RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780564|ref|YP_003064977.1| hypothetical protein
CLIBASIA_02255 [Candidatus Liberibacter asiaticus str. psy62]
         (107 letters)



>gnl|CDD|183039 PRK11205, tbpA, thiamine transporter substrate binding subunit;
           Provisional.
          Length = 330

 Score = 36.9 bits (86), Expect = 0.001
 Identities = 14/41 (34%), Positives = 22/41 (53%)

Query: 37  VGGIAESSKKKSVATQFLRFLLLPIVQQYIATALGEYPIIK 77
           V     +SK+  +A +FL+F++ P  Q  I T    YP+ K
Sbjct: 249 VAARTAASKQPELAQKFLQFMVSPAFQNAIPTGNWMYPVAK 289


>gnl|CDD|130321 TIGR01254, sfuA, ABC transporter periplasmic binding protein, thiB
           subfamily.  The model describes thiamine ABC
           transporter, periplasmic protein in bacteria and archae.
           The protein belongs to the larger ABC transport system.
           It consists of at least three components: the thiamine
           binding periplasmic protein; an inner membrane permease;
           an ATP-binding subunit. It has been experimentally
           demonstrated that the mutants in the various steps in
           the de novo synthesis of the thiamine and the
           biologically active form, namely thiamine pyrophosphate
           can be exogenously supplemented with thiamine, thiamine
           monophosphate (TMP) or thiamine pyrophosphate (TPP).
          Length = 304

 Score = 36.4 bits (84), Expect = 0.002
 Identities = 16/51 (31%), Positives = 27/51 (52%)

Query: 30  GNILCSTVGGIAESSKKKSVATQFLRFLLLPIVQQYIATALGEYPIIKGII 80
           G+ L        + +K+  +A +F++FLL P VQ  I T    YP++ G +
Sbjct: 222 GHYLQVEGAARLKGAKQPELADKFVQFLLSPAVQNAIPTGNWMYPVVNGTL 272


>gnl|CDD|130343 TIGR01276, thiB, thiamine ABC transporter, periplasmic binding
           protein.  This model finds the thiamine (and thiamine
           pyrophosphate) ABC transporter periplasmic binding
           protein ThiB in proteobacteria. Completed genomes having
           this protein (E. coli, Vibrio cholera, Haemophilus
           influenzae) also have the permease ThiP, described by
           TIGRFAMs equivalog model TIGR01253.
          Length = 309

 Score = 33.1 bits (75), Expect = 0.016
 Identities = 16/51 (31%), Positives = 25/51 (49%)

Query: 30  GNILCSTVGGIAESSKKKSVATQFLRFLLLPIVQQYIATALGEYPIIKGII 80
           G+ L   V     +SK+  +A +FL+FL+ P  Q  I T    YP+    +
Sbjct: 221 GHYLQVEVAARTAASKQPELAQKFLQFLVSPAFQNAIPTGNWMYPVANVTL 271


>gnl|CDD|177754 PLN00151, PLN00151, potassium transporter; Provisional.
          Length = 852

 Score = 28.6 bits (64), Expect = 0.35
 Identities = 12/24 (50%), Positives = 16/24 (66%)

Query: 67  ATALGEYPIIKGIITNRKFNDQTY 90
           + ALG +P +K I T+RKF  Q Y
Sbjct: 447 SMALGCFPRLKIIHTSRKFMGQIY 470


>gnl|CDD|180534 PRK06341, PRK06341, single-stranded DNA-binding protein;
           Provisional.
          Length = 166

 Score = 25.9 bits (57), Expect = 2.2
 Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 2/42 (4%)

Query: 58  LLPIVQQYIATALGEYPIIKGIITNRKFNDQTYTNRESFELI 99
           L  + +QY+      Y  I+G +  RK+ DQ+   R S E++
Sbjct: 64  LCKVAEQYLKKGAKVY--IEGQLQTRKWTDQSGVERYSTEVV 103


>gnl|CDD|162407 TIGR01537, portal_HK97, phage portal protein, HK97 family.  This
           model represents one of several distantly related
           families of phage portal protein. This protein forms a
           hole, or portal, that enables DNA passage during
           packaging and ejection. It also forms the junction
           between the phage head (capsid) and the tail proteins.
           It functions as a dodecamer of a single polypeptide of
           average mol. wt. of 40-90 KDa.
          Length = 341

 Score = 25.8 bits (57), Expect = 2.7
 Identities = 11/47 (23%), Positives = 16/47 (34%), Gaps = 12/47 (25%)

Query: 52  QFLRFLLLPIVQQYIATALGEYPIIKGIITNRKFNDQTYTNRESFEL 98
            FLRF L PI++Q                 NRK   ++       + 
Sbjct: 265 DFLRFTLNPIIEQIEQE------------LNRKLLTESEREGYYIKF 299


>gnl|CDD|180777 PRK06958, PRK06958, single-stranded DNA-binding protein;
           Provisional.
          Length = 182

 Score = 25.5 bits (56), Expect = 3.1
 Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 2/42 (4%)

Query: 58  LLPIVQQYIATALGEYPIIKGIITNRKFNDQTYTNRESFELI 99
           L  IV +Y+      Y  I+G I  RK+  Q   +R S E++
Sbjct: 62  LAEIVGEYLKKGSSVY--IEGRIRTRKWQGQDGQDRYSTEIV 101


>gnl|CDD|178361 PLN02761, PLN02761, lipase class 3 family protein.
          Length = 527

 Score = 25.0 bits (54), Expect = 4.3
 Identities = 9/17 (52%), Positives = 10/17 (58%)

Query: 74  PIIKGIITNRKFNDQTY 90
           P + GI TN KF  Q Y
Sbjct: 369 PSVPGIFTNEKFQFQKY 385


>gnl|CDD|131755 TIGR02708, L_lactate_ox, L-lactate oxidase.  Members of this
           protein oxidize L-lactate to pyruvate, reducing
           molecular oxygen to hydrogen peroxide. The enzyme is
           known in Aerococcus viridans, Streptococcus iniae, and
           some strains of Streptococcus pyogenes where it appears
           to contribute to virulence.
          Length = 367

 Score = 24.9 bits (54), Expect = 4.8
 Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 4/37 (10%)

Query: 35  STVGGIAESSKKKSVATQFLRFLLLPIVQQYIATALG 71
           +TVGG  E   +      F+  + +PIVQ+Y+ T  G
Sbjct: 169 ATVGGNREVDVR----NGFVFPVGMPIVQEYLPTGAG 201


>gnl|CDD|182645 PRK10682, PRK10682, putrescine transporter subunit:
           periplasmic-binding component of ABC superfamily;
           Provisional.
          Length = 370

 Score = 24.4 bits (53), Expect = 6.3
 Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 3/54 (5%)

Query: 17  VSVSYTPFLPKDIGNILCSTVGGIAESSKKKSVATQFLRFLLLPIVQQYIATAL 70
           V+VSY+  +PK+ G +    V  +   +K K  A QFL +LL P V  +I+  +
Sbjct: 262 VNVSYS--IPKE-GALAFFDVFAMPADAKNKDEAYQFLNYLLRPDVIAHISDHV 312


>gnl|CDD|182743 PRK10801, PRK10801, colicin uptake protein TolQ; Provisional.
          Length = 227

 Score = 24.4 bits (53), Expect = 6.6
 Identities = 25/96 (26%), Positives = 39/96 (40%), Gaps = 13/96 (13%)

Query: 9   IFKNHHSEVSVSYTPFLPKDIGNI-----LCSTVGGIAESSKKKSVATQFLRFLLLP-IV 62
           I  N   E   ++ PFL   +G+I     L  TV GI  +        Q    ++ P I 
Sbjct: 111 ISMNRELETLETHIPFL-GTVGSISPYIGLFGTVWGIMHAFIALGAVKQATLQMVAPGIA 169

Query: 63  QQYIATALGEYPIIKGIITNRKFN------DQTYTN 92
           +  IATA+G +  I  ++   + N      +  Y N
Sbjct: 170 EALIATAIGLFAAIPAVMAYNRLNQRVNKLELNYDN 205


>gnl|CDD|178696 PLN03151, PLN03151, cation/calcium exchanger; Provisional.
          Length = 650

 Score = 24.3 bits (53), Expect = 7.9
 Identities = 9/16 (56%), Positives = 13/16 (81%)

Query: 4   ASSVAIFKNHHSEVSV 19
           AS+VAI+ NH ++ SV
Sbjct: 352 ASNVAIYSNHFAKGSV 367


>gnl|CDD|162408 TIGR01538, portal_SPP1, phage portal protein, SPP1 family.  This
           model represents one of several distantly related
           families of phage portal protein. This protein forms a
           hole, or portal, that enables DNA passage during
           packaging and ejection. It also forms the junction
           between the phage head (capsid) and the tail proteins.
           It functions as a dodecamer of a single polypeptide of
           average mol. wt. of 40-90 KDa.
          Length = 412

 Score = 24.0 bits (52), Expect = 8.9
 Identities = 12/49 (24%), Positives = 22/49 (44%), Gaps = 7/49 (14%)

Query: 15  SEVSVSYTPFLPKDIGNILCSTVGGIAESSKKKSVATQFLRFLLLPIVQ 63
            E+ +++T   PK++  I+ S        S++ +VA         P VQ
Sbjct: 369 KELKITFTRNRPKNLSEIVESLKQLGGIMSQETAVA-------RNPFVQ 410


>gnl|CDD|148278 pfam06576, DUF1133, Protein of unknown function (DUF1133).  This
           family consists of a number of hypothetical proteins
           from Escherichia coli O157:H7 and Salmonella typhi. The
           function of this family is unknown.
          Length = 176

 Score = 24.1 bits (52), Expect = 9.0
 Identities = 8/23 (34%), Positives = 13/23 (56%)

Query: 61  IVQQYIATALGEYPIIKGIITNR 83
            + + I+  LGEYP +  I+  R
Sbjct: 103 KIDRVISEVLGEYPGLISILRQR 125


  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
   0.318    0.133    0.374 

Gapped
Lambda     K      H
   0.267   0.0594    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 1,594,270
Number of extensions: 83432
Number of successful extensions: 168
Number of sequences better than 10.0: 1
Number of HSP's gapped: 168
Number of HSP's successfully gapped: 18
Length of query: 107
Length of database: 5,994,473
Length adjustment: 73
Effective length of query: 34
Effective length of database: 4,417,089
Effective search space: 150181026
Effective search space used: 150181026
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 (21.7 bits)
S2: 50 (23.3 bits)