RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780353|ref|YP_003064766.1| DNA topoisomerase IV subunit A
[Candidatus Liberibacter asiaticus str. psy62]
         (753 letters)



>gnl|CDD|30537 COG0188, GyrA, Type IIA topoisomerase (DNA gyrase/topo II,
           topoisomerase IV), A subunit [DNA replication,
           recombination, and repair].
          Length = 804

 Score =  726 bits (1876), Expect = 0.0
 Identities = 312/746 (41%), Positives = 449/746 (60%), Gaps = 24/746 (3%)

Query: 14  EENVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFK 73
            E ++ + +   ++  YL YA+S I  RA+PD+RDG KPV RRI++AM E+GL     +K
Sbjct: 5   SEEIEPIDIEDEMKRSYLDYAMSVIVGRALPDVRDGLKPVQRRILYAMFELGLTPDKKYK 64

Query: 74  KSARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTE 133
           KSARIVG+V+GK HPHGD S+YD+LVR+AQ F  RYPL+ GQGNFG+IDGD AAA RYTE
Sbjct: 65  KSARIVGDVMGKYHPHGDSSIYDALVRMAQDFSLRYPLVDGQGNFGSIDGDPAAAMRYTE 124

Query: 134 ARMTQVAELILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPS 193
           AR++++AE +L+ +D+D VDF   Y+  + EP V P++FPNLL NG+SGIAVGMAT+IP 
Sbjct: 125 ARLSKIAEELLEDIDKDTVDFVPNYDGSEKEPEVLPARFPNLLVNGSSGIAVGMATNIPP 184

Query: 194 HNVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRVR 253
           HN+ E+ +A +ALIDNP+ +I++L+E I GPDFPTGGII+  R  I E+Y  GRG  RVR
Sbjct: 185 HNLGEVIDALIALIDNPDATIDELMEIIKGPDFPTGGIII-GRSGIREAYETGRGSIRVR 243

Query: 254 ARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAED-VRIV 312
           A+  +E+   G   IV+TEIPYQV K++LIEKIAEL+  K+I  + DIRDES  + +RIV
Sbjct: 244 AKAEIEDTKNGREQIVITEIPYQVNKAKLIEKIAELVKEKKIEGISDIRDESDREGIRIV 303

Query: 313 LFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVL 372
           +  K R    ++++ ++F L+D++T F +NM  L  GR P+V+ L  IL E+L HR EV+
Sbjct: 304 IELK-RDAVAEVVLNNLFKLTDLQTSFNVNMLALVNGR-PKVLNLKEILSEFLEHRLEVV 361

Query: 373 FRRSSFRMQAIDRRVEILKGLLIAYLNIDEIIAIIRNEDKP---KPVMVSRFSLTENQVD 429
            RR+ + +   + R+ IL+GLLIA LNIDE+I IIR        K  +++RF L+E Q +
Sbjct: 362 TRRTEYELNKAEERLHILEGLLIALLNIDEVIEIIRESKDKPEAKEELMARFGLSEKQAE 421

Query: 430 AILNLRLRSLRKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKEIFSKS 489
           AIL+LRLR L  LEE +I+ EL  L  E   ++ +L S ++  + I  E+ E+K+ F   
Sbjct: 422 AILDLRLRRLTGLEEEKIEKELKELEKEIADLEKILASEERLLDIIKKELLEIKKKFGD- 480

Query: 490 TDLGRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIR--SLKSHSVD-LSALHFK 546
                RRT   E    +     + +I +E + V +S++G+I+   LK +    +S L  K
Sbjct: 481 ----ERRTEIVE--EEEDEIEDEDLIAEEDVVVTLSHKGYIKRVPLKGYEAQRVSGLGLK 534

Query: 547 EGDSLKIALHAHTTDRILLLSTDGKAYTLPAGNL--LSGRGHGEAIQLLIDLNHNQDIVT 604
           EGD L+    A+T D +L  ++ G+ Y L    L   S R  GE I  L+ L   + I  
Sbjct: 535 EGDFLERLFEANTHDTLLFFTSKGRVYKLKVYELPEGSRRSRGEPIVNLLSLEKGEKITA 594

Query: 605 AFVYDSTCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVVKVTG--DHVA 662
               +    L + + KG       SE      KGK  +K+   +++  V   +   D + 
Sbjct: 595 VLPVNDDQYLFLATKKGYVKKTSLSEFKNIRSKGKIAIKLKEGDELVSVSLTSDGDDDIL 654

Query: 663 VVGENRKLLIFSIDQIPEMSRG-KGVRLQSYKDGGISDVICFKICEGLT-WIDSAGRSYN 720
           +V  N K L F   ++ EM RG KGV+    K+G    V    + +     +    R Y 
Sbjct: 655 LVTSNGKALRFPESEVREMGRGAKGVKGIKLKEGD-KVVSLSVVEDDEAKLLTVTERGYG 713

Query: 721 RSENDLLGWLGKRGGVGSLVPKGFPR 746
           +        + KRGG G ++ KG  R
Sbjct: 714 KRTKISEYPVTKRGGKGVILIKGTKR 739


>gnl|CDD|144201 pfam00521, DNA_topoisoIV, DNA gyrase/topoisomerase IV, subunit A. 
          Length = 428

 Score =  518 bits (1337), Expect = e-147
 Identities = 200/436 (45%), Positives = 281/436 (64%), Gaps = 17/436 (3%)

Query: 41  RAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLVR 100
           RAIPD+RDG KPV RRI++AM E+GL+    +KK AR+VG+V+GK HPHGD S+YD+LVR
Sbjct: 1   RAIPDVRDGLKPVQRRILYAMFELGLNLDKKYKKVARLVGDVMGKYHPHGDASIYDALVR 60

Query: 101 LAQPFVQRYPLISGQGNFGNI-DGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYN 159
           +AQ FV   PL+ GQGNFG+  DGD AAA RYTEAR++++A  + + +D+D VDF   Y+
Sbjct: 61  MAQDFVGNIPLLDGQGNFGSRLDGDKAAAMRYTEARLSKIARELFKDIDKDTVDFVPNYD 120

Query: 160 EEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLE 219
             + EP V P   PNLL NG SGIAVGMAT+IP HN+ E+ +A +AL+D PEI++   L 
Sbjct: 121 GSEKEPTVLPPIIPNLLVNGASGIAVGMATNIPPHNLGEVIDALIALLDGPEITL---LL 177

Query: 220 YIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQK 279
            I GPDFPTGG I+     I E+Y+ GRG   VRA+  +EE       IV+TE+PY V  
Sbjct: 178 KIPGPDFPTGGGII-GSGGIREAYKTGRGKITVRAKIEIEE----RKTIVITELPYGVWT 232

Query: 280 SRLIEKIAELIIAKRIPLLEDIRDESAEDVRIVLFPKNRSLDPDLLMESIFMLSDMETRF 339
            +LIE I EL+   +I    DIRDES   VRIV+  K R  DP++++  ++  + +++ F
Sbjct: 233 EKLIESIEELVKNGKIK-GSDIRDESDRGVRIVIELK-RGADPEVVLNKLYKKTKLQSSF 290

Query: 340 PLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYLN 399
             N  VL     P+ + L  ILKE+L HR EV  RR  + ++ ++ R+ IL+GLL A   
Sbjct: 291 STNNLVL-FDGGPKYLNLKEILKEFLEHRLEVYKRRKEYLLEKLEERLHILEGLLKALNK 349

Query: 400 IDEIIAIIRNED---KPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLA 456
           ID +I +IR      K K  ++    L+E Q D +L++RLR L K E  +++ E++ L  
Sbjct: 350 IDFVIEVIRGSIDLNKAKKELIEE--LSEIQADYLLDMRLRRLTKEEIEKLEKEIEELEK 407

Query: 457 EKEKIDSLLNSGKQQW 472
           E  +++ +L S K+ W
Sbjct: 408 EIAELEKILASEKKLW 423


>gnl|CDD|29149 cd00187, TOP4c, DNA Topoisomerase, subtype IIA; domain A';
           bacterial DNA topoisomerase IV (C subunit, ParC),
           bacterial DNA gyrases (A subunit, GyrA),mammalian DNA
           toposiomerases II. DNA topoisomerases are essential
           enzymes that regulate the conformational changes in DNA
           topology by catalysing the concerted breakage and
           rejoining of DNA strands during normal cellular growth..
          Length = 445

 Score =  504 bits (1300), Expect = e-143
 Identities = 206/447 (46%), Positives = 294/447 (65%), Gaps = 7/447 (1%)

Query: 40  ERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKSARIVGEVIGKLHPHGDQSVYDSLV 99
            RA+PD+RDG KPV RRI++AM + GL      KK AR+VG+V GK HPHGD S+YD++V
Sbjct: 2   GRALPDVRDGLKPVQRRILYAMFKRGLTPDKPEKKVARLVGDVAGKYHPHGDSSLYDTIV 61

Query: 100 RLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDAVDFRDTYN 159
           R+AQ F    PL+  QGNFG+ DGD AAA RYTE R++ +A L+L  +D+  VDF   Y+
Sbjct: 62  RMAQDFSNNIPLLDPQGNFGSRDGDDAAAMRYTETRLSPIARLLLPDIDDPTVDFVPNYD 121

Query: 160 EEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDNPEISIEKLLE 219
            ++ EP V P  FPNLL NG+SGIAVGMAT+IP HN++E+ +A  ALIDNPE SI++L+E
Sbjct: 122 GQEVEPEVLPPIFPNLLVNGSSGIAVGMATNIPPHNLREVIDALRALIDNPEASIDELME 181

Query: 220 YIIGPDFPTGGIIVESRESIVESYRLGRGGFRVRARWCVEEVGRGSWCIVVTEIPYQVQK 279
            I GPDFPTGGII E R  I E+Y  GRG + +R ++ +E+   G   I +TE+PYQV K
Sbjct: 182 IIKGPDFPTGGII-EGRAGIREAYETGRGRYIIRGKYEIEDD-EGRNTIEITELPYQVNK 239

Query: 280 SRLIEKIAELIIAKRIPLLEDIRDES-AEDVRIVLFPKNRSLDPDLLMESIFMLSDMETR 338
           ++L EKIAEL+  K+I  + D+RDES  E +R V+  K  ++  ++++  ++ ++ ++T 
Sbjct: 240 AKLKEKIAELVKDKKIEGISDVRDESDREGIRFVIELKRGAM-AEVVLNGLYKVTKLQTT 298

Query: 339 FPLNMNVLSMGRVPQVMPLDGILKEWLAHRREVLFRRSSFRMQAIDRRVEILKGLLIAYL 398
           F +NM        P+ + L  IL+E+L HR EV  RR  + +   + R+ IL+GLL A L
Sbjct: 299 FGINMVAFDPNGRPKKLNLKEILQEFLDHRLEVYTRRKEYELGKAEARLHILEGLLKAIL 358

Query: 399 NIDEIIAIIRNEDKPKPVMVSRF---SLTENQVDAILNLRLRSLRKLEEYQIKSELDNLL 455
           NIDE+I +IR+ D+ K  ++        +E Q DAIL++RLR L KLE  ++  EL  L 
Sbjct: 359 NIDEVINLIRSSDEAKKALIEELEKLGFSEIQADAILDMRLRRLTKLEREKLLKELKELE 418

Query: 456 AEKEKIDSLLNSGKQQWNQIACEIREV 482
           AE E ++ +L S ++  +    E+ E 
Sbjct: 419 AEIEDLEKILASEERPKDLWKEELDEF 445


>gnl|CDD|35576 KOG0355, KOG0355, KOG0355, DNA topoisomerase type II [Chromatin
           structure and dynamics].
          Length = 842

 Score = 80.3 bits (198), Expect = 2e-15
 Identities = 39/357 (10%), Positives = 80/357 (22%), Gaps = 23/357 (6%)

Query: 16  NVKAVSLRFALEERYLAYALSTIKERAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFKKS 75
           N   V++     E  +      I        +     +    +   S    D        
Sbjct: 75  NTIKVTIDKEKNEISVYNNGKGIPVTIHKVEKVYVPELIFGNLLTSSNYDDDEKKVTGGR 134

Query: 76  ARIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEAR 135
                ++             D   ++A        +   +        D      YT+  
Sbjct: 135 NGYGAKLCNIFSTEFTVETADREYKMAFKQTWINNMTRDEEPKIVPSTDE----DYTKIT 190

Query: 136 MTQVAE-LILQGVDEDAVDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSH 194
            +   E   ++ +D+D V        + +  V    K      N                
Sbjct: 191 FSPDLEKFKMKELDDDIVALMARRAYDLAGSVK-SVKVELNGKNIPVKGFYDYVKMYLE- 248

Query: 195 NVQEICEAALALIDNPEISIEKLLEYIIGPDFPTGGIIVESRESIVESYRLGRGGFRV-- 252
                    L  +        ++   +    F         + S V S    +GG  V  
Sbjct: 249 --VLWLNDDLKPLHEVLNFRWEVALALSDVGFQ--------QVSFVNSIATTKGGTHVDY 298

Query: 253 ---RARWCVEEVGRGSWCIVVTEIPYQVQKSRLIEKIAELIIAKRIPLLEDIRDESAEDV 309
              +    + +V +         +     K+ L   +  LI           R       
Sbjct: 299 VVDQIVAKLIDVVKKKKVKKDISVKPFQVKNHLWVFVNCLIENPTFESQTKERLTLRPKR 358

Query: 310 RIVLFPKNRSLDPDLLMESIFMLSDMETRFPLNMNVLSMGRVPQVMPLDGILKEWLA 366
                  +      + ++ +   S +        + L+  R        GI K   A
Sbjct: 359 FGSDCELSEKFTKAIELKGVVE-SILSKSLNKYKDDLAKKRGKLTSRSKGIPKLEDA 414



 Score = 62.6 bits (152), Expect = 3e-10
 Identities = 50/178 (28%), Positives = 79/178 (44%), Gaps = 38/178 (21%)

Query: 41  RAIPDLRDGFKPVHRRIIHAMSEMGLDFGAAFK-------KSARIVGEV--IGKLHPHGD 91
            +IP L DG KP  R+++             FK       K A++ G V  +   H HG+
Sbjct: 663 DSIPSLVDGLKPGQRKVLFT----------CFKRNDKREVKVAQLAGSVAEMSAYH-HGE 711

Query: 92  QSVYDSLVRLAQPFVQRYPLISGQGNFGNIDGDSAAAYRYTEARMTQVAELILQGVDEDA 151
           QS+  ++V LAQ FV                G  AA+ RY   +++ +  L+    D+  
Sbjct: 712 QSLMSTIVNLAQDFV----------------GKDAASARYIFTKLSPLTRLLFPPADDLL 755

Query: 152 VDFRDTYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATSIPSHNVQEICEAALALIDN 209
           + + +   +   EP   P   P +L NG  GI  G +T IP++N +EI +    LI+ 
Sbjct: 756 LKYLNEDGQR-VEPEYCPII-PMVLVNGAEGIGTGWSTFIPNYNPREIVKNIRRLING 811


>gnl|CDD|39067 KOG3863, KOG3863, KOG3863, bZIP transcription factor NRF1
           [Transcription].
          Length = 604

 Score = 37.3 bits (86), Expect = 0.016
 Identities = 26/99 (26%), Positives = 49/99 (49%), Gaps = 18/99 (18%)

Query: 399 NIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSL----------RKLEEYQ-I 447
           ++DEII +  ++      M+S++ LTE Q+  I ++R R            RKL+    +
Sbjct: 460 SVDEIINLPVDDFN---EMLSKYKLTEEQLSLIRDIRRRGKNKVAAQNCRKRKLDCILNL 516

Query: 448 KSELDNLLAEKEKI----DSLLNSGKQQWNQIACEIREV 482
           + E++ L  EKE++    D L ++      Q++   +EV
Sbjct: 517 EDEVEKLQKEKEQLLRERDELDSTLGVMKQQLSELYQEV 555


>gnl|CDD|146561 pfam03989, DNA_gyraseA_C, DNA gyrase C-terminal domain,
           beta-propeller.  This repeat is found as 6 tandem copies
           at the C-termini of GyrA and ParC DNA gyrases. It is
           predicted to form 4 beta strands and to probably form a
           beta-propeller structure. This region has been shown to
           bind DNA non-specifically and may stabilize the
           DNA-topoisomerase complex.
          Length = 50

 Score = 34.8 bits (81), Expect = 0.086
 Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 1/40 (2%)

Query: 658 GDHVAVVGENRKLLIFSIDQIPEMSRG-KGVRLQSYKDGG 696
            D + ++     +    + + PE  RG KGV+  + K+G 
Sbjct: 1   EDDLLLITSKGYVKRTPLSEFPEQGRGAKGVKAINLKEGD 40



 Score = 29.8 bits (68), Expect = 3.3
 Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 2/48 (4%)

Query: 613 KLLVVSSKGNAFIVEESEIIANTR--KGKTFLKVSSEEKMKLVVKVTG 658
            LL+++SKG       SE     R  KG   + +   +K+  V+ V  
Sbjct: 3   DLLLITSKGYVKRTPLSEFPEQGRGAKGVKAINLKEGDKVVSVLVVNE 50


>gnl|CDD|143453 cd07135, ALDH_F14-YMR110C, Saccharomyces cerevisiae aldehyde
           dehydrogenase family 14 and related proteins.  Aldehyde
           dehydrogenase family 14 (ALDH14), isolated mainly from
           the mitochondrial outer membrane of Saccharomyces
           cerevisiae (YMR110C) and most closely related to the
           plant and animal ALDHs and fatty ALDHs family 3 members,
           and similar fungal sequences, are present in this CD.
          Length = 436

 Score = 31.8 bits (73), Expect = 0.71
 Identities = 14/45 (31%), Positives = 26/45 (57%), Gaps = 3/45 (6%)

Query: 394 LIAYLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRS 438
           +I   ++DE I +I + D P  + +  F+  ++++D IL  R RS
Sbjct: 348 IIKVDDLDEAIKVINSRDTPLALYI--FTDDKSEIDHILT-RTRS 389


>gnl|CDD|143452 cd07134, ALDH_AlkH-like, Pseudomonas putida Aldehyde dehydrogenase
           AlkH-like.  Aldehyde dehydrogenase AlkH (locus name
           P12693, EC=1.2.1.3) of the alkBFGHJKL operon that allows
           Pseudomonas putida to metabolize alkanes and the
           aldehyde dehydrogenase AldX of Bacillus subtilis (locus
           P46329, EC=1.2.1.3), and similar sequences, are present
           in this CD.
          Length = 433

 Score = 31.0 bits (71), Expect = 1.2
 Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 4/48 (8%)

Query: 388 EILKGLL--IAYLNIDEIIAIIRNEDKPKPVMVSRFSLTENQVDAILN 433
           EI   +L  I Y ++DE+I  I    KPKP+ +  FS  +  V+ +L 
Sbjct: 337 EIFGPVLPIITYEDLDEVIEYIN--AKPKPLALYVFSKDKANVNKVLA 382


>gnl|CDD|35230 KOG0006, KOG0006, KOG0006, E3 ubiquitin-protein ligase (Parkin
           protein) [Posttranslational modification, protein
           turnover, chaperones].
          Length = 446

 Score = 30.9 bits (69), Expect = 1.5
 Identities = 21/103 (20%), Positives = 42/103 (40%), Gaps = 9/103 (8%)

Query: 479 IREVKEIFSKSTDL--GRRRTTFCEVSRADKATLQQAMIEKEPITVVISNRGWIRSLKSH 536
           I ++KE+ +K   +   + R  F     ++  T+Q   + ++  T ++  R W +  K +
Sbjct: 26  IFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHIMLLRPWRKGQKFN 85

Query: 537 SV-------DLSALHFKEGDSLKIALHAHTTDRILLLSTDGKA 572
           S         L+      GDS+ +     T  R    S  G++
Sbjct: 86  STGGDENEPSLTNGATLPGDSVGLTAKLTTDSRKDAGSPAGRS 128


>gnl|CDD|37186 KOG1975, KOG1975, KOG1975, mRNA cap methyltransferase [RNA
           processing and modification].
          Length = 389

 Score = 30.3 bits (68), Expect = 1.9
 Identities = 10/34 (29%), Positives = 15/34 (44%)

Query: 675 IDQIPEMSRGKGVRLQSYKDGGISDVICFKICEG 708
            D + ++  GKG  L  +   GI + I   I E 
Sbjct: 118 GDDVLDLGCGKGGDLLKWDKAGIGEYIGIDIAEV 151


>gnl|CDD|34842 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
          Length = 3164

 Score = 30.0 bits (67), Expect = 2.2
 Identities = 49/287 (17%), Positives = 90/287 (31%), Gaps = 45/287 (15%)

Query: 402  EIIAIIRNEDKPKPVMVSRFSLTENQVDAILNLRLRSLRKLEEYQIKSELDNLLAEKEKI 461
            EI   +       P+ V   +L  N + A  +L L  L +    ++   + N+  + ++I
Sbjct: 2607 EIPDALEKLVSG-PLFVHEKAL--NALKACGSLFLWVLARYLLAKLMLSISNME-QTDEI 2662

Query: 462  DSLLNSGKQQWNQIACEIREVKEIFSKSTDLGRRRT------------------------ 497
              LL++ K+   +I  E  E  EI  +   L                             
Sbjct: 2663 AVLLHNLKKSRKEIEEEESESMEIEDRIDALKSEYNASVKRLESIRVEIAMFDEKALMYN 2722

Query: 498  -TFCEVSRADKATLQQAMIEKEPITVVISNRGWI-----RSLKSHSVDLSALHFKEGDSL 551
             + CE+S   +   +        I  ++ +  WI     RS   H +D+S L  +    +
Sbjct: 2723 KSICELSSEFEKWRRMKSKYLCAIRYMLMSSEWILDHEDRSGFIHRLDVSFL-LRTKRFV 2781

Query: 552  KIALHAHTTDRILLLSTDGKAYTLPAGNLLSGRGHGEAIQLLIDLNHNQDIVTAFVYDST 611
               L      ++L   +      +        R   +  + L     N+   T    +S 
Sbjct: 2782 STLLEDKNYRQVLSSCSLYGNDVISHSC---DRFDRDVYRALKHQMDNRTHSTILTSNSK 2838

Query: 612  CK----LLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLVV 654
                       S   AF VE+S  +    +G   L         L+ 
Sbjct: 2839 TNPYKEYTYNDSWAEAFEVEDSGDLYKFEEG---LLELIVGHAPLIY 2882


>gnl|CDD|37391 KOG2180, KOG2180, KOG2180, Late Golgi protein sorting complex,
           subunit Vps53 [Intracellular trafficking, secretion, and
           vesicular transport].
          Length = 793

 Score = 30.0 bits (67), Expect = 2.7
 Identities = 16/83 (19%), Positives = 35/83 (42%), Gaps = 12/83 (14%)

Query: 440 RKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKE----IFSKSTDLGRR 495
           ++LEEY+     +   A  +K+D       +++      +R+ +E    IF     +  R
Sbjct: 240 QQLEEYEQIFRENEEAASLDKLD-------RRYAWFKRLLRDFEEKWKPIFPADWHVAYR 292

Query: 496 RTT-FCEVSRADKATLQQAMIEK 517
            T  FC  +R    ++ +   ++
Sbjct: 293 LTIEFCHQTRKQLESILKRRKKE 315


>gnl|CDD|29362 cd01940, Fructoselysine_kinase_like, Fructoselysine kinase-like.
           Fructoselysine is a fructoseamine formed by glycation, a
           non-enzymatic reaction of glucose with a primary amine
           followed by an Amadori rearrangement, resulting in a
           protein that is modified at the amino terminus and at
           the lysine side chains. Fructoseamines are typically
           metabolized by fructoseamine-3-kinase, especially in
           higher eukaryotes. In E. coli, fructoselysine kinase has
           been shown in vitro to catalyze the phosphorylation of
           fructoselysine. It is proposed that fructoselysine is
           released from glycated proteins during human digestion
           and is partly metabolized by bacteria in the hind gut
           using a protein such as fructoselysine kinase.  This
           family is found only in bacterial sequences, and its
           oligomeric state is currently unknown..
          Length = 264

 Score = 29.8 bits (67), Expect = 3.0
 Identities = 14/41 (34%), Positives = 19/41 (46%)

Query: 530 IRSLKSHSVDLSALHFKEGDSLKIALHAHTTDRILLLSTDG 570
             +LK   VD+S    KEG++    +     DRI  LS  G
Sbjct: 55  RSTLKRLGVDISHCRVKEGENAVADVELVDGDRIFGLSNKG 95


>gnl|CDD|36470 KOG1256, KOG1256, KOG1256, Long-chain acyl-CoA synthetases
           (AMP-forming) [Lipid transport and metabolism].
          Length = 691

 Score = 29.1 bits (65), Expect = 4.8
 Identities = 15/112 (13%), Positives = 43/112 (38%), Gaps = 9/112 (8%)

Query: 598 HNQDIVTAFVYDS----TCKLLVVSSKGNAFIVEESEIIANTRKGKTFLKVSSEEKMKLV 653
           +   +V   +YD+        ++  ++ +   V+ ++      + K      S   +K +
Sbjct: 154 YAYSLVNVPLYDTLGAEAVHYIINHAEISIVFVDNAKKAEKLLEIKEN---DSLPSLKAI 210

Query: 654 VKVTG--DHVAVVGENRKLLIFSIDQIPEMSRGKGVRLQSYKDGGISDVICF 703
           +++    D +    EN  + ++S D+  E+ +    + +          IC+
Sbjct: 211 IQLDEPSDELKEKAENNGVEVYSWDEFEELGKKNQRKPRVPPKPDDLATICY 262


>gnl|CDD|38908 KOG3704, KOG3704, KOG3704, Heparan sulfate D-glucosaminyl
           3-O-sulfotransferase [Posttranslational modification,
           protein turnover, chaperones].
          Length = 360

 Score = 28.8 bits (64), Expect = 5.5
 Identities = 15/43 (34%), Positives = 24/43 (55%), Gaps = 1/43 (2%)

Query: 77  RIVGEVIGKLHPHGDQSVYDSLVRLAQPFVQRYPLISGQGNFG 119
           R +G+  G+ HPH D  V   L    +PF  ++  ++GQ +FG
Sbjct: 317 RCLGKSKGRTHPHIDPEVIRRLREFYRPFNLKFYQMTGQ-DFG 358


>gnl|CDD|99968 cd03794, GT1_wbuB_like, This family is most closely related to the
           GT1 family of glycosyltransferases. wbuB in E. coli is
           involved in the biosynthesis of the O26 O-antigen.  It
           has been proposed to function as an
           N-acetyl-L-fucosamine (L-FucNAc) transferase..
          Length = 394

 Score = 28.8 bits (65), Expect = 6.3
 Identities = 15/67 (22%), Positives = 24/67 (35%), Gaps = 12/67 (17%)

Query: 157 TYNEEDSEPVVFPSKFPNLLANGTSGIAVGMATS------------IPSHNVQEICEAAL 204
                 +   V PSK    +A G   +A     S            +P  + + +  A L
Sbjct: 301 PLKPGPAFEGVSPSKLFEYMAAGKPVLASVDGESAELVEEAGAGLVVPPGDPEALAAAIL 360

Query: 205 ALIDNPE 211
            L+D+PE
Sbjct: 361 ELLDDPE 367


>gnl|CDD|146633 pfam04100, Vps53_N, Vps53-like, N-terminal.  Vps53 complexes with
           Vps52 and Vps54 to form a multi- subunit complex
           involved in regulating membrane trafficking events.
          Length = 375

 Score = 28.2 bits (63), Expect = 8.8
 Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 12/83 (14%)

Query: 440 RKLEEYQIKSELDNLLAEKEKIDSLLNSGKQQWNQIACEIREVKE----IFSKSTDLGRR 495
           ++LEEY+     +   A  +KID       +++      +R+ +E    IF     +  R
Sbjct: 225 QQLEEYEQIFRENEEAAWLDKID-------RRYAWFKRLLRDFEEKYGPIFPADWHVAER 277

Query: 496 RTT-FCEVSRADKATLQQAMIEK 517
            T  FC V+R   A +     ++
Sbjct: 278 LTVEFCHVTRKQLAKILVRRDKE 300


>gnl|CDD|143454 cd07136, ALDH_YwdH-P39616, Bacillus subtilis aldehyde dehydrogenase
           ywdH-like.  Uncharacterized Bacillus subtilis ywdH
           aldehyde dehydrogenase (locus P39616)  most closely
           related to the ALDHs and fatty ALDHs of families 3 and
           14, and similar sequences, are included in this CD.
          Length = 449

 Score = 27.9 bits (63), Expect = 10.0
 Identities = 8/19 (42%), Positives = 12/19 (63%)

Query: 395 IAYLNIDEIIAIIRNEDKP 413
           + Y  +DE I II++  KP
Sbjct: 339 LTYDTLDEAIEIIKSRPKP 357


  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
   0.319    0.137    0.389 

Gapped
Lambda     K      H
   0.267   0.0649    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 8,949,653
Number of extensions: 493176
Number of successful extensions: 1160
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1136
Number of HSP's successfully gapped: 32
Length of query: 753
Length of database: 6,263,737
Length adjustment: 101
Effective length of query: 652
Effective length of database: 4,081,228
Effective search space: 2660960656
Effective search space used: 2660960656
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: 61 (27.4 bits)