RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780487|ref|YP_003064900.1| dithiobiotin synthetase [Candidatus Liberibacter asiaticus str. psy62] (217 letters) >gnl|CDD|178855 PRK00090, bioD, dithiobiotin synthetase; Reviewed. Length = 222 Score = 219 bits (561), Expect = 4e-58 Identities = 74/223 (33%), Positives = 107/223 (47%), Gaps = 23/223 (10%) Query: 4 RLVIVGTDTSVGKTIFASALVHALNAY-----YWKPIQSGMYEET---DSKTIHRIGRIP 55 RL + GTDT VGKT+ +AL AL +KP+QSG E D+ + R+ +P Sbjct: 1 RLFVTGTDTDVGKTVVTAALAQALREAGYSVAGYKPVQSGCEETDRNGDALALQRLSGLP 60 Query: 56 KSHIIPEKWKLRTPASPHLAAEIDGVIIDPATIN-----PPDINDSIIIEGIGGLLVPLT 110 + ++ P SPHLAA ++GV ID I+ D +++EG GGLLVPLT Sbjct: 61 LDYEDVNPYRFEEPLSPHLAAALEGVAIDLEKISAALRRLAQQYDLVLVEGAGGLLVPLT 120 Query: 111 TEYLFIDLIERWQFPIILCARTSLGTINHSLLSLETLRNRNINIIGIAFIGDSMPKVE-- 168 + DL ++ Q P+IL LG INH+LL+LE +R R + + G G Sbjct: 121 EDLTLADLAKQLQLPVILVVGVKLGCINHTLLTLEAIRARGLPLAGWVANGIPPEPGLRH 180 Query: 169 ----ETIVKIGRIPHLGRLPKIDPIDPDVLHQKFQEHFTQSLL 207 T+ ++ P LG LP + + E+ LL Sbjct: 181 AENLATLERLLPAPLLGELPYLAEAE----LAAAAEYLDLDLL 219 >gnl|CDD|129447 TIGR00347, bioD, dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor. Length = 166 Score = 117 bits (294), Expect = 3e-27 Identities = 58/162 (35%), Positives = 86/162 (53%), Gaps = 11/162 (6%) Query: 7 IVGTDTSVGKTIFASALVHALNAY-----YWKPIQSGMYEET-DSKTIHRIGRIPKSHII 60 + GTDT VGKT+ +SAL L Y+KP+Q+G+ + D+ + I Sbjct: 2 VTGTDTGVGKTVASSALAAKLKKAGYSVGYYKPVQTGIEKTNSDALLLQNISGTALDWDE 61 Query: 61 PEKWKLRTPASPHLAAEIDGVIIDPATINP-----PDINDSIIIEGIGGLLVPLTTEYLF 115 + P SPH+AA+ +G ID ++ D +++EG GGL VP+T EY Sbjct: 62 VNPYAFALPLSPHIAADQEGRPIDLEELSKHLRTLEQKYDFVLVEGAGGLCVPITEEYTT 121 Query: 116 IDLIERWQFPIILCARTSLGTINHSLLSLETLRNRNINIIGI 157 DLI+ Q P+IL R LGTINH+LL++E R + + G+ Sbjct: 122 ADLIKLLQLPVILVVRVKLGTINHTLLTVEHARQTGLTLAGV 163 >gnl|CDD|183480 PRK12374, PRK12374, putative dithiobiotin synthetase; Provisional. Length = 231 Score = 53.3 bits (128), Expect = 5e-08 Identities = 52/217 (23%), Positives = 87/217 (40%), Gaps = 49/217 (22%) Query: 1 MKLRLVIVGTDTSVGKTIFASALVHAL-----NAYYWKPIQSGMYEETD----------- 44 M R I GTDTSVGKT+ + AL+ AL +KP+ G E + Sbjct: 1 MLKRFFITGTDTSVGKTVVSRALLQALASQGKTVAGYKPVAKGSKETPEGLRNKDALVLQ 60 Query: 45 -SKTI----HRIGRIP-------KSHIIPEKWKLRTPASPHLAAEIDGVIIDPATINPPD 92 +I + I +H P + L + +L+ ++D V Sbjct: 61 SVSSIELPYEAVNPIALSEEESSVAHSCPINYTLMSNGLANLSEKVDHV----------- 109 Query: 93 INDSIIIEGIGGLLVPLTTEYLFIDLIERWQFPIILCARTSLGTINHSLLSLETLRNRNI 152 ++EG GG + + + + Q P+++ G INH+LL+ + + N + Sbjct: 110 -----VVEGTGGWRSLMNDLRPLSEWVVQEQLPVLMVVGIQEGCINHALLTAQAIANDGL 164 Query: 153 NIIG-IA-FIGDSMPKVEETIVKIGR---IPHLGRLP 184 +IG +A I + E I +G+ P +G LP Sbjct: 165 PLIGWVANRINPGLAHYAEIIDVLGKKLPAPLIGELP 201 >gnl|CDD|178557 PLN02974, PLN02974, adenosylmethionine-8-amino-7-oxononanoate transaminase. Length = 817 Score = 47.0 bits (112), Expect = 4e-06 Identities = 49/253 (19%), Positives = 87/253 (34%), Gaps = 67/253 (26%) Query: 7 IVGTDTSVGKTIFASALVHALNA-----YYWKPIQSGMYEETDSKTIHR-----IGRIPK 56 + G +T+VGKT+ ++ L A + Y KP+Q+G +++D++ + R R Sbjct: 32 VWGANTAVGKTLVSAGLAAAAASRRSPVLYVKPVQTGFPDDSDARFVFRKADSLSRRSES 91 Query: 57 SHIIPEKWKLRTPA------------------------------------------SPHL 74 L PA SPHL Sbjct: 92 LFASNRTLFLSPPAAKSALGGVSSMGAHAAVNAGAEAGVTSSALWCHTLFAWRRAVSPHL 151 Query: 75 AAEIDGVIIDPATI-------------NPPDINDSI-IIEGIGGLLVPLTTEYLFIDLIE 120 AA +G + + N + ++E GG+ P + L DL Sbjct: 152 AARREGRGVSDDEVLEAVNRSLREVGANESGGGRVLALVETAGGVASPGPSGTLQCDLYR 211 Query: 121 RWQFPIILCARTSLGTINHSLLSLETLRNRNINIIGIAFIGDSMPKVEETIVKIGRIPHL 180 + P IL LG I+ +L + E+L R +++ + + + + + + Sbjct: 212 PLRLPAILVGDGRLGGISATLAAYESLLLRGYDVVAVVIEDHGLSNEKALLSYLSNRVPV 271 Query: 181 GRLPKIDPIDPDV 193 LP + P DP Sbjct: 272 FVLPPV-PEDPGD 283 >gnl|CDD|178646 PLN03098, LPA1, LOW PSII ACCUMULATION1; Provisional. Length = 453 Score = 32.5 bits (74), Expect = 0.087 Identities = 19/46 (41%), Positives = 24/46 (52%), Gaps = 6/46 (13%) Query: 144 LETLRNRNINIIGIA-----FIGDSMPKVEETIVKIGRIPHLGRLP 184 LET N INI GI F+ ++ K EE + +I R L RLP Sbjct: 236 LETAGNAAINIGGIVAFVSLFLWEN-KKEEEQMSQITRDETLSRLP 280 >gnl|CDD|169949 PRK09536, btuD, corrinoid ABC transporter ATPase; Reviewed. Length = 402 Score = 30.6 bits (69), Expect = 0.32 Identities = 7/22 (31%), Positives = 10/22 (45%) Query: 169 ETIVKIGRIPHLGRLPKIDPID 190 +V++GR PH R D Sbjct: 95 RQVVEMGRTPHRSRFDTWTETD 116 >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 = 30.2 bits (69), Expect = 0.41 Identities = 12/30 (40%), Positives = 15/30 (50%) Query: 4 RLVIVGTDTSVGKTIFASALVHALNAYYWK 33 R++ VGTD +VGK A L AL Sbjct: 115 RVLTVGTDCAVGKMTTALELERALRERGLN 144 >gnl|CDD|130522 TIGR01455, glmM, phosphoglucosamine mutase. This model describes GlmM, phosphoglucosamine mutase, also designated in MrsA and YhbF E. coli, UreC in Helicobacter pylori, and femR315 or FemD in Staphlococcus aureus. It converts glucosamine-6-phosphate to glucosamine-1-phosphate as part of the pathway toward UDP-N-acetylglucosamine for peptidoglycan and lipopolysaccharides. Length = 443 Score = 29.3 bits (66), Expect = 0.75 Identities = 29/113 (25%), Positives = 46/113 (40%), Gaps = 33/113 (29%) Query: 4 RLVIVGTDTSVGKTIFASALVHALNAYYWKPIQSGMYEETDSKTIHRIGRIPKSHIIPEK 63 V++G DT + + +AL LN+ +G+ + +G +P Sbjct: 39 PRVVIGKDTRLSGYMLENALAAGLNS-------AGV-------DVLLLGPLP-------- 76 Query: 64 WKLRTPA----SPHLAAEIDGVIIDPATINPPDINDSIIIEGIGGLLVPLTTE 112 TPA + L A+ GV+I A+ NP + N I G GG + TE Sbjct: 77 ----TPAVAYLTRTLRADA-GVMIS-ASHNPYEDN-GIKFFGPGGFKLDDATE 122 >gnl|CDD|180484 PRK06242, PRK06242, flavodoxin; Provisional. Length = 150 Score = 29.1 bits (66), Expect = 0.99 Identities = 9/26 (34%), Positives = 17/26 (65%) Query: 74 LAAEIDGVIIDPATINPPDINDSIII 99 +A +D +IDP +NP D+++ +I Sbjct: 22 IAEVLDAEVIDPGDVNPEDLSEYDLI 47 >gnl|CDD|178421 PLN02826, PLN02826, dihydroorotate dehydrogenase. Length = 409 Score = 28.9 bits (65), Expect = 1.0 Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 6/62 (9%) Query: 74 LAAEIDGVIIDPATIN-PPDINDSIIIEGIGGL----LVPLTTEYLF-IDLIERWQFPII 127 LA IDG+II TI+ P + + GGL L L+TE L + + R + P++ Sbjct: 286 LALGIDGLIISNTTISRPDSVLGHPHADEAGGLSGKPLFDLSTEVLREMYRLTRGKIPLV 345 Query: 128 LC 129 C Sbjct: 346 GC 347 >gnl|CDD|161846 TIGR00379, cobB, cobyrinic acid a,c-diamide synthase. This model describes cobyrinic acid a,c-diamide synthase, the cobB (cbiA in Salmonella) protein of cobalamin biosynthesis. It is responsible for the amidation of carboxylic groups at positions A and C of either cobyrinic acid or hydrogenobrynic acid. NH(2) groups are provided by glutamine and one molecule of ATP hydrogenolyzed for each amidation. Length = 449 Score = 28.2 bits (63), Expect = 1.7 Identities = 11/24 (45%), Positives = 17/24 (70%) Query: 4 RLVIVGTDTSVGKTIFASALVHAL 27 R+VI GT + VGKT ++ ++ AL Sbjct: 1 RVVIAGTSSGVGKTTISTGIMKAL 24 >gnl|CDD|161989 TIGR00670, asp_carb_tr, aspartate carbamoyltransferase. Ornithine carbamoyltransferases are in the same superfamily and form an outgroup. Length = 301 Score = 27.7 bits (62), Expect = 2.2 Identities = 9/23 (39%), Positives = 14/23 (60%) Query: 183 LPKIDPIDPDVLHQKFQEHFTQS 205 LP++D IDP V ++F Q+ Sbjct: 263 LPRVDEIDPSVDDTPHAKYFKQA 285 >gnl|CDD|162866 TIGR02460, osmo_MPGsynth, mannosyl-3-phosphoglycerate synthase. This family consists of examples of mannosyl-3-phosphoglycerate synthase (MPGS), which together mannosyl-3-phosphoglycerate phosphatase (MPGP) comprises a two-step pathway for mannosylglycerate biosynthesis. Mannosylglycerate is a compatible solute that tends to be restricted to extreme thermophiles of archaea and bacteria. Note that in Rhodothermus marinus, this pathway is one of two; the other is condensation of GDP-mannose with D-glycerate by mannosylglycerate synthase. Length = 381 Score = 27.8 bits (62), Expect = 2.2 Identities = 20/61 (32%), Positives = 26/61 (42%), Gaps = 14/61 (22%) Query: 133 SLGTINHSLLSLETLRNR---NINIIGIAFIGDSMPKVEETIVKIGRIPHLGRLPKIDPI 189 SL TI HS L+ E LR R ++ +GI + PK P + R K PI Sbjct: 325 SLATIYHSKLATEELRKRILDDLRDLGILGENEEPPK-----------PLVYRPIKEIPI 373 Query: 190 D 190 Sbjct: 374 K 374 >gnl|CDD|183140 PRK11447, PRK11447, cellulose synthase subunit BcsC; Provisional. Length = 1157 Score = 27.7 bits (62), Expect = 2.5 Identities = 10/19 (52%), Positives = 13/19 (68%) Query: 180 LGRLPKIDPIDPDVLHQKF 198 L RL IDP +PDV+ +F Sbjct: 51 LYRLELIDPNNPDVIAARF 69 >gnl|CDD|163238 TIGR03371, cellulose_yhjQ, cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined. Length = 246 Score = 27.3 bits (61), Expect = 3.4 Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 1/30 (3%) Query: 1 MKLRLVIVGTDTSVGKTIFASALVHALNAY 30 MK + IVG VGKT + L AL Sbjct: 1 MK-VIAIVGVKGGVGKTTLTANLASALKLL 29 >gnl|CDD|131869 TIGR02822, adh_fam_2, zinc-binding alcohol dehydrogenase family protein. Members of this model form a distinct subset of the larger family of oxidoreductases that includes zinc-binding alcohol dehydrogenases and NADPH:quinone reductases (pfam00107). The gene neighborhood of members of this family is not conserved and it appears that no members are characterized. The sequence of the family includes 6 invariant cysteine residues and one invariant histidine. It appears that no member is characterized. Length = 329 Score = 27.2 bits (60), Expect = 3.5 Identities = 15/48 (31%), Positives = 20/48 (41%) Query: 67 RTPASPHLAAEIDGVIIDPATINPPDINDSIIIEGIGGLLVPLTTEYL 114 R A+ LA + A PP+ D+ I+ G LVP E L Sbjct: 197 RGAAARRLALALGAASAGGAYDTPPEPLDAAILFAPAGGLVPPALEAL 244 >gnl|CDD|179218 PRK01077, PRK01077, cobyrinic acid a,c-diamide synthase; Validated. Length = 451 Score = 26.3 bits (59), Expect = 6.0 Identities = 9/24 (37%), Positives = 11/24 (45%) Query: 4 RLVIVGTDTSVGKTIFASALVHAL 27 LVI + GKT L+ AL Sbjct: 5 ALVIAAPASGSGKTTVTLGLMRAL 28 >gnl|CDD|179175 PRK00942, PRK00942, acetylglutamate kinase; Provisional. Length = 283 Score = 26.2 bits (59), Expect = 7.4 Identities = 14/63 (22%), Positives = 27/63 (42%), Gaps = 8/63 (12%) Query: 135 GTINHSLLSLETLRNRNINIIGI-AFIGDSMPKVEETIVKIGRIPHLGRLPKIDPIDPDV 193 G +N L+SL + +G+ G + T K+ LG + ++ P++P + Sbjct: 102 GKVNKELVSL--INKHGGKAVGLSGKDGGLI-----TAKKLEEDEDLGFVGEVTPVNPAL 154 Query: 194 LHQ 196 L Sbjct: 155 LEA 157 >gnl|CDD|172536 PRK14042, PRK14042, pyruvate carboxylase subunit B; Provisional. Length = 596 Score = 26.2 bits (57), Expect = 7.4 Identities = 14/41 (34%), Positives = 22/41 (53%) Query: 95 DSIIIEGIGGLLVPLTTEYLFIDLIERWQFPIILCARTSLG 135 DSI I+ + GLL P T L+ L + P+ L + ++ G Sbjct: 169 DSIAIKDMAGLLTPTVTVELYAGLKQATGLPVHLHSHSTSG 209 >gnl|CDD|184379 PRK13896, PRK13896, cobyrinic acid a,c-diamide synthase; Provisional. Length = 433 Score = 25.9 bits (57), Expect = 7.4 Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 2/36 (5%) Query: 5 LVIVGTDTSVGKTIFASALVHALNA--YYWKPIQSG 38 V+ GT + VGKT+ A + AL Y +P ++G Sbjct: 4 FVLGGTSSGVGKTVATLATIRALEDAGYAVQPAKAG 39 >gnl|CDD|179620 PRK03642, PRK03642, putative periplasmic esterase; Provisional. Length = 432 Score = 25.9 bits (57), Expect = 9.1 Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 14/68 (20%) Query: 30 YYWKPIQSGM-YEETDSKTIHRIGRIPKSHIIPEKWKLRTPASPHLAAEID----GVIID 84 Y +G Y + S T+ I + P + P S H+ +++D G I++ Sbjct: 166 QYPNKAVAGALYSQDKSTTLEMIKKTPLEY---------QPGSKHIYSDVDYMLLGFIVE 216 Query: 85 PATINPPD 92 T P D Sbjct: 217 SITGQPLD 224 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 0.322 0.141 0.424 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: 3,715,208 Number of extensions: 241626 Number of successful extensions: 541 Number of sequences better than 10.0: 1 Number of HSP's gapped: 531 Number of HSP's successfully gapped: 38 Length of query: 217 Length of database: 5,994,473 Length adjustment: 90 Effective length of query: 127 Effective length of database: 4,049,753 Effective search space: 514318631 Effective search space used: 514318631 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: 55 (25.0 bits)