RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780494|ref|YP_003064907.1| cation diffusion facilitator
family transporter, putative [Candidatus Liberibacter asiaticus str.
psy62]
         (314 letters)



>gnl|CDD|162291 TIGR01297, CDF, cation diffusion facilitator family transporter.
           This model describes a broadly distributed family of
           transporters, a number of which have been shown to
           transport divalent cations of cobalt, cadmium and/or
           zinc. The family has six predicted transmembrane
           domains. Members of the family are variable in length
           because of variably sized inserts, often containing
           low-complexity sequence.
          Length = 268

 Score = 52.6 bits (127), Expect = 1e-07
 Identities = 44/217 (20%), Positives = 92/217 (42%), Gaps = 20/217 (9%)

Query: 24  FMASVNLIIGTITNSSSIVFDGFYSYLEAGMTALSLLVAKLIARDVSKVDYRERERYFQF 83
            +  + ++ G ++ S +++ D  +S  +   +A++LL  ++  R     D R       F
Sbjct: 1   LLMLIKIVGGLLSGSLALLADAIHSLSDVAASAIALLALRISRR---PADER-----HPF 52

Query: 84  GFWHFEPMVLAFNSVILICVALYEFLISILNIISGGHDINFEKAVIYSCVASFICLMMGV 143
           G    E +    N + L+ VAL+    +I  +I+   +I+    +I + V   + L++ +
Sbjct: 53  GHGRAEILAALLNGLFLVVVALFILYEAIERLINPEPEIDGGTMLIVAIVGLIVNLILAL 112

Query: 144 YENRCNREIKSDFIALDAKSWIVAGYLL--LAVVIAFLCAMLLRDSAYDWIIPYVDSMVL 201
           Y +R    + S  +AL A +  V    L  + V+I  L         + W   + D +  
Sbjct: 113 YLHRVGHRLGS--LALRAAALHVLSDALSSVGVLIGALLIY------FGW--HWADPIAA 162

Query: 202 MFICLFILPSAICTMKSATFEIFQMTSPDLDSQVREA 238
           + I L IL +A   +K +   +      + D +  + 
Sbjct: 163 LLISLLILYTAFRLLKESINVLLDAAPDEEDLEEIKK 199


>gnl|CDD|181095 PRK07734, motB, flagellar motor protein MotB; Reviewed.
          Length = 259

 Score = 28.2 bits (63), Expect = 3.3
 Identities = 12/32 (37%), Positives = 21/32 (65%), Gaps = 1/32 (3%)

Query: 191 WIIPYVDSMVLMFICLFILPSAICTMKSATFE 222
           W+IPY D + L+   LFI+  A+ ++ +A F+
Sbjct: 19  WLIPYADLLTLLL-ALFIVLFAMSSIDAAKFK 49


>gnl|CDD|162087 TIGR00883, 2A0106, metabolite-proton symporter.  This model
           represents the metabolite:H+ symport subfamily of the
           major facilitator superfamily (pfam00083), including
           citrate-H+ symporters, dicarboxylate:H+ symporters, the
           proline/glycine-betaine transporter ProP, etc.
          Length = 394

 Score = 27.2 bits (61), Expect = 5.1
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 6/52 (11%)

Query: 163 SWIVAGY---LLLAVVIAFLCAMLLRDSAYD---WIIPYVDSMVLMFICLFI 208
           S+   G    LLLA +   L + LL D A     W IP++ S VL+ I L++
Sbjct: 135 SFQQVGAPVGLLLAALTVLLLSYLLGDDALLEWGWRIPFLVSAVLVLIGLYL 186


>gnl|CDD|131035 TIGR01980, sufB, FeS assembly protein SufB.  This protein, SufB,
           forms a cytosolic complex SufBCD. This complex enhances
           the cysteine desulfurase of SufSE. The system, together
           with SufA, is believed to act in iron-sulfur cluster
           formation during oxidative stress. Note that SufC
           belongs to the family of ABC transporter ATP binding
           proteins, so this protein, encoded by an adjacent gene,
           has often been annotated as a transporter component.
          Length = 448

 Score = 27.3 bits (61), Expect = 5.2
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 7/50 (14%)

Query: 33  GTITNSSSIVFDGFYSYLEAGMTAL-------SLLVAKLIARDVSKVDYR 75
           G  T   SI F G   +L+ G   +       S +++K I++   K  YR
Sbjct: 300 GAKTEFLSIAFAGKGQHLDTGAKMIHLAPNTSSTIISKSISKGGGKSTYR 349


>gnl|CDD|132708 TIGR03669, urea_ABC_arch, urea ABC transporter, substrate-binding
           protein, archaeal type.  Members of this protein family
           are identified as the substrate-binding protein of a
           urea ABC transport system by similarity to a known urea
           transporter from Corynebacterium glutamicum, operon
           structure, proximity of its operons to urease
           (urea-utilization protein) operons, and by Partial
           Phylogenetic Profiling vs. urea utilization.
          Length = 374

 Score = 27.0 bits (60), Expect = 5.9
 Identities = 11/21 (52%), Positives = 14/21 (66%)

Query: 233 SQVREALYPIVIRHGFLDFYT 253
           S  REA+ PI+ R+  L FYT
Sbjct: 78  SATREAIRPIIDRNEQLYFYT 98


>gnl|CDD|172956 PRK14483, PRK14483, DhaKLM operon coactivator DhaQ; Provisional.
          Length = 329

 Score = 26.9 bits (60), Expect = 7.4
 Identities = 17/63 (26%), Positives = 27/63 (42%), Gaps = 4/63 (6%)

Query: 256 TKVGRSRIIEIYLI----VPAHYPIKRIASLDAIRHEIGNAIGGLGEERWLTISFTTQKK 311
            ++G S    I  +     PA+ P+  + S D    EI   IG  GE  +    F++ + 
Sbjct: 174 EQLGLSLTENIATLGVALSPANLPVAGLPSFDLNEDEISYGIGIHGEPGYRKEPFSSSEI 233

Query: 312 WAI 314
            AI
Sbjct: 234 LAI 236


>gnl|CDD|150465 pfam09801, SYS1, Integral membrane protein S linking to the trans
           Golgi network.  Members of this family are integral
           membrane proteins involved in protein trafficking
           between the late Golgi and endosome. They may also serve
           as a receptor for ADP-ribosylation factor-related
           protein 1 (ARFRP1). Sys1p is a small integral membrane
           protein with four predicted transmembrane domains that
           localizes to the Trans Golgi network TGN in yeast and
           human cells.
          Length = 144

 Score = 26.8 bits (60), Expect = 7.5
 Identities = 7/51 (13%), Positives = 18/51 (35%), Gaps = 5/51 (9%)

Query: 169 YLLLAVVIAFLCAMLLRDSAYDWIIPY-----VDSMVLMFICLFILPSAIC 214
           YL   V++     +     + D I  +       ++  +    ++L S + 
Sbjct: 23  YLTAGVLMYLTALLAGYSFSLDLIFSWESLRFDTTIGWLLGLAWLLNSLVG 73


>gnl|CDD|182959 PRK11097, PRK11097, endo-1,4-D-glucanase; Provisional.
          Length = 376

 Score = 26.8 bits (60), Expect = 8.1
 Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 7/29 (24%)

Query: 47  YSYLEAG-------MTALSLLVAKLIARD 68
           YS LEAG        TAL   + K IAR+
Sbjct: 123 YSLLEAGRLWKEPRYTALGTALLKRIARE 151


>gnl|CDD|182163 PRK09952, PRK09952, shikimate transporter; Provisional.
          Length = 438

 Score = 26.6 bits (59), Expect = 8.2
 Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 6/52 (11%)

Query: 163 SWIVAGY---LLLAVVIAFLCAMLLRDSAY---DWIIPYVDSMVLMFICLFI 208
           S +  GY   LLL+  +  L +M+  D  +    W IP++ S+VL+ I L++
Sbjct: 164 SGVQVGYGVGLLLSTGLVSLISMMTTDEQFLSWGWRIPFLFSIVLVLIALWV 215


>gnl|CDD|148600 pfam07086, DUF1352, Protein of unknown function (DUF1352).  This
           family consists of several hypothetical eukaryotic
           proteins of around 190 residues in length. The function
           of this family is unknown.
          Length = 183

 Score = 26.6 bits (59), Expect = 8.8
 Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 7/56 (12%)

Query: 162 KSWIVAGYLLLAVVIAFLCAMLLRD-------SAYDWIIPYVDSMVLMFICLFILP 210
           K  I    L+  ++ A +    L           Y W  P++ S+   F+ L   P
Sbjct: 38  KKLIFVHLLIWVLMAAKVGVSHLLLISHLQVPMPYQWEYPWLLSVFPSFLGLLSFP 93


>gnl|CDD|129918 TIGR00838, argH, argininosuccinate lyase.  This model describes
           argininosuccinate lyase, but may include examples of
           avian delta crystallins, in which argininosuccinate
           lyase activity may or may not be present and the
           biological role is to provide the optically clear
           cellular protein of the eye lens.
          Length = 455

 Score = 26.5 bits (59), Expect = 9.9
 Identities = 11/26 (42%), Positives = 14/26 (53%)

Query: 216 MKSATFEIFQMTSPDLDSQVREALYP 241
           ++  T E  Q  SP+ D  V EAL P
Sbjct: 400 LEELTLEELQKFSPEFDEDVYEALDP 425


  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
   0.330    0.141    0.428 

Gapped
Lambda     K      H
   0.267   0.0744    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,132,491
Number of extensions: 334557
Number of successful extensions: 1014
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1011
Number of HSP's successfully gapped: 42
Length of query: 314
Length of database: 5,994,473
Length adjustment: 93
Effective length of query: 221
Effective length of database: 3,984,929
Effective search space: 880669309
Effective search space used: 880669309
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 57 (25.7 bits)