RPS-BLAST 2.2.22 [Sep-27-2009]

Database: CddA 
           21,609 sequences; 6,263,737 total letters

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

Query= gi|254780701|ref|YP_003065114.1| putative two-component sensor
histidine kinase transcriptional regulatory protein [Candidatus
Liberibacter asiaticus str. psy62]
         (495 letters)



>gnl|CDD|30987 COG0642, BaeS, Signal transduction histidine kinase [Signal
           transduction mechanisms].
          Length = 336

 Score =  158 bits (399), Expect = 4e-39
 Identities = 97/334 (29%), Positives = 159/334 (47%), Gaps = 14/334 (4%)

Query: 142 SATLLIALSISALSNFMLPYAVFLSFFPVVVALSTQAIMSMHVLDISLAGMLATALSFFT 201
           +  L + L++      +L +   L+     + L     +   +L   L  +L        
Sbjct: 7   ALVLTLLLALFVPLALLLIFLPSLAVARNELLLLLLLTLLAALLVALLLLLLLLRRLLRP 66

Query: 202 YITYHLFKSNVKILSCQAEKDDLIAEL-EVAKSLSDETRKRAEEENLAKSRFLASMSHEL 260
            +      + +     +     L +EL  +A +L++   +       AK  FLA++SHEL
Sbjct: 67  LLLLADAANALAAGLTRLVLASLGSELASLAHALNELLERLERLLRRAKREFLANISHEL 126

Query: 261 RTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAG-RY 319
           RTPL AI G  E++    + P      +E +  I    + LL L+N++LDLSR+EAG + 
Sbjct: 127 RTPLTAIRGLLELLLEGLLDPQ-----RELLEIIEEEAERLLRLVNDLLDLSRLEAGTKL 181

Query: 320 ELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNA 379
           +L    + L +++ E + +L   AQEK IE+     P L  V  D + +RQV++NLLSNA
Sbjct: 182 KLLLELVDLAELLEEVVRLLAPLAQEKGIEL-AVDLPELPYVLGDPERLRQVLVNLLSNA 240

Query: 380 VKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVG 439
           +K+T  GG + ++V         IS++D GPGI E E+  +   F +       +  G G
Sbjct: 241 IKYTP-GGEITISV-RQDDEQVTISVEDTGPGIPEEELERIFEPFFRT----DKSRSGTG 294

Query: 440 LGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
           LGL I + I+  HGG   + S+  +G      LP
Sbjct: 295 LGLAIVKRIVELHGGTISVESEPGKGTTFTIRLP 328


>gnl|CDD|32387 COG2205, KdpD, Osmosensitive K+ channel histidine kinase [Signal
           transduction mechanisms].
          Length = 890

 Score =  134 bits (338), Expect = 7e-32
 Identities = 76/239 (31%), Positives = 121/239 (50%), Gaps = 7/239 (2%)

Query: 235 SDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDI 294
           +++ R  AE E L +S  LAS+SH+LRTPL AI+G +E + L     L+ E   E +  I
Sbjct: 647 AEQARLAAERERL-RSALLASISHDLRTPLTAIMGAAETL-LLDGEALSPEDRAELLSSI 704

Query: 295 HRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKI 354
               + L  L+  +LD++R+++G   L    + + ++V E +  L+ R     I +   +
Sbjct: 705 REESERLTRLVTNLLDMTRLQSGGVNLKLDWVLVEEVVGEALQRLRKRFTGHKIVV--SV 762

Query: 355 DPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAE 414
              L  +  D   + QV++NLL NA+K+   G  + +  G         S+ D GPGI E
Sbjct: 763 PVDLPLIHVDSPLIEQVLINLLENALKYAPPGSEIRINAGVERENVV-FSVIDEGPGIPE 821

Query: 415 GEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
           GE+  +   F +G    +SA +GVGLGL I + I+  HGG     +    G   +  LP
Sbjct: 822 GELERIFDKFYRG--NKESATRGVGLGLAICRGIVEAHGGTISAENNPGGGAIFVFTLP 878


>gnl|CDD|34607 COG5002, VicK, Signal transduction histidine kinase [Signal
           transduction mechanisms].
          Length = 459

 Score =  119 bits (299), Expect = 2e-27
 Identities = 72/242 (29%), Positives = 121/242 (50%), Gaps = 8/242 (3%)

Query: 234 LSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGD 293
           L D T +   E    +  F+A++SHELRTPL ++  + E   LE     + E    ++  
Sbjct: 212 LHDVTEQEKVERERRE--FVANVSHELRTPLTSMKSYLEA--LEEGAWEDKEIAPRFLRV 267

Query: 294 IHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQK 353
                + ++ L+N++L LSR++  RY+L++  I+    + E I   ++  +++ I  F +
Sbjct: 268 TLNETERMIRLVNDLLQLSRMDNARYQLNKEWINFTAFLNEIINRFEMILKKETIARFVR 327

Query: 354 IDPSLSSVW--ADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPG 411
             P    +W   D   M QV+ N++SNA+K++  GGR+ V+V         ISI D G G
Sbjct: 328 DIPK-QDIWVEIDPDKMTQVLDNIISNALKYSPDGGRITVSVK-QRETWVEISISDQGLG 385

Query: 412 IAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAI 471
           I + ++  +   F +   A      G GLGL IA+ I+  HGG+    S+  +G      
Sbjct: 386 IPKEDLEKIFDRFYRVDKARSRKMGGTGLGLAIAKEIVQAHGGRIWAESEEGKGTTFSFT 445

Query: 472 LP 473
           LP
Sbjct: 446 LP 447


>gnl|CDD|33974 COG4251, COG4251, Bacteriophytochrome (light-regulated signal
           transduction histidine kinase) [Signal transduction
           mechanisms].
          Length = 750

 Score = 96.9 bits (241), Expect = 1e-20
 Identities = 69/271 (25%), Positives = 114/271 (42%), Gaps = 12/271 (4%)

Query: 210 SNVKILSCQAEKDDLI-AELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAIL 268
           S V+I +    +  ++   L  A+ L+   R+  E  N     F    SH+L+ PL  I 
Sbjct: 485 SEVEIEAALELRKAIVGIVLRHAEELAQLRRE-LERSNAELRAFAYVASHDLQEPLRQIS 543

Query: 269 GFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISL 328
            +++++       L+ E  KE+I  I R    +  LI+++L  S++  G  E       +
Sbjct: 544 NYAQLLSERYSDALDEE-AKEFITFISRLTSLMQQLIDDLLTYSKL--GLTEAPLQPTDV 600

Query: 329 IDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGR 388
             +V + ++ L  R  +   EI  +I P L  V AD   + QV  NL++NA+KF      
Sbjct: 601 QKVVDKVLLELSQRIADTGAEI--RIAP-LPVVAADATQLGQVFQNLIANAIKFGGPENP 657

Query: 389 -VHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQS 447
            + ++           S++DNG GI       +   F +     +    G GLGL I + 
Sbjct: 658 DIEISAERQ-EDEWTFSVRDNGIGIDPAYFERIFVIFQRLHSRDEY--LGTGLGLAICKK 714

Query: 448 IMANHGGQFLIRSKLREGVEVIAILPNTRVL 478
           I   H G+  + S   EG      LP     
Sbjct: 715 IAERHQGRIWVESTPGEGSTFYFTLPVGGEE 745


>gnl|CDD|145582 pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and
           HSP90-like ATPase.  This family represents the
           structurally related ATPase domains of histidine kinase,
           DNA gyrase B and HSP90.
          Length = 111

 Score = 93.5 bits (233), Expect = 1e-19
 Identities = 38/111 (34%), Positives = 57/111 (51%), Gaps = 2/111 (1%)

Query: 363 ADEKGMRQVILNLLSNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLT 422
            DE  +RQV+ NLL NA+K    GG + VT+    GR + I+++DNG GI   ++P +  
Sbjct: 1   GDEDRLRQVLSNLLDNAIKHAPAGGEIEVTLERDGGRLR-ITVEDNGIGIPPEDLPKIFE 59

Query: 423 SFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
            F +     +    G GLGL I + ++  HGG   + S+   G      LP
Sbjct: 60  PFFRTDKDSRKVG-GTGLGLSIVRKLVELHGGTITVESEPGGGTTFTFTLP 109


>gnl|CDD|33926 COG4191, COG4191, Signal transduction histidine kinase regulating
           C4-dicarboxylate transport system [Signal transduction
           mechanisms].
          Length = 603

 Score = 88.0 bits (218), Expect = 5e-18
 Identities = 57/226 (25%), Positives = 101/226 (44%), Gaps = 20/226 (8%)

Query: 254 ASMSHELRTPLNAILGFSE--VIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDL 311
           A ++HEL  PL AI  +++   + LE       E  +E +  I      L   +  I   
Sbjct: 389 AGIAHELNQPLAAIRTYADNARLLLERGRT---EEARENLERISA----LTERMAAITAH 441

Query: 312 SRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQV 371
            +  A +   +   +SL + +   + +L+ R +   +E+   +  +   V A+E  + QV
Sbjct: 442 LKSFARKSRDAAGPVSLREAIEGALELLRGRLRAAGVELELDLPDAPLWVMANEIRLEQV 501

Query: 372 ILNLLSNAVKFTAIGG----RVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQG 427
           ++NLL NA+   A+ G    R+ +      G    ++++DNGPGIA   +P +   F   
Sbjct: 502 LVNLLQNALD--AMAGQEDRRLSIRA-QREGGQVVLTVRDNGPGIAPEALPHLFEPF--- 555

Query: 428 SIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
               K   +G+GLGL I+Q+I  + GG   + +    G      L 
Sbjct: 556 -FTTKPVGKGLGLGLAISQNIARDLGGSLEVANHPEGGASFTIELR 600


>gnl|CDD|33927 COG4192, COG4192, Signal transduction histidine kinase regulating
           phosphoglycerate transport system [Signal transduction
           mechanisms].
          Length = 673

 Score = 85.1 bits (210), Expect = 4e-17
 Identities = 71/275 (25%), Positives = 120/275 (43%), Gaps = 29/275 (10%)

Query: 207 LFKSNVKILSCQAEKDDLIAELEVAKSLSDETRKRAEEENLAKSRFLA-------SMSHE 259
           L + N K  S +    +L AE+E  +    E   +  +  L ++  LA       S++HE
Sbjct: 404 LQRVNEKTQSLRERNQELQAEVEERQEA--EAHLKKTQGELIQAAKLAVVGQTMTSLAHE 461

Query: 260 LRTPLNAILG--FSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAG 317
           +  PLNA+    FS  + LE      +      +  I    ++L   + +I++  R  A 
Sbjct: 462 INQPLNAMSAYLFSARLALEEA---PSAQAATSLDKI----ENLTERMGKIVNSLRQFAR 514

Query: 318 RYELSES--AISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNL 375
           +    ES   + L  +V +   +LQ + + + I++    D  +  V  D   + QV++NL
Sbjct: 515 KNSSDESLQPVRLNSVVEQAWELLQTKHKRRQIKLINPTDDLM--VMGDAVSIEQVLVNL 572

Query: 376 LSNAVK-FTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSA 434
           + NA+   T     + +    T      I+I DNG G     +  +LT F        S 
Sbjct: 573 IVNALDASTHFAPWIKLIALGTEQEMLRIAIIDNGQGWPHELVDKLLTPFTT------SK 626

Query: 435 EQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVI 469
           E G+GLGL I+QS+M    G+  + S L +   VI
Sbjct: 627 EVGLGLGLSISQSLMEQMQGRLALASTLTKNAMVI 661


>gnl|CDD|144196 pfam00512, HisKA, His Kinase A (phosphoacceptor) domain.
           dimerization and phosphoacceptor domain of histidine
           kinases.
          Length = 66

 Score = 81.4 bits (202), Expect = 5e-16
 Identities = 39/70 (55%), Positives = 50/70 (71%), Gaps = 4/70 (5%)

Query: 248 AKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINE 307
           AKS FLA++SHELRTPL AI G+ E++       L+ E  +EY+  I RS + LL LIN+
Sbjct: 1   AKSEFLANLSHELRTPLTAIRGYLELLL---DTELSEEQ-REYLETILRSAERLLRLIND 56

Query: 308 ILDLSRIEAG 317
           +LDLSRIEAG
Sbjct: 57  LLDLSRIEAG 66


>gnl|CDD|33642 COG3852, NtrB, Signal transduction histidine kinase, nitrogen
           specific [Signal transduction mechanisms].
          Length = 363

 Score = 79.6 bits (196), Expect = 2e-15
 Identities = 62/253 (24%), Positives = 104/253 (41%), Gaps = 38/253 (15%)

Query: 225 IAELEVAKSLSDETRKRAEEENLAKSRFLASM-SHELRTPLNAILGFSEVIELETMGPLN 283
               ++ + L  E  + A++  +   + L    +HE++ PL  I G ++++E      L 
Sbjct: 110 FHPRDMQRRLDREQTQHAQQRAV---KGLVRGLAHEIKNPLGGIRGAAQLLERA----LP 162

Query: 284 NETYKEYIGDIHRSGQHLLNLINEILDLSRIEAG-RYELSESAISLIDIVRECIIMLQLR 342
           +E  +E    I      L NL++ +  L     G R  ++      I  V E +  L   
Sbjct: 163 DEALRELTQLIIEEADRLRNLVDRLEVLGPQRPGDRVPVN------IHEVLERVRALVEA 216

Query: 343 AQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVH----------VT 392
               N+ + +  DPSL  V  D   + QV LNL+ NA +  A+GGR              
Sbjct: 217 EFADNVRLIRDYDPSLPEVLGDRDQLIQVFLNLVRNAAQ--ALGGRADEGGEIILRTRTG 274

Query: 393 VGWTSGRGQY-----ISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQS 447
           +  T    +Y     + + DNGPG+       +          +   E G GLGL +AQ+
Sbjct: 275 IQLTIAGTRYRLALPLEVIDNGPGVPPDLQDHLFYPM------VSGREGGTGLGLALAQN 328

Query: 448 IMANHGGQFLIRS 460
           ++  HGG+    S
Sbjct: 329 LIDQHGGKIEFDS 341


>gnl|CDD|119399 cd00082, HisKA, Histidine Kinase A (dimerization/phosphoacceptor)
           domain; Histidine Kinase A dimers are formed through
           parallel association of 2 domains creating 4-helix
           bundles; usually these domains contain a conserved His
           residue and are activated via trans-autophosphorylation
           by the catalytic domain of the histidine kinase. They
           subsequently transfer the phosphoryl group to the Asp
           acceptor residue of a response regulator protein.
           Two-component signalling systems, consisting of a
           histidine protein kinase that senses a signal input and
           a response regulator that mediates the output, are
           ancient and evolutionarily conserved signaling
           mechanisms in prokaryotes and eukaryotes..
          Length = 65

 Score = 78.8 bits (195), Expect = 3e-15
 Identities = 34/68 (50%), Positives = 45/68 (66%), Gaps = 3/68 (4%)

Query: 246 NLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLI 305
             AK  FLA++SHELRTPL AI G  E++E E    L++E  +EY+  I    + LL LI
Sbjct: 1   LQAKGEFLANVSHELRTPLTAIRGALELLEEE---LLDDEEQREYLERIREEAERLLRLI 57

Query: 306 NEILDLSR 313
           N++LDLSR
Sbjct: 58  NDLLDLSR 65


>gnl|CDD|28956 cd00075, HATPase_c, Histidine kinase-like ATPases; This family
           includes several ATP-binding proteins for example:
           histidine kinase, DNA gyrase B, topoisomerases, heat
           shock protein HSP90, phytochrome-like ATPases and DNA
           mismatch repair proteins.
          Length = 103

 Score = 77.7 bits (191), Expect = 8e-15
 Identities = 38/106 (35%), Positives = 56/106 (52%), Gaps = 4/106 (3%)

Query: 368 MRQVILNLLSNAVKFT-AIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQ 426
           ++QV+LNLLSNA+K T   GGR+ ++V         I ++DNGPGI E ++  +   F  
Sbjct: 1   LQQVLLNLLSNAIKHTPEGGGRITISVERDGDHL-EIRVEDNGPGIPEEDLERIFERFSD 59

Query: 427 GSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAIL 472
           GS        G GLGL I + ++  HGG+  + S+   G      L
Sbjct: 60  GS--RSRKGGGTGLGLSIVKKLVELHGGRIEVESEPGGGTTFTITL 103


>gnl|CDD|35739 KOG0519, KOG0519, KOG0519, Sensory transduction histidine kinase
           [Signal transduction mechanisms].
          Length = 786

 Score = 73.9 bits (181), Expect = 9e-14
 Identities = 49/154 (31%), Positives = 76/154 (49%), Gaps = 11/154 (7%)

Query: 237 ETRKRAEEENLAKS--RFLASMSHELRTPLNA-ILGFSEVIELETMGPLNNETYKEYIGD 293
           +     E    + S   FLA++SHE+RTPLN  +LG              +   +  +  
Sbjct: 207 KKLASDEAAVWSPSQKGFLATLSHEIRTPLNGGMLGGL-------SDTDLDSDQRLILNT 259

Query: 294 IHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQK 353
              S + LL+L+N+ILDLS++E+G+ EL      L  ++   I +L   +Q K   +   
Sbjct: 260 DRVSAKSLLSLLNDILDLSKVESGKGELVAKRFDLRTLLNFVISLLSELSQAKYAILVLD 319

Query: 354 IDPSLSSVWA-DEKGMRQVILNLLSNAVKFTAIG 386
           +   +      DE  +RQVI NL+SNA+KFT  G
Sbjct: 320 LSSGVPRNVRGDEARLRQVIANLVSNAIKFTHAG 353



 Score = 35.0 bits (80), Expect = 0.043
 Identities = 33/159 (20%), Positives = 63/159 (39%), Gaps = 4/159 (2%)

Query: 224 LIAELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSEVIELETMGPLN 283
              EL  +  +    ++ A     A+  FL  MSH +R P + I+    ++  + +   +
Sbjct: 361 AREELSESNDVLLRAKEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPD 420

Query: 284 NETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRA 343
           +      I  + RS     +LI    D++R+  G         SL++++   I  +   +
Sbjct: 421 SGL---EIQTVMRSSNVFTSLIQADPDITRLYGGTGLGESIVFSLVELMSGEISDISCIS 477

Query: 344 QEKNIEIFQKIDPSLS-SVWADEKGMRQVILNLLSNAVK 381
             K       +  +L  SV  DEK + Q+IL+       
Sbjct: 478 LGKTFSFTLDLLTNLPKSVVGDEKRLFQIILDFNGMLAL 516


>gnl|CDD|34605 COG5000, NtrY, Signal transduction histidine kinase involved in
           nitrogen fixation and metabolism regulation [Signal
           transduction mechanisms].
          Length = 712

 Score = 63.4 bits (154), Expect = 1e-10
 Identities = 52/276 (18%), Positives = 101/276 (36%), Gaps = 25/276 (9%)

Query: 213 KILSCQAEKDDLIAELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILGFSE 272
           + L+ QA ++          +  D T     + + A       ++HE++ PL  I   +E
Sbjct: 450 RTLNVQATREPEDNGNGYVVTFDDITDLVIAQRSAAWGDVARRIAHEIKNPLTPIQLSAE 509

Query: 273 VIELETMGPLNN--ETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLID 330
            +  +    ++   E +      I R  + +  +++E    +R+ A + E       L  
Sbjct: 510 RLLRKLGKEIDEDREVFDRCTDTIIRQVEDIKRMVDEFRAFARMPAPKLE----KSDLRA 565

Query: 331 IVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFTAIGGRVH 390
           +++E   + ++             +P +    AD   + QV  NLL NA +  AI     
Sbjct: 566 LLKEVSFLYEIGNDHIVFAAEFGGEPLIGM--ADATLLGQVFGNLLKNAAE--AIEAVEA 621

Query: 391 VTVGWTSGRGQY--------ISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGL 442
                   R           + + DNG G         L  +      + + E+G GLGL
Sbjct: 622 EERRTALIRVSLDDADGRIVVDVIDNGKGFPRENRHRALEPY------VTTREKGTGLGL 675

Query: 443 PIAQSIMANHGGQFLIRSKLR-EGVEVIAILPNTRV 477
            I + I+  HGG+  + +    +G  +    P   +
Sbjct: 676 AIVKKIVEEHGGRLELHNAPDFDGAMIRIKFPLKEL 711


>gnl|CDD|33099 COG3290, CitA, Signal transduction histidine kinase regulating
           citrate/malate metabolism [Signal transduction
           mechanisms].
          Length = 537

 Score = 41.0 bits (96), Expect = 8e-04
 Identities = 49/252 (19%), Positives = 93/252 (36%), Gaps = 43/252 (17%)

Query: 234 LSDETRKRAEEENLAK--SRFLASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYI 291
              E +K  E+    +  +  L + SHE    L+ ILG  ++ E +           +YI
Sbjct: 316 DKTEIKKLTEQLTGVRQYAEALRAQSHEFMNKLHTILGLLQLGEYDDA--------LDYI 367

Query: 292 GDIHRSGQHLLNLINEILDLSRIEAGRYELSESAISLIDIVRECIIMLQLRAQEKNIEIF 351
                  Q L++ ++E +    + AG          L+  +         RA+E  + + 
Sbjct: 368 QQESEEQQELIDSLSEKIK-DPVLAG---------FLLGKIS--------RARELGVSL- 408

Query: 352 QKIDP-SLSSVWADEKGMRQVIL---NLLSNAVKFTAIG---GRVHVTVGWTSGRGQYIS 404
             IDP S       E     ++    NL+ NA++          + +++         I 
Sbjct: 409 -IIDPNSQLPQLPSELQPHDLVTILGNLIDNALEALLAPEENKEIELSLSDRGDE-LVIE 466

Query: 405 IKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLRE 464
           + D GPGI       +   F +G     +  +G+GL L   + ++   GG   + S+  +
Sbjct: 467 VADTGPGIPPEVRDKI---FEKGVSTKNTGGRGIGLYL--VKQLVERLGGSIEVESEKGQ 521

Query: 465 GVEVIAILPNTR 476
           G      +P  +
Sbjct: 522 GTRFSIYIPKVK 533


>gnl|CDD|34223 COG4585, COG4585, Signal transduction histidine kinase [Signal
           transduction mechanisms].
          Length = 365

 Score = 36.7 bits (84), Expect = 0.015
 Identities = 58/337 (17%), Positives = 107/337 (31%), Gaps = 35/337 (10%)

Query: 137 LTIYKSATLLIALSISALSNFMLPYAVFLSFFPVVVALSTQAIMSMHVLDISLAGMLATA 196
           L +     +L  L +  LS         L +   V   +   I+ + +L      +LA  
Sbjct: 63  LILVLLLLILAWLGLPGLSLGFFILIFLLIYLLGVRGFALALILFLLLLLAIALILLALF 122

Query: 197 LSFFTYITYHLFKSNVKILSCQAEKDDLIAELEVAKSLSDETRKRAEEENLAKSRFLASM 256
           L     +   L    + +     E+  L A L      +    +  EE N        S+
Sbjct: 123 LLLLALVLATLIAILLLLEGVIRERAKLKALLAERLERALIELEELEERNRIARDLHDSV 182

Query: 257 SHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEA 316
              L     AI     ++ L      + E  +E + +I +  +  L  +  ++   R   
Sbjct: 183 GQSLT----AISMLLALLLLLADE--DAEKAQEELKEIEKLLREALQEVRALVRDLR--- 233

Query: 317 GRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLL 376
               +    + L++ +R  +   + R               L      E  + +++   L
Sbjct: 234 ---PVELEGLGLVEALRALLADFEERTGITVDLSLGSELERLPP--EAEDALFRIVQEAL 288

Query: 377 SNAVKFTAIGGRVHVTVGWTSGRGQYISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQ 436
           +NA++  A    V VT+  T    + + + DNG G    +                    
Sbjct: 289 TNAIRH-AQATEVRVTLERTDDELR-LEVIDNGVGFDPDKEGG----------------- 329

Query: 437 GVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILP 473
             G GL   +  +   GG   I S   +G  V   LP
Sbjct: 330 --GFGLLGMRERVEALGGTLTIDSAPGQGTTVTITLP 364


>gnl|CDD|34264 COG4645, COG4645, Uncharacterized protein conserved in bacteria
           [Function unknown].
          Length = 410

 Score = 33.0 bits (75), Expect = 0.17
 Identities = 20/106 (18%), Positives = 34/106 (32%), Gaps = 6/106 (5%)

Query: 106 WRIWLLVGQIAIGLCWTLLTLVEPGTW--TPEYLTIYKSATLLIALSISALSNFMLPYAV 163
           W + L    +A+ + W  + L     W   P  +T     T L    +  +        V
Sbjct: 243 WLVGLAAAYLALAIFWVFMPLWIITLWFGLPMVIT-GFDKTFLSLPRLLHVLAIAYLIVV 301

Query: 164 FLSFFPVVVALSTQ--AIMSMHVLDISLAG-MLATALSFFTYITYH 206
                 +         AI+  H L + +AG +LA        +T  
Sbjct: 302 VPRLSSLARVGPQHPLAILGRHSLPVFIAGTILAMVAQVLLLVTRG 347


>gnl|CDD|31579 COG1389, COG1389, DNA topoisomerase VI, subunit B [DNA replication,
           recombination, and repair].
          Length = 538

 Score = 32.2 bits (73), Expect = 0.38
 Identities = 23/83 (27%), Positives = 41/83 (49%), Gaps = 9/83 (10%)

Query: 366 KGMRQVILNLLSNAVKFTAIGG---RVHVTVGWTSGRGQY-ISIKDNGPGIAEGEIPTVL 421
           + +   +  L++N++      G    + V +    G+  Y + ++DNGPGI E +IP V 
Sbjct: 35  RSLTTTVHELVTNSLDACEEAGILPDIKVEIERI-GKDHYKVIVEDNGPGIPEEQIPKVF 93

Query: 422 TSFGQGSIA---IKS-AEQGVGL 440
                GS     I+S  +QG+G+
Sbjct: 94  GKMLYGSKFHRNIQSRGQQGIGI 116


>gnl|CDD|32791 COG2972, COG2972, Predicted signal transduction protein with a
           C-terminal ATPase domain [Signal transduction
           mechanisms].
          Length = 456

 Score = 31.2 bits (70), Expect = 0.67
 Identities = 44/304 (14%), Positives = 96/304 (31%), Gaps = 47/304 (15%)

Query: 148 ALSISALSNFMLPYAVFLSFFPVVVALSTQAIMSMHVLDISLAGMLATALSFFTYITYHL 207
            +        +      LS    ++ L    ++ + +  + +  + + +          L
Sbjct: 151 FIIFRKTEWLVYLVVPKLSILLSLIRLLFILVILVLLFLVVILLLSSFSSRSILLPILGL 210

Query: 208 FKSNVKILS-----CQAEKDDLIAELEVAKSLSDETRKRAEEENLAKSRFLAS--MSHEL 260
                +I        +   + +    E  + L +E     +E+  A+ R L S    H L
Sbjct: 211 ILLLSRIALGYLSELKEISETINEMEERLEYLIEENYSLEQEQLEAELRALQSQINPHFL 270

Query: 261 RTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEAGRYE 320
              L  I   +E  + E                          ++  +  L R      +
Sbjct: 271 YNTLETIRMLAEEDDPEEAA----------------------KVVKALSKLLRYSLSNLD 308

Query: 321 LSESAISLIDIVRECIIMLQ-LRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNA 379
                 +++ +  E +++ + L  Q+  I    ++   +          + V+  L+ NA
Sbjct: 309 ------NIVTLEIELLLIEKYLEIQKLRIGDRLEVPLPIDEELEPLIDPKLVLQPLVENA 362

Query: 380 VKFTAIGGRVHVTVGWTSGRGQ---YISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQ 436
           ++      R   ++  ++ +      ISI DNGPGI E           +G         
Sbjct: 363 IEHGIEPKRPGGSIAISAKKQDDVIQISISDNGPGIDE--------EKLEGLSTKGENRS 414

Query: 437 GVGL 440
           G+GL
Sbjct: 415 GIGL 418


>gnl|CDD|33785 COG4026, COG4026, Uncharacterized protein containing TOPRIM domain,
           potential nuclease [General function prediction only].
          Length = 290

 Score = 30.8 bits (69), Expect = 0.90
 Identities = 31/139 (22%), Positives = 57/139 (41%), Gaps = 12/139 (8%)

Query: 218 QAEKDDLIAELEVAKSLSDETRKRAEEENLAKSRF------LASMSHELRTPLNAILGFS 271
           Q EK++L+ ELE  ++  +E ++R +   +  SR       L    ++L+   + +    
Sbjct: 148 QKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPGV 207

Query: 272 EVIELETMGPLNNETYKEYIGDIHRSG---QHLLNLINEILDLSRIEAGRYELSESAISL 328
           E+ E E +  L  ET      DI   G         +  +L    I A      E A+  
Sbjct: 208 ELPEEELISDLVKETLNLAPKDIEGQGYIYAEDEKEVEILLGTVYIAA---PSREDAVEE 264

Query: 329 IDIVRECIIMLQLRAQEKN 347
           ++I++E I  +     E+ 
Sbjct: 265 LEIIKEAIEEVIPEIDEEG 283


>gnl|CDD|34633 COG5028, COG5028, Vesicle coat complex COPII, subunit SEC24/subunit
           SFB2/subunit SFB3 [Intracellular trafficking and
           secretion].
          Length = 861

 Score = 29.9 bits (67), Expect = 1.8
 Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 9/77 (11%)

Query: 417 IPTVLTSFGQGSIAIKSAEQGVGLGLPIAQSIMANHGGQFLIRSKLREGVEVIAILPNTR 476
           I T+L    +     KS +  +G  L  A+S++   GG+ ++          ++ LPN  
Sbjct: 369 IETLLDRVPRIFQDNKSPKNALGPALKAAKSLIGGTGGKIIV---------FLSTLPNMG 419

Query: 477 VLNFIPEDNHESTQYKC 493
           +      ++ ES+   C
Sbjct: 420 IGKLQLREDKESSLLSC 436


>gnl|CDD|111344 pfam02438, Adeno_100, Late 100kD protein.  The late 100kD protein
           is a non-structural viral protein involved in the
           transport of hexon from the cytoplasm to the nucleus.
          Length = 583

 Score = 29.6 bits (67), Expect = 2.2
 Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 3/36 (8%)

Query: 204 TYHLFKSNVKI-LSCQAEKD--DLIAELEVAKSLSD 236
           TYH+F  N KI LSC+A +   D    L+    L D
Sbjct: 74  TYHIFFQNQKIPLSCKANRSGADTYLALKEGTRLPD 109


>gnl|CDD|34611 COG5006, COG5006, Predicted permease, DMT superfamily [General
           function prediction only].
          Length = 292

 Score = 29.5 bits (66), Expect = 2.5
 Identities = 32/152 (21%), Positives = 60/152 (39%), Gaps = 16/152 (10%)

Query: 51  ILPLFVLLVANIGTWFTQNPIFPMWSLITLAVYAANLSLGKKVMNSDIKIGEVYVWRIWL 110
           +L +++LL      W + +P+    +L   A +A  + LG++   ++     V V  +  
Sbjct: 129 VLGIWLLLPLGQSVW-SLDPVGVALALGAGACWALYIVLGQRAGRAEHGTAGVAVGMLVA 187

Query: 111 LVGQIAIGLCWTLLTLVEPGTWTPEYLTI-----YKSATLLIALSISALSNFMLP---YA 162
            +  + IG          P  ++P  L +       S+ L  +L + AL    LP   + 
Sbjct: 188 ALIVLPIGA-----AQAGPALFSPSLLPLALGVAVLSSALPYSLEMIALR--RLPARTFG 240

Query: 163 VFLSFFPVVVALSTQAIMSMHVLDISLAGMLA 194
             LS  P + ALS    +   +  I    + A
Sbjct: 241 TLLSLEPALAALSGLIFLGETLTLIQWLAIAA 272


>gnl|CDD|34202 COG4564, COG4564, Signal transduction histidine kinase [Signal
           transduction mechanisms].
          Length = 459

 Score = 29.2 bits (65), Expect = 2.8
 Identities = 19/74 (25%), Positives = 32/74 (43%), Gaps = 19/74 (25%)

Query: 403 ISIKDNGPGIAEGEIPTVLTSFGQGSIAIKSAEQGV-GLGLPIAQSIMANHGGQFLIRSK 461
           + ++DNG G +                 +K A Q   G+GL   +  MA+ GG+  + S 
Sbjct: 393 LMVRDNGVGFS-----------------VKEALQKRHGIGLRNMRERMAHFGGELEVESS 435

Query: 462 LREGVEVIAILPNT 475
             +G E+  +LP  
Sbjct: 436 -PQGTELTVLLPLD 448


>gnl|CDD|36144 KOG0926, KOG0926, KOG0926, DEAH-box RNA helicase [RNA processing
           and modification, Translation, ribosomal structure and
           biogenesis].
          Length = 1172

 Score = 28.9 bits (64), Expect = 3.5
 Identities = 42/205 (20%), Positives = 76/205 (37%), Gaps = 4/205 (1%)

Query: 134 PEYLTIYKSATLLIALSISALSNFMLPYAVFLSFFPVVVALSTQAIMSMHVLDISLAGML 193
           P+   + K+   L AL     +  +      +S FP+    S     S     +     L
Sbjct: 747 PDRSALEKAERRLKALGALDSNGGLTKLGKAMSLFPLSPRFSKMLATSDQHNLLPYNIAL 806

Query: 194 ATALSFF-TYITYHLFKSNVKILSCQAEKDDLIAELEVAKSLSDETRKRAEEENLAKSRF 252
            +ALS +   I       N  I   + E+ DLI + E  +    + R+R E+   A+SRF
Sbjct: 807 VSALSVYEVLIVAASLLPNPLIREFEPEEKDLIKDDETVEDKELKKRRR-EKSKAARSRF 865

Query: 253 LASMSHELRTPLNAILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLS 312
               S  L   L + +  +E  E        N    + + ++ +  + L NL+N      
Sbjct: 866 SNLDSDALV--LLSAVSAAEYAENGMRFCEANGLRLKAMEEVRKLRKQLTNLVNHGNIQD 923

Query: 313 RIEAGRYELSESAISLIDIVRECII 337
             ++    L     +   ++R+ I 
Sbjct: 924 VEKSWDLTLKPPTDTQAKLLRQMIC 948


>gnl|CDD|35383 KOG0161, KOG0161, KOG0161, Myosin class II heavy chain
            [Cytoskeleton].
          Length = 1930

 Score = 28.7 bits (64), Expect = 3.7
 Identities = 20/106 (18%), Positives = 37/106 (34%), Gaps = 12/106 (11%)

Query: 213  KILSCQAEKDDLIAELEVAKSLSDETRKRAEEENLAKSRFLASMSHELRTPLNAILG--- 269
            +I   +A   +L  ELE  +     +R +AE +    S  L  +  EL            
Sbjct: 1098 QIKELEARIKELEEELEAER----ASRAKAERQRRDLSEELEELKEELEEQGGTTAAQLE 1153

Query: 270  -----FSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILD 310
                  +EV +L          ++  I ++ +     L  + E L+
Sbjct: 1154 LNKKREAEVQKLRRDLEEETLDHEAQIEELRKKHADSLAELQEQLE 1199


>gnl|CDD|37363 KOG2152, KOG2152, KOG2152, Sister chromatid cohesion protein [Cell
           cycle control, cell division, chromosome partitioning].
          Length = 865

 Score = 28.5 bits (63), Expect = 4.1
 Identities = 14/68 (20%), Positives = 28/68 (41%)

Query: 324 SAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMRQVILNLLSNAVKFT 383
           S+      V+   +  +LR   +  E    ++  LS++ +    M    L+ +S A K  
Sbjct: 304 SSADYYSRVQHIKVANELREIGEYQEFTDDLEYILSTLQSALLPMETRCLSAISLADKCV 363

Query: 384 AIGGRVHV 391
               R+H+
Sbjct: 364 MPDFRMHL 371


>gnl|CDD|37743 KOG2532, KOG2532, KOG2532, Permease of the major facilitator
           superfamily [Carbohydrate transport and metabolism].
          Length = 466

 Score = 28.7 bits (64), Expect = 4.1
 Identities = 9/30 (30%), Positives = 15/30 (50%)

Query: 144 TLLIALSISALSNFMLPYAVFLSFFPVVVA 173
              I+  ISAL   + P A  + F+ ++V 
Sbjct: 105 VFFISGLISALLTLLTPLAASIGFYLLLVL 134


>gnl|CDD|35790 KOG0570, KOG0570, KOG0570, Transcriptional coactivator
           [Transcription].
          Length = 223

 Score = 28.0 bits (62), Expect = 6.6
 Identities = 27/113 (23%), Positives = 47/113 (41%), Gaps = 7/113 (6%)

Query: 259 ELRTPLN--AILGFSEVIELETMGPLNNETYKEYIGDIHRSGQHLLNLINEILDLSRIEA 316
           ELR  LN   +L F E++++    P   +  +E + DI     +L +LINE       E+
Sbjct: 78  ELRK-LNRSLLLNFLELLDILIRAP---DMREEKVEDIRTIFVNLHHLINEYRPHQARES 133

Query: 317 GRYELSESAISLIDIVRECIIMLQLRAQEKNIEIFQKIDPSLSSVWADEKGMR 369
               +        DIV +    L+ + +E   + FQ +   L +     +  R
Sbjct: 134 LIMLMERQIEQRSDIVEDFKKHLR-QVREVLDDQFQTLRGKLPAPPQSSQLTR 185


  Database: CddA
    Posted date:  Feb 4, 2011  9:38 PM
  Number of letters in database: 6,263,737
  Number of sequences in database:  21,609
  
Lambda     K      H
   0.321    0.137    0.396 

Gapped
Lambda     K      H
   0.267   0.0696    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 5,788,703
Number of extensions: 311139
Number of successful extensions: 912
Number of sequences better than 10.0: 1
Number of HSP's gapped: 876
Number of HSP's successfully gapped: 72
Length of query: 495
Length of database: 6,263,737
Length adjustment: 98
Effective length of query: 397
Effective length of database: 4,146,055
Effective search space: 1645983835
Effective search space used: 1645983835
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: 59 (26.6 bits)