = 8/23 (34%), Positives = 11/23 (47%)

Query: 96  WGIVKRISHTPWYWIDGRMIHLS 118
           +G   + +H   Y  DG  IH S
Sbjct: 169 FGTPVKATHVGLYLGDGCYIHSS 191


>2jyx_A Lipoprotein SPR; solution structure, construct optimized, membrane,
           palmitate, structural genomics, PSI-2, protein structure
           initiative; NMR {Escherichia coli K12} PDB: 2k1g_A
          Length = 136

 Score = 26.2 bits (57), Expect = 4.8
 Identities = 5/25 (20%), Positives = 9/25 (36%)

Query: 94  VDWGIVKRISHTPWYWIDGRMIHLS 118
           V +       H   Y  + + +H S
Sbjct: 74  VLFRAGSTGRHVGIYIGNNQFVHAS 98


>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
           tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
           2.90A {Saccharomyces cerevisiae}
          Length = 1010

 Score = 25.9 bits (56), Expect = 5.5
 Identities = 5/46 (10%), Positives = 16/46 (34%), Gaps = 2/46 (4%)

Query: 139 EAKHHITADDDSTLLPTYLLIKDIIWRWRRAQGLSFDDCLREFDLA 184
                I   +   +      + ++++ W   +G +F    +  D+ 
Sbjct: 914 MKDSKIEVVEKDYVESFRHELMEVVYEW--CRGATFTQICKMTDVY 957


>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A
           {Saccharomyces cerevisiae} SCOP: a.4.1.18
          Length = 104

 Score = 25.9 bits (57), Expect = 6.2
 Identities = 7/44 (15%), Positives = 16/44 (36%), Gaps = 5/44 (11%)

Query: 155 TYLLIKD-IIWRWRR--AQGLSFDDCLREF--DLALIAEKILWL 193
            Y+  ++ ++  +R    +  S     R    D A +     +L
Sbjct: 48  VYMRYRNFMVNSYRLNPNEYFSVTTARRNVSGDAAALFRLHKFL 91


>3f1c_A Putative 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase
           2; structural genomics, PSI-2, protein structure
           initiative; 2.30A {Listeria monocytogenes str}
          Length = 246

 Score = 26.0 bits (56), Expect = 6.2
 Identities = 21/111 (18%), Positives = 37/111 (33%), Gaps = 10/111 (9%)

Query: 50  WPQLLQEIKIDHWPFHLPQDYYRPLLGGAMVMLDLSLAR------PVINAVDWGIVKRIS 103
              + +   +      +  D  RP L   ++  ++  A        VI A+D  IV+  +
Sbjct: 93  IRFVEKTYGLTDDDIIVTHDAVRPFLTHRIIEENIDAALETGAVDTVIEALD-TIVESSN 151

Query: 104 HTPWYWIDGRMIHLSINSPATFRYFS-KNWIIDSNKEAKHHITADDDSTLL 153
           H     I  R       +P +F      N   +   E K  +T  D   + 
Sbjct: 152 HEVITDIPVRDHMYQGQTPQSFNMKKVFNHYQNLTPEKKQILT--DACKIC 200


  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
   0.325    0.141    0.462 

Gapped
Lambda     K      H
   0.267   0.0574    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 1,859,821
Number of extensions: 84558
Number of successful extensions: 268
Number of sequences better than 10.0: 1
Number of HSP's gapped: 267
Number of HSP's successfully gapped: 22
Length of query: 195
Length of database: 5,693,230
Length adjustment: 87
Effective length of query: 108
Effective length of database: 3,584,002
Effective search space: 387072216
Effective search space used: 387072216
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (24.9 bits)