RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780669|ref|YP_003065082.1|
2-dehydro-3-deoxyphosphooctonate aldolase [Candidatus Liberibacter
asiaticus str. psy62]
(301 letters)
>gnl|CDD|32704 COG2877, KdsA, 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate
synthase [Cell envelope biogenesis, outer membrane].
Length = 279
Score = 416 bits (1070), Expect = e-117
Identities = 156/265 (58%), Positives = 196/265 (73%)
Query: 35 NQVTFSNEQRFVLIAGPCQIESHDHAFMIAEKLYAICQSLNIGLVYKSSFDKANRSSLAG 94
+ N+ FVLIAGPC IES D A IAE L + + L I V+KSSFDKANRSS+
Sbjct: 8 GDIVIGNDLPFVLIAGPCVIESRDLALEIAEHLKELTEKLGIPYVFKSSFDKANRSSIHS 67
Query: 95 KRGVGLKKGREIFRDLKKKYGFPILTDVHTEQQCEAIADSVDILQIPALLCRQTDLLTAA 154
RG GL++G +I +++K+++G PILTDVH Q + +A+ VD+LQIPA LCRQTDLL AA
Sbjct: 68 YRGPGLEEGLKILQEVKEEFGVPILTDVHEPSQAQPVAEVVDVLQIPAFLCRQTDLLVAA 127
Query: 155 AQTGRVINVKKGQFLSPWEMHNILQKLHAHGAKDVLFCERGTSFGYNTLVTDMRSIPIMT 214
A+TG V+NVKKGQFL+PW+M NI++K G V+ CERG SFGYN LV DMRS+PIM
Sbjct: 128 AKTGAVVNVKKGQFLAPWDMKNIVEKFLETGNNKVILCERGASFGYNNLVVDMRSLPIMK 187
Query: 215 SMGVPVIFDASHSVQQPGIHGNCSGGERQYIVPLAKAAVAIGIAGIFLETHQDPDNAPSD 274
G PVIFDA+HSVQQPG G SGG R+++ LA+AAVA+G+AG+F+ETH DPDNA SD
Sbjct: 188 EFGAPVIFDATHSVQQPGGQGGSSGGRREFVPTLARAAVAVGVAGLFIETHPDPDNAKSD 247
Query: 275 GPNMINIKDLPKLLSQLLAIDKIIK 299
GPNM+ + L LL QL AID ++K
Sbjct: 248 GPNMLPLDKLEALLEQLKAIDDLVK 272
>gnl|CDD|144404 pfam00793, DAHP_synth_1, DAHP synthetase I family. Members of this
family catalyse the first step in aromatic amino acid
biosynthesis from chorismate. E-coli has three related
synthetases, which are inhibited by different aromatic
amino acids. This family also includes KDSA which has
very similar catalytic activity but is involved in the
first step of liposaccharide biosynthesis.
Length = 271
Score = 263 bits (674), Expect = 5e-71
Identities = 83/271 (30%), Positives = 135/271 (49%), Gaps = 12/271 (4%)
Query: 34 KNQVTFSNEQRFVLIAGPCQIESHDHAFMIAEKLYAICQSLNIGLVYKSSFDKANRSSLA 93
++ + + R ++IAGPC IES + A AE+L + L + ++ ++ F+K S +
Sbjct: 7 ESDILIGEDDRLLVIAGPCSIESPEAAMEYAERLKELGAKLKLPIIMRAYFEKPRTSPV- 65
Query: 94 GKRGVGLKKGREIFRDLKKKYGFPILTDVHTEQQCEAIADSVDILQIPALLCRQTDLLTA 153
G +G+G G +I +K G PI T+V + +A+ DI QI A DLL A
Sbjct: 66 GFKGLGNDPGLKILFRVKDGLGLPIATEVLDPIDPQYVAEVADIGQIGARTTESQDLLEA 125
Query: 154 AAQTGRVINVKKGQFLSPWEMHNILQKLHAHGA-KDVLFCERGTSFGY--NTLVTDMRSI 210
A+ T + + +K+G L+ EM + G + CERG GY N L D+ ++
Sbjct: 126 ASGTSKPVGLKRGTDLAIDEMLAAAEYHLFLGNTPGNILCERGIRGGYGPNRLTLDVSAV 185
Query: 211 PIMTSMG--VPVIFDASHSVQQPGIHGNCSGGERQYIVPLAKAAVAIGIAGIFLETHQDP 268
PI+ +PV+ D SHS + GG + + PLA+AA+A+G G+ +E H +P
Sbjct: 186 PILKEETGHLPVMVDPSHSNGRKD------GGRQPLVPPLARAAIAVGADGLMIEVHPNP 239
Query: 269 DNAPSDGPNMINIKDLPKLLSQLLAIDKIIK 299
NA SDGP + L + +++
Sbjct: 240 GNALSDGPQQLKYGVSETDACILWELTELVL 270
>gnl|CDD|32703 COG2876, AroA, 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP)
synthase [Amino acid transport and metabolism].
Length = 286
Score = 131 bits (331), Expect = 2e-31
Identities = 75/258 (29%), Positives = 124/258 (48%), Gaps = 25/258 (9%)
Query: 45 FVLIAGPCQIESHDHAFMIAEKLYAICQSLNIGLVYKSSFDKANRSSLAGKRGVGLKKGR 104
+IAGPC +ES + AE + A G +K R+S +G+G + G
Sbjct: 46 LRVIAGPCSVESEEQVRETAESVKAAGAKALRGGAFKP------RTSPYSFQGLGEE-GL 98
Query: 105 EIFRDLKKKYGFPILTDVHTEQQCEAIADSVDILQIPALLCRQTDLLTAAAQTGRVINVK 164
++ + + G P++T+V + EA A+ DILQ+ A + LL + + + +K
Sbjct: 99 KLLKRAADETGLPVVTEVMDVRDVEAAAEYADILQVGARNMQNFALLKEVGRQNKPVLLK 158
Query: 165 KGQFLSPWEMHNILQKLHAHGAKDVLFCERG----TSFGYNTLVTDMRSIPIMTSMG-VP 219
+G + E N + + +HG +V+ CERG NTL D+ ++PI+ +P
Sbjct: 159 RGLSATIEEWLNAAEYILSHGNGNVILCERGIRTFEKATRNTL--DISAVPILKQETHLP 216
Query: 220 VIFDASHSVQQPGIHGNCSGGERQYIVPLAKAAVAIGIAGIFLETHQDPDNAPSDGPNMI 279
VI D SH+ G R + PLAKAA+A G G+ +E H DP+ A SD +
Sbjct: 217 VIVDPSHA-----------TGRRDLVEPLAKAAIAAGADGLMIEVHPDPEKALSDAKQQL 265
Query: 280 NIKDLPKLLSQLLAIDKI 297
++ +L+ +L A+
Sbjct: 266 TPEEFEELVKELRALADA 283
>gnl|CDD|32361 COG2178, COG2178, Predicted RNA-binding protein of the translin
family [Translation, ribosomal structure and
biogenesis].
Length = 204
Score = 29.1 bits (65), Expect = 1.7
Identities = 30/150 (20%), Positives = 56/150 (37%), Gaps = 35/150 (23%)
Query: 55 ESHDHAFMIAEKLYAICQSLNIGLVYKSSFDKANRSSLAGKRGVGLKKGREIFRDLKKKY 114
++ + A ++ ++ + I L+++ F++A + LKK E LK+
Sbjct: 17 KAREEALKLSREIVRLSGEA-IFLLHRGDFEEAEKK---------LKKASEAVEKLKRLL 66
Query: 115 -GFPIL---TDVHTEQQ--CEAIA-------------DSVDILQIPALLCRQTDLLTAAA 155
GFP L V T Q EA + + + I +L L A
Sbjct: 67 AGFPELYFAGFVTTALQEYVEATLLYSILKDGRLPSPEELGVPPIAYIL----GLADAVG 122
Query: 156 QTGR--VINVKKGQFLSPWEMHNILQKLHA 183
+ R + ++KG F ++KL+
Sbjct: 123 ELRRHVLELLRKGSFEEAERFLKFMEKLYE 152
>gnl|CDD|31066 COG0722, AroG, 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAHP)
synthase [Amino acid transport and metabolism].
Length = 351
Score = 28.3 bits (63), Expect = 2.8
Identities = 23/94 (24%), Positives = 42/94 (44%), Gaps = 15/94 (15%)
Query: 42 EQRFVLIAGPCQIESHDHAFMIAEKLYAICQSL--NIGLVYKSSFDK----------ANR 89
+ R +++ GPC I + A A +L A+ + L + +V + F+K N
Sbjct: 51 DDRLLVVIGPCSIHDPEAALEYARRLKALREELKDRLEIVMRVYFEKPRTTVGWKGLIND 110
Query: 90 SSLAGKRGV--GLKKGREIFRDLKKKYGFPILTD 121
L G + GL+ R++ D+ + G P T+
Sbjct: 111 PDLDGSFDINKGLRIARKLLLDVNEL-GLPTATE 143
>gnl|CDD|145282 pfam02016, Peptidase_S66, LD-carboxypeptidase.
Muramoyl-tetrapeptide carboxypeptidase hydrolyses a
peptide bond between a di-basic amino acid and the
C-terminal D-alanine in the tetrapeptide moiety in
peptidoglycan. This cleaves the bond between an L- and a
D-amino acid. The function of this activity is in murein
recycling. This family also includes the microcin c7
self-immunity protein. This family corresponds to Merops
family S66.
Length = 281
Score = 27.5 bits (62), Expect = 4.3
Identities = 7/28 (25%), Positives = 12/28 (42%), Gaps = 3/28 (10%)
Query: 104 REIFRDLKKKYGFPILTDV---HTEQQC 128
E+ R++ G P+L + HT
Sbjct: 243 EEVLREVLGDLGIPVLYGLPFGHTPPNL 270
>gnl|CDD|145083 pfam01740, STAS, STAS domain. The STAS (after Sulphate Transporter
and AntiSigma factor antagonist) domain is found in the
C terminal region of Sulphate transporters and bacterial
antisigma factor antagonists. It has been suggested that
this domain may have a general NTP binding function.
Length = 106
Score = 27.6 bits (62), Expect = 4.6
Identities = 5/36 (13%), Positives = 17/36 (47%)
Query: 199 GYNTLVTDMRSIPIMTSMGVPVIFDASHSVQQPGIH 234
++ D+ +P + S G+ + + +++ G+
Sbjct: 39 EIRHVILDLSGVPFIDSSGLGALLELYKELRRRGVE 74
>gnl|CDD|36479 KOG1265, KOG1265, KOG1265, Phospholipase C [Lipid transport and
metabolism].
Length = 1189
Score = 26.9 bits (59), Expect = 6.3
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 78 LVYKSSFDKANRSSLAGKRGVGLK--KGREIFRDLKKKYGFPILTDVHTEQQCEAIADS 134
L KSS + + L+G R V L G+ + +GF + T++ + EAIA++
Sbjct: 338 LGGKSSVEMYRQVLLSGCRCVELDCWDGKGEDEEPVITHGFTMTTEIFFKDVLEAIAET 396
>gnl|CDD|132882 cd07025, Peptidase_S66, LD-Carboxypeptidase, a serine protease,
includes microcin C7 self immunity protein.
LD-carboxypeptidase (Muramoyltetrapeptide
carboxypeptidase; EC 3.4.17.13; Merops family S66;
initially described as Carboxypeptidase II) family also
includes the microcin c7 self-immunity protein (MccF) as
well as uncharacterized proteins including hypothetical
proteins. LD-carboxypeptidase hydrolyzes the amide bond
that links the dibasic amino acids to C-terminal
D-amino acids. The physiological substrates of
LD-carboxypeptidase are tetrapeptide fragments (such as
UDP-MurNAc-tetrapeptides) that are produced when
bacterial cell walls are degraded; they contain an
L-configured residue (L-lysine or meso-diaminopimelic
acid residue) as the penultimate residue and D-alanine
as the ultimate residue. A possible role of
LD-carboxypeptidase is in peptidoglycan recycling
whereby the resulting tripeptide (precursor for murein
synthesis) can be reconverted into peptidoglycan by
attachment of preformed D-Ala-D-Ala dipeptides. Some
enzymes possessing LD-carboxypeptidase activity also act
as LD-transpeptidase by replacing the terminal D-Ala
with another D-amino acid. MccF contributes to
self-immunity towards microcin C7 (MccC7), a ribosomally
encoded peptide antibiotic that contains a
phosphoramidate linkage to adenosine monophosphate at
its C-terminus. Its possible biological role is to
defend producer cells against exogenous microcin from
re-entering after having been exported. It is suggested
that MccF is involved in microcin degradation or
sequestration in the periplasm.
Length = 282
Score = 27.1 bits (61), Expect = 6.8
Identities = 6/28 (21%), Positives = 12/28 (42%), Gaps = 3/28 (10%)
Query: 104 REIFRDLKKKYGFPILTDV---HTEQQC 128
E+ +++ G P+L + HT
Sbjct: 246 EEVLKEVLGDLGIPVLYGLPIGHTPPNL 273
>gnl|CDD|107209 cd06448, L-Ser-dehyd, Serine dehydratase is a pyridoxal phosphate
(PLP)-dependent enzyme which catalyzes the conversion of
L- , D-serine, or L-threonine to pyruvate/ketobutyrate
and ammonia..
Length = 316
Score = 26.9 bits (60), Expect = 8.1
Identities = 24/111 (21%), Positives = 40/111 (36%), Gaps = 21/111 (18%)
Query: 202 TLVTDMRSIPIMTSMGVPVIFD-ASHSVQQPGIHG-------------NCSGGERQYIVP 247
LVT + + TS+G + A Q+ I + ER + P
Sbjct: 206 KLVTLPKITSVATSLGAKTVSSQALEYAQEHNIKSEVVSDRDAVQACLRFADDERILVEP 265
Query: 248 LAKAAVAIGIAGIFLETHQDPDNAPSD-------GPNMINIKDLPKLLSQL 291
AA+A+ +G L+ + P D G + I ++ L + QL
Sbjct: 266 ACGAALAVVYSGKILDLQLEVLLTPLDNVVVVVCGGSNITLEQLKEYKKQL 316
>gnl|CDD|173802 cd07476, Peptidases_S8_thiazoline_oxidase_subtilisin-like_protease,
Peptidase S8 family domain in Thiazoline
oxidase/subtilisin-like proteases. Thiazoline
oxidase/subtilisin-like protease is produced by the
symbiotic bacteria Prochloron spp. that inhabit didemnid
family ascidians. The cyclic peptides of the
patellamide class found in didemnid extracts are now
known to be synthesized by the Prochloron spp. The
prepatellamide is heterocyclized to form thiazole and
oxazoline rings and the peptide is cleaved to form the
two cyclic patellamides A and C. Subtilases, or
subtilisin-like serine proteases, have an Asp/His/Ser
catalytic triad similar to that found in trypsin-like
proteases, but do not share their three-dimensional
structure (an example of convergent evolution).
Length = 267
Score = 26.5 bits (59), Expect = 9.2
Identities = 18/61 (29%), Positives = 21/61 (34%), Gaps = 9/61 (14%)
Query: 129 EAIADSVDILQIPALL-----CRQTDL----LTAAAQTGRVINVKKGQFLSPWEMHNILQ 179
E IA L IP C Q DL A Q +IN+ G+ E IL
Sbjct: 69 EGIAPLCRGLNIPIFAEDRRGCSQLDLARAINLALEQGAHIINISGGRLTQTGEADPILA 128
Query: 180 K 180
Sbjct: 129 N 129
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.321 0.137 0.404
Gapped
Lambda K H
0.267 0.0812 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,595,902
Number of extensions: 185646
Number of successful extensions: 458
Number of sequences better than 10.0: 1
Number of HSP's gapped: 450
Number of HSP's successfully gapped: 14
Length of query: 301
Length of database: 6,263,737
Length adjustment: 93
Effective length of query: 208
Effective length of database: 4,254,100
Effective search space: 884852800
Effective search space used: 884852800
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: 57 (25.6 bits)