RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780459|ref|YP_003064872.1| hypothetical protein
CLIBASIA_01720 [Candidatus Liberibacter asiaticus str. psy62]
         (129 letters)



>gnl|CDD|150271 pfam09538, FYDLN_acid, Protein of unknown function (FYDLN_acid).
           Members of this family are bacterial proteins with a
           conserved motif [KR]FYDLN, sometimes flanked by a pair
           of CXXC motifs, followed by a long region of low
           complexity sequence in which roughly half the residues
           are Asp and Glu, including multiple runs of five or more
           acidic residues. The function of members of this family
           is unknown.
          Length = 104

 Score = 62.7 bits (153), Expect = 3e-11
 Identities = 37/108 (34%), Positives = 55/108 (50%), Gaps = 5/108 (4%)

Query: 1   MAKPELGTKRTCPDTGKRFYDLNKQVIVSPYTQNSWPLAYFEAPTSPEKEKEICSLEEET 60
           MAKPE GTKRTCP  GKRFYDLNK  IV P      P    ++       ++    +EE 
Sbjct: 1   MAKPEWGTKRTCPTCGKRFYDLNKDPIVCPKCGEEVPPEVAKSRAPAADAEDAAKKDEEE 60

Query: 61  EVKPFVKHTSEEEEESPISKEEDDTSLDMEYVQEMDLDDDDDFLEQND 108
           E +  V    +++++     ++DD     +   ++D DDDD   + +D
Sbjct: 61  EDEDDVVLDDDDDDD-----DDDDLPDLDDDDVDLDDDDDDFLEDDDD 103


>gnl|CDD|131353 TIGR02300, FYDLN_acid, conserved hypothetical protein TIGR02300.
           Members of this family are bacterial proteins with a
           conserved motif [KR]FYDLN, sometimes flanked by a pair
           of CXXC motifs, followed by a long region of low
           complexity sequence in which roughly half the residues
           are Asp and Glu, including multiple runs of five or more
           acidic residues. The function of members of this family
           is unknown.
          Length = 129

 Score = 51.9 bits (124), Expect = 4e-08
 Identities = 39/123 (31%), Positives = 65/123 (52%), Gaps = 3/123 (2%)

Query: 1   MAKPELGTKRTCPDTGKRFYDLNKQVIVSPYTQNSWPLAYFEAPT---SPEKEKEICSLE 57
           MAKP+LGTKR CP+TG +FYDLN++  VSPYT   +P           + ++++ +   E
Sbjct: 1   MAKPDLGTKRICPNTGSKFYDLNRRPAVSPYTGEQFPPEEALKSRRVRADDEKEAVAVKE 60

Query: 58  EETEVKPFVKHTSEEEEESPISKEEDDTSLDMEYVQEMDLDDDDDFLEQNDTDTDTDVVD 117
            + E+    +  S EE +  +       +   +  ++ D+ DDDD +   + + D D+ D
Sbjct: 61  VDPEIDEAAELVSLEEADEEVDPGAPTPAGGDDLAEDEDIADDDDDVTFLEDEEDDDIDD 120

Query: 118 MDI 120
            DI
Sbjct: 121 EDI 123


>gnl|CDD|116469 pfam07857, DUF1632, CEO family (DUF1632).  These sequences are
           found in hypothetical eukaryotic proteins of unknown
           function. The region concerned is approximately 280
           residues long. This family has been termed the CEO
           family for C. elegans ORF.
          Length = 254

 Score = 28.2 bits (63), Expect = 0.58
 Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 8/48 (16%)

Query: 65  FVKHTSEEEEESPISKEEDDTSLDMEYVQEMDLDDDDDFLEQNDTDTD 112
           F+K      EE+   K  D TSL++E+  E+   + D      D+D D
Sbjct: 134 FIKS-----EETEPEKRYDRTSLELEHQDEI---EQDLSNATEDSDFD 173


>gnl|CDD|151022 pfam10446, DUF2457, Protein of unknown function (DUF2457).  This is
           a family of uncharacterized proteins.
          Length = 447

 Score = 28.4 bits (63), Expect = 0.61
 Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 9/71 (12%)

Query: 49  KEKEICSLEEETEVKPFVKHTSEEEEESPISKEEDDTSLDMEYVQEMDLDDDDDFLEQND 108
           KE  I  L +E E         EE  E     E+DD   D +   + D DDD+D  +++D
Sbjct: 34  KENAIRKLGKEAE---------EEAMEEEDDDEDDDDDDDDDDEDDDDDDDDEDDDDEDD 84

Query: 109 TDTDTDVVDMD 119
            D D+ + D  
Sbjct: 85  DDDDSTLHDGS 95


>gnl|CDD|131585 TIGR02533, type_II_gspE, general secretory pathway protein E.  This
           family describes GspE, the E protein of the type II
           secretion system, also called the main terminal branch
           of the general secretion pathway. This model separates
           GspE from the PilB protein of type IV pilin
           biosynthesis.
          Length = 486

 Score = 27.3 bits (61), Expect = 1.1
 Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 6/59 (10%)

Query: 69  TSEEEEESPISKEEDDTSLDM-EYVQEMDLDDDDDFLEQNDTDTDTDVVDMDISIPDDA 126
            +  E +  I+     T     + V+E++ +DD   LE  D     D++D++    DDA
Sbjct: 53  ATASEIDDAINSVYARTGSAAAQIVEEIEGEDDLSALEL-DEPKIEDLLDLE----DDA 106


>gnl|CDD|162051 TIGR00811, sit, silicon transporter.  Marine diatoms such as
           Cylindrotheca fusiformis encode at least six silicon
           transport protein homologues which exhibit similar size
           and topology. One characterized member of the family
           (Sit1) functions in the energy-dependent uptake of
           either Silicic acid [Si(OH)4] or Silicate [Si(OH)3O-] by
           a Na+ symport mechanism. The system is found in marine
           diatoms which make their "glass houses" out of silicon.
          Length = 545

 Score = 26.1 bits (57), Expect = 2.6
 Identities = 17/44 (38%), Positives = 19/44 (43%), Gaps = 1/44 (2%)

Query: 42  EAPTSPEKEKEICSLEEETEVKPFVKHTSEEEEESPISKEEDDT 85
               S E EK         EVK   K  +EEEEE+   KE  DT
Sbjct: 499 NNAISDE-EKTTFEAALAIEVKALDKLNAEEEEEATNKKEGKDT 541


>gnl|CDD|163126 TIGR03074, PQQ_membr_DH, membrane-bound PQQ-dependent
           dehydrogenase, glucose/quinate/shikimate family.  This
           protein family has a phylogenetic distribution very
           similar to that coenzyme PQQ biosynthesis enzymes, as
           shown by partial phylogenetic profiling. Members of this
           family have several predicted transmembrane helices in
           the N-terminal region, and include the quinoprotein
           glucose dehydrogenase (EC 1.1.5.2) of Escherichia coli
           and the quinate/shikimate dehydrogenase of Acinetobacter
           sp. ADP1 (EC 1.1.99.25). Sequences closely related
           except for the absense of the N-terminal hydrophobic
           region, scoring in the gray zone between the trusted and
           noise cutoffs, include PQQ-dependent glycerol (EC
           1.1.99.22) and and other polyol (sugar alcohol)
           dehydrogenases.
          Length = 764

 Score = 26.1 bits (58), Expect = 2.9
 Identities = 8/40 (20%), Positives = 15/40 (37%), Gaps = 2/40 (5%)

Query: 13  PDTGKRF--YDLNKQVIVSPYTQNSWPLAYFEAPTSPEKE 50
             TGK    +D   +       Q    ++Y++AP +    
Sbjct: 211 AATGKEKWKFDPKLKTEAGRQHQTCRGVSYYDAPAAAAGP 250


>gnl|CDD|180310 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional.
          Length = 509

 Score = 25.7 bits (57), Expect = 3.4
 Identities = 13/91 (14%), Positives = 39/91 (42%)

Query: 39  AYFEAPTSPEKEKEICSLEEETEVKPFVKHTSEEEEESPISKEEDDTSLDMEYVQEMDLD 98
              +   S +K ++  +L+++ ++          + +     ++DD   D +   + D +
Sbjct: 95  KLKDELDSSKKAEKKNALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDE 154

Query: 99  DDDDFLEQNDTDTDTDVVDMDISIPDDADEN 129
           DDD+  + +D D + +       +   +D++
Sbjct: 155 DDDEDDDDDDVDDEDEEKKEAKELEKLSDDD 185



 Score = 24.2 bits (53), Expect = 9.2
 Identities = 14/70 (20%), Positives = 29/70 (41%), Gaps = 3/70 (4%)

Query: 48  EKEKEICSLEEETEVKPFVKHTSEEEEESPISKEEDDTSLDMEYVQEMDLDDDDDFLEQN 107
           + + +    +E+ +         +E+EE   +KE +  S D ++V +   +DD + L Q 
Sbjct: 144 DDDIDDDDDDEDDDEDDDDDDVDDEDEEKKEAKELEKLSDDDDFVWD---EDDSEALRQA 200

Query: 108 DTDTDTDVVD 117
             D       
Sbjct: 201 RKDAKLTATA 210


>gnl|CDD|183416 PRK12298, obgE, GTPase CgtA; Reviewed.
          Length = 390

 Score = 25.2 bits (56), Expect = 5.1
 Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 3/54 (5%)

Query: 65  FVKHTSEEEEESPISKEEDDTSLD---MEYVQEMDLDDDDDFLEQNDTDTDTDV 115
           F++    EE E   + E+ +   D    E ++E++ +DDDD+ +  D D D  V
Sbjct: 331 FIEENPREEAEEAEAPEKVEFMWDDYHREQLEEVEEEDDDDWDDDWDEDDDEGV 384


>gnl|CDD|139048 PRK12538, PRK12538, RNA polymerase sigma factor; Provisional.
          Length = 233

 Score = 24.8 bits (54), Expect = 6.1
 Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 1/54 (1%)

Query: 60  TEVKPFVKHTSEEEEESPISKEEDDTSLDMEYVQEMDLDDDDDFLEQNDTDTDT 113
            E  P     S    E+P +        D   V +   D+D++ L++  TD + 
Sbjct: 11  AEAAPATTAPSPIVAEAPDA-ASVSIVPDPPPVADAVFDEDEELLDRLATDDEA 63


>gnl|CDD|165590 PHA03346, PHA03346, US22 family homolog; Provisional.
          Length = 520

 Score = 24.7 bits (54), Expect = 6.3
 Identities = 9/28 (32%), Positives = 15/28 (53%)

Query: 98  DDDDDFLEQNDTDTDTDVVDMDISIPDD 125
           DDDD+  +++D D +    D+D     D
Sbjct: 427 DDDDEGDDEDDDDWEDLGFDLDEDDVYD 454


>gnl|CDD|149439 pfam08375, Rpn3_C, Proteasome regulatory subunit C-terminal.  This
           eukaryotic domain is found at the C-terminus of 26S
           proteasome regulatory subunits such as the non-ATPase
           Rpn3 subunit which is essential for proteasomal
           function. It occurs together with the PCI/PINT domain
           (pfam01399).
          Length = 68

 Score = 24.6 bits (54), Expect = 7.3
 Identities = 9/33 (27%), Positives = 17/33 (51%)

Query: 70  SEEEEESPISKEEDDTSLDMEYVQEMDLDDDDD 102
            E++EE    +  +   L++E  +E+   D DD
Sbjct: 36  KEKKEEEKAEEARERDQLELELAKELSEGDLDD 68


>gnl|CDD|151809 pfam11369, DUF3160, Protein of unknown function (DUF3160).  This
           family of proteins has no known function.
          Length = 637

 Score = 24.7 bits (54), Expect = 7.9
 Identities = 19/61 (31%), Positives = 25/61 (40%), Gaps = 12/61 (19%)

Query: 38  LAYFEAPTS--PEKEKEICSLEEETEVKPFVKHTSEEE----------EESPISKEEDDT 85
           +AYF    S    K ++I   +   EV  FVK   E E            SPI K ++D 
Sbjct: 105 VAYFAVALSLLEPKPEQIKQKKYSFEVPAFVKSDVEAELALIEAHEGFAPSPIFKYKEDY 164

Query: 86  S 86
           S
Sbjct: 165 S 165


>gnl|CDD|178493 PLN02905, PLN02905, beta-amylase.
          Length = 702

 Score = 24.6 bits (53), Expect = 8.1
 Identities = 8/23 (34%), Positives = 15/23 (65%)

Query: 79  SKEEDDTSLDMEYVQEMDLDDDD 101
           S+E+D+  +DM+  +E D D  +
Sbjct: 12  SEEDDEEEMDMDVKEEDDGDRRN 34


>gnl|CDD|177782 PLN00188, PLN00188, enhanced disease resistance protein (EDR2);
           Provisional.
          Length = 719

 Score = 24.4 bits (53), Expect = 9.9
 Identities = 13/59 (22%), Positives = 27/59 (45%)

Query: 56  LEEETEVKPFVKHTSEEEEESPISKEEDDTSLDMEYVQEMDLDDDDDFLEQNDTDTDTD 114
           ++E+++     +    E+E      E  DT+++ E   ++DL      L ++D D   D
Sbjct: 441 MDEDSDDDEEFQIPESEQEPETTKNETKDTAMEEEPQDKIDLSCFSGNLRRDDRDKARD 499


>gnl|CDD|150551 pfam09891, DUF2118, Uncharacterized protein conserved in archaea
           (DUF2118).  This domain, found in various hypothetical
           archaeal proteins, has no known function.
          Length = 149

 Score = 24.2 bits (53), Expect = 9.9
 Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 7/67 (10%)

Query: 59  ETEVKPFVKHTSEEEEESPISKEEDDT-SLDMEYVQEMDLDDDDDFLEQNDTDTDTDVVD 117
           E E     +   EE EE     E+ +      + V E+  D+  D LE   T       D
Sbjct: 8   EGEESENFEVALEEGEEVIKFLEKVEEYFGYGKVVYEVIYDEIVDLLENKVT------RD 61

Query: 118 MDISIPD 124
             I +PD
Sbjct: 62  FIIVLPD 68


  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
   0.305    0.128    0.361 

Gapped
Lambda     K      H
   0.267   0.0730    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 2,150,204
Number of extensions: 125852
Number of successful extensions: 393
Number of sequences better than 10.0: 1
Number of HSP's gapped: 310
Number of HSP's successfully gapped: 106
Length of query: 129
Length of database: 5,994,473
Length adjustment: 83
Effective length of query: 46
Effective length of database: 4,201,009
Effective search space: 193246414
Effective search space used: 193246414
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.9 bits)
S2: 51 (23.4 bits)