RPS-BLAST 2.2.22 [Sep-27-2009]

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

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

Query= gi|254780401|ref|YP_003064814.1| tetraacyldisaccharide
4'-kinase [Candidatus Liberibacter asiaticus str. psy62]
         (338 letters)



>gnl|CDD|179082 PRK00652, lpxK, tetraacyldisaccharide 4'-kinase; Reviewed.
          Length = 328

 Score =  295 bits (759), Expect = 8e-81
 Identities = 117/329 (35%), Positives = 172/329 (52%), Gaps = 34/329 (10%)

Query: 1   MMKSPLFWWKARGFYSFFLYPISWIYSFISSKLMKRGQRLH-----APIPVICVGGFVMG 55
               P FW+K R   ++ L P+SW+Y  I++      +        AP+PVI VG   +G
Sbjct: 2   ASMIPRFWYK-RSPLAWLLLPLSWLYGLIAALRRLLYRLGLKKPYRAPVPVIVVGNITVG 60

Query: 56  GTGKTPTALAIAKAVIDKNLKPGFLSRGYGRKSRISFRVDLEKHSAYDVGDEPLLLARR- 114
           GTGKTP  +A+A+ +  + LKPG +SRGYG K      +    H+A +VGDEPLL+ARR 
Sbjct: 61  GTGKTPVVIALAEQLQARGLKPGVVSRGYGGKLEKGPLLVDPDHTAAEVGDEPLLIARRT 120

Query: 115 -AVTIVTSDRKIGVQMLLQE-GVDIIIMDDGFHSADLQADFSLIVVNSHRGLGNGLVFPA 172
            A   V+ DR    + LL   G DIII+DDG     L  D  ++VV+  RG GNG + PA
Sbjct: 121 GAPVAVSPDRVAAARALLAAHGADIIILDDGLQHYRLARDIEIVVVDGQRGFGNGFLLPA 180

Query: 173 GPLRVPLSRQLSYVDAILYVGNKKNVISSIKNKSVYFAKLKPRLTFDLSG--------KK 224
           GPLR P SR L  VDA++  G        I        +L+P    +L+G        ++
Sbjct: 181 GPLREPPSR-LKSVDAVIVNGGGDARAGEIP------MRLEPGEAVNLTGERRPLASLQR 233

Query: 225 VLAFSGIADTEKFFTTVRQLGALIEQCYSFGDHAHLSDKKIAYLLDQAQQKGLILVTTAK 284
           V+AF+GI + ++FF T+R LG  + + ++F DH   +   +  L+     KGL L+ T K
Sbjct: 234 VVAFAGIGNPQRFFATLRALGIEVVKTHAFPDHYPFTKADLEALV----SKGLTLLMTEK 289

Query: 285 DAMRLHKRPGRAEEIFAKSMVIEVDIVFE 313
           DA++       A++ +     + VD    
Sbjct: 290 DAVKCR---AFAQDNW---WYLPVDAELS 312


>gnl|CDD|161995 TIGR00682, lpxK, tetraacyldisaccharide 4'-kinase.  Also called
           lipid-A 4'-kinase. This essential gene encodes an enzyme
           in the pathway of lipid A biosynthesis in Gram-negative
           organisms. A single copy of this protein is found in
           Gram-negative bacteria. PSI-BLAST converges on this set
           of apparent orthologs without identifying any other
           homologs.
          Length = 311

 Score =  199 bits (509), Expect = 6e-52
 Identities = 108/310 (34%), Positives = 166/310 (53%), Gaps = 21/310 (6%)

Query: 15  YSFFLYPISWIYSFISSKLMKRGQRLHAPIPVICVGGFVMGGTGKTPTALAIAKAVIDKN 74
           +S+    IS +  F+    +K+ +R  AP+PV+ VG   +GGTGKTP  + +A+ + D+ 
Sbjct: 1   FSWLYELISNVRRFLYDLGLKKAKR--APVPVVIVGNLSVGGTGKTPVVVWLAELLKDRG 58

Query: 75  LKPGFLSRGYGRKSRISFRVDLEKHSAYDVGDEPLLLARR--AVTIVTSDRKIGVQMLL- 131
           L+ G LSRGYG K++    V  +KH+A +VGDEP+LLA+   A  + + DRK  + ++L 
Sbjct: 59  LRVGVLSRGYGSKTKKYTLVGSKKHTASEVGDEPVLLAKYLHATVVASKDRKDAILLILE 118

Query: 132 QEGVDIIIMDDGFHSADLQADFSLIVVNSHRGLGNGLVFPAGPLRVPLSRQLSYVDAILY 191
           Q   D+II+DDG     L  D  ++VV+  R  GNG + PAGPLR    R  S  DA++ 
Sbjct: 119 QLDPDVIILDDGLQHRKLHRDVEIVVVDGQRPFGNGFLLPAGPLREFPKRLKS-ADAVIV 177

Query: 192 VGNKKNVISSIKNKSVYFAKL-----KPRLTFDLSGKKVLAFSGIADTEKFFTTVRQLGA 246
            G +              A         R+ FD+  + V AFSGI + ++FF  ++ LG 
Sbjct: 178 NGGENQSGFIPMFLMPRIACCVNLSTGERVPFDILKELVGAFSGIGNPQRFFAMLKNLGI 237

Query: 247 LIEQCYSFGDHAHLSDKKIAYLLDQAQQKGLILVTTAKDAMRLHKRPGRAEEIFAKSMVI 306
            ++  Y F DH  L+     +    A ++G IL+TT KDA++L      AEEI    + +
Sbjct: 238 QVKGTYLFPDHQELN----EFCSSFAPEQGQILLTTEKDAVKL---QALAEEI---WLYL 287

Query: 307 EVDIVFENPD 316
            VD+     +
Sbjct: 288 PVDLERMEKE 297


>gnl|CDD|179349 PRK01906, PRK01906, tetraacyldisaccharide 4'-kinase; Provisional.
          Length = 338

 Score =  161 bits (409), Expect = 3e-40
 Identities = 110/302 (36%), Positives = 144/302 (47%), Gaps = 35/302 (11%)

Query: 9   WKARGFYSFFLYPISWIYSFISS---KLMKRG--QRLHAPIPVICVGGFVMGGTGKTPTA 63
           W+ RG  ++ L P + ++  I++       RG  + +   +PV+ VG   +GGTGKTPT 
Sbjct: 16  WQRRGALAWALTPFACLFGAIAALRRAAYARGWKKSVRLGVPVVVVGNVTVGGTGKTPTV 75

Query: 64  LAIAKAVIDKNLKPGFLSRGYGRKSRISFRVDLEKHSAYDVGDEPLLLARR--AVTIVTS 121
           +A+  A+      PG +SRGYG K +    V      A D GDEPLL+ARR  A   V  
Sbjct: 76  IALVDALRAAGFTPGVVSRGYGAKIKHPTAVT-PASRASDAGDEPLLIARRTDAPVWVCP 134

Query: 122 DRKIGVQMLL--QEGVDIIIMDDGFHSADLQADFSLIVVNSHRGLGNGLVFPAGPLRVPL 179
           DR    Q LL    GVD+I+ DDG     L  D   IVV  HR  GNG + PAGPLR PL
Sbjct: 135 DRVAAAQALLAAHPGVDVIVSDDGLQHYRLARDVE-IVVFDHRLGGNGFLLPAGPLREPL 193

Query: 180 SRQLSYVDAILYVGNKKNVISSIKNKSVYFAKL---------KPRLTFDLS---GKKVLA 227
           SR+    DA L   N     +       Y  +L          P L   LS   G++VLA
Sbjct: 194 SRRR---DATLI--NDPYSRALPPWPDTYALRLAPGDAWHLDDPALRRPLSQFAGERVLA 248

Query: 228 FSGIADTEKFFTTVRQLGALIEQCYSFGDHAHLSDKKIAYLLDQAQQKGLILVTTAKDAM 287
            +GI   E+FF T+R  G L     +  DH   +D       D      LI   T KDA+
Sbjct: 249 AAGIGAPERFFATLRAAG-LAPATRALPDHYAFADNPFV---DDDADAILI---TEKDAV 301

Query: 288 RL 289
           +L
Sbjct: 302 KL 303


>gnl|CDD|179270 PRK01278, argD, acetylornithine transaminase protein; Provisional.
          Length = 389

 Score = 31.3 bits (72), Expect = 0.39
 Identities = 14/27 (51%), Positives = 17/27 (62%), Gaps = 1/27 (3%)

Query: 55  GGT-GKTPTALAIAKAVIDKNLKPGFL 80
           G T G  P A+A+  AV+D  L PGFL
Sbjct: 271 GSTYGGNPLAMAVGNAVLDVILAPGFL 297


>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 = 30.4 bits (68), Expect = 0.73
 Identities = 18/113 (15%), Positives = 41/113 (36%), Gaps = 16/113 (14%)

Query: 56  GTGKTPTALAIAKAVIDKNLKPGFLSRGYGRKSRISFRVDLEKHSAYDVGDEPLLLARRA 115
           G+GKT  A A+A+                G        +D E      +    L++    
Sbjct: 12  GSGKTTLARALARE--------------LGPPGGGVIYIDGEDILEEVLDQLLLIIVGGK 57

Query: 116 VTIVTSDRKIGV--QMLLQEGVDIIIMDDGFHSADLQADFSLIVVNSHRGLGN 166
               + + ++ +   +  +   D++I+D+     D + +  L+++   R L  
Sbjct: 58  KASGSGELRLRLALALARKLKPDVLILDEITSLLDAEQEALLLLLEELRLLLL 110


>gnl|CDD|180916 PRK07276, PRK07276, DNA polymerase III subunit delta'; Validated.
          Length = 290

 Score = 30.0 bits (68), Expect = 0.83
 Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)

Query: 263 KKIAYLLDQAQQKGLILVTTAKDAMRLHKRPGRAEEIFAKSMVIEV 308
           K  AYL+   +QKGL L T A+   +L +    AE++      +E+
Sbjct: 162 KNEAYLIQLLEQKGL-LKTQAELLAKLAQSTSEAEKLAQNKKFLEL 206


>gnl|CDD|181227 PRK08088, PRK08088, 4-aminobutyrate aminotransferase; Validated.
          Length = 425

 Score = 29.8 bits (67), Expect = 1.0
 Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 227 AFSGIADTEKFFTTVRQLGALIE-QCYSFGDHAHLSDKKIAYLLDQAQQKGLILVT 281
               IA+       VR LGA+I  + +  GDH+  + K  A ++ +A+ KGLIL++
Sbjct: 334 GLLAIAEKHPEIGDVRGLGAMIAIELFEDGDHSKPNAKLTAQIVARARDKGLILLS 389


>gnl|CDD|183267 PRK11664, PRK11664, ATP-dependent RNA helicase HrpB; Provisional.
          Length = 812

 Score = 29.9 bits (68), Expect = 1.1
 Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 5/31 (16%)

Query: 129 MLLQ----EGVDIIIMDDGFHSADLQADFSL 155
           M+ +     GV ++I+D+ FH   LQAD +L
Sbjct: 107 MIQRDPELSGVGLVILDE-FHERSLQADLAL 136


>gnl|CDD|183062 PRK11263, PRK11263, cardiolipin synthase 2; Provisional.
          Length = 411

 Score = 29.5 bits (67), Expect = 1.1
 Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 9/51 (17%)

Query: 112 ARRAV---TIVTSDRKIGVQM---LL---QEGVDIIIMDDGFHSADLQADF 153
           A+  +   T +  + K+G Q+   LL   Q GV + ++ DG+ S DL  +F
Sbjct: 30  AQEEILLETFILFEDKVGKQLHAALLAAAQRGVKVEVLVDGYGSPDLSDEF 80


>gnl|CDD|180116 PRK05482, PRK05482, potassium-transporting ATPase subunit A;
           Provisional.
          Length = 559

 Score = 29.4 bits (67), Expect = 1.4
 Identities = 10/13 (76%), Positives = 11/13 (84%)

Query: 312 FENPDDLTNLVEM 324
           FENP  L+NLVEM
Sbjct: 245 FENPTPLSNLVEM 257


>gnl|CDD|179218 PRK01077, PRK01077, cobyrinic acid a,c-diamide synthase;
          Validated.
          Length = 451

 Score = 29.3 bits (67), Expect = 1.4
 Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 12/46 (26%)

Query: 56 GTGKTPTALAIAKAVIDKNLK------------PGFLSRGYGRKSR 89
          G+GKT   L + +A+  + L+            P + +   GR SR
Sbjct: 14 GSGKTTVTLGLMRALRRRGLRVQPFKVGPDYIDPAYHTAATGRPSR 59


>gnl|CDD|181381 PRK08316, PRK08316, acyl-CoA synthetase; Validated.
          Length = 523

 Score = 28.7 bits (65), Expect = 2.1
 Identities = 10/38 (26%), Positives = 20/38 (52%), Gaps = 4/38 (10%)

Query: 259 HLSDKKIAYLLDQAQQKGLI----LVTTAKDAMRLHKR 292
            L+ +++AY+LD +  +  +    L  TA+ A+ L   
Sbjct: 94  MLTGEELAYILDHSGARAFLVDPALAPTAEAALALLPV 131


>gnl|CDD|179383 PRK02201, PRK02201, putative inner membrane protein translocase
           component YidC; Provisional.
          Length = 357

 Score = 28.4 bits (64), Expect = 2.8
 Identities = 9/19 (47%), Positives = 12/19 (63%)

Query: 7   FWWKARGFYSFFLYPISWI 25
           + WK   FY  F+YPI+ I
Sbjct: 97  WTWKYGPFYGLFVYPIAQI 115


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

 Score = 28.3 bits (64), Expect = 2.9
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 56 GTGKTPTALAIAKAVIDKNLKPGFL 80
          GTGKT  ALA+A+ +  ++ +  FL
Sbjct: 48 GTGKTTAALALARELYGEDWRENFL 72


>gnl|CDD|178337 PLN02736, PLN02736, long-chain acyl-CoA synthetase.
          Length = 651

 Score = 27.8 bits (62), Expect = 3.9
 Identities = 12/29 (41%), Positives = 15/29 (51%)

Query: 47  ICVGGFVMGGTGKTPTALAIAKAVIDKNL 75
           IC GG V+ G G T T+  I+      NL
Sbjct: 398 ICFGGRVLEGYGMTETSCVISGMDEGDNL 426


>gnl|CDD|162759 TIGR02198, rfaE_dom_I, rfaE bifunctional protein, domain I.  RfaE
           is a protein involved in the biosynthesis of
           ADP-L-glycero-D-manno-heptose, a precursor for LPS inner
           core biosynthesis. RfaE is a bifunctional protein in E.
           coli, and separate proteins in some other genome. The
           longer, N-terminal domain I (this family) is suggested
           to act in D-glycero-D-manno-heptose 1-phosphate
           biosynthesis, while domain II (TIGR02199) adds ADP to
           yield ADP-D-glycero-D-manno-heptose.
          Length = 315

 Score = 28.0 bits (63), Expect = 4.1
 Identities = 23/104 (22%), Positives = 36/104 (34%), Gaps = 32/104 (30%)

Query: 42  APIPVICV-------GG---------------FVMGGTGKTPTALAIAKAVIDKNLKPGF 79
           AP+PV+ V       GG               F++G  G       +   + ++ +    
Sbjct: 33  APVPVVKVEREEDRLGGAANVARNIASLGARVFLVGVVGDDEAGKRLEALLAEEGIDTSG 92

Query: 80  LSRGYGR----KSRIS------FRVDLEKHSAYDVGDEPLLLAR 113
           L R   R    K+R+        RVD E+    +   E  LLA 
Sbjct: 93  LIRDKDRPTTTKTRVLARNQQLLRVDFEERDPINAELEARLLAA 136


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

 Score = 27.6 bits (62), Expect = 4.9
 Identities = 9/18 (50%), Positives = 13/18 (72%)

Query: 56  GTGKTPTALAIAKAVIDK 73
           GTGKT  +  IAK ++D+
Sbjct: 193 GTGKTFLSNCIAKELLDR 210


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

 Score = 27.7 bits (62), Expect = 5.0
 Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 6/33 (18%)

Query: 56  GTGKTPTALAIAKAVIDKNLK------PGFLSR 82
           GTGKT  A  IA  +I+K +       P  L+R
Sbjct: 124 GTGKTYLAACIANELIEKGVPVIFVNFPQLLNR 156


>gnl|CDD|163222 TIGR03345, VI_ClpV1, type VI secretion ATPase, ClpV1 family.
           Members of this protein family are homologs of ClpB, an
           ATPase associated with chaperone-related functions.
           These ClpB homologs, designated ClpV1, are a key
           component of the bacterial pathogenicity-associated type
           VI secretion system.
          Length = 852

 Score = 27.6 bits (62), Expect = 5.4
 Identities = 9/15 (60%), Positives = 12/15 (80%)

Query: 56  GTGKTPTALAIAKAV 70
           G GKT TALA+A+ +
Sbjct: 606 GVGKTETALALAELL 620


>gnl|CDD|184379 PRK13896, PRK13896, cobyrinic acid a,c-diamide synthase;
          Provisional.
          Length = 433

 Score = 27.4 bits (61), Expect = 5.7
 Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 4/26 (15%)

Query: 51 GFVMGGT----GKTPTALAIAKAVID 72
          GFV+GGT    GKT   LA  +A+ D
Sbjct: 3  GFVLGGTSSGVGKTVATLATIRALED 28


>gnl|CDD|180131 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
          Validated.
          Length = 559

 Score = 27.1 bits (61), Expect = 5.8
 Identities = 10/15 (66%), Positives = 10/15 (66%)

Query: 56 GTGKTPTALAIAKAV 70
          GTGKT  A   AKAV
Sbjct: 48 GTGKTSAAKIFAKAV 62


>gnl|CDD|180366 PRK06043, PRK06043, fumarate hydratase; Provisional.
          Length = 192

 Score = 27.4 bits (61), Expect = 6.0
 Identities = 12/25 (48%), Positives = 15/25 (60%)

Query: 186 VDAILYVGNKKNVISSIKNKSVYFA 210
           V AI+  G  KNV  ++K K VY A
Sbjct: 99  VRAIIGKGGMKNVADALKGKCVYLA 123


>gnl|CDD|149039 pfam07755, DUF1611, Protein of unknown function (DUF1611).  This
           region is found in a number of hypothetical bacterial
           and archaeal proteins. The region is approximately 350
           residues long. A member of this family is thought to
           associate with another subunit to form an
           H+-transporting ATPase, but no evidence has been found
           to support this.
          Length = 302

 Score = 27.1 bits (61), Expect = 6.6
 Identities = 11/47 (23%), Positives = 20/47 (42%), Gaps = 1/47 (2%)

Query: 37  GQRLHAPIPVICVGGFVMGGTGKTPTALAIAKAVIDKNLKPGFLSRG 83
           G+        +   G      GK  TAL + +A+ ++ L   F++ G
Sbjct: 106 GKAREVKAKRVLTVGTDCA-VGKMTTALELERALRERGLNAAFVATG 151


>gnl|CDD|129783 TIGR00700, GABAtrnsam, 4-aminobutyrate aminotransferase,
           prokaryotic type.  Alternate names include GABA
           transaminase, gamma-amino-N-butyrate transaminase, and
           beta-alanine--oxoglutarate aminotransferase.
          Length = 420

 Score = 27.2 bits (60), Expect = 7.0
 Identities = 27/93 (29%), Positives = 38/93 (40%), Gaps = 7/93 (7%)

Query: 31  SKLMKRGQRLHAPIPVICVGGFVMGGT-GKTPTALAIAKAVIDKNLKPGFLSRGYGRKSR 89
           S +  R + + AP P    GG  +GGT    P A A A AV+      G + R       
Sbjct: 275 SGVTGRAEIMDAPAP----GG--LGGTYAGNPLACAAALAVLAIIESEGLIERARQIGRL 328

Query: 90  ISFRVDLEKHSAYDVGDEPLLLARRAVTIVTSD 122
           ++ R+   K     +GD   L A  AV +V   
Sbjct: 329 VTDRLTTLKAVDPRIGDVRGLGAMIAVELVDPG 361


>gnl|CDD|183709 PRK12736, PRK12736, elongation factor Tu; Reviewed.
          Length = 394

 Score = 27.2 bits (61), Expect = 7.1
 Identities = 22/63 (34%), Positives = 28/63 (44%), Gaps = 13/63 (20%)

Query: 272 AQQKGLILVTTAKD-AMRLHKRPGRAEEI-FAKSMVIEVDIVFENP------DDLTNLVE 323
           AQ  G ILV  A D  M     P   E I  A+ + +   +VF N       ++L  LVE
Sbjct: 97  AQMDGAILVVAATDGPM-----PQTREHILLARQVGVPYLVVFLNKVDLVDDEELLELVE 151

Query: 324 MTV 326
           M V
Sbjct: 152 MEV 154


>gnl|CDD|178409 PLN02813, PLN02813, pfkB-type carbohydrate kinase family protein.
          Length = 426

 Score = 27.1 bits (60), Expect = 7.1
 Identities = 21/110 (19%), Positives = 41/110 (37%), Gaps = 16/110 (14%)

Query: 226 LAFSGIADT----EKFFTTVRQLGALIEQCYSFGDHAHLSDKKIAYLLDQAQQKGLILVT 281
           L++ G + T        + + +   L+ + Y +      + + IA   ++A + G ++  
Sbjct: 203 LSYQGTSSTVNYDSCLASAISKSRVLVVEGYLW--ELPQTIEAIAQACEEAHRAGALVAV 260

Query: 282 TAKDAMRLHKRPG---RAEEIFAKSMVIEVDIVFENPDDLTNLVEMTVVS 328
           TA D            R  + F   M    DI+F N D+   L  +    
Sbjct: 261 TASD-------VSCIERHRDDFWDVMGNYADILFANSDEARALCGLGSEE 303


  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
   0.323    0.139    0.409 

Gapped
Lambda     K      H
   0.267   0.0760    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 5,604,316
Number of extensions: 371166
Number of successful extensions: 919
Number of sequences better than 10.0: 1
Number of HSP's gapped: 905
Number of HSP's successfully gapped: 38
Length of query: 338
Length of database: 5,994,473
Length adjustment: 94
Effective length of query: 244
Effective length of database: 3,963,321
Effective search space: 967050324
Effective search space used: 967050324
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 57 (25.7 bits)