RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254781156|ref|YP_003065569.1| hypothetical protein
CLIBASIA_05315 [Candidatus Liberibacter asiaticus str. psy62]
         (154 letters)



>gnl|CDD|177864 PLN02217, PLN02217, probable pectinesterase/pectinesterase
           inhibitor.
          Length = 670

 Score = 30.1 bits (67), Expect = 0.28
 Identities = 18/82 (21%), Positives = 30/82 (36%)

Query: 47  PFTKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGSAPQSHVNVSSPHYKHEYSSSSASSST 106
           P   ++  N + S+   +T   P  S      GS P +   + SP      S   + S+T
Sbjct: 573 PTGSAASSNTTFSSDSPSTVVAPSTSPPAGHLGSPPATPSKIVSPSTSPPASHLGSPSTT 632

Query: 107 HASPPPHFEQKHISRTRIDSSP 128
            +SP    +         +SS 
Sbjct: 633 PSSPESSIKVASTETASPESSI 654


>gnl|CDD|162656 TIGR02005, PTS-IIBC-alpha, PTS system, alpha-glucoside-specific
           IIBC component.  This model represents a family of fused
           PTS enzyme II B and C domains. A gene from Clostridium
           has been partially characterized as a maltose
           transporter, while genes from Fusobacterium and
           Klebsiella have been proposed to transport the five
           non-standard isomers of sucrose.
          Length = 524

 Score = 28.2 bits (63), Expect = 0.82
 Identities = 13/31 (41%), Positives = 15/31 (48%), Gaps = 2/31 (6%)

Query: 4   NLLTSTSSLMFFFLSSGYALSGSS--FGCCG 32
               ST  L   F   G+AL G+S  FGC G
Sbjct: 259 EFAKSTKPLKELFPYGGFALHGNSKVFGCLG 289


>gnl|CDD|162989 TIGR02729, Obg_CgtA, Obg family GTPase CgtA.  This model describes
           a univeral, mostly one-gene-per-genome GTP-binding
           protein that associates with ribosomal subunits and
           appears to play a role in ribosomal RNA maturation. This
           GTPase, related to the nucleolar protein Obg, is
           designated CgtA in bacteria. Mutations in this gene are
           pleiotropic, but it appears that effects on cellular
           functions such as chromosome partition may be secondary
           to the effect on ribosome structure. Recent work done in
           Vibrio cholerae shows an essential role in the stringent
           response, in which RelA-dependent ability to synthesize
           the alarmone ppGpp is required for deletion of this
           GTPase to be lethal.
          Length = 329

 Score = 27.0 bits (61), Expect = 2.0
 Identities = 19/44 (43%), Positives = 22/44 (50%), Gaps = 8/44 (18%)

Query: 117 KHISRTR-----IDSSPPPGHIDPHPDH--IRNTLALHRKMLEQ 153
           KHI RTR     ID SP  G  DP  D+  IRN L  +   L +
Sbjct: 231 KHIERTRVLLHLIDISPLDGR-DPIEDYEIIRNELKKYSPELAE 273


>gnl|CDD|131857 TIGR02810, agaZ_gatZ, D-tagatose-bisphosphate aldolase, class II,
           non-catalytic subunit.  Aldolases specific for
           D-tagatose-bisphosphate occur in distinct pathways in
           Escherichia coli and other bacteria, one for the
           degradation of galactitol (formerly dulcitol) and one
           for degradation of N-acetyl-galactosamine and
           D-galactosamine. This family represents a protein of
           both systems that behaves as a non-catalytic subunit of
           D-tagatose-bisphosphate aldolase, required both for full
           activity and for good stability of the aldolase. Note
           that members of this protein family appear in public
           databases annotated as putative tagatose 6-phosphate
           kinases, possibly in error.
          Length = 420

 Score = 26.6 bits (59), Expect = 2.8
 Identities = 7/18 (38%), Positives = 8/18 (44%)

Query: 136 HPDHIRNTLALHRKMLEQ 153
            P+  R TL  HRK    
Sbjct: 189 TPEAARATLRAHRKAFAA 206


>gnl|CDD|165527 PHA03269, PHA03269, envelope glycoprotein C; Provisional.
          Length = 566

 Score = 26.2 bits (57), Expect = 3.9
 Identities = 21/104 (20%), Positives = 34/104 (32%), Gaps = 9/104 (8%)

Query: 41  PRIHMRPFTKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGS-APQSHVNVSSPHYKHEYSS 99
           P +   P   +S   +          R PD +       +  P +    +S    HE  +
Sbjct: 68  PDLAQAPTPAASEKFDPAPAPHQAASRAPDPAVAPQLAAAPKPDAAEAFTSAAQAHEAPA 127

Query: 100 SSASSSTHASPPPHFEQKHISRTRIDSSPPPGHIDPHPDHIRNT 143
            + +S+    P P    +H        SPPP       +HI  T
Sbjct: 128 DAGTSAASKKPDPAAHTQH--------SPPPFAYTRSMEHIACT 163


>gnl|CDD|181333 PRK08262, PRK08262, hypothetical protein; Provisional.
          Length = 486

 Score = 25.7 bits (57), Expect = 5.1
 Identities = 12/44 (27%), Positives = 21/44 (47%), Gaps = 3/44 (6%)

Query: 107 HAS-PPPHFEQKHISR--TRIDSSPPPGHIDPHPDHIRNTLALH 147
           H+S PP       ++R  TR++ +P P  +      + +TLA  
Sbjct: 254 HSSMPPRQTAIGRLARALTRLEDNPLPMRLRGPVAEMFDTLAPE 297


>gnl|CDD|150276 pfam09547, Spore_IV_A, Stage IV sporulation protein A (spore_IV_A).
            SpoIVA is designated stage IV sporulation protein A. It
           acts in the mother cell compartment and plays a role in
           spore coat morphogenesis. A comparative genome analysis
           of all sequenced genomes of Firmicutes shows that the
           proteins are strictly conserved among the sub-set of
           endospore-forming species.
          Length = 492

 Score = 25.6 bits (57), Expect = 5.3
 Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 4/22 (18%)

Query: 24  SGSSFGCCGEFKKKASSPRIHM 45
            G+ FG     K KAS+P +HM
Sbjct: 385 QGNRFG----VKLKASAPSLHM 402


>gnl|CDD|180523 PRK06305, PRK06305, DNA polymerase III subunits gamma and tau;
           Validated.
          Length = 451

 Score = 25.1 bits (55), Expect = 8.6
 Identities = 18/77 (23%), Positives = 24/77 (31%), Gaps = 6/77 (7%)

Query: 42  RIHMRPFTKSSPYNNSVSNTVNNTPRVPDVSEMNSSRGSAPQSHVNVSSPHYKHEYSSSS 101
           RI+ RP       +  VS   +       +        S+      VSSP  +       
Sbjct: 348 RIYQRP-----TLSQLVSQIKSPAFTQLRLESCPPQIKSSNSQQT-VSSPQPQPVAKLEQ 401

Query: 102 ASSSTHASPPPHFEQKH 118
            S  T ASP    E  H
Sbjct: 402 GSLLTAASPQTKKETIH 418


>gnl|CDD|130992 TIGR01937, nqrB, NADH:ubiquinone oxidoreductase,
           Na(+)-translocating, B subunit.  This model represents
           the NqrB subunit of the six-protein, Na(+)-pumping
           NADH-quinone reductase of a number of marine and
           pathogenic Gram-negative bacteria. This oxidoreductase
           complex functions primarily as a sodium ion pump.
          Length = 413

 Score = 25.1 bits (55), Expect = 8.6
 Identities = 7/22 (31%), Positives = 11/22 (50%)

Query: 130 PGHIDPHPDHIRNTLALHRKML 151
           PG     P H+R+ +   R M+
Sbjct: 35  PGRTTSKPPHVRDAVDSKRWMI 56


>gnl|CDD|178310 PLN02708, PLN02708, Probable pectinesterase/pectinesterase
           inhibitor.
          Length = 553

 Score = 24.8 bits (54), Expect = 9.7
 Identities = 9/33 (27%), Positives = 13/33 (39%)

Query: 84  SHVNVSSPHYKHEYSSSSASSSTHASPPPHFEQ 116
           S  + S+ H+ H   S S    +  S PP    
Sbjct: 17  SPSSSSNRHHHHHTPSPSPPPPSSPSTPPQILL 49


  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
   0.311    0.124    0.365 

Gapped
Lambda     K      H
   0.267   0.0613    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,371,079
Number of extensions: 123528
Number of successful extensions: 240
Number of sequences better than 10.0: 1
Number of HSP's gapped: 235
Number of HSP's successfully gapped: 25
Length of query: 154
Length of database: 5,994,473
Length adjustment: 85
Effective length of query: 69
Effective length of database: 4,157,793
Effective search space: 286887717
Effective search space used: 286887717
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.4 bits)