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)