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)