RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780958|ref|YP_003065371.1| HflK protein [Candidatus
Liberibacter asiaticus str. psy62]
         (355 letters)



>gnl|CDD|130988 TIGR01933, hflK, HflK protein.  HflK and HflC are paralogs encoded
           by tandem genes in Proteobacteria, spirochetes, and some
           other bacterial lineages. The HflKC complex is anchored
           in the membrane and exposed to the periplasm. The
           complex is not active as a protease, but rather binds to
           and appears to modulate the ATP-dependent protease FtsH.
           The overall function of HflKC is not fully
           described.//Regulation of FtsH by HflKC appears to be
           negative (PubMed:8947034,PubMed:96367).
          Length = 261

 Score =  247 bits (633), Expect = 3e-66
 Identities = 105/271 (38%), Positives = 160/271 (59%), Gaps = 11/271 (4%)

Query: 69  IYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGSNS 128
           IY +   ER V LRFGK  +    PGL+     I++V  V V    + +           
Sbjct: 1   IYTIGEAERGVVLRFGK-YHRTVDPGLNWKPPFIEEVYPVNV-TAVRNLR--------KQ 50

Query: 129 GLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVSESAMREVVGRRFAVDIFR 188
           GL+LTGD+NIV +  +V Y +TDP  YLF++ENP ++L+Q ++SA+R V+G     DI  
Sbjct: 51  GLMLTGDENIVNVEMNVQYRITDPYKYLFSVENPEDSLRQATDSALRGVIGDSTMDDILT 110

Query: 189 SQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDEDRFVE 248
             R QI  + +  + + +D Y  GI +  ++ + A PP EV +AFD+V  A +DE+R++ 
Sbjct: 111 EGRSQIREDTKERLNEIIDNYDLGITVTDVNFQSARPPEEVKEAFDDVIIAREDEERYIN 170

Query: 249 ESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQYVNAPTLLRKRI 308
           E+  Y+N V+  ARG+A  I E +  YK+R I  A+G+  RF  +  +Y  AP + R+R+
Sbjct: 171 EAEAYANEVVPKARGDAQRIIEEARGYKERRINRAKGDVARFTKLLAEYKKAPDVTRERL 230

Query: 309 YLETMEGILKKAKKV-IIDKKQSVMPYLPLN 338
           YLETME +L   +KV + DKK + + YLPL+
Sbjct: 231 YLETMEKVLSNTRKVLLDDKKGNNLLYLPLD 261


>gnl|CDD|182847 PRK10930, PRK10930, FtsH protease regulator HflK; Provisional.
          Length = 419

 Score =  176 bits (448), Expect = 8e-45
 Identities = 96/275 (34%), Positives = 155/275 (56%), Gaps = 10/275 (3%)

Query: 65  AFQSIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASV 124
           A    Y +   ER V  RFGK  + V  PGL+     ID+V+ V V          +   
Sbjct: 93  AASGFYTIKEAERGVVTRFGKFSHLV-EPGLNWKPTFIDEVKPVNV---------EAVRE 142

Query: 125 GSNSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENPGETLKQVSESAMREVVGRRFAV 184
            + SG++LT D+N+V +  +V Y VTDP  YLF++ +P ++L+Q ++SA+R V+G+    
Sbjct: 143 LAASGVMLTSDENVVRVEMNVQYRVTDPEKYLFSVTSPDDSLRQATDSALRGVIGKYTMD 202

Query: 185 DIFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQRAEQDED 244
            I    R  I  + +  +++T+  Y  GI +  ++ + A PP EV  AFD+   A ++E 
Sbjct: 203 RILTEGRTVIRSDTQRELEETIRPYDMGITLLDVNFQAARPPEEVKAAFDDAIAARENEQ 262

Query: 245 RFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADRFLSIYGQYVNAPTLL 304
           +++ E+  Y+N V   A G+A  I E + AYK + I EAQGE  RF  +  +Y  AP + 
Sbjct: 263 QYIREAEAYTNEVQPRANGQAQRILEEARAYKAQTILEAQGEVARFAKLLPEYKAAPEIT 322

Query: 305 RKRIYLETMEGILKKAKKVIIDKKQSVMPYLPLNE 339
           R+R+Y+ETME +L   +KV+++ K   +  LPL++
Sbjct: 323 RERLYIETMEKVLGHTRKVLVNDKGGNLMVLPLDQ 357


>gnl|CDD|128540 smart00244, PHB, prohibitin homologues.  prohibitin homologues.
          Length = 160

 Score = 83.1 bits (206), Expect = 9e-17
 Identities = 40/172 (23%), Positives = 78/172 (45%), Gaps = 13/172 (7%)

Query: 67  QSIYIVHPDERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASVGS 126
            +I +V   E  V  R G+    V  PGLH +  P     + KV  R Q           
Sbjct: 1   AAIKVVGEGEAGVVERLGR-VLRVLGPGLHFL-IPFID-RVKKVDLRAQTDDVPP----- 52

Query: 127 NSGLILTGDQNIVGLHFSVLYVVTDPRLYLFNLENP-GETLKQVSESAMREVVGRRFAVD 185
               I+T D   V +   V Y V DP   ++ + +     ++Q++++ +R V+G+    +
Sbjct: 53  --QEIITKDNVKVSVDAVVYYRVLDPLKAVYRVLDADYAVIEQLAQTTLRSVIGKMTLDE 110

Query: 186 IFRSQRQQIALEVRNLIQKTMDYYKSGILINTISIEDASPPREVADAFDEVQ 237
           +   +R++I+  +R  + +  + +  GI +  + I+D   P E+ +A ++ Q
Sbjct: 111 LLTDEREKISENIREELNERAEAW--GIEVEDVEIKDIRLPEEIQEAMEQQQ 160


>gnl|CDD|162612 TIGR01932, hflC, HflC protein.  HflK and HflC are paralogs encoded
           by tandem genes in Proteobacteria, spirochetes, and some
           other bacterial lineages. The HflKC complex is anchored
           in the membrane and exposed to the periplasm. The
           complex is not active as a protease, but rather binds to
           and appears to modulate the ATP-dependent protease FtsH.
           The overall function of HflKC is not fully
           described.//Regulation of FtsH protease appears to be
           negative (PubMed:8947034, PubMed:96367).
          Length = 317

 Score = 47.9 bits (114), Expect = 5e-06
 Identities = 67/314 (21%), Positives = 108/314 (34%), Gaps = 59/314 (18%)

Query: 55  IILLLIGSFCAFQSIYIVHPDERAVELRFGKPKND------VFLPGLHMMFWPIDQVEIV 108
           +I+LLI     FQ  +I+   ER +  RFGK   D      V+ PGLH     I+ V+I 
Sbjct: 8   VIVLLIVVL--FQPFFIIKEGERGIITRFGKILKDNNHHVLVYEPGLHFKIPFIEHVKIF 65

Query: 109 KVIERQQKIGGRSASVGSNSGLILTGDQNIVGLHFSVLYVVTD-PRLYL----FNLENPG 163
               + Q + GR          I T ++  + +   + + + D  + YL      +    
Sbjct: 66  D--AKIQTMDGRPDR-------IPTKEKKDIIIDTYIRWRIEDFKKYYLSTGGGTISAAE 116

Query: 164 ETLKQVSESAMREVVGRRFAVDIFRSQRQQI-------ALEVRNLIQKTMDYYKSGILIN 216
             +K+  +  +R  +G     +I RS   Q+       AL     I K       G  I 
Sbjct: 117 VLIKRKIDDRLRSEIGVLGLKEIVRSSNDQLDTLVSKLALNRGGKINKIAMTITKGREIL 176

Query: 217 TISIEDASPPR------EVADAF-------DEVQRAEQDEDRFVEESNKYSNRVLGSARG 263
              I   +  +      EV D         DE+   E   +R   E  + +         
Sbjct: 177 AREISQIANSQLKDIGIEVVDVRIKKINYSDELS--ESIYNRMRSEREQIARMHRSQGEE 234

Query: 264 EASHIRESSIAYKDRIIQEAQ-------GEADR-----FLSIYGQYVNAPTLLRKRIYLE 311
           +A  I   +     +I+ EA        GE D      +   YG+     +  R    LE
Sbjct: 235 KAEEILGKAEYEVRKILSEAYRTARIIKGEGDAEAAKIYSDAYGKDPEFYSFWRS---LE 291

Query: 312 TMEGILKKAKKVII 325
             E   K  +   +
Sbjct: 292 AYEKSFKDNQDEKV 305


>gnl|CDD|182913 PRK11029, PRK11029, FtsH protease regulator HflC; Provisional.
          Length = 334

 Score = 34.7 bits (80), Expect = 0.036
 Identities = 24/71 (33%), Positives = 39/71 (54%), Gaps = 13/71 (18%)

Query: 48  KSYGSVYIILLLIGSFCAFQSIYIVHPDERAVELRFGKPKND------VFLPGLHMMFWP 101
           KS  ++ II+L++     + S+++V   ER + LRFGK   D      V+ PGLH     
Sbjct: 3   KSVIAIIIIVLVV----LYMSVFVVKEGERGIVLRFGKVLRDDDNKPLVYAPGLHF---K 55

Query: 102 IDQVEIVKVIE 112
           I  +E VK+++
Sbjct: 56  IPFIETVKMLD 66


>gnl|CDD|163099 TIGR03007, pepcterm_ChnLen, polysaccharide chain length determinant
           protein, PEP-CTERM locus subfamily.  Members of this
           protein family belong to the family of polysaccharide
           chain length determinant proteins (pfam02706). All are
           found in species that encode the PEP-CTERM/exosortase
           system predicted to act in protein sorting in a number
           of Gram-negative bacteria, and are found near the epsH
           homolog that is the putative exosortase gene.
          Length = 498

 Score = 33.1 bits (76), Expect = 0.13
 Identities = 25/97 (25%), Positives = 35/97 (36%), Gaps = 20/97 (20%)

Query: 217 TISIEDASPPREVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASH----IRESS 272
           TIS ED  P      A D VQ        FVEE+       LGS R ++      I E  
Sbjct: 125 TISYEDKDPEL----AKDVVQTLLT---IFVEET-------LGSKRQDSDSAQRFIDEQI 170

Query: 273 IAYKDRIIQEAQGEADRFLSIYGQYV-NAPTLLRKRI 308
             Y+ + ++ A+     F    G  + +        I
Sbjct: 171 KTYEKK-LEAAENRLKAFKQENGGILPDQEGDYYSEI 206


>gnl|CDD|131972 TIGR02926, AhaH, ATP synthase archaeal, H subunit.  he A1/A0 ATP
           synthase is homologous to the V-type (V1/V0, vacuolar)
           ATPase, but functions in the ATP synthetic direction as
           does the F1/F0 ATPase of bacteria. The hydrophilic A1
           "stalk" complex (AhaABCDEFG) is the site of ATP
           generation and is coupled to the membrane-embedded
           proton translocating A0 complex. It is unclear precisely
           where AhaH fits into these complexes.
          Length = 85

 Score = 32.1 bits (73), Expect = 0.22
 Identities = 16/57 (28%), Positives = 31/57 (54%), Gaps = 4/57 (7%)

Query: 235 EVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIA----YKDRIIQEAQGEA 287
           E+++AE+D +  +EE+ +   + +  AR EA  + E +        + II+EA+ E 
Sbjct: 3   EIKKAEEDAEELIEEAEEERKQRIAEAREEARELLEEAEEEASKLGEEIIKEAEEEI 59


>gnl|CDD|180240 PRK05759, PRK05759, F0F1 ATP synthase subunit B; Validated.
          Length = 156

 Score = 31.7 bits (73), Expect = 0.27
 Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 12/68 (17%)

Query: 228 EVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYK------DRIIQ 281
           ++AD     +RA+++ +    +        L  AR EA+ I E   A K      +    
Sbjct: 39  KIADGLAAAERAKKELELAQAKYEA----QLAEARAEAAEIIEQ--AKKRAAQIIEEAKA 92

Query: 282 EAQGEADR 289
           EA+ EA R
Sbjct: 93  EAEAEAAR 100


>gnl|CDD|184951 PRK14989, PRK14989, nitrite reductase subunit NirD; Provisional.
          Length = 847

 Score = 30.9 bits (70), Expect = 0.52
 Identities = 17/41 (41%), Positives = 23/41 (56%), Gaps = 2/41 (4%)

Query: 288 DRFLSIYGQYVNAPTLLRKRIYLETMEGILKKAKKVIIDKK 328
           DRF+  Y +   A  L R  ++LE +EG +   K VIID K
Sbjct: 734 DRFMMFYIR--TADKLQRTAVWLENLEGGIDYLKAVIIDDK 772


>gnl|CDD|165564 PHA03309, PHA03309, transcriptional regulator ICP4; Provisional.
          Length = 2033

 Score = 30.6 bits (68), Expect = 0.60
 Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 3/47 (6%)

Query: 215  INTISIEDASPPREVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSA 261
            ++    ED++PP  +A +  E  RAE  ED    E  +YSN  LG +
Sbjct: 1929 VDETETEDSAPPARLAPSPLETSRAEDSED---SEYPEYSNPRLGKS 1972


>gnl|CDD|181646 PRK09098, PRK09098, type III secretion system protein HrpB;
           Validated.
          Length = 233

 Score = 28.6 bits (64), Expect = 2.3
 Identities = 17/60 (28%), Positives = 26/60 (43%), Gaps = 4/60 (6%)

Query: 230 ADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEADR 289
            +AF  V   +        E +     VL +AR  A  I   + A  + I++ A+ EADR
Sbjct: 21  REAFATVLALDAALAAVHAERDA----VLAAARARAERIVAEARAQAEAILEAARREADR 76


>gnl|CDD|185085 PRK15131, PRK15131, mannose-6-phosphate isomerase; Provisional.
          Length = 389

 Score = 28.4 bits (64), Expect = 3.1
 Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 15/51 (29%)

Query: 37  IKDKFDLIPF-FKSYGSVYIILLLIGSFCAFQSIYI-VHPDERAVELRFGK 85
           +  +F  +PF FK       +L      CA Q + I VHP++RA E+ F K
Sbjct: 74  VAKRFGELPFLFK-------VL------CAAQPLSIQVHPNKRAAEIGFAK 111


>gnl|CDD|184402 PRK13928, PRK13928, rod shape-determining protein Mbl; Provisional.
          Length = 336

 Score = 27.9 bits (63), Expect = 3.6
 Identities = 11/17 (64%), Positives = 14/17 (82%), Gaps = 1/17 (5%)

Query: 28  FDVEAIIRYIKDKFDLI 44
           FD EAIIRYI+ K+ L+
Sbjct: 182 FD-EAIIRYIRKKYKLL 197


>gnl|CDD|179204 PRK01005, PRK01005, V-type ATP synthase subunit E; Provisional.
          Length = 207

 Score = 28.2 bits (63), Expect = 3.6
 Identities = 14/62 (22%), Positives = 27/62 (43%), Gaps = 5/62 (8%)

Query: 216 NTISIEDASPPREVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIR---ESS 272
           + +  E   P  E A A   V  A++   R + E+ + + +++ SA   A       ES+
Sbjct: 15  DALREETLKPAEEEAGAI--VHNAKEQAKRIIAEAQEEAEKIIRSAEETADQKLKQGESA 72

Query: 273 IA 274
           + 
Sbjct: 73  LV 74


>gnl|CDD|162049 TIGR00805, oat, sodium-independent organic anion transporter.
           Proteins of the OAT family catalyze the Na+-independent
           facilitated transport of organic anions such as
           bromosulfobromophthalein and prostaglandins as well as
           conjugated and unconjugated bile acids (taurocholate and
           cholate, respectively). These transporters have been
           characterized in mammals, but homologues are present in
           C. elegans and A. thaliana. Some of the mammalian
           proteins exhibit a high degree of tissue specificity.
           For example, the rat OAT is found at high levels in
           liver and kidney and at lower levels in other tissues.
           These proteins possess 10-12 putative a-helical
           transmembrane spanners. They may catalyze electrogenic
           anion uniport or anion exchange.
          Length = 633

 Score = 27.8 bits (62), Expect = 4.7
 Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 4/45 (8%)

Query: 54  YIILLLIGSFCAFQSIYIVHPDERAVELRFGKPKNDVFLPGLHMM 98
           ++IL +  SF AF    I       V LR   P+      GL  +
Sbjct: 521 FLILFIPLSFIAF----ITAVPLYMVLLRVVNPEEKSLAIGLQWL 561


>gnl|CDD|165863 PLN02219, PLN02219, probable galactinol--sucrose
           galactosyltransferase 2.
          Length = 775

 Score = 27.7 bits (61), Expect = 5.2
 Identities = 11/41 (26%), Positives = 25/41 (60%), Gaps = 2/41 (4%)

Query: 221 EDASPPRE--VADAFDEVQRAEQDEDRFVEESNKYSNRVLG 259
           E  +PP+   + D + +++  E+DE+  V+E  +++ R+ G
Sbjct: 227 EGGTPPKFLIIDDGWQQIENKEKDENCVVQEGAQFATRLTG 267


>gnl|CDD|184048 PRK13428, PRK13428, F0F1 ATP synthase subunit delta; Provisional.
          Length = 445

 Score = 27.4 bits (61), Expect = 5.8
 Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 7/62 (11%)

Query: 228 EVADAFDEVQRAEQDEDRFVEESNKYSNRVLGSARGEASHIRESSIAYKDRIIQEAQGEA 287
           E A A D +  A+Q   + VE++   + RV+  AR +A  I E       ++  +A  EA
Sbjct: 43  ESATAADRLAEADQAHTKAVEDAKAEAARVVEEAREDAERIAE-------QLRAQADAEA 95

Query: 288 DR 289
           +R
Sbjct: 96  ER 97


>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 = 27.4 bits (61), Expect = 5.8
 Identities = 12/39 (30%), Positives = 15/39 (38%), Gaps = 1/39 (2%)

Query: 34  IRYIKDKFDLIPFFKSYGSVYIILLLIGSFCAFQSIYIV 72
           I YIKD   L P     G  Y+     G F    ++Y  
Sbjct: 202 IIYIKDNPPLYPGAPQDGLDYVFSHYTGIFL-TSTVYFF 239


>gnl|CDD|115849 pfam07220, DUF1420, Protein of unknown function (DUF1420).  This
           family consists of several hypothetical putative
           lipoproteins which seem to be found specifically in the
           bacterium Leptospira interrogans. Members of this family
           are typically around 670 resides in length and their
           function is unknown.
          Length = 672

 Score = 27.2 bits (60), Expect = 6.5
 Identities = 15/35 (42%), Positives = 21/35 (60%), Gaps = 1/35 (2%)

Query: 27  PFDVEAIIRYIKDKFDLIPFFKSYGSVYIILLLIG 61
           PF +   I + KDKF LI     + +++IILLLI 
Sbjct: 137 PFFLFKEIGFFKDKFALIDIND-FLNLFIILLLIA 170


>gnl|CDD|163550 TIGR03838, queuosine_YadB, glutamyl-queuosine tRNA(Asp) synthetase.
            This protein resembles a shortened glutamyl-tRNA
           ligase, but its purpose is to modify tRNA(Asp) at a
           queuosine position in the anticodon rather than to
           charge a tRNA with its cognate amino acid.
          Length = 272

 Score = 27.1 bits (61), Expect = 7.1
 Identities = 11/19 (57%), Positives = 13/19 (68%)

Query: 220 IEDASPPREVADAFDEVQR 238
           IED  PPREV  A D++ R
Sbjct: 39  IEDLDPPREVPGAADDILR 57


>gnl|CDD|179556 PRK03287, truB, tRNA pseudouridine synthase B; Provisional.
          Length = 298

 Score = 26.8 bits (60), Expect = 9.6
 Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 5/50 (10%)

Query: 75  DERAVELRFGKPKNDVFLPGLHMMFWPIDQVEIVKVIERQQKIGGRSASV 124
              A  L  G+      + G++    P  +V I  + ER    GGR+ SV
Sbjct: 246 AAEAEALSHGRRLEPAGIDGVYAAVDPDGRV-IALLEER----GGRARSV 290


  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
   0.320    0.138    0.394 

Gapped
Lambda     K      H
   0.267   0.0809    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,911,775
Number of extensions: 389645
Number of successful extensions: 891
Number of sequences better than 10.0: 1
Number of HSP's gapped: 876
Number of HSP's successfully gapped: 34
Length of query: 355
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 261
Effective length of database: 3,963,321
Effective search space: 1034426781
Effective search space used: 1034426781
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 (21.8 bits)
S2: 58 (26.0 bits)