RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780627|ref|YP_003065040.1| chromosomal replication
initiation protein [Candidatus Liberibacter asiaticus str. psy62]
         (502 letters)



>gnl|CDD|178902 PRK00149, dnaA, chromosomal replication initiation protein;
           Reviewed.
          Length = 450

 Score =  546 bits (1410), Expect = e-156
 Identities = 195/472 (41%), Positives = 283/472 (59%), Gaps = 25/472 (5%)

Query: 34  NCESIFTIVSSRLKNQVGPDVYASWFQRLKFHSVLHNIVHLSVPTNFLKAWIKNRYLETI 93
           N +S++  V  RLK+++    Y +W + LK  S+  N + L VP  F+K WI+  YL+ I
Sbjct: 1   NLQSLWEKVLERLKDELSEQEYETWIKPLKALSLEDNTLTLYVPNRFVKDWIEKNYLDLI 60

Query: 94  TKLFQEEHSRIQGVEILVRSVALPSVEKTASSPSITKLSPINTNISKSPIILGKQTISPV 153
            +  QE       VE +  +          ++   +  +P        P          +
Sbjct: 61  EEALQELTGENPKVEFVRPAAPSAEAPAAPAAAPPSSAAPAAAAEEAEP----------L 110

Query: 154 FGSPLDSRFVFSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLL 213
           FGSPL+ ++ F  F+ G SNR+A  AA ++AE     Y     NPLFI+  VGLGKTHLL
Sbjct: 111 FGSPLNPKYTFDNFVVGKSNRLAHAAALAVAENPGKAY-----NPLFIYGGVGLGKTHLL 165

Query: 214 QAIANASIKRQPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFLQG 273
            AI N  +++ PN +VVY+T+E F   F +A+R+N     K+  R++D+LLIDD+QFL G
Sbjct: 166 HAIGNYILEKNPNAKVVYVTSEKFTNDFVNALRNNTMEEFKEKYRSVDVLLIDDIQFLAG 225

Query: 274 K-LIQHEFCHLLNSLLDSAKQVVAAADRPPSELESLDPRIRSRLQGGVSVPLGLHDYEMR 332
           K   Q EF H  N+L ++ KQ+V  +DRPP EL  L+ R+RSR + G++V +   D E R
Sbjct: 226 KERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETR 285

Query: 333 FSILKNRLAISQKEDPKLNINEEVLMHVARTVTTSGRELDGAFNQLVFRHSF--APILTA 390
            +ILK +      E+  +++ +EVL  +A+ +T++ REL+GA N+L+   S    PI T 
Sbjct: 286 IAILKKKA-----EEEGIDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPI-TL 339

Query: 391 EIADELLSHLVNTGETKKMRIEDIQRMVAKHYNISRNDLLSNRRVRTVVRPRQVAMYLSK 450
           E+A E L  L+   + KK+ IE+IQ++VA++YNI  +DL S  R R + RPRQ+AMYL+K
Sbjct: 340 ELAKEALKDLLA-AQKKKITIENIQKVVAEYYNIKVSDLKSKSRTRNIARPRQIAMYLAK 398

Query: 451 IMTPRSFPEIGRRFGDRDHTTVLHAVRKVEKMLETDITLKKEVELLKRLISE 502
            +T  S PEIGR FG RDHTTVLHAVRK+EK+LE D  LK++VE LKR +  
Sbjct: 399 ELTDLSLPEIGRAFGGRDHTTVLHAVRKIEKLLEEDPELKEDVEELKRKLKS 450


>gnl|CDD|161840 TIGR00362, DnaA, chromosomal replication initiator protein DnaA.
           DnaA is involved in DNA biosynthesis; initiation of
           chromosome replication and can also be transcription
           regulator. The C-terminal of the family hits the pfam
           bacterial DnaA (bac_dnaA) domain family. For a review,
           see Kaguni (2006).
          Length = 405

 Score =  465 bits (1200), Expect = e-131
 Identities = 172/431 (39%), Positives = 247/431 (57%), Gaps = 31/431 (7%)

Query: 42  VSSRLKNQVGPDVYASWFQRLKFHSVLHNIVHLSVPTNFLKAWIKNRYLETITKLFQEEH 101
           +  RL++++    Y +WF+ LK  SV    + +SVP  F K WI+  YL+ I +L QE  
Sbjct: 3   ILERLRDELSEQAYNTWFKPLKLLSVEGGTLIISVPNEFAKDWIEKNYLDLIEELLQELF 62

Query: 102 SRIQGVEILVRSVALPSVEKTASSPSITKLSPINTNISKSPIILGKQTISPVFGSPLDSR 161
                +E +V         + +  P+  K  P     S  P             SPL+ +
Sbjct: 63  GEEIEIEFVVGD------PEESLEPTSAKPEPKPPEASAEP----------TNNSPLNPK 106

Query: 162 FVFSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIANASI 221
           + F  F+ G SNR+A  AA ++AE     Y     NPLFI+  VGLGKTHLL AI N  +
Sbjct: 107 YTFDNFVVGKSNRLAHAAALAVAENPGKAY-----NPLFIYGGVGLGKTHLLHAIGNEIL 161

Query: 222 KRQPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFLQGKL-IQHEF 280
           +  PN +VVY+++E F   F +A+R+N     K+  R++DLLLIDD+QFL GK   Q EF
Sbjct: 162 ENNPNAKVVYVSSEKFTNDFVNALRNNKMEEFKEKYRSVDLLLIDDIQFLAGKERTQEEF 221

Query: 281 CHLLNSLLDSAKQVVAAADRPPSELESLDPRIRSRLQGGVSVPLGLHDYEMRFSILKNRL 340
            H  N+L ++ KQ+V  +DRPP EL  L+ R+RSR + G+ V +   D E R +IL+ + 
Sbjct: 222 FHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKA 281

Query: 341 AISQKEDPKLNINEEVLMHVARTVTTSGRELDGAFNQLVFRHSF--APILTAEIADELLS 398
                    L + +EVL  +A+ + ++ REL+GA N+L+   S    PI T E+A E L 
Sbjct: 282 EEE-----GLELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPI-TLELAKEALK 335

Query: 399 HLVNTGETKKMRIEDIQRMVAKHYNISRNDLLSNRRVRTVVRPRQVAMYLSKIMTPRSFP 458
            L+   + K++ IE+IQ +VAK+YNI  +DL S +R R +VRPRQ+AMYL+K +T  S P
Sbjct: 336 DLLR-AKKKEITIENIQEVVAKYYNIKVSDLKSKKRTRNIVRPRQIAMYLAKELTDLSLP 394

Query: 459 EIGRRFGDRDH 469
           EIGR FG RDH
Sbjct: 395 EIGRAFGGRDH 405


>gnl|CDD|184497 PRK14086, dnaA, chromosomal replication initiation protein;
           Provisional.
          Length = 617

 Score =  226 bits (578), Expect = 1e-59
 Identities = 127/375 (33%), Positives = 204/375 (54%), Gaps = 25/375 (6%)

Query: 119 VEKTASSPSITKLSPINTNISKSPIILGKQTISPVFGSP-----LDSRFVFSTFIEGSSN 173
           V +    P     +P+      +P  L  Q  +P  G       L+ ++ F TF+ G+SN
Sbjct: 238 VHRGGPGPPERDDAPVVPIRPSAPGPLAAQP-APAPGPGEPTARLNPKYTFDTFVIGASN 296

Query: 174 RVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIANASIKRQPNLRVVYLT 233
           R A  AA ++AE  +  Y     NPLFI+   GLGKTHLL AI + + +  P  RV Y++
Sbjct: 297 RFAHAAAVAVAEAPAKAY-----NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS 351

Query: 234 AEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFLQGK-LIQHEFCHLLNSLLDSAK 292
           +E F   F ++IRD    + +   R +D+LL+DD+QFL+ K   Q EF H  N+L ++ K
Sbjct: 352 SEEFTNEFINSIRDGKGDSFRRRYREMDILLVDDIQFLEDKESTQEEFFHTFNTLHNANK 411

Query: 293 QVVAAADRPPSELESLDPRIRSRLQGGVSVPLGLHDYEMRFSILKNRLAISQKEDPKLNI 352
           Q+V ++DRPP +L +L+ R+R+R + G+   +   + E R +IL+ +    Q     LN 
Sbjct: 412 QIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQEQ-----LNA 466

Query: 353 NEEVLMHVARTVTTSGRELDGAFNQLVFRHSFAPI----LTAEIADELLSHLVNTGETKK 408
             EVL  +A  ++ + REL+GA   L+   +FA +    +   + + +L  L+      +
Sbjct: 467 PPEVLEFIASRISRNIRELEGA---LIRVTAFASLNRQPVDLGLTEIVLRDLIPEDSAPE 523

Query: 409 MRIEDIQRMVAKHYNISRNDLLSNRRVRTVVRPRQVAMYLSKIMTPRSFPEIGRRFGDRD 468
           +    I    A ++ ++  DL    R R +V  RQ+AMYL + +T  S P+IG++FG RD
Sbjct: 524 ITAAAIMAATADYFGLTVEDLCGTSRSRVLVTARQIAMYLCRELTDLSLPKIGQQFG-RD 582

Query: 469 HTTVLHAVRKVEKML 483
           HTTV+HA RK+  ++
Sbjct: 583 HTTVMHADRKIRALM 597


>gnl|CDD|172578 PRK14088, dnaA, chromosomal replication initiation protein;
           Provisional.
          Length = 440

 Score =  218 bits (558), Expect = 2e-57
 Identities = 144/463 (31%), Positives = 222/463 (47%), Gaps = 40/463 (8%)

Query: 44  SRLKNQVGPDVYASWFQRLKFHSVLHNIVHLSVPTNFLKAWIKNRYLETITKLFQEEHSR 103
             +K +V    +  WF      S+  N V  SV   F+K W++ +Y   ++K  +E   +
Sbjct: 7   QEIKTRVNRKSWELWFSSFDVKSIEGNKVVFSVGNLFIKEWLEKKYGSVLSKAVKEVLGK 66

Query: 104 IQGVEILVRSVALPSVEKTASSPSITKLSPINTNISKSPIILGKQTISPVFGSPLDSRFV 163
               EI             A  P  +   P+   + K  ++L          +PL+  + 
Sbjct: 67  DATFEI----------TYEAFEPHSSYSEPL---VKKRAVLL----------TPLNPDYT 103

Query: 164 FSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIANASIKR 223
           F  F+ G  N  A  AA  +A+         R NPLFI+  VGLGKTHLLQ+I N  ++ 
Sbjct: 104 FENFVVGPGNSFAYHAALEVAK------NPGRYNPLFIYGGVGLGKTHLLQSIGNYVVQN 157

Query: 224 QPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRN-IDLLLIDDMQFLQGKL-IQHEFC 281
           +P+LRV+Y+T+E F+     ++++      ++  R  +D+LLIDD+QFL GK  +Q E  
Sbjct: 158 EPDLRVMYITSEKFLNDLVDSMKEGKLNEFREKYRKKVDVLLIDDVQFLIGKTGVQTELF 217

Query: 282 HLLNSLLDSAKQVVAAADRPPSELESLDPRIRSRLQGGVSVPLGLHDYEMRFSILKNRLA 341
           H  N L DS KQ+V  +DR P +L     R+ SR Q G+   L   D E R  I +  L 
Sbjct: 218 HTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLE 277

Query: 342 ISQKEDPKLNINEEVLMHVARTVTTSGRELDGAFNQL-VFRHSFAPILTAEIADELLSHL 400
           I   E P     EEVL  VA  V  + R L GA  +L V++ +    +  + A  LL   
Sbjct: 278 IEHGELP-----EEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLKDF 332

Query: 401 VNTGETKKMRIED-IQRMVAKHYNISRNDLLSNRRVRTVVRPRQVAMYLSKIMTPRSFPE 459
           +     K M   D +  +VAK   +SR ++LSN R    +  R++ MY++K     S   
Sbjct: 333 IKPNRVKAMDPIDELIEIVAKVTGVSREEILSNSRNVKALLARRIGMYVAKNYLGSSLRT 392

Query: 460 IGRRFGDRDHTTVLHAVRKVEK-MLETDITLKKEVELLKRLIS 501
           I  +F  R H  V+ +V+KV+  +L+ +  LK  ++ +   IS
Sbjct: 393 IAEKFN-RSHPVVVDSVKKVKDSLLKGNKQLKSLIDEVIGEIS 434


>gnl|CDD|172577 PRK14087, dnaA, chromosomal replication initiation protein;
           Provisional.
          Length = 450

 Score =  175 bits (446), Expect = 2e-44
 Identities = 106/343 (30%), Positives = 187/343 (54%), Gaps = 15/343 (4%)

Query: 164 FSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIANASIKR 223
           F  F+ GSSN  A  A Q++++     Y     NPLFI+   G+GKTHLL+A  N     
Sbjct: 114 FENFVIGSSNEQAFIAVQTVSKNPGISY-----NPLFIYGESGMGKTHLLKAAKNYIESN 168

Query: 224 QPNLRVVYLTAEYFMWRFASAIR--DNCALNLKDSLRNIDLLLIDDMQFLQGKLIQHE-F 280
             +L+V Y++ + F  +    ++         K+ +   D+L+IDD+QFL  K   +E F
Sbjct: 169 FSDLKVSYMSGDEFARKAVDILQKTHKEIEQFKNEICQNDVLIIDDVQFLSYKEKTNEIF 228

Query: 281 CHLLNSLLDSAKQVVAAADRPPSELESLDPRIRSRLQGGVSVPLGLHDYEMRFSILKNRL 340
             + N+ +++ KQ+  ++D+ P  L   D R+ +R   G+S+ +   D +   +I+K  +
Sbjct: 229 FTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEI 288

Query: 341 AISQKEDPKLNINEEVLMHVARTVTTSGRELDGAFNQLVF---RHSFAPILTAEIADELL 397
              + ++ K  + EE +  ++   +   R++ G+ ++L F   ++    I+T EI  +L 
Sbjct: 289 ---KNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRLNFWSQQNPEEKIITIEIVSDLF 345

Query: 398 SHLVNTGETKKMRIEDIQRMVAKHYNISRNDLLSNRRVRTVVRPRQVAMYLSKIMTPRSF 457
              + T +   + ++ I+ +V++ Y IS N +    R +++V  R +AMYL+K +   + 
Sbjct: 346 RD-IPTSKLGILNVKKIKEVVSEKYGISVNAIDGKARSKSIVTARHIAMYLTKEILNHTL 404

Query: 458 PEIGRRFGDRDHTTVLHAVRKVEKMLETDITLKKEVELLKRLI 500
            +IG  FG RDHTTV++A RK+EKML+ D  LKK V++LK  I
Sbjct: 405 AQIGEEFGGRDHTTVINAERKIEKMLKKDKQLKKTVDILKNKI 447


>gnl|CDD|183521 PRK12422, PRK12422, chromosomal replication initiation protein;
           Provisional.
          Length = 445

 Score =  166 bits (423), Expect = 1e-41
 Identities = 101/355 (28%), Positives = 170/355 (47%), Gaps = 24/355 (6%)

Query: 158 LDSRFVFSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIA 217
           LD    F+ F+    N +     Q   +V   G      NP+++    G GKTHL+QA  
Sbjct: 104 LDPLMTFANFLVTPENDLPHRILQEFTKVSEQG-KGFPFNPIYLFGPEGSGKTHLMQAAV 162

Query: 218 NASIKRQPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFLQGK-LI 276
           +A   R+   +++Y+ +E F     SAIR       +   RN+D L I+D++   GK   
Sbjct: 163 HAL--RESGGKILYVRSELFTEHLVSAIRSGEMQRFRQFYRNVDALFIEDIEVFSGKGAT 220

Query: 277 QHEFCHLLNSLLDSAKQVVAAADRPPSELESLDPRIRSRLQGGVSVPLG-LHDYEMRFSI 335
           Q EF H  NSL    K +V ++   P +L++++ R+ SR + G+++PL  L    +R   
Sbjct: 221 QEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLR--- 277

Query: 336 LKNRLAISQKEDPKLNINEEVLMHVARTVTTSGRELDGAFNQLVFRHSFAP----ILTAE 391
                   + E   + I E  L  +   ++++ + L  A   L  R ++      +L  +
Sbjct: 278 ---SFLERKAEALSIRIEETALDFLIEALSSNVKSLLHALTLLAKRVAYKKLSHQLLYVD 334

Query: 392 IADELLSHLVNTGETKKMRIEDIQRMVAKHYNISRNDLLSNRRVRTVVRPRQVAMYLSKI 451
               LL  ++   E+ ++    I R VA++Y +S   +L   + R  V PRQVAMYL + 
Sbjct: 335 DIKALLHDVLEAAESVRLTPSKIIRAVAQYYGVSPESILGRSQSREYVLPRQVAMYLCRQ 394

Query: 452 MTPRSFPEIGRRFGDRDHTTVLHAVRKVEKMLETDITLKKEV-----ELLKRLIS 501
               S+ +IG  F  RDH+TV+ ++R + + LE D    +++     E+ KRL S
Sbjct: 395 KLSLSYVKIGDVFS-RDHSTVISSIRAISQKLEED---DRDISMAIQEITKRLSS 445


>gnl|CDD|149380 pfam08299, Bac_DnaA_C, domain. 
          Length = 70

 Score =  114 bits (287), Expect = 7e-26
 Identities = 44/70 (62%), Positives = 54/70 (77%)

Query: 410 RIEDIQRMVAKHYNISRNDLLSNRRVRTVVRPRQVAMYLSKIMTPRSFPEIGRRFGDRDH 469
            IE+IQ +VA++YNI+  DLLS  R R+VVR RQ+AMYL + +T  S PEIG  FG RDH
Sbjct: 1   TIENIQEIVAEYYNITVEDLLSKSRTRSVVRARQIAMYLLRELTNLSLPEIGEIFGGRDH 60

Query: 470 TTVLHAVRKV 479
           TTVLHAVRK+
Sbjct: 61  TTVLHAVRKI 70


>gnl|CDD|128999 smart00760, Bac_DnaA_C, Bacterial dnaA protein helix-turn-helix
           domain.  Could be involved in DNA-binding.
          Length = 60

 Score = 97.6 bits (244), Expect = 7e-21
 Identities = 28/59 (47%), Positives = 39/59 (66%)

Query: 411 IEDIQRMVAKHYNISRNDLLSNRRVRTVVRPRQVAMYLSKIMTPRSFPEIGRRFGDRDH 469
           IE+I   VA+++ +   DL S  R R +V  RQ+AMYL++ +T  S PEIG+ FG RDH
Sbjct: 2   IEEIIEAVAEYFGVKPEDLKSKSRKREIVLARQIAMYLARELTDLSLPEIGKIFGGRDH 60


>gnl|CDD|163254 TIGR03420, DnaA_homol_Hda, DnaA regulatory inactivator Hda.
           Members of this protein family are Hda (Homologous to
           DnaA). These proteins are about half the length of DnaA
           and homologous over length of Hda. In the model species
           Escherichia coli, the initiation of DNA replication
           requires DnaA bound to ATP rather than ADP; Hda helps
           facilitate the conversion of DnaA-ATP to DnaA-ADP.
          Length = 226

 Score = 80.3 bits (199), Expect = 1e-15
 Identities = 46/180 (25%), Positives = 76/180 (42%), Gaps = 22/180 (12%)

Query: 164 FSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIANASIKR 223
           F  F  G  N   L A + +A              L++    G GK+HLLQA   A+ +R
Sbjct: 14  FDNFYAGG-NAELLAALRQLAAGKGD-------RFLYLWGESGSGKSHLLQAACAAAEER 65

Query: 224 QPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFLQG-KLIQHEFCH 282
                 +YL           A        + + L   DL+ +DD++ + G    Q    H
Sbjct: 66  G--KSAIYLPL---------AELAQADPEVLEGLEQADLVCLDDVEAIAGQPEWQEALFH 114

Query: 283 LLNSLLDSAKQVVAAADRPPSELESLDPRIRSRLQGGVSVPL-GLHDYEMRFSILKNRLA 341
           L N + ++  +++ A    P++L    P +R+RL  G+   L  L D E + + L++R A
Sbjct: 115 LYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEE-KIAALQSRAA 173


>gnl|CDD|180719 PRK06835, PRK06835, DNA replication protein DnaC; Validated.
          Length = 329

 Score = 58.0 bits (141), Expect = 6e-09
 Identities = 40/130 (30%), Positives = 55/130 (42%), Gaps = 16/130 (12%)

Query: 199 LFIHASVGLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAIR---DNCALNLKD 255
           L  + + G GKT L   IA   + R     V+Y TA+  +      IR   D     + D
Sbjct: 186 LLFYGNTGTGKTFLSNCIAKELLDR--GKSVIYRTADELIEIL-REIRFNNDKELEEVYD 242

Query: 256 SLRNIDLLLIDDMQFLQGKLIQHEFCH-----LLNSLLDSAKQVVAAADRPPSELESL-D 309
            L N DLL+IDD+    G     EF       L+N  L   K+++ + +    EL     
Sbjct: 243 LLINCDLLIIDDL----GTEKITEFSKSELFNLINKRLLRQKKMIISTNLSLEELLKTYS 298

Query: 310 PRIRSRLQGG 319
            RI SRL G 
Sbjct: 299 ERISSRLLGN 308


>gnl|CDD|168147 PRK05642, PRK05642, DNA replication initiation factor; Validated.
          Length = 234

 Score = 55.3 bits (133), Expect = 3e-08
 Identities = 49/166 (29%), Positives = 79/166 (47%), Gaps = 23/166 (13%)

Query: 157 PLDSRF----VFSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHL 212
           PL  R      F+ +  G+ N  AL   + + E D+ G+T    + +++    G+G++HL
Sbjct: 7   PLGVRLRDDATFANYYPGA-NAAALGYVERLCEADA-GWTE---SLIYLWGKDGVGRSHL 61

Query: 213 LQAIANASIK-RQPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFL 271
           LQA   A ++  Q     VYL     + R            L D+L   +L+ +DD+  +
Sbjct: 62  LQA---ACLRFEQRGEPAVYLPLAELLDR---------GPELLDNLEQYELVCLDDLDVI 109

Query: 272 QGKLIQHE-FCHLLNSLLDSAKQVVAAADRPPSELESLDPRIRSRL 316
            GK    E   HL N L DS ++++ AA + P EL    P ++SRL
Sbjct: 110 AGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRL 155


>gnl|CDD|180356 PRK06030, PRK06030, hypothetical protein; Provisional.
          Length = 124

 Score = 53.2 bits (128), Expect = 1e-07
 Identities = 28/88 (31%), Positives = 46/88 (52%), Gaps = 3/88 (3%)

Query: 414 IQRMVAKHYNISRNDLLSNRRVR-TVVRPRQVAMYLSKIMTPRSFPEIGRRFGDRDHTTV 472
           +  ++A  + +S  ++ S  R R  V R RQ+AMY++ +       E+   FG RD TTV
Sbjct: 28  VIDLLALAFGVSGAEIASPLRGRREVSRIRQIAMYVAHVSLGWPMNEVALAFG-RDRTTV 86

Query: 473 LHAVRKVEKMLETDITLKKEVELLKRLI 500
            HA   VE + + D      V +L+R++
Sbjct: 87  GHACHTVEDLRD-DAAFDARVSVLERIV 113


>gnl|CDD|181233 PRK08116, PRK08116, hypothetical protein; Validated.
          Length = 268

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 23/73 (31%), Positives = 39/73 (53%), Gaps = 5/73 (6%)

Query: 199 LFIHASVGLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAIRDNCALN---LKD 255
           L +  SVG GKT+L   IAN  I++   + V+++     + R  S  + +   +   +  
Sbjct: 117 LLLWGSVGTGKTYLAACIANELIEKG--VPVIFVNFPQLLNRIKSTYKSSGKEDENEIIR 174

Query: 256 SLRNIDLLLIDDM 268
           SL N DLL++DD+
Sbjct: 175 SLVNADLLILDDL 187


>gnl|CDD|181224 PRK08084, PRK08084, DNA replication initiation factor; Provisional.
          Length = 235

 Score = 41.6 bits (98), Expect = 4e-04
 Identities = 38/158 (24%), Positives = 71/158 (44%), Gaps = 21/158 (13%)

Query: 164 FSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIANASIKR 223
           F++F  G  N   L A Q+    +  GY       +++ +  G G++HLL A A A + +
Sbjct: 21  FASFYPGD-NDSLLAALQNALRQEHSGY-------IYLWSREGAGRSHLLHA-ACAELSQ 71

Query: 224 QPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFLQGKLIQHE-FCH 282
           +    V Y+  +          R      + + +  + L+ ID+++ + G  +       
Sbjct: 72  R-GRAVGYVPLD---------KRAWFVPEVLEGMEQLSLVCIDNIECIAGDELWEMAIFD 121

Query: 283 LLNSLLDSAK-QVVAAADRPPSELESLDPRIRSRLQGG 319
           L N +L+S + +++   DRPP +L    P + SRL  G
Sbjct: 122 LYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWG 159


>gnl|CDD|128665 smart00382, AAA, ATPases associated with a variety of cellular
           activities.  AAA - ATPases associated with a variety of
           cellular activities. This profile/alignment only detects
           a fraction of this vast family. The poorly conserved
           N-terminal helix is missing from the alignment.
          Length = 148

 Score = 40.8 bits (95), Expect = 7e-04
 Identities = 26/145 (17%), Positives = 44/145 (30%), Gaps = 24/145 (16%)

Query: 195 RLNPLFIHASVGLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAIRDNCALNLK 254
               + I    G GKT L +A+A       P   V+Y+  E  +      +        K
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGP--PGGGVIYIDGEDILEEVLDQLLLIIVGGKK 58

Query: 255 DSL---------------RNIDLLLIDDMQFLQGK------LIQHEFCHLLNSLLDSAKQ 293
            S                   D+L++D++  L         L+  E   LL    +    
Sbjct: 59  ASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLT 118

Query: 294 VVAAADRPPSELES-LDPRIRSRLQ 317
           V+   +       + L  R   R+ 
Sbjct: 119 VILTTNDEKDLGPALLRRRFDRRIV 143


>gnl|CDD|168719 PRK06893, PRK06893, DNA replication initiation factor; Validated.
          Length = 229

 Score = 40.2 bits (94), Expect = 0.001
 Identities = 36/143 (25%), Positives = 62/143 (43%), Gaps = 19/143 (13%)

Query: 200 FIHASVGLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRN 259
           +I      GK+HLL+A++N  +  Q     + L+   +   F+ A+ +N        L  
Sbjct: 43  YIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQY---FSPAVLEN--------LEQ 91

Query: 260 IDLLLIDDMQFLQGKLIQHEF----CHLLNSLLDSAKQ-VVAAADRPPSELESLDPRIRS 314
            DL+ +DD+Q + G     E+      L N + +  K  ++ +AD  P  L    P + S
Sbjct: 92  QDLVCLDDLQAVIG---NEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLAS 148

Query: 315 RLQGGVSVPLGLHDYEMRFSILK 337
           RL  G    L     E +  +L+
Sbjct: 149 RLTWGEIYQLNDLTDEQKIIVLQ 171


>gnl|CDD|181578 PRK08903, PRK08903, DnaA regulatory inactivator Hda; Validated.
          Length = 227

 Score = 39.2 bits (92), Expect = 0.003
 Identities = 34/154 (22%), Positives = 55/154 (35%), Gaps = 25/154 (16%)

Query: 164 FSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAIANASIKR 223
           F  F+ G  N   +   + +A          R    ++    G G++HLLQA+   +   
Sbjct: 17  FDNFVAGE-NAELVARLRELAAGPVAD----RF--FYLWGEAGSGRSHLLQALVADASYG 69

Query: 224 QPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFLQGKLIQHEFCHL 283
             N R  YL A                L   D     +L  +DD++ L     Q    +L
Sbjct: 70  GRNAR--YLDA-------------ASPLLAFDFDPEAELYAVDDVERL-DDAQQIALFNL 113

Query: 284 LNSLLDSAK-QVVAAADRPPSELESLDPRIRSRL 316
            N +    +  ++ A    P  L  L   +R+RL
Sbjct: 114 FNRVRAHGQGALLVAGPAAPLAL-PLREDLRTRL 146


>gnl|CDD|181681 PRK09183, PRK09183, transposase/IS protein; Provisional.
          Length = 259

 Score = 37.8 bits (88), Expect = 0.006
 Identities = 21/70 (30%), Positives = 36/70 (51%), Gaps = 9/70 (12%)

Query: 206 GLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNI----D 261
           G+GKTHL  AIA      +  ++V + TA   + + ++A R       K +L+       
Sbjct: 112 GVGKTHL--AIALGYEAVRAGIKVRFTTAADLLLQLSTAQRQG---RYKTTLQRGVMAPR 166

Query: 262 LLLIDDMQFL 271
           LL+ID++ +L
Sbjct: 167 LLIIDEIGYL 176


>gnl|CDD|181587 PRK08939, PRK08939, primosomal protein DnaI; Reviewed.
          Length = 306

 Score = 37.2 bits (87), Expect = 0.011
 Identities = 18/70 (25%), Positives = 39/70 (55%), Gaps = 2/70 (2%)

Query: 199 LFIHASVGLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLR 258
           L+++   G+GK++LL AIAN   K+  +  +++     F+    ++I D       D+++
Sbjct: 159 LYLYGDFGVGKSYLLAAIANELAKKGVSSTLLHFPE--FIRELKNSISDGSVKEKIDAVK 216

Query: 259 NIDLLLIDDM 268
              +L++DD+
Sbjct: 217 EAPVLMLDDI 226


>gnl|CDD|180750 PRK06921, PRK06921, hypothetical protein; Provisional.
          Length = 266

 Score = 34.0 bits (78), Expect = 0.085
 Identities = 31/120 (25%), Positives = 57/120 (47%), Gaps = 15/120 (12%)

Query: 206 GLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWR--FASAIRDNCALNLK-DSLRNIDL 262
           G GKTHLL A AN  ++++       +   YF +   F     D   L  K + ++ +++
Sbjct: 127 GSGKTHLLTAAANELMRKK------GVPVLYFPFVEGFGDLKDDFDLLEAKLNRMKKVEV 180

Query: 263 LLIDDM-QFLQGKLIQHEF-----CHLLNSLLDSAKQVVAAADRPPSELESLDPRIRSRL 316
           L IDD+ + + GK    E+       +LN    + K ++ +++    EL  +D  + SR+
Sbjct: 181 LFIDDLFKPVNGKPRATEWQIEQMYSVLNYRYLNHKPILISSELTIDELLDIDEALGSRI 240


>gnl|CDD|183482 PRK12377, PRK12377, putative replication protein; Provisional.
          Length = 248

 Score = 32.9 bits (75), Expect = 0.21
 Identities = 35/127 (27%), Positives = 56/127 (44%), Gaps = 14/127 (11%)

Query: 144 ILGKQTISPVFGSPLDSRFVFSTF-IEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIH 202
           IL +  I P     L  +  F+ + ++    R AL+ A+SIA+    G T    N +F  
Sbjct: 58  ILNRSGIQP-----LHRKCSFANYQVQNDGQRYALSQAKSIADELMTGCT----NFVF-S 107

Query: 203 ASVGLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAIRD-NCALNLKDSLRNID 261
              G GK HL  AI N  + +  ++ VV  T    M R   +  +          L  +D
Sbjct: 108 GKPGTGKNHLAAAIGNRLLAKGRSVIVV--TVPDVMSRLHESYDNGQSGEKFLQELCKVD 165

Query: 262 LLLIDDM 268
           LL++D++
Sbjct: 166 LLVLDEI 172


>gnl|CDD|184406 PRK13933, PRK13933, stationary phase survival protein SurE;
           Provisional.
          Length = 253

 Score = 32.0 bits (73), Expect = 0.32
 Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 9/50 (18%)

Query: 85  IKNRYLETITKLFQEEHSRIQGVEILVRSVALPSVEKTASSPSITKLSPI 134
           I    + T+ +L  + H  I         +  P  +++ASS SIT   PI
Sbjct: 11  INAEGINTLAELLSKYHEVI---------IVAPENQRSASSHSITIYEPI 51


>gnl|CDD|165109 PHA02742, PHA02742, protein tyrosine phosphatase; Provisional.
          Length = 303

 Score = 31.9 bits (72), Expect = 0.39
 Identities = 14/42 (33%), Positives = 21/42 (50%)

Query: 175 VALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAI 216
           +A+  A   A+VD  G   V+  P+ +H S GL +     AI
Sbjct: 208 LAVREADLKADVDIKGENIVKEPPILVHCSAGLDRAGAFCAI 249


>gnl|CDD|181180 PRK07952, PRK07952, DNA replication protein DnaC; Validated.
          Length = 244

 Score = 30.5 bits (69), Expect = 1.2
 Identities = 29/118 (24%), Positives = 52/118 (44%), Gaps = 17/118 (14%)

Query: 206 GLGKTHLLQAIANASIKRQPNLRVVYLTAEYFMWRFASAI--RDNCALNLKDSLRNIDLL 263
           G GK HL  AI N  + R  +  V+ +T    M          +     L + L N+DLL
Sbjct: 109 GTGKNHLAAAICNELLLRGKS--VLIITVADIMSAMKDTFSNSETSEEQLLNDLSNVDLL 166

Query: 264 LIDDMQFLQGKLIQHEFCH---LLNSLLDSAKQVVAAADRPPSELESLDPRIRSRLQG 318
           +ID++       +Q E  +   ++N ++D      +++ RP   L + +    ++L G
Sbjct: 167 VIDEIG------VQTESRYEKVIINQIVDRR----SSSKRPTGMLTNSNMEEMTKLLG 214


>gnl|CDD|183114 PRK11388, PRK11388, DNA-binding transcriptional regulator DhaR;
           Provisional.
          Length = 638

 Score = 30.4 bits (69), Expect = 1.2
 Identities = 15/65 (23%), Positives = 20/65 (30%), Gaps = 18/65 (27%)

Query: 161 RFVFSTFIEGSSN-----RVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQA 215
              F    + S            AA+S               P+ +    G+GK  L QA
Sbjct: 321 SHTFDHMPQDSPQMRRLIHFGRQAAKSSF-------------PVLLCGEEGVGKALLAQA 367

Query: 216 IANAS 220
           I N S
Sbjct: 368 IHNES 372


>gnl|CDD|162842 TIGR02402, trehalose_TreZ, malto-oligosyltrehalose
           trehalohydrolase.  Members of this family are the
           trehalose biosynthetic enzyme malto-oligosyltrehalose
           trehalohydrolase, formally known as
           4-alpha-D-{(1->4)-alpha-D-glucano}trehalose
           trehalohydrolase (EC 3.2.1.141). It is the TreZ protein
           of the TreYZ pathway for trehalose biosynthesis, and
           alternative to the OtsAB system.
          Length = 542

 Score = 29.2 bits (66), Expect = 2.6
 Identities = 11/35 (31%), Positives = 17/35 (48%)

Query: 201 IHASVGLGKTHLLQAIANASIKRQPNLRVVYLTAE 235
           +HA       H+L+ +A    +    LR V+L AE
Sbjct: 246 VHAIADTSAKHILEELAREVHELAAELRPVHLIAE 280


>gnl|CDD|128763 smart00487, DEXDc, DEAD-like helicases superfamily. 
          Length = 201

 Score = 29.4 bits (66), Expect = 2.6
 Identities = 11/35 (31%), Positives = 16/35 (45%)

Query: 199 LFIHASVGLGKTHLLQAIANASIKRQPNLRVVYLT 233
           + + A  G GKT      A  ++KR    RV+ L 
Sbjct: 27  VILAAPTGSGKTLAALLPALEALKRGKGKRVLVLV 61


>gnl|CDD|181541 PRK08727, PRK08727, hypothetical protein; Validated.
          Length = 233

 Score = 29.0 bits (65), Expect = 2.6
 Identities = 47/190 (24%), Positives = 77/190 (40%), Gaps = 35/190 (18%)

Query: 157 PLDSRFVFSTFIEGSSNRVALTAAQSIAEVDSHGYTTVRLNPLFIHASVGLGKTHLLQAI 216
           P D RF   ++I        L   Q++A   S  +       L++    G GKTHL  A+
Sbjct: 13  PSDQRF--DSYIAAPDG--LLAQLQALAAGQSSDW-------LYLSGPAGTGKTHL--AL 59

Query: 217 ANASIKRQPNLRVVYLTAEYFMWRFASAIRDNCALNLKDSLRNIDLLLIDDMQFLQGKLI 276
           A  +   Q      YL  +      A+A R   AL   ++L    L+ +D ++ + G+  
Sbjct: 60  ALCAAAEQAGRSSAYLPLQ------AAAGRLRDAL---EALEGRSLVALDGLESIAGQ-- 108

Query: 277 QHEFCHLLNSLLDSAKQVVAA-------ADRPPSELESLDPRIRSRLQGGVSVPLGLHDY 329
                    +L D   +  AA       A + P  L  + P +RSRL   + + L + D 
Sbjct: 109 ----REDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDD 164

Query: 330 EMRFSILKNR 339
             R ++L+ R
Sbjct: 165 VARAAVLRER 174


>gnl|CDD|183675 PRK12678, PRK12678, transcription termination factor Rho;
           Provisional.
          Length = 672

 Score = 28.7 bits (65), Expect = 3.7
 Identities = 9/12 (75%), Positives = 10/12 (83%)

Query: 208 GKTHLLQAIANA 219
           GKT +LQ IANA
Sbjct: 428 GKTTILQNIANA 439


>gnl|CDD|180846 PRK07111, PRK07111, anaerobic ribonucleoside triphosphate
           reductase; Provisional.
          Length = 735

 Score = 28.4 bits (64), Expect = 4.5
 Identities = 14/65 (21%), Positives = 28/65 (43%), Gaps = 20/65 (30%)

Query: 388 LTAEIADELLSHLVNTGETKKMRIEDIQRMV------------AKHYNISRNDLLSNRRV 435
              E+  +++ +L    + +++ +EDIQ +V            AK Y + R +       
Sbjct: 39  EAIELTQKVIKYLEEKYK-EEVTVEDIQDLVEKVLIENGHAETAKAYILYRAE------- 90

Query: 436 RTVVR 440
           RT +R
Sbjct: 91  RTRIR 95


>gnl|CDD|164956 PHA02561, D, tail protein; Provisional.
          Length = 351

 Score = 28.1 bits (63), Expect = 4.9
 Identities = 7/36 (19%), Positives = 15/36 (41%)

Query: 371 LDGAFNQLVFRHSFAPILTAEIADELLSHLVNTGET 406
           L      +  R++  P +   +A   + H+  T E+
Sbjct: 127 LGDIVRAIAGRNNLTPRVAPALAGIPIDHIDQTQES 162


>gnl|CDD|171440 PRK12365, PRK12365, ribonucleotide-diphosphate reductase subunit
           alpha; Provisional.
          Length = 1046

 Score = 28.0 bits (62), Expect = 5.9
 Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 10/59 (16%)

Query: 388 LTAEIADELLSHLVNTGETKKMRIEDIQR------MVAKHYNISRNDLLSNRRVRTVVR 440
           LT  I +E+L       +  ++ IE IQ       MV  HY++++N +L  R  R  VR
Sbjct: 164 LTQNIVEEILE---CCSQEDRIDIEKIQDIVEQQLMVVGHYDVAKNYILY-REARARVR 218


  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
   0.321    0.134    0.378 

Gapped
Lambda     K      H
   0.267   0.0793    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 7,995,837
Number of extensions: 516705
Number of successful extensions: 1189
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1143
Number of HSP's successfully gapped: 48
Length of query: 502
Length of database: 5,994,473
Length adjustment: 97
Effective length of query: 405
Effective length of database: 3,898,497
Effective search space: 1578891285
Effective search space used: 1578891285
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 (21.9 bits)
S2: 59 (26.4 bits)