RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddB 
           21,608 sequences; 5,994,473 total letters

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

Query= gi|254780375|ref|YP_003064788.1| hypothetical protein
CLIBASIA_01300 [Candidatus Liberibacter asiaticus str. psy62]
         (175 letters)



>gnl|CDD|152532 pfam12097, DUF3573, Protein of unknown function (DUF3573).  This
           family of proteins is functionally uncharacterized. This
           protein is found in bacteria. Proteins in this family
           are typically between 372 to 530 amino acids in length.
          Length = 375

 Score = 31.0 bits (70), Expect = 0.16
 Identities = 32/136 (23%), Positives = 54/136 (39%), Gaps = 20/136 (14%)

Query: 8   YYYKKRDMLSQLLFLLFFFLQGFANQSYGDPTLVDREIQQYCTNVIDSVRERDYLSQKKV 67
            + KK  +L   L + F F  G +         V   IQQ  +N ID   ++D    +K 
Sbjct: 1   MFIKKLLILIFFLTISFLFFIGRSYA-------VVNAIQQTDSNQID---KKDISKLQKQ 50

Query: 68  LEDLQKDIEQRVILLENHKKEYNLWFQKYDSFIMSYNKNILDIYKKMDSDSAALQLEQID 127
           ++ LQ  I        NH +E             +Y+  + D     + ++  L L Q +
Sbjct: 51  IKSLQAQI--------NHLEEQTNSNLSSQ--FATYSSKVNDSTLTGNGETKVLSLGQRN 100

Query: 128 PDISSHILMRLSPRQS 143
            +I+S I+   +  QS
Sbjct: 101 NNIASDIMSNETFDQS 116


>gnl|CDD|162740 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily
            archaeal type.  SMC (structural maintenance of
            chromosomes) proteins bind DNA and act in organizing and
            segregating chromosomes for partition. SMC proteins are
            found in bacteria, archaea, and eukaryotes. It is found
            in a single copy and is homodimeric in prokaryotes, but
            six paralogs (excluded from this family) are found in
            eukarotes, where SMC proteins are heterodimeric. This
            family represents the SMC protein of archaea and a few
            bacteria (Aquifex, Synechocystis, etc); the SMC of other
            bacteria is described by TIGR02168. The N- and C-terminal
            domains of this protein are well conserved, but the
            central hinge region is skewed in composition and highly
            divergent.
          Length = 1164

 Score = 30.4 bits (69), Expect = 0.23
 Identities = 21/101 (20%), Positives = 48/101 (47%), Gaps = 13/101 (12%)

Query: 43   REIQQYCTNVIDSVRER--DYLSQKKVLEDLQKDIEQRVILLENHKKEYNLWFQKYDSFI 100
              IQ+Y     + V +R  +   ++  LE+ +K I +R+   E  K+E  ++ + +++  
Sbjct: 976  LAIQEY-----EEVLKRLDELKEKRAKLEEERKAILERIEEYEKKKRE--VFMEAFEAI- 1027

Query: 101  MSYNKNILDIYKKMDSDSAALQLEQIDPDISSHILMRLSPR 141
               N+N  +I+ ++   +  L LE  D   +  + +   P+
Sbjct: 1028 ---NENFNEIFAELSGGTGELILENPDDPFAGGLELSAKPK 1065


>gnl|CDD|168632 PRK06633, PRK06633, acetyl-CoA acetyltransferase; Provisional.
          Length = 392

 Score = 26.9 bits (59), Expect = 2.7
 Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 14/75 (18%)

Query: 80  ILLENHKKEYNLWFQKYDSFIMSYNKN-------------ILDIYKKMDSDSAALQL-EQ 125
           I  EN  K++N+  Q+ D F +S +K              IL I   +   ++     E 
Sbjct: 159 ITAENISKQFNISRQEQDEFALSSHKKAAKAQLAGIFKDEILPIEVTIKKTTSLFDHDET 218

Query: 126 IDPDISSHILMRLSP 140
           + PD S  IL +L P
Sbjct: 219 VRPDTSLEILSKLRP 233


>gnl|CDD|185341 PRK15444, pduC, propanediol dehydratase large subunit; Provisional.
          Length = 554

 Score = 26.9 bits (60), Expect = 2.8
 Identities = 20/79 (25%), Positives = 37/79 (46%), Gaps = 7/79 (8%)

Query: 78  RVILLENHKKEYNLWFQKYDSFIMSYNKNILDIYKKMDSDSAALQLEQIDPDISSHILMR 137
           +V+ L+   +E    F   D FI  Y  ++    + M  DS  L    +DP++    ++R
Sbjct: 47  KVVELDGKPRED---FDLIDHFIARYGIDLERAEEVMAMDSVKLARMLVDPNVPREEIVR 103

Query: 138 L----SPRQSSLIMSKMNP 152
           L    +P +   ++S+MN 
Sbjct: 104 LTTAMTPAKIVEVVSQMNV 122


>gnl|CDD|180417 PRK06132, PRK06132, hypothetical protein; Provisional.
          Length = 359

 Score = 26.9 bits (60), Expect = 3.2
 Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 1/34 (2%)

Query: 115 DSDSAALQLEQIDPDISSHILMRLSPRQSSLIMS 148
           DS + AL    I PD    I   L+P  S+L+++
Sbjct: 308 DSPAEALDRITIPPDFRRRIAALLTP-GSTLVIT 340


>gnl|CDD|161765 TIGR00207, fliG, flagellar motor switch protein FliG.  The fliG
           protein along with fliM and fliN interact to form the
           switch complex of the bacterial flagellar motor located
           at the base of the basal body. This complex interacts
           with chemotaxis proteins (eg CHEY). In addition the
           complex interacts with other components of the motor
           that determine the direction of flagellar rotation. The
           model contains putative members of the fliG family at
           scores of less than 100 from Agrobacterium radiobacter
           and Sinorhizobium meliloti as well as fliG-like genes
           from treponema pallidum and Borrelia burgdorferi. That
           is why the suggested cutoff is set at 20 but was set at
           100 to construct the family.
          Length = 338

 Score = 26.3 bits (58), Expect = 3.9
 Identities = 13/58 (22%), Positives = 25/58 (43%)

Query: 108 LDIYKKMDSDSAALQLEQIDPDISSHILMRLSPRQSSLIMSKMNPKSATMITNVVANM 165
            +  +K +    A  ++Q  P   + IL  L P Q++ I+S    +    +   +A M
Sbjct: 112 FEFLRKAEPQQIADFIQQEHPQTIALILSHLDPAQAADILSLFPEEVQAEVARRIATM 169


>gnl|CDD|183821 PRK12899, secA, preprotein translocase subunit SecA; Reviewed.
          Length = 970

 Score = 26.3 bits (58), Expect = 4.1
 Identities = 20/83 (24%), Positives = 35/83 (42%), Gaps = 8/83 (9%)

Query: 66  KVLEDLQKDIEQRVILLENHKKEYNLWFQKYDSFIMSYNKNIL---DIYKKMDSDSAALQ 122
           +++E  QK +E R   +  H  EY+    K    I ++  ++L   DI+       A   
Sbjct: 715 RLIETAQKRVEGRNYTIRKHTLEYDDVMNKQRQTIYAFRNDVLHAEDIF-----VVAKEI 769

Query: 123 LEQIDPDISSHILMRLSPRQSSL 145
           +E +   ++S IL        SL
Sbjct: 770 IEHVALMLASLILKDRHADGCSL 792


>gnl|CDD|183409 PRK12291, PRK12291, apolipoprotein N-acyltransferase; Reviewed.
          Length = 418

 Score = 26.1 bits (58), Expect = 5.1
 Identities = 20/89 (22%), Positives = 40/89 (44%), Gaps = 8/89 (8%)

Query: 1   MILLPIIYYYKKRDMLSQLLFLLFFFLQGFANQSYGDPTLVDREIQQYCTNVIDSVR-ER 59
           + L  I  Y K +     +  LL  F   F      D  LV+ E+    TN+   ++ ++
Sbjct: 155 IFLAAIFLYKKYKKKYKIIGVLLLLFALDFKPFKTSDLPLVNIELVN--TNIPQDLKWDK 212

Query: 60  DYLSQ--KKVLEDLQKDIEQR---VILLE 83
           + L     + L+++ K I+++   ++L E
Sbjct: 213 ENLKSIINENLKEIDKAIDEKKDLIVLPE 241


>gnl|CDD|117782 pfam09231, RDV-p3, Rice dwarf virus p3.  Members of this family are
           core structural proteins found in the double-stranded
           RNA virus Phytoreovirus. They are large proteins without
           apparent domain division, with a number of all-alpha
           regions and one all beta domain near the C-terminal end.
          Length = 963

 Score = 25.7 bits (56), Expect = 6.9
 Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 14/64 (21%)

Query: 98  SFIMSYNKNILDIYKKMDSDSAALQLEQIDPDISSHILMRLSPRQSSLIMSKMNPKSATM 157
           +FI+SY K+I D +  ++ DSA       +P ++ H +         +I S +N   A M
Sbjct: 43  TFIVSYAKDIYDKFMCIEHDSA------YEPSLTMHRV--------RVIYSMLNDYCAKM 88

Query: 158 ITNV 161
           I+ V
Sbjct: 89  ISEV 92


>gnl|CDD|182988 PRK11133, serB, phosphoserine phosphatase; Provisional.
          Length = 322

 Score = 25.7 bits (57), Expect = 7.4
 Identities = 9/14 (64%), Positives = 11/14 (78%)

Query: 114 MDSDSAALQLEQID 127
           MD DS A+Q+E ID
Sbjct: 115 MDMDSTAIQIECID 128


>gnl|CDD|150912 pfam10316, 7TM_GPCR_Srbc, Serpentine type 7TM GPCR chemoreceptor
           Srbc.  Chemoreception is mediated in Caenorhabditis
           elegans by members of the seven-transmembrane
           G-protein-coupled receptor class (7TM GPCRs) of proteins
           which are of the serpentine type. Srbc is a solo family
           amongst the superfamilies of chemoreceptors.
           Chemoperception is one of the central senses of soil
           nematodes like C. elegans which are otherwise 'blind'
           and 'deaf'.
          Length = 273

 Score = 25.2 bits (56), Expect = 8.4
 Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 13/50 (26%)

Query: 7   IYYYKKRDMLSQLLFLLFFFLQGFANQS--YGDPTLVDREIQQYCTNVID 54
           I+Y+  R  +   + L+     G   Q   +G           +C NVID
Sbjct: 114 IFYHNYRPKIPNFIILILAISYGLFEQYVLFG-----------FCDNVID 152


>gnl|CDD|185659 PTZ00481, PTZ00481, Membrane attack complex/ Perforin (MACPF)
           Superfamily; Provisional.
          Length = 524

 Score = 25.5 bits (56), Expect = 8.5
 Identities = 13/36 (36%), Positives = 21/36 (58%), Gaps = 2/36 (5%)

Query: 41  VDREIQQYCTNVIDSVRERDYLSQKKVLEDLQKDIE 76
           V   +QQ   N I+S+++R    Q++V E  Q+ IE
Sbjct: 335 VKANLQQAIMNRIESMKQRQISYQQQVRE--QRRIE 368


>gnl|CDD|178117 PLN02501, PLN02501, digalactosyldiacylglycerol synthase.
          Length = 794

 Score = 25.3 bits (55), Expect = 8.8
 Identities = 11/44 (25%), Positives = 18/44 (40%)

Query: 98  SFIMSYNKNILDIYKKMDSDSAALQLEQIDPDISSHILMRLSPR 141
           S   S     +D  KK+    +  +     P+IS  +L +  PR
Sbjct: 68  SPSASSFPTEIDFVKKLQPKISEFRRVYSAPEISRKVLEKWGPR 111


>gnl|CDD|100796 PRK01156, PRK01156, chromosome segregation protein; Provisional.
          Length = 895

 Score = 25.2 bits (55), Expect = 9.5
 Identities = 23/103 (22%), Positives = 47/103 (45%), Gaps = 6/103 (5%)

Query: 60  DYLSQKKVLEDLQKDIEQRVILLENHKKEYNLWFQKYDSFIMSYNKNILDIYKKMDSDSA 119
           DY+ +K   +DL   I +    LE ++ +YN + +  +S      +   +I +     S 
Sbjct: 340 DYIKKKSRYDDLNNQILE----LEGYEMDYNSYLKSIESLKKKIEEYSKNIERMSAFISE 395

Query: 120 ALQLEQIDPDISSHIL--MRLSPRQSSLIMSKMNPKSATMITN 160
            L++++IDPD     L  + +  +  S  +S +N +   +  N
Sbjct: 396 ILKIQEIDPDAIKKELNEINVKLQDISSKVSSLNQRIRALREN 438


  Database: CddB
    Posted date:  Feb 4, 2011  9:54 PM
  Number of letters in database: 5,994,473
  Number of sequences in database:  21,608
  
Lambda     K      H
   0.322    0.136    0.379 

Gapped
Lambda     K      H
   0.267   0.0697    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,808,835
Number of extensions: 171501
Number of successful extensions: 470
Number of sequences better than 10.0: 1
Number of HSP's gapped: 466
Number of HSP's successfully gapped: 41
Length of query: 175
Length of database: 5,994,473
Length adjustment: 87
Effective length of query: 88
Effective length of database: 4,114,577
Effective search space: 362082776
Effective search space used: 362082776
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 54 (24.6 bits)