RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780606|ref|YP_003065019.1| cell division protein
[Candidatus Liberibacter asiaticus str. psy62]
         (744 letters)



>gnl|CDD|182344 PRK10263, PRK10263, DNA translocase FtsK; Provisional.
          Length = 1355

 Score =  492 bits (1268), Expect = e-139
 Identities = 242/467 (51%), Positives = 326/467 (69%), Gaps = 19/467 (4%)

Query: 290  LEKNAGSLETILEEFGIKGEIINVNPGPVVTLYEFEPAPGIKSSRVIGLADDIARSMSSL 349
            LE+ A  +E  L +F IK +++N +PGPV+T +E   APG+K++R+  L+ D+ARS+S++
Sbjct: 887  LEQMARLVEARLADFRIKADVVNYSPGPVITRFELNLAPGVKAARISNLSRDLARSLSTV 946

Query: 350  SARVA-VIPKRNAIGIELPNETRETVYLRQIIESRSFSHSKANLALCLGKTISGESVIAD 408
            + RV  VIP +  +G+ELPN+ R+TVYLR+++++  F  + + L + LGK I+GE V+AD
Sbjct: 947  AVRVVEVIPGKPYVGLELPNKKRQTVYLREVLDNAKFRDNPSPLTVVLGKDIAGEPVVAD 1006

Query: 409  LANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLT 468
            LA MPH+LVAGTTGSGKSV +N MI+S+LY+ +P++ R IM+DPKMLELSVY+GIPHLLT
Sbjct: 1007 LAKMPHLLVAGTTGSGKSVGVNAMILSMLYKAQPEDVRFIMIDPKMLELSVYEGIPHLLT 1066

Query: 469  PVVTNPKKAVMALKWAVREMEERYRKMSHLSVRNIKSYNERI--STMYGE-------KPQ 519
             VVT+ K A  AL+W V EME RY+ MS L VRN+  YNE+I  +            KP 
Sbjct: 1067 EVVTDMKDAANALRWCVNEMERRYKLMSALGVRNLAGYNEKIAEADRMMRPIPDPYWKPG 1126

Query: 520  GCGDDMRP----MPYIVIIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQRPS 575
               D   P     PYIV++VDE ADLMM  GK++E  I RLAQ ARAAGIHL++ATQRPS
Sbjct: 1127 DSMDAQHPVLKKEPYIVVLVDEFADLMMTVGKKVEELIARLAQKARAAGIHLVLATQRPS 1186

Query: 576  VDVITGTIKANFPIRISFQVTSKIDSRTILGEHGAEQLLGRGDMLYMSGGGRIQ--RVHG 633
            VDVITG IKAN P RI+F V+SKIDSRTIL + GAE LLG GDMLY SG       RVHG
Sbjct: 1187 VDVITGLIKANIPTRIAFTVSSKIDSRTILDQAGAESLLGMGDMLY-SGPNSTLPVRVHG 1245

Query: 634  PLVSDIEIEKVVQHLKKQGCPEYLNTVTTDTDTDKDGNNFDSEEKKERSNLYAKAVDLVI 693
              V D E+  VVQ  K +G P+Y++ +T+D++++     FD  E  E   L+ +AV  V 
Sbjct: 1246 AFVRDQEVHAVVQDWKARGRPQYVDGITSDSESEGGAGGFDGAE--ELDPLFDQAVQFVT 1303

Query: 694  DNQRCSTSFIQRRLQIGYNRAALLVERMEQEGLVSEADHVGKRHVFS 740
            + ++ S S +QR+ +IGYNRAA ++E+ME +G+VSE  H G R V +
Sbjct: 1304 EKRKASISGVQRQFRIGYNRAARIIEQMEAQGIVSEQGHNGNREVLA 1350


>gnl|CDD|150161 pfam09397, Ftsk_gamma, Ftsk gamma domain.  This domain directs
           oriented DNA translocation and forms a winged helix
           structure. Mutated proteins with substitutions in the
           FtsK gamma DNA-recognition helix are impaired in DNA
           binding.
          Length = 67

 Score = 96.8 bits (242), Expect = 2e-20
 Identities = 31/55 (56%), Positives = 42/55 (76%)

Query: 684 LYAKAVDLVIDNQRCSTSFIQRRLQIGYNRAALLVERMEQEGLVSEADHVGKRHV 738
           LY +AV+ VI+ Q+ STS +QRRL+IGYNRAA L+E+ME+EG+V  A+    R V
Sbjct: 8   LYDEAVEFVIETQKASTSLLQRRLRIGYNRAARLIEQMEEEGIVGPANGSKPREV 62


>gnl|CDD|129076 smart00843, Ftsk_gamma, This domain directs oriented DNA
           translocation and forms a winged helix structure.
           Mutated proteins with substitutions in the FtsK gamma
           DNA-recognition helix are impaired in DNA binding. 
          Length = 63

 Score = 96.3 bits (241), Expect = 3e-20
 Identities = 30/56 (53%), Positives = 43/56 (76%)

Query: 684 LYAKAVDLVIDNQRCSTSFIQRRLQIGYNRAALLVERMEQEGLVSEADHVGKRHVF 739
           LY +AV+LVI+ Q+ STS +QRRL+IGYNRAA L++++E+EG+V  A+    R V 
Sbjct: 6   LYDEAVELVIETQKASTSLLQRRLRIGYNRAARLIDQLEEEGIVGPANGSKPREVL 61


>gnl|CDD|150993 pfam10412, TrwB_AAD_bind, Type IV secretion-system coupling protein
           DNA-binding domain.  The plasmid conjugative coupling
           protein TrwB forms hexamers from six structurally very
           similar protomers. This hexamer contains a central
           channel running from the cytosolic pole (made up by the
           AADs) to the membrane pole ending at the transmembrane
           pore shaped by 12 transmembrane helices, rendering an
           overall mushroom-like structure. The TrwB_AAD (all-alpha
           domain) domain appears to be the DNA-binding domain of
           the structure. TrwB, a basic integral inner-membrane
           nucleoside-triphosphate-binding protein, is the
           structural prototype for the type IV secretion system
           coupling proteins, a family of proteins essential for
           macromolecular transport between cells and export.
          Length = 386

 Score = 43.7 bits (104), Expect = 2e-04
 Identities = 20/55 (36%), Positives = 30/55 (54%), Gaps = 5/55 (9%)

Query: 399 TISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPK 453
           TI+G  +        HIL+ GTTG+GK+ A+  ++  +  R R D  R I+ DP 
Sbjct: 3   TIAGVPLPRRSETQ-HILIVGTTGTGKTQALRELLDQI--RARGD--RAIIYDPT 52


>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 = 42.0 bits (98), Expect = 6e-04
 Identities = 30/181 (16%), Positives = 59/181 (32%), Gaps = 45/181 (24%)

Query: 414 HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLTPVVTN 473
            IL+ G  GSGK+    T+  +L   L P    +I +D + +   V D +  ++      
Sbjct: 4   VILIVGPPGSGKT----TLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKA 59

Query: 474 PKKAVMALKWAVREMEERYRKMSHLSVRNIKSYNERISTMYGEKPQGCGDDMRPMPYIVI 533
                +     +R      RK                                 +   V+
Sbjct: 60  SGSGEL----RLRLALALARK---------------------------------LKPDVL 82

Query: 534 IVDEMADLMMVAGKEIEGAIQR---LAQMARAAGIHLIMATQRPSVDVITGTIKANFPIR 590
           I+DE+  L+    + +   ++    L  +     + +I+ T     D+    ++  F  R
Sbjct: 83  ILDEITSLLDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDEK-DLGPALLRRRFDRR 141

Query: 591 I 591
           I
Sbjct: 142 I 142


>gnl|CDD|163456 TIGR03744, traC_PFL_4706, conjugative transfer ATPase, PFL_4706
           family.  Members of this protein family are predicted
           ATP-binding proteins apparently associated with DNA
           conjugal transfer. Members are found both in plasmids
           and in bacterial chromosomal regions that appear to
           derive from integrative elements such as conjugative
           transposons. More distant homologs, outside the scope of
           this family, include type IV secretion/conjugal transfer
           proteins such as TraC, VirB4 and TrsE. The granularity
           of this protein family definition is chosen so as to
           represent one distinctive clade and act as a marker
           through which to define and recognize the class of
           mobile element it serves.
          Length = 893

 Score = 38.9 bits (91), Expect = 0.004
 Identities = 13/38 (34%), Positives = 24/38 (63%), Gaps = 3/38 (7%)

Query: 414 HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVD 451
           H+L+ G TG+GKS  +  ++M ++   RP   R+ +V+
Sbjct: 477 HLLILGPTGAGKSATLTNLLMQVMAVHRP---RLFIVE 511


>gnl|CDD|131806 TIGR02759, TraD_Ftype, type IV conjugative transfer system coupling
           protein TraD.  The TraD protein performs an essential
           coupling function in conjugative type IV secretion
           systems. This protein sits at the inner membrane in
           contact with the assembled pilus and its scaffold as
           well as the relaxosome-plasmid DNA complex (through
           TraM).
          Length = 566

 Score = 37.8 bits (88), Expect = 0.010
 Identities = 20/38 (52%), Positives = 23/38 (60%), Gaps = 4/38 (10%)

Query: 414 HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVD 451
           HIL+ GTTGSGKSVA    I  LL  +R    R I+ D
Sbjct: 178 HILIHGTTGSGKSVA----IRKLLRWIRQRGDRAIIYD 211


>gnl|CDD|163455 TIGR03743, SXT_TraD, conjugative coupling factor TraD, SXT/TOL
           subfamily.  Members of this protein family are the
           putative conjugative coupling factor, TraD (or TraG),
           rather distantly related to the well-characterized TraD
           of the F plasmid. Members are associated with
           conjugative-transposon-like mobile genetic elements of
           the class that includes SXT, an antibiotic resistance
           transfer element in some Vibrio cholerae strains.
          Length = 634

 Score = 34.2 bits (79), Expect = 0.11
 Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 5/52 (9%)

Query: 403 ESVIADLANMP-HILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPK 453
           E V   L +   H LV GTTG GK+     +I   + R    +  +I++DPK
Sbjct: 166 EDVYLPLGHRVGHTLVLGTTGVGKTRLAELLITQDIRR---GDV-VIVIDPK 213



 Score = 29.6 bits (67), Expect = 2.7
 Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 7/51 (13%)

Query: 522 GDDMRPMPYIVIIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQ 572
           G      P I + VDE A+ +       +  IQ L    R AG  +  ATQ
Sbjct: 477 GIGKSKPPRINLHVDEAAEAIN------DPFIQ-LLNKGRGAGFQVTAATQ 520


>gnl|CDD|162997 TIGR02746, TraC-F-type, type-IV secretion system protein TraC.  The
           protein family described here is common among the F, P
           and I-like type IV secretion systems. Gene symbols
           include TraC (F-type), TrbE/VirB4 (P-type) and TraU
           (I-type). The protein conyains the Walker A and B motifs
           and so is a putative nucleotide triphosphatase.
          Length = 797

 Score = 34.2 bits (79), Expect = 0.11
 Identities = 9/23 (39%), Positives = 14/23 (60%)

Query: 415 ILVAGTTGSGKSVAINTMIMSLL 437
           I V G +G+GKS  +  +I+  L
Sbjct: 433 IAVVGGSGAGKSFFMQELIVDNL 455


>gnl|CDD|184357 PRK13873, PRK13873, conjugal transfer ATPase TrbE; Provisional.
          Length = 811

 Score = 33.7 bits (78), Expect = 0.17
 Identities = 11/21 (52%), Positives = 14/21 (66%)

Query: 414 HILVAGTTGSGKSVAINTMIM 434
           H LV G TG+GKSV +  M +
Sbjct: 443 HTLVVGPTGAGKSVLLALMAL 463


>gnl|CDD|183479 PRK12373, PRK12373, NADH dehydrogenase subunit E; Provisional.
          Length = 400

 Score = 32.9 bits (75), Expect = 0.29
 Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 9/80 (11%)

Query: 294 AGSLETILEEFGIKGEIINVNPGPVVTLYEFEPAPGIKSSRVIGLADDIARSMSSLSARV 353
              LE I++ F   G+   V PGP +  Y  EPA G+ S     L ++  ++  + S  +
Sbjct: 159 PERLEEIIDAFA-AGKGPVVKPGPQIGRYASEPAGGLTS-----LTEEAGKARYNASKAL 212

Query: 354 AV---IPKRNAIGIELPNET 370
           A       +   G E+P   
Sbjct: 213 AEDIGDTVKRIDGTEVPLLA 232


>gnl|CDD|162351 TIGR01420, pilT_fam, pilus retraction protein PilT.  This model
           represents the PilT subfamily of proteins related to
           GspE, a protein involved in type II secretion (also
           called the General Secretion Pathway). PilT is an
           apparent cytosolic ATPase associated with type IV pilus
           systems. It is not required for pilin biogenesis, but is
           required for twitching motility and social gliding
           behaviors, shown in some species, powered by pilus
           retraction. Members of this family may be found in some
           species that type IV pili but have related structures
           for DNA uptake and natural transformation.
          Length = 343

 Score = 32.3 bits (74), Expect = 0.48
 Identities = 16/31 (51%), Positives = 20/31 (64%), Gaps = 2/31 (6%)

Query: 405 VIADLANMPH--ILVAGTTGSGKSVAINTMI 433
           V+ +LA  P   ILV G TGSGKS  + +MI
Sbjct: 113 VLRELAERPRGLILVTGPTGSGKSTTLASMI 143


>gnl|CDD|184377 PRK13894, PRK13894, conjugal transfer ATPase TrbB; Provisional.
          Length = 319

 Score = 31.6 bits (72), Expect = 0.75
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 403 ESVIADLANMPHILVAGTTGSGKSVAINTMI 433
           E++IA +    +ILV G TGSGK+  +N +I
Sbjct: 139 EAIIAAVRAHRNILVIGGTGSGKTTLVNAII 169


>gnl|CDD|183503 PRK12402, PRK12402, replication factor C small subunit 2; Reviewed.
          Length = 337

 Score = 31.1 bits (71), Expect = 1.2
 Identities = 12/24 (50%), Positives = 16/24 (66%)

Query: 406 IADLANMPHILVAGTTGSGKSVAI 429
             D  N+PH+LV G  GSGK+ A+
Sbjct: 30  AVDSPNLPHLLVQGPPGSGKTAAV 53


>gnl|CDD|162543 TIGR01813, flavo_cyto_c, flavocytochrome c.  This model describes a
           family of redox proteins related to the succinate
           dehydrogenases and fumarate reductases of E. coli,
           mitochondria, and other well-characterized systems. A
           member of this family from Shewanella frigidimarina
           NCIMB400 is characterized as a water-soluble periplasmic
           protein with four heme groups, a non-covalently bound
           FAD, and essentially unidirectional fumarate reductase
           activity. At least seven distinct members of this family
           are found in Shewanella oneidensis, a species able to
           use a wide variety of pathways for respiraton.
          Length = 439

 Score = 30.8 bits (70), Expect = 1.2
 Identities = 30/102 (29%), Positives = 40/102 (39%), Gaps = 11/102 (10%)

Query: 603 TILGEHGAE--QLLGRG-----DMLYMSGGGRIQRVH---GPLVSDIEI-EKVVQHLKKQ 651
            IL E  A+    L  G     D L   GG  + R H   G   S  EI +K+ +  KK+
Sbjct: 84  RILAEESADAVDWLQDGVGARLDDLIQLGGHSVPRAHRPTGGAGSGAEIVQKLYKKAKKE 143

Query: 652 GCPEYLNTVTTDTDTDKDGNNFDSEEKKERSNLYAKAVDLVI 693
           G    LN+   D   D  G       K +   +Y KA   V+
Sbjct: 144 GIDTRLNSKVEDLIQDDQGTVVGVVVKGKGKGIYIKAAKAVV 185


>gnl|CDD|180064 PRK05416, PRK05416, glmZ(sRNA)-inactivating NTPase; Provisional.
          Length = 288

 Score = 30.8 bits (71), Expect = 1.3
 Identities = 10/23 (43%), Positives = 16/23 (69%)

Query: 410 ANMPHILVAGTTGSGKSVAINTM 432
           A M  ++V G +G+GKSVA+  +
Sbjct: 4   APMRLVIVTGLSGAGKSVALRAL 26


>gnl|CDD|180621 PRK06556, PRK06556, vitamin B12-dependent ribonucleotide reductase;
           Validated.
          Length = 953

 Score = 30.7 bits (70), Expect = 1.4
 Identities = 19/64 (29%), Positives = 24/64 (37%), Gaps = 21/64 (32%)

Query: 668 KDGNNFDSEEKKERSNLYAKAVDLVIDNQRCSTSFIQ-------------RRLQIGY-NR 713
           +D   FD E        +  AV+LVI     S  F               R+L +GY N 
Sbjct: 381 RDDGTFDVE-------SFRHAVELVITAMEISICFADFPTEKIARNTRAFRQLGLGYANL 433

Query: 714 AALL 717
            ALL
Sbjct: 434 GALL 437


>gnl|CDD|149599 pfam08601, PAP1, Transcription factor PAP1.  The transcription
           factor Pap1 regulates antioxidant-gene transcription in
           response to H2O2. This region is cysteine rich.
           Alkylation of cysteine residues following treatment with
           a cysteine alkylating agent can mask the accessibility
           of the nuclear exporter Crm1, triggering nuclear
           accumulation and Pap1 dependent transcriptional
           expression.
          Length = 344

 Score = 30.7 bits (69), Expect = 1.4
 Identities = 31/189 (16%), Positives = 54/189 (28%), Gaps = 19/189 (10%)

Query: 82  STSSLVYLKNRFMMNRNSVADQFNSQKTPHKLHLVQKNGSHPDP------NMQKETIEPS 135
           S + L     ++  N NS +D  +S        L+   G+ P+P       +      P+
Sbjct: 108 SPNGLQSSATQYNSNDNSSSDSPSSGSDGFTNQLLSSLGTSPEPSTESPPQLASVNNFPA 167

Query: 136 LDVIEEVNTDTASNVSDQINQNPDTLSWLSDFAFFEGLSTPHSFLSF------NDHHQYT 189
           +    E N++  S  S      P+        AF  G   P  F  +      N    + 
Sbjct: 168 IRNNAESNSNVPSAAS----STPNIPGIDFLLAFPGGQFDPELFGDYREPQDANLSDDFD 223

Query: 190 PIP-IQSAEDLSDHTDLAPHMSTEYLHNKKIRTDSTPTTAGDQQKKSSIDHKPSSSNTMT 248
           P         + D   L+P    +  +      +  P       KK   D   +      
Sbjct: 224 PNGLFNDEFSMPDP--LSPFHFNDKDYLSPSPDEGPPDAQVAGPKKDLADQIDNQDEDEE 281

Query: 249 EHMFQDTSQ 257
             +      
Sbjct: 282 VVVPSKEDT 290


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

 Score = 30.5 bits (69), Expect = 1.6
 Identities = 28/169 (16%), Positives = 64/169 (37%), Gaps = 43/169 (25%)

Query: 409 LANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYDGIPHLLT 468
           L+ +  +++A  TGSGK++A    ++  L  L+  + + +                    
Sbjct: 21  LSGLRDVILAAPTGSGKTLA---ALLPALEALKRGKGKRV-------------------- 57

Query: 469 PVVTNPKKAVMALKWAVREMEERYRKMSHLSVRNIKSYN--ERISTMYGEKPQ------G 520
            +V  P + + A +WA  E+++    +    V      +  E++  +   K        G
Sbjct: 58  -LVLVPTREL-AEQWA-EELKKLGPSLGLKVVGLYGGDSKREQLRKLESGKTDILVTTPG 114

Query: 521 CGDDMRPMP------YIVIIVDEMADLM--MVAGKEIEGAIQRLAQMAR 561
              D+            ++I+DE A  +     G ++E  ++ L +  +
Sbjct: 115 RLLDLLENDLLELSNVDLVILDE-AHRLLDGGFGDQLEKLLKLLPKNVQ 162


>gnl|CDD|178596 PLN03025, PLN03025, replication factor C subunit; Provisional.
          Length = 319

 Score = 30.5 bits (69), Expect = 1.7
 Identities = 14/39 (35%), Positives = 24/39 (61%)

Query: 399 TISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSLL 437
            +S   VIA   NMP+++++G  G+GK+ +I  +   LL
Sbjct: 21  AVSRLQVIARDGNMPNLILSGPPGTGKTTSILALAHELL 59


>gnl|CDD|131672 TIGR02623, G1P_cyt_trans, glucose-1-phosphate cytidylyltransferase.
            Members of this family are the enzyme
           glucose-1-phosphate cytidylyltransferase, also called
           CDP-glucose pyrophosphorylase, the product of the rfbF
           gene.
          Length = 254

 Score = 30.5 bits (69), Expect = 1.7
 Identities = 20/92 (21%), Positives = 37/92 (40%), Gaps = 18/92 (19%)

Query: 585 ANFPIRISFQVTSKIDSRTILGEHGAE----QLLGRGDMLYMSGGGRIQRV--------- 631
           AN+ + +S       D+   +     E     L+  G+      GGR++RV         
Sbjct: 64  ANYFLHMSDVTFHMADNTMEVHHKRVEPWRVTLVDTGES--TQTGGRLKRVREYLDDEAF 121

Query: 632 ---HGPLVSDIEIEKVVQHLKKQGCPEYLNTV 660
              +G  V+DI+I+ ++   +K G    +  V
Sbjct: 122 CFTYGDGVADIDIKALIAFHRKHGKKATVTAV 153


>gnl|CDD|163531 TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase.
            Members of this protein family comprise a distinct
           clade of putative ATPase associated with an integral
           membrane complex likely to act in pilus formation,
           secretion, or conjugal transfer. The association of most
           members with a nearby gene for a DEAH-box helicase
           suggests a role in conjugal transfer.
          Length = 340

 Score = 30.4 bits (69), Expect = 1.8
 Identities = 15/37 (40%), Positives = 26/37 (70%), Gaps = 5/37 (13%)

Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVD 451
            L++G TGSGK+    T++ +LL  + PDE R+++V+
Sbjct: 181 FLISGGTGSGKT----TLLSALLALVAPDE-RIVLVE 212


>gnl|CDD|131585 TIGR02533, type_II_gspE, general secretory pathway protein E.  This
           family describes GspE, the E protein of the type II
           secretion system, also called the main terminal branch
           of the general secretion pathway. This model separates
           GspE from the PilB protein of type IV pilin
           biosynthesis.
          Length = 486

 Score = 30.0 bits (68), Expect = 2.0
 Identities = 20/47 (42%), Positives = 25/47 (53%), Gaps = 7/47 (14%)

Query: 409 LANMPH--ILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMV-DP 452
           L   PH  ILV G TGSGK+    T + + L RL   E  ++ V DP
Sbjct: 237 LIRRPHGIILVTGPTGSGKT----TTLYAALSRLNTPERNILTVEDP 279


>gnl|CDD|162115 TIGR00929, VirB4_CagE, type IV secretion/conjugal transfer ATPase,
           VirB4 family.  Type IV secretion systems are found in
           Gram-negative pathogens. They export proteins, DNA, or
           complexes in different systems and are related to
           plasmid conjugation systems. This model represents
           related ATPases that include VirB4 in Agrobacterium
           tumefaciens (DNA export) CagE in Helicobacter pylori
           (protein export) and plasmid TraB (conjugation).
          Length = 785

 Score = 30.0 bits (68), Expect = 2.5
 Identities = 9/24 (37%), Positives = 15/24 (62%)

Query: 414 HILVAGTTGSGKSVAINTMIMSLL 437
           H L+ G TGSGK+  +N ++  + 
Sbjct: 436 HTLIFGPTGSGKTTLLNFLLAQMQ 459


>gnl|CDD|169389 PRK08339, PRK08339, short chain dehydrogenase; Provisional.
          Length = 263

 Score = 29.1 bits (65), Expect = 4.5
 Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 13/52 (25%)

Query: 294 AGSLETILEEFGIKGEIIN-VNPGPVVTLYEFEPAPGIKSSRVIGLADDIAR 344
           AG + T+ +E G KG  +N + PG             I++ RVI LA D A+
Sbjct: 165 AGLVRTLAKELGPKGITVNGIMPGI------------IRTDRVIQLAQDRAK 204


>gnl|CDD|114590 pfam05872, DUF853, Bacterial protein of unknown function (DUF853). 
           This family consists of several bacterial proteins of
           unknown function. One member from Brucella melitensis is
           thought to be an ATPase.
          Length = 504

 Score = 28.9 bits (65), Expect = 4.7
 Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 1/30 (3%)

Query: 407 ADLANMPHILVAGTTGSGKSVAINTMIMSL 436
             +AN  H L+AG TG+GK+V +  +  S 
Sbjct: 17  LGMANR-HGLIAGATGTGKTVTLQVLAESF 45


>gnl|CDD|182878 PRK10976, PRK10976, putative hydrolase; Provisional.
          Length = 266

 Score = 28.9 bits (65), Expect = 4.9
 Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 3/36 (8%)

Query: 562 AAGIHLIMATQRPSVDVITGTIKANFPIRISFQVTS 597
           A GIH + AT R  VDV  G I+ N  I+ S+ +TS
Sbjct: 33  ARGIHFVFATGRHHVDV--GQIRDNLEIK-SYMITS 65


>gnl|CDD|181762 PRK09291, PRK09291, short chain dehydrogenase; Provisional.
          Length = 257

 Score = 28.8 bits (65), Expect = 5.9
 Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)

Query: 290 LEKNAGSLETILEEFGIKGEIINVNPGPVVTLY 322
           LE  A ++   L+ FGI+  +  VNPGP +T +
Sbjct: 152 LEAIAEAMHAELKPFGIQ--VATVNPGPYLTGF 182


>gnl|CDD|180573 PRK06460, PRK06460, hypothetical protein; Provisional.
          Length = 376

 Score = 28.6 bits (64), Expect = 6.1
 Identities = 33/128 (25%), Positives = 54/128 (42%), Gaps = 18/128 (14%)

Query: 344 RSMSSLSARVAVIPKRNAIGI-ELPNETRETVYLRQIIESRSFSHSKANLALCLGKTISG 402
           R + +L  R+ VI  RNA  I E      + V   ++      SH    +A  + K   G
Sbjct: 235 RGIKTLKIRMDVI-NRNAEQIAEFLEGHPKVV---KVYYPGLKSHVDYEIARRVLKGFGG 290

Query: 403 ----------ESVIADLANMPHILVAGTTGSGKSVAINTMIMSLLYR-LRPDECRMIMVD 451
                     ES +  + ++  I+ A T G   SV  +   MS  +R L  +E +++ + 
Sbjct: 291 VLSFEVNGGQESALKVMKSLKLIIPAQTLGGVNSVISHPATMS--HRTLSLEERKIVGIT 348

Query: 452 PKMLELSV 459
             +L LSV
Sbjct: 349 DSLLRLSV 356


>gnl|CDD|182509 PRK10513, PRK10513, sugar phosphate phosphatase; Provisional.
          Length = 270

 Score = 28.5 bits (64), Expect = 6.5
 Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 1/51 (1%)

Query: 528 MPYIVIIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQRPSVDV 578
           M   +I +D M   +++    I  A+++    ARA G+++++ T RP   V
Sbjct: 1   MAIKLIAID-MDGTLLLPDHTISPAVKQAIAAARAKGVNVVLTTGRPYAGV 50


>gnl|CDD|182459 PRK10436, PRK10436, hypothetical protein; Provisional.
          Length = 462

 Score = 28.0 bits (63), Expect = 8.8
 Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 3/29 (10%)

Query: 415 ILVAGTTGSGKSVAINTMIMSLLYRLRPD 443
           ILV G TGSGK+V   T+  +L       
Sbjct: 221 ILVTGPTGSGKTV---TLYSALQTLNTAQ 246


>gnl|CDD|179026 PRK00440, rfc, replication factor C small subunit; Reviewed.
          Length = 319

 Score = 27.9 bits (63), Expect = 8.8
 Identities = 11/18 (61%), Positives = 14/18 (77%)

Query: 411 NMPHILVAGTTGSGKSVA 428
           NMPH+L AG  G+GK+ A
Sbjct: 37  NMPHLLFAGPPGTGKTTA 54


>gnl|CDD|181240 PRK08126, PRK08126, hypothetical protein; Provisional.
          Length = 432

 Score = 28.1 bits (63), Expect = 9.3
 Identities = 11/31 (35%), Positives = 18/31 (58%), Gaps = 2/31 (6%)

Query: 616 RGDMLYMSGGGRIQRVHGPLVSDI--EIEKV 644
           RGD +++ G   +    GPL++ I  EI +V
Sbjct: 322 RGDAMFVPGQATVNPAMGPLIAKIAREIARV 352


>gnl|CDD|182986 PRK11131, PRK11131, ATP-dependent RNA helicase HrpA; Provisional.
          Length = 1294

 Score = 27.7 bits (62), Expect = 9.7
 Identities = 22/99 (22%), Positives = 38/99 (38%), Gaps = 31/99 (31%)

Query: 338 LADDIARSMSSLSARVAVIPKRNAIGIELPNETRETVYLRQIIESRSFSHSKANLALCLG 397
           +A +IA++   +  R A  P+     I  P             E+   S  K ++     
Sbjct: 46  IAKEIAQAAQRVLLREAARPE-----ITYP-------------ENLPVSQKKQDIL---- 83

Query: 398 KTISGESVIADLANMPHILVAGTTGSGKSVAINTMIMSL 436
           + I    V+         +VAG TGSGK+  +  + + L
Sbjct: 84  EAIRDHQVV---------IVAGETGSGKTTQLPKICLEL 113


>gnl|CDD|166874 PRK00257, PRK00257, erythronate-4-phosphate dehydrogenase;
           Validated.
          Length = 381

 Score = 27.7 bits (62), Expect = 10.0
 Identities = 11/58 (18%), Positives = 15/58 (25%)

Query: 15  PHKQVDLKSFVPPWHEAFLLAPNVRFTRTPENDLNRYRNNSTLQQPKETEHSIGDYLH 72
              Q+DL +   P      L   V   R  +    R       QQ    +     Y  
Sbjct: 294 WLAQIDLDASADPAWALATLCRAVYDPRRDDAAFRRSLTGDVAQQRAAFDALRKHYPL 351


  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
   0.315    0.131    0.372 

Gapped
Lambda     K      H
   0.267   0.0711    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 11,895,050
Number of extensions: 774628
Number of successful extensions: 1773
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1769
Number of HSP's successfully gapped: 47
Length of query: 744
Length of database: 5,994,473
Length adjustment: 101
Effective length of query: 643
Effective length of database: 3,812,065
Effective search space: 2451157795
Effective search space used: 2451157795
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.3 bits)