RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 033625
(115 letters)
>gnl|CDD|215192 PLN02334, PLN02334, ribulose-phosphate 3-epimerase.
Length = 229
Score = 194 bits (495), Expect = 2e-64
Identities = 77/115 (66%), Positives = 89/115 (77%), Gaps = 1/115 (0%)
Query: 1 MRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPS 60
M+ GV L PGT VE V P+VE V+MVLVM+VEPGFGGQ F+P MMDKVR+LR +YP
Sbjct: 116 MKAGVVLNPGTPVEAVEPVVEKGL-VDMVLVMSVEPGFGGQSFIPSMMDKVRALRKKYPE 174
Query: 61 LDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQKNS 115
LDIEVDGG+GPSTI +AA AGAN IVAGS+VFGAP+ A VIS +R SVE A
Sbjct: 175 LDIEVDGGVGPSTIDKAAEAGANVIVAGSAVFGAPDYAEVISGLRASVEKAAVAV 229
>gnl|CDD|240303 PTZ00170, PTZ00170, D-ribulose-5-phosphate 3-epimerase;
Provisional.
Length = 228
Score = 170 bits (432), Expect = 8e-55
Identities = 65/109 (59%), Positives = 81/109 (74%), Gaps = 1/109 (0%)
Query: 1 MRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPS 60
M+ GVA+KP T VE ++PL++ V+MVLVMTVEPGFGGQ FM +MM KVR LR RYP
Sbjct: 115 MKVGVAIKPKTPVEVLFPLIDTDL-VDMVLVMTVEPGFGGQSFMHDMMPKVRELRKRYPH 173
Query: 61 LDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVE 109
L+I+VDGG+ TI AA AGAN IVAGSS+F A + I L+R+SV+
Sbjct: 174 LNIQVDGGINLETIDIAADAGANVIVAGSSIFKAKDRKQAIELLRESVQ 222
>gnl|CDD|238244 cd00429, RPE, Ribulose-5-phosphate 3-epimerase (RPE). This enzyme
catalyses the interconversion of D-ribulose 5-phosphate
(Ru5P) into D-xylulose 5-phosphate, as part of the
Calvin cycle (reductive pentose phosphate pathway) in
chloroplasts and in the oxidative pentose phosphate
pathway. In the Calvin cycle Ru5P is phosphorylated by
phosphoribulose kinase to ribulose-1,5-bisphosphate,
which in turn is used by RubisCO
(ribulose-1,5-bisphosphate carboxylase/oxygenase) to
incorporate CO2 as the central step in carbohydrate
synthesis.
Length = 211
Score = 158 bits (401), Expect = 3e-50
Identities = 54/109 (49%), Positives = 75/109 (68%), Gaps = 7/109 (6%)
Query: 1 MRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYP- 59
M+ GVAL PGT VE + P ++ V++VLVM+V PGFGGQKF+PE+++K+R LR P
Sbjct: 106 MKAGVALNPGTPVEVLEPYLD---EVDLVLVMSVNPGFGGQKFIPEVLEKIRKLRELIPE 162
Query: 60 ---SLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMR 105
+L IEVDGG+ TI A AGA+ +VAGS++FG+ + A I +R
Sbjct: 163 NNLNLLIEVDGGINLETIPLLAEAGADVLVAGSALFGSDDYAEAIKELR 211
>gnl|CDD|235515 PRK05581, PRK05581, ribulose-phosphate 3-epimerase; Validated.
Length = 220
Score = 144 bits (367), Expect = 4e-45
Identities = 47/111 (42%), Positives = 71/111 (63%), Gaps = 7/111 (6%)
Query: 1 MRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRN---- 56
++ G+ L P T +E + +++ +++VL+M+V PGFGGQKF+PE+++K+R LR
Sbjct: 110 IKAGLVLNPATPLEPLEDVLD---LLDLVLLMSVNPGFGGQKFIPEVLEKIRELRKLIDE 166
Query: 57 RYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKS 107
R + IEVDGG+ I E A AGA+ VAGS+VFGAP+ I +R
Sbjct: 167 RGLDILIEVDGGINADNIKECAEAGADVFVAGSAVFGAPDYKEAIDSLRAE 217
>gnl|CDD|223114 COG0036, Rpe, Pentose-5-phosphate-3-epimerase [Carbohydrate
transport and metabolism].
Length = 220
Score = 129 bits (328), Expect = 3e-39
Identities = 47/114 (41%), Positives = 74/114 (64%), Gaps = 6/114 (5%)
Query: 1 MRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYP- 59
++ G+ L P T +E + P+++ V++VL+M+V PGFGGQKF+PE+++K+R LR
Sbjct: 110 VKAGLVLNPATPLEALEPVLD---DVDLVLLMSVNPGFGGQKFIPEVLEKIRELRAMIDE 166
Query: 60 --SLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDA 111
+ IEVDGG+ TI + A+AGA+ VAGS++FGA + I +R + A
Sbjct: 167 RLDILIEVDGGINLETIKQLAAAGADVFVAGSALFGADDYKATIRELRGELLKA 220
>gnl|CDD|216142 pfam00834, Ribul_P_3_epim, Ribulose-phosphate 3 epimerase family.
This enzyme catalyzes the conversion of D-ribulose
5-phosphate into D-xylulose 5-phosphate.
Length = 201
Score = 117 bits (294), Expect = 2e-34
Identities = 40/99 (40%), Positives = 62/99 (62%), Gaps = 7/99 (7%)
Query: 1 MRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPS 60
+ G+ L P T ++ + L++ +++VL+M+V PGFGGQ F+P ++ K+R +R
Sbjct: 106 AKAGLVLNPATPLDAIEYLLD---DLDLVLLMSVNPGFGGQSFIPSVLPKIRKVRKMIDE 162
Query: 61 ----LDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP 95
IEVDGG+ I + A AGA+ +VAGS+VFGAP
Sbjct: 163 GGLDTLIEVDGGVNLDNIPQIAEAGADVLVAGSAVFGAP 201
>gnl|CDD|130231 TIGR01163, rpe, ribulose-phosphate 3-epimerase. This family
consists of Ribulose-phosphate 3-epimerase, also known
as pentose-5-phosphate 3-epimerase (PPE). PPE converts
D-ribulose 5-phosphate into D-xylulose 5-phosphate in
Calvin's reductive pentose phosphate cycle. It has been
found in a wide range of bacteria, archebacteria, fungi
and plants [Energy metabolism, Pentose phosphate
pathway].
Length = 210
Score = 115 bits (289), Expect = 2e-33
Identities = 44/108 (40%), Positives = 69/108 (63%), Gaps = 7/108 (6%)
Query: 2 RPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLR---NRY 58
+ G+ L P T +E + ++ V++VL+M+V PGFGGQKF+P+ ++K+R +R +
Sbjct: 106 KAGIVLNPATPLEFLEYVLP---DVDLVLLMSVNPGFGGQKFIPDTLEKIREVRKMIDEN 162
Query: 59 -PSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMR 105
S+ IEVDGG+ E A AGA+ +VAGS++FGA + VI +R
Sbjct: 163 GLSILIEVDGGVNDDNARELAEAGADILVAGSAIFGADDYKEVIRSLR 210
>gnl|CDD|136958 PRK08745, PRK08745, ribulose-phosphate 3-epimerase; Provisional.
Length = 223
Score = 86.2 bits (213), Expect = 4e-22
Identities = 46/116 (39%), Positives = 74/116 (63%), Gaps = 9/116 (7%)
Query: 2 RPGVALKPGTSVEEVYPLVEGANP-VEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPS 60
+ G+ L P T V+ +++ P +++VLVM+V PGFGGQ F+P +DK+R++R + +
Sbjct: 112 QAGLVLNPATPVD----ILDWVLPELDLVLVMSVNPGFGGQAFIPSALDKLRAIRKKIDA 167
Query: 61 LD----IEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQ 112
L +E+DGG+ I A+AGA+ VAGS++F AP+ A VI+ MR +V +
Sbjct: 168 LGKPIRLEIDGGVKADNIGAIAAAGADTFVAGSAIFNAPDYAQVIAQMRAAVAAVR 223
>gnl|CDD|181575 PRK08883, PRK08883, ribulose-phosphate 3-epimerase; Provisional.
Length = 220
Score = 82.4 bits (203), Expect = 1e-20
Identities = 42/115 (36%), Positives = 68/115 (59%), Gaps = 7/115 (6%)
Query: 2 RPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPS- 60
+ GV L P T + + +++ V+++L+M+V PGFGGQ F+P +DK+R++R
Sbjct: 108 QAGVVLNPATPLHHLEYIMD---KVDLILLMSVNPGFGGQSFIPHTLDKLRAVRKMIDES 164
Query: 61 ---LDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQ 112
+ +E+DGG+ I E A AGA+ VAGS++FG P+ VI MR + +
Sbjct: 165 GRDIRLEIDGGVKVDNIREIAEAGADMFVAGSAIFGQPDYKAVIDEMRAELAKVK 219
>gnl|CDD|236616 PRK09722, PRK09722, allulose-6-phosphate 3-epimerase; Provisional.
Length = 229
Score = 75.8 bits (187), Expect = 4e-18
Identities = 37/95 (38%), Positives = 52/95 (54%), Gaps = 9/95 (9%)
Query: 1 MRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSL-----R 55
M+ G+ L P T VE + + ++ + VMTV+PGF GQ F+PEM+DK+ L R
Sbjct: 109 MKVGLVLNPETPVESIKYYIH---LLDKITVMTVDPGFAGQPFIPEMLDKIAELKALRER 165
Query: 56 NRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSS 90
N L IEVDG T + AGA+ + G+S
Sbjct: 166 NGLEYL-IEVDGSCNQKTYEKLMEAGADVFIVGTS 199
>gnl|CDD|169179 PRK08005, PRK08005, epimerase; Validated.
Length = 210
Score = 55.4 bits (133), Expect = 1e-10
Identities = 29/91 (31%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 2 RPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSL 61
+ G+AL P T + L A ++ +++MT EP GQ+F+ M +KV R +P+
Sbjct: 108 KAGLALNPATPLLPYRYL---ALQLDALMIMTSEPDGRGQQFIAAMCEKVSQSREHFPAA 164
Query: 62 DIEVDGGLGPSTIAEAASAGANCIVAGSSVF 92
+ DGG+ A+AGA +V G ++F
Sbjct: 165 ECWADGGITLRAARLLAAAGAQHLVIGRALF 195
>gnl|CDD|223347 COG0269, SgbH, 3-hexulose-6-phosphate synthase and related proteins
[Carbohydrate transport and metabolism].
Length = 217
Score = 40.3 bits (95), Expect = 5e-05
Identities = 15/70 (21%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 40 GQKFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAH 99
G+ + + ++K++ L + + V GG+ P I GA+ ++ G ++ GA +PA
Sbjct: 146 GKSWGEDDLEKIKKLSD--LGAKVAVAGGITPEDIPLFKGIGADIVIVGRAITGAKDPAE 203
Query: 100 VISLMRKSVE 109
++ ++
Sbjct: 204 AARKFKEEID 213
>gnl|CDD|130401 TIGR01334, modD, putative molybdenum utilization protein ModD. The
gene modD for a member of this family is found with
molybdenum transport genes modABC in Rhodobacter
capsulatus. However, disruption of modD causes only a
4-fold (rather than 500-fold for modA, modB, modC)
change in the external molybdenum concentration required
to suppress an alternative nitrogenase. ModD proteins
are highly similar to nicotinate-nucleotide
pyrophosphorylase (also called quinolinate
phosphoribosyltransferase). The function unknown
[Unknown function, General].
Length = 277
Score = 39.5 bits (92), Expect = 1e-04
Identities = 20/87 (22%), Positives = 33/87 (37%), Gaps = 8/87 (9%)
Query: 20 VEGANPVEMVLVMTVEPG-FGGQKFMPEMMDKVRSLRNRYPSLD----IEVDGGLGPSTI 74
VE + + V+ P KF P+ ++ L R D + GG+ P I
Sbjct: 193 VEADTIEQALTVLQASPDILQLDKFTPQ---QLHHLHERLKFFDHIPTLAAAGGINPENI 249
Query: 75 AEAASAGANCIVAGSSVFGAPEPAHVI 101
A+ AG + + + + AP V
Sbjct: 250 ADYIEAGIDLFITSAPYYAAPCDIKVK 276
>gnl|CDD|172549 PRK14057, PRK14057, epimerase; Provisional.
Length = 254
Score = 39.3 bits (91), Expect = 1e-04
Identities = 22/93 (23%), Positives = 50/93 (53%), Gaps = 7/93 (7%)
Query: 4 GVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLR----NRYP 59
G++L P T ++ + P++ + VE++ ++ V PG+G + ++ ++V L ++
Sbjct: 136 GISLCPATPLDVIIPIL---SDVEVIQLLAVNPGYGSKMRSSDLHERVAQLLCLLGDKRE 192
Query: 60 SLDIEVDGGLGPSTIAEAASAGANCIVAGSSVF 92
I +DG L + + G + +V+GS++F
Sbjct: 193 GKIIVIDGSLTQDQLPSLIAQGIDRVVSGSALF 225
>gnl|CDD|238802 cd01568, QPRTase_NadC, Quinolinate phosphoribosyl transferase
(QAPRTase or QPRTase), also called nicotinate-nucleotide
pyrophosphorylase, is involved in the de novo synthesis
of NAD in both prokaryotes and eukaryotes. It catalyses
the reaction of quinolinic acid (QA) with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to produce nicotinic acid mononucleotide (NAMN),
pyrophosphate and carbon dioxide. QPRTase functions as a
homodimer with two active sites, each formed by the
C-terminal region of one subunit and the N-terminal
region of the other.
Length = 269
Score = 38.2 bits (90), Expect = 3e-04
Identities = 14/54 (25%), Positives = 21/54 (38%)
Query: 42 KFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP 95
PE + + L P + +E GG+ I A G + I G+ AP
Sbjct: 209 NMSPEELKEAVKLLKGLPRVLLEASGGITLENIRAYAETGVDVISTGALTHSAP 262
>gnl|CDD|132172 TIGR03128, RuMP_HxlA, 3-hexulose-6-phosphate synthase. Members of
this protein family are 3-hexulose-6-phosphate synthase
(HPS), or the HPS domain of a fusion protein. This
enzyme is part of the ribulose monophosphate (RuMP)
pathway, which in one direction removes the toxic
metabolite formaldehyde by assimilation into
fructose-6-phosphate. In the other direction, in species
lacking a complete pentose phosphate pathway, the RuMP
pathway yields ribulose-5-phosphate, necessary for
nucleotide biosynthesis, at the cost of also yielding
formaldehyde. These latter species tend usually have a
formaldehyde-activating enzyme to attach formaldehyde to
the C1 carrier tetrahydromethanopterin. In these
species, the enzyme is viewed as a lyase rather than a
synthase and is called D-arabino 3-hexulose 6-phosphate
formaldehyde lyase. Note that there is some overlap in
specificity with the Escherichia coli enzyme
3-keto-L-gulonate 6-phosphate decarboxylase.
Length = 206
Score = 36.6 bits (85), Expect = 9e-04
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 63 IEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRK 106
+ V GG+ TI + G + ++ G ++ A +PA +RK
Sbjct: 161 VAVAGGINLDTIPDVIKLGPDIVIVGGAITKAADPAEAARQIRK 204
>gnl|CDD|238317 cd00564, TMP_TenI, Thiamine monophosphate synthase (TMP
synthase)/TenI. TMP synthase catalyzes an important step
in the thiamine biosynthesis pathway, the substitution
of the pyrophosphate of 2-methyl-4-amino-5-
hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-
(beta-hydroxyethyl) thiazole phosphate to yield thiamine
phosphate. TenI is a enzymatically inactive regulatory
protein involved in the regulation of several
extracellular enzymes. This superfamily also contains
other enzymatically inactive proteins with unknown
functions.
Length = 196
Score = 35.6 bits (83), Expect = 0.002
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 67 GGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRK 106
GG+ P AE +AGA+ + S++ GA +PA +
Sbjct: 157 GGITPENAAEVLAAGADGVAVISAITGADDPAAAARELLA 196
>gnl|CDD|216667 pfam01729, QRPTase_C, Quinolinate phosphoribosyl transferase,
C-terminal domain. Quinolinate phosphoribosyl
transferase (QPRTase) or nicotinate-nucleotide
pyrophosphorylase EC:2.4.2.19 is involved in the de novo
synthesis of NAD in both prokaryotes and eukaryotes. It
catalyzes the reaction of quinolinic acid with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to give rise to nicotinic acid mononucleotide
(NaMN), pyrophosphate and carbon dioxide. The QA
substrate is bound between the C-terminal domain of one
subunit, and the N-terminal domain of the other. The
C-terminal domain has a 7 beta-stranded TIM barrel-like
fold.
Length = 169
Score = 35.3 bits (82), Expect = 0.002
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 42 KFMPEMMDK-VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP 95
F PE + + V L R + +EV GG+ + E A G + I G+ P
Sbjct: 108 NFSPEEVREAVEELDERAGRVLLEVSGGITLDNVLEYAKTGVDVISVGALTHSVP 162
>gnl|CDD|240077 cd04726, KGPDC_HPS, 3-Keto-L-gulonate 6-phosphate decarboxylase
(KGPDC) and D-arabino-3-hexulose-6-phosphate synthase
(HPS). KGPDC catalyzes the formation of L-xylulose
5-phosphate and carbon dioxide from 3-keto-L-gulonate
6-phosphate as part of the anaerobic pathway for
L-ascorbate utilization in some eubacteria. HPS
catalyzes the formation of
D-arabino-3-hexulose-6-phosphate from D-ribulose
5-phosphate and formaldehyde in microorganisms that can
use formaldehyde as a carbon source. Both catalyze
reactions that involve the Mg2+-assisted formation and
stabilization of 1,2-enediolate reaction intermediates.
Length = 202
Score = 33.3 bits (77), Expect = 0.011
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 63 IEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVI 101
+ V GG+ P T+ E AGA+ ++ G ++ GA +PA
Sbjct: 161 VAVAGGITPDTLPEFKKAGADIVIVGRAITGAADPAEAA 199
>gnl|CDD|240073 cd04722, TIM_phosphate_binding, TIM barrel proteins share a
structurally conserved phosphate binding motif and in
general share an eight beta/alpha closed barrel
structure. Specific for this family is the conserved
phosphate binding site at the edges of strands 7 and 8.
The phosphate comes either from the substrate, as in the
case of inosine monophosphate dehydrogenase (IMPDH), or
from ribulose-5-phosphate 3-epimerase (RPE) or from
cofactors, like FMN.
Length = 200
Score = 33.3 bits (76), Expect = 0.011
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 26 VEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLDIEVDGGLG-PSTIAEAASAGANC 84
V+ V + G GG+ +P + L R + + GG+ P AEA + GA+
Sbjct: 137 VDEVGLGNGGGGGGGRDAVPIADL-LLILAKRGSKVPVIAGGGINDPEDAAEALALGADG 195
Query: 85 IVAGS 89
++ GS
Sbjct: 196 VIVGS 200
>gnl|CDD|234590 PRK00043, thiE, thiamine-phosphate pyrophosphorylase; Reviewed.
Length = 212
Score = 32.8 bits (76), Expect = 0.019
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 45 PEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPA 98
E + ++R+ P + I GG+ P E AGA+ + S++ GA +P
Sbjct: 148 LEGLREIRAAVGDIPIVAI---GGITPENAPEVLEAGADGVAVVSAITGAEDPE 198
>gnl|CDD|235912 PRK07028, PRK07028, bifunctional hexulose-6-phosphate
synthase/ribonuclease regulator; Validated.
Length = 430
Score = 32.7 bits (75), Expect = 0.027
Identities = 14/54 (25%), Positives = 30/54 (55%)
Query: 60 SLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQK 113
S+ I V GGL T A+A +AGA+ ++ G ++ + + +R++++ +
Sbjct: 162 SIPIAVAGGLDAETAAKAVAAGADIVIVGGNIIKSADVTEAARKIREAIDSGKP 215
Score = 26.1 bits (58), Expect = 4.2
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 46 EMMDKVRSLRNRYPSLDIEVD---GGLGPSTIAEAASAGAN--CIVAGS 89
E M+ +R+LR +P I D G + AA AGA+ CI+ +
Sbjct: 43 EGMNAIRTLRKNFPDHTIVADMKTMDTGAIEVEMAAKAGADIVCILGLA 91
>gnl|CDD|183964 PRK13307, PRK13307, bifunctional formaldehyde-activating
enzyme/3-hexulose-6-phosphate synthase; Provisional.
Length = 391
Score = 32.3 bits (74), Expect = 0.033
Identities = 10/37 (27%), Positives = 18/37 (48%)
Query: 65 VDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVI 101
V GG+ + EA AGA+ +V G ++ + +
Sbjct: 335 VAGGVRVENVEEALKAGADILVVGRAITKSKDVRRAA 371
>gnl|CDD|169215 PRK08091, PRK08091, ribulose-phosphate 3-epimerase; Validated.
Length = 228
Score = 31.8 bits (72), Expect = 0.045
Identities = 21/109 (19%), Positives = 51/109 (46%), Gaps = 7/109 (6%)
Query: 4 GVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLD- 62
G+ L P T + + P ++ ++++ ++T++P G + ++D+V + NR +
Sbjct: 122 GLCLCPETPISLLEPYLD---QIDLIQILTLDPRTGTKAPSDLILDRVIQVENRLGNRRV 178
Query: 63 ---IEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSV 108
I +DG + + + +V+GS++F E + + S+
Sbjct: 179 EKLISIDGSMTLELASYLKQHQIDWVVSGSALFSQGELKTTLKEWKSSL 227
>gnl|CDD|238807 cd01573, modD_like, ModD; Quinolinate phosphoribosyl transferase
(QAPRTase or QPRTase) present in some modABC operons in
bacteria, which are involved in molybdate transport. In
general, QPRTases are part of the de novo synthesis
pathway of NAD in both prokaryotes and eukaryotes. They
catalyse the reaction of quinolinic acid (QA) with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to produce nicotinic acid mononucleotide (NAMN),
pyrophosphate and carbon dioxide.
Length = 272
Score = 31.9 bits (73), Expect = 0.046
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 42 KFMPEMMDK-VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPE 96
KF PE + + V LR+ P + + GG+ A A+AGA+ +V + + P
Sbjct: 211 KFSPEELAELVPKLRSLAPPVLLAAAGGINIENAAAYAAAGADILVTSAPYYAKPA 266
>gnl|CDD|183962 PRK13305, sgbH, 3-keto-L-gulonate-6-phosphate decarboxylase;
Provisional.
Length = 218
Score = 30.6 bits (69), Expect = 0.11
Identities = 14/71 (19%), Positives = 34/71 (47%), Gaps = 2/71 (2%)
Query: 40 GQKFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAH 99
GQ++ + ++++L + L++ + GG+ P+ + +AG ++ GA PA
Sbjct: 145 GQQWGEADLARMKALSDI--GLELSITGGITPADLPLFKDIRVKAFIAGRALAGAANPAQ 202
Query: 100 VISLMRKSVED 110
V + ++
Sbjct: 203 VAADFHAQIDA 213
>gnl|CDD|223429 COG0352, ThiE, Thiamine monophosphate synthase [Coenzyme
metabolism].
Length = 211
Score = 29.5 bits (67), Expect = 0.30
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 67 GGLGPSTIAEAASAGANCIVAGSSVFGAPEPA 98
GG+ + E AGA+ + S++ A +PA
Sbjct: 165 GGINLENVPEVLEAGADGVAVVSAITSAADPA 196
>gnl|CDD|163674 cd03174, DRE_TIM_metallolyase, DRE-TIM metallolyase superfamily.
The DRE-TIM metallolyase superfamily includes
2-isopropylmalate synthase (IPMS), alpha-isopropylmalate
synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase,
homocitrate synthase, citramalate synthase,
4-hydroxy-2-oxovalerate aldolase, re-citrate synthase,
transcarboxylase 5S, pyruvate carboxylase, AksA, and
FrbC. These members all share a conserved
triose-phosphate isomerase (TIM) barrel domain
consisting of a core beta(8)-alpha(8) motif with the
eight parallel beta strands forming an enclosed barrel
surrounded by eight alpha helices. The domain has a
catalytic center containing a divalent cation-binding
site formed by a cluster of invariant residues that cap
the core of the barrel. In addition, the catalytic site
includes three invariant residues - an aspartate (D), an
arginine (R), and a glutamate (E) - which is the basis
for the domain name "DRE-TIM".
Length = 265
Score = 29.3 bits (67), Expect = 0.38
Identities = 11/44 (25%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 46 EMMDKVRSLRNRYPSLDIEV----DGGLGPSTIAEAASAGANCI 85
E+ + V++LR P + + + GL + A AGA+ +
Sbjct: 176 EVAELVKALREALPDVPLGLHTHNTLGLAVANSLAALEAGADRV 219
>gnl|CDD|233094 TIGR00693, thiE, thiamine-phosphate pyrophosphorylase. This model
represents the thiamine-phosphate pyrophosphorylase,
ThiE, of a number of bacteria, and N-terminal domains of
bifunctional thiamine proteins of Saccharomyces
cerevisiae and Schizosaccharomyces pombe, in which the
C-terminal domain corresponds to the bacterial
hydroxyethylthiazole kinase (EC 2.7.1.50), ThiM. This
model includes ThiE from Bacillus subtilis but excludes
its paralog, the regulatory protein TenI , and neighbors
of TenI [Biosynthesis of cofactors, prosthetic groups,
and carriers, Thiamine].
Length = 196
Score = 28.8 bits (65), Expect = 0.46
Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 45 PEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPA 98
E++ ++ + P + I GG+ AE +AGA+ + S++ A +P
Sbjct: 140 VELLREIAATSIDIPIVAI---GGITLENAAEVLAAGADGVAVVSAIMQAADPK 190
>gnl|CDD|223361 COG0284, PyrF, Orotidine-5'-phosphate decarboxylase [Nucleotide
transport and metabolism].
Length = 240
Score = 28.8 bits (65), Expect = 0.50
Identities = 11/39 (28%), Positives = 17/39 (43%)
Query: 73 TIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDA 111
T EA AGA+ IV G + A +P + + +
Sbjct: 199 TPGEAVRAGADYIVVGRPITQAGDPVAAARAIAREIARE 237
>gnl|CDD|235054 PRK02615, PRK02615, thiamine-phosphate pyrophosphorylase;
Provisional.
Length = 347
Score = 28.7 bits (65), Expect = 0.54
Identities = 12/46 (26%), Positives = 19/46 (41%)
Query: 67 GGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQ 112
GG+ S I E AGA + ++ GA +P + K +
Sbjct: 301 GGIDKSNIPEVLQAGAKRVAVVRAIMGAEDPKQATQELLKQLSREN 346
>gnl|CDD|233555 TIGR01740, pyrF, orotidine 5'-phosphate decarboxylase, subfamily 1.
This model represents orotidine 5'-monophosphate
decarboxylase, the PyrF protein of pyrimidine nucleotide
biosynthesis. In many eukaryotes, the region hit by this
model is part of a multifunctional protein [Purines,
pyrimidines, nucleosides, and nucleotides, Pyrimidine
ribonucleotide biosynthesis].
Length = 214
Score = 28.5 bits (64), Expect = 0.64
Identities = 13/74 (17%), Positives = 26/74 (35%), Gaps = 4/74 (5%)
Query: 36 PGFGGQKFMPEMMDKVRSLRNRY-PSLDIEVDGGLGP---STIAEAASAGANCIVAGSSV 91
G + + K P + ++ T+ +A AGA+ I+ G +
Sbjct: 141 DGPVCSAEEAKEIRKATGDFLILTPGIRLDSKDADDQQRVVTLEDAKEAGADVIIVGRGI 200
Query: 92 FGAPEPAHVISLMR 105
+ A +P +R
Sbjct: 201 YAAEDPVEAAKRIR 214
>gnl|CDD|214921 smart00934, OMPdecase, Orotidine 5'-phosphate decarboxylase / HUMPS
family. Orotidine 5'-phosphate decarboxylase
(OMPdecase) catalyzes the last step in the de novo
biosynthesis of pyrimidines, the decarboxylation of OMP
into UMP. In higher eukaryotes OMPdecase is part, with
orotate phosphoribosyltransferase, of a bifunctional
enzyme, while the prokaryotic and fungal OMPdecases are
monofunctional protein.
Length = 212
Score = 28.3 bits (64), Expect = 0.70
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 73 TIAEAASAGANCIVAGSSVFGAPEPAHV 100
T A A AGA+ IV G + A +P
Sbjct: 181 TPAVAIGAGADIIVVGRPITQAADPVEA 208
>gnl|CDD|215795 pfam00215, OMPdecase, Orotidine 5'-phosphate decarboxylase / HUMPS
family. This family includes Orotidine 5'-phosphate
decarboxylase enzymes EC:4.1.1.23 that are involved in
the final step of pyrimidine biosynthesis. The family
also includes enzymes such as hexulose-6-phosphate
synthase. This family appears to be distantly related to
pfam00834.
Length = 217
Score = 28.4 bits (64), Expect = 0.74
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 61 LDIEVDGGLGPSTIAEAAS-AGANCIVAGSSVFGAPEPA 98
L GG T A AGA+ I+ G + GA +P
Sbjct: 173 LQGGDAGGQQRVTTPAVAKEAGADIIIVGRGITGAGDPV 211
>gnl|CDD|218948 pfam06230, DUF1009, Protein of unknown function (DUF1009). Family
of uncharacterized bacterial proteins.
Length = 212
Score = 27.8 bits (63), Expect = 0.98
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 69 LGPSTIAEAASAGANCIV--AGSSVFGAPEPAHVISL 103
+GP TI AA AG I AG ++ + VI+
Sbjct: 168 IGPDTIETAAEAGLAGIAVEAGKTLV--LDREAVIAA 202
>gnl|CDD|153086 cd01677, PFL2_DhaB_BssA, Pyruvate formate lyase 2 and related
enzymes. This family includes pyruvate formate lyase 2
(PFL2), B12-independent glycerol dehydratase (DhaB) and
the alpha subunit of benzylsuccinate synthase (BssA),
all of which have a highly conserved ten-stranded
alpha/beta barrel domain, which is similar to those of
PFL1 (pyruvate formate lyase 1) and RNR (ribonucleotide
reductase). Pyruvate formate lyase catalyzes a key step
in anaerobic glycolysis, the conversion of pyruvate and
CoenzymeA to formate and acetylCoA. DhaB catalyzes the
first step in the conversion of glycerol to
1,3-propanediol while BssA catalyzes the first step in
the anaerobic mineralization of both toluene and
m-xylene.
Length = 781
Score = 28.0 bits (63), Expect = 1.2
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 13/71 (18%)
Query: 47 MMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP----EPAHVIS 102
+++ R +R PSL + + +A A I G G P + + +
Sbjct: 356 ILEATRRVRLPQPSLTVRYHAKSPDKFLKKA----AEVIRLG---LGYPAFFNDEVVIPA 408
Query: 103 LMRK--SVEDA 111
L+RK S+EDA
Sbjct: 409 LLRKGVSLEDA 419
>gnl|CDD|236991 PRK11815, PRK11815, tRNA-dihydrouridine synthase A; Provisional.
Length = 333
Score = 27.4 bits (62), Expect = 1.5
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 2/30 (6%)
Query: 49 DKVRSLRNRYPSLDIEVDGGLGPSTIAEAA 78
D+V L+ +P L IE++GG+ T+ EA
Sbjct: 194 DRVYRLKRDFPHLTIEINGGI--KTLEEAK 221
>gnl|CDD|180598 PRK06512, PRK06512, thiamine-phosphate pyrophosphorylase;
Provisional.
Length = 221
Score = 27.3 bits (61), Expect = 1.5
Identities = 10/38 (26%), Positives = 17/38 (44%)
Query: 65 VDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVIS 102
V G ++ E A GA + +VF A +P ++
Sbjct: 169 VQAGSDLASAVEVAETGAEFVALERAVFDAHDPPLAVA 206
>gnl|CDD|201390 pfam00682, HMGL-like, HMGL-like. This family contains a diverse
set of enzymes. These include various aldolases and a
region of pyruvate carboxylase.
Length = 236
Score = 26.9 bits (60), Expect = 2.1
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 7/50 (14%)
Query: 46 EMMDKVRSLRNRYPSLDIEV----DGGLGPSTIAEAASAGA---NCIVAG 88
E D + +L++R P + IEV D G+ + A AGA + V G
Sbjct: 166 EAADLISALKDRVPPVIIEVHCHNDLGMAVANSLAAVEAGADRVDGTVNG 215
>gnl|CDD|240076 cd04725, OMP_decarboxylase_like, Orotidine 5'-phosphate
decarboxylase (ODCase) is a dimeric enzyme that
decarboxylates orotidine 5'-monophosphate (OMP) to form
uridine 5'-phosphate (UMP), an essential step in the
pyrimidine biosynthetic pathway. In mammals, UMP
synthase contains two domains: the orotate
phosphoribosyltransferase (OPRTase) domain that
catalyzes the transfer of phosphoribosyl
5'-pyrophosphate (PRPP) to orotate to form OMP, and the
orotidine-5'-phosphate decarboxylase (ODCase) domain
that decarboxylates OMP to form UMP.
Length = 216
Score = 26.8 bits (60), Expect = 2.2
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 73 TIAEAASAGANCIVAGSSVFGAPEPA 98
T +A AGA+ IV G + A +P
Sbjct: 185 TPEDAIRAGADYIVVGRPITQAADPV 210
>gnl|CDD|238806 cd01572, QPRTase, Quinolinate phosphoribosyl transferase (QAPRTase
or QPRTase), also called nicotinate-nucleotide
pyrophosphorylase, is involved in the de novo synthesis
of NAD in both prokaryotes and eukaryotes. It catalyses
the reaction of quinolinic acid (QA) with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to produce nicotinic acid mononucleotide (NAMN),
pyrophosphate and carbon dioxide. QPRTase functions as a
homodimer with two active sites, each formed by the
C-terminal region of one subunit and the N-terminal
region of the other.
Length = 268
Score = 27.1 bits (61), Expect = 2.3
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 4/48 (8%)
Query: 43 FMPEMMDK-VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGS 89
PE + + V L+ R +E GG+ I A G + I G+
Sbjct: 211 MSPEELREAVALLKGRVL---LEASGGITLENIRAYAETGVDYISVGA 255
>gnl|CDD|220210 pfam09374, PG_binding_3, Predicted Peptidoglycan domain. This
family contains a potential peptidoglycan binding
domain.
Length = 67
Score = 25.7 bits (57), Expect = 2.3
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 61 LDIEVDGGLGPSTIAEAASAGAN 83
D+ DG +GP T+A AS G N
Sbjct: 13 PDVAADGIIGPKTLAALASMGEN 35
>gnl|CDD|223235 COG0157, NadC, Nicotinate-nucleotide pyrophosphorylase [Coenzyme
metabolism].
Length = 280
Score = 26.8 bits (60), Expect = 2.4
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 42 KFMPEMMDK-VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP 95
PE + + V+ L +L +E GG+ I E A G + I G+ AP
Sbjct: 216 NMSPEELKEAVKLLGLAGRAL-LEASGGITLENIREYAETGVDVISVGALTHSAP 269
>gnl|CDD|180725 PRK06843, PRK06843, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 404
Score = 26.9 bits (59), Expect = 2.6
Identities = 10/42 (23%), Positives = 23/42 (54%)
Query: 47 MMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAG 88
+++ V+ ++ +YP+LD+ + + S GA+C+ G
Sbjct: 181 IIELVKKIKTKYPNLDLIAGNIVTKEAALDLISVGADCLKVG 222
>gnl|CDD|238286 cd00516, PRTase_typeII, Phosphoribosyltransferase (PRTase) type II;
This family contains two enzymes that play an important
role in NAD production by either allowing quinolinic
acid (QA) , quinolinate phosphoribosyl transferase
(QAPRTase), or nicotinic acid (NA), nicotinate
phosphoribosyltransferase (NAPRTase), to be used in the
synthesis of NAD. QAPRTase catalyses the reaction of
quinolinic acid (QA) with
5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence
of Mg2+ to produce nicotinic acid mononucleotide (NAMN),
pyrophosphate and carbon dioxide, an important step in
the de novo synthesis of NAD. NAPRTase catalyses a
similar reaction leading to NAMN and pyrophosphate,
using nicotinic acid an PPRP as substrates, used in the
NAD salvage pathway.
Length = 281
Score = 26.8 bits (60), Expect = 2.6
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 8/62 (12%)
Query: 42 KFMPEMMDK-VRSLRNR-------YPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFG 93
PE +D V L+ R P + IE GGL I A G + G+ +
Sbjct: 213 SGSPEELDPAVLILKARAHLDGKGLPRVKIEASGGLDEENIRAYAETGVDVFGVGTLLHS 272
Query: 94 AP 95
AP
Sbjct: 273 AP 274
>gnl|CDD|215325 PLN02605, PLN02605, monogalactosyldiacylglycerol synthase.
Length = 382
Score = 26.9 bits (60), Expect = 2.6
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 70 GPSTIAEAASAGANCIVAG 88
GP TIAEA G I+ G
Sbjct: 291 GPGTIAEALIRGLPIILNG 309
>gnl|CDD|180397 PRK06096, PRK06096, molybdenum transport protein ModD; Provisional.
Length = 284
Score = 26.6 bits (59), Expect = 3.1
Identities = 18/89 (20%), Positives = 33/89 (37%), Gaps = 3/89 (3%)
Query: 20 VEGANPVEMVLVMTVEPG-FGGQKFMPEMMDKVRSLRNRY-PSLDIEVDGGLGPSTIAEA 77
VE P E + + +P KF P+ ++ + P + + GG+ +T+
Sbjct: 194 VEADTPKEAIAALRAQPDVLQLDKFSPQQATEIAQIAPSLAPHCTLSLAGGINLNTLKNY 253
Query: 78 ASAGANCIVAGSSVFGAPEPAHVISLMRK 106
A G + + + AP V L
Sbjct: 254 ADCGIRLFITSAPYYAAPADIKVS-LQPA 281
>gnl|CDD|223975 COG1045, CysE, Serine acetyltransferase [Amino acid transport and
metabolism].
Length = 194
Score = 26.1 bits (58), Expect = 3.5
Identities = 13/51 (25%), Positives = 18/51 (35%), Gaps = 7/51 (13%)
Query: 69 LGPSTIAEAASAGANCIV-----AGSSVFGAPEPAHVISLMRKSVEDAQKN 114
LG I + A GA +V ++V G PA VI +
Sbjct: 135 LGNIEIGDNAKIGAGSVVLKDVPPNATVVG--VPARVIGRPGSKKPVRDMD 183
>gnl|CDD|183107 PRK11376, hlyE, hemolysin E; Provisional.
Length = 303
Score = 26.2 bits (57), Expect = 4.1
Identities = 11/43 (25%), Positives = 25/43 (58%)
Query: 23 ANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLDIEV 65
A P +++ ++ G K +PE+ +K++S++N + +L V
Sbjct: 187 AGPFGLIISYSIAAGVVEGKLIPELKNKLKSVQNFFTTLSNTV 229
>gnl|CDD|234695 PRK00230, PRK00230, orotidine 5'-phosphate decarboxylase; Reviewed.
Length = 230
Score = 26.3 bits (59), Expect = 4.2
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 73 TIAEAASAGANCIVAGSSVFGAPEPA 98
T A+A +AG++ IV G + A +PA
Sbjct: 192 TPAQAIAAGSDYIVVGRPITQAADPA 217
>gnl|CDD|224933 COG2022, ThiG, Uncharacterized enzyme of thiazole biosynthesis
[Nucleotide transport and metabolism].
Length = 262
Score = 26.1 bits (58), Expect = 4.4
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 65 VDGGLG-PSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVE 109
VD G+G PS A+A GA+ ++ +++ A +P + +VE
Sbjct: 187 VDAGIGTPSDAAQAMELGADAVLLNTAIARAKDPVAMARAFALAVE 232
>gnl|CDD|143497 cd06824, PLPDE_III_Yggs_like, Pyridoxal 5-phosphate (PLP)-binding
TIM barrel domain of Type III PLP-Dependent Enzymes,
Yggs-like proteins. This subfamily contains mainly
uncharacterized proteobacterial proteins with similarity
to the hypothetical Escherichia coli protein YggS, a
homolog of yeast YBL036c, which is homologous to a
Pseudomonas aeruginosa gene that is co-transcribed with
a known proline biosynthetic gene. Like yeast YBL036c,
Yggs is a single domain monomeric protein with a typical
TIM-barrel fold. Its structure, which shows a
covalently-bound PLP cofactor, is similar to the
N-terminal domain of the fold type III PLP-dependent
enzymes, bacterial alanine racemase and eukaryotic
ornithine decarboxylase, which are two-domain dimeric
proteins. YggS has not been characterized extensively
and its biological function is still unkonwn.
Length = 224
Score = 26.0 bits (58), Expect = 4.6
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 53 SLRNRYPSLDIEVDGGLGPSTIAEAA-SAGANCIVAGSSVFGA 94
L+ +YP LD +G S EAA +AG+ + G+++FGA
Sbjct: 185 QLKKQYPDLDTL---SMGMSGDLEAAIAAGSTMVRIGTAIFGA 224
>gnl|CDD|147980 pfam06109, HlyE, Haemolysin E (HlyE). This family consists of
several enterobacterial haemolysin (HlyE)
proteins.Hemolysin E (HlyE) is a novel pore-forming
toxin of Escherichia coli, Salmonella typhi, and
Shigella flexneri. HlyE is unrelated to the well
characterized pore-forming E. coli hemolysins of the RTX
family, haemolysin A (HlyA), and the enterohaemolysin
encoded by the plasmid borne ehxA gene of E. coli 0157.
However, it is evident that expression of HlyE in the
absence of the RTX toxins is sufficient to give a
hemolytic phenotype in E. coli. HlyE is a protein of 34
kDa that is expressed during anaerobic growth of E.
coli. Anaerobic expression is controlled by the
transcription factor, FNR, such that, upon ingestion and
entry into the anaerobic mammalian intestine, HlyE is
produced and may then contribute to the colonisation of
the host.
Length = 299
Score = 26.2 bits (57), Expect = 4.6
Identities = 9/39 (23%), Positives = 23/39 (58%)
Query: 23 ANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSL 61
A P +++ ++ G K +P + +K++S+++ + SL
Sbjct: 184 AGPFGLIISYSIAAGVVEGKLIPALKEKLKSVKDFFESL 222
>gnl|CDD|100045 cd03354, LbH_SAT, Serine acetyltransferase (SAT): SAT catalyzes the
CoA-dependent acetylation of the side chain hydroxyl
group of L-serine to form O-acetylserine, as the first
step of a two-step biosynthetic pathway in bacteria and
plants leading to the formation of L-cysteine. This
reaction represents a key metabolic point of regulation
for the cysteine biosynthetic pathway due to its
feedback inhibition by cysteine. The enzyme is a 175 kDa
homohexamer, composed of a dimer of homotrimers. Each
subunit contains an N-terminal alpha helical region and
a C-terminal left-handed beta-helix (LbH) subdomain with
5 turns, each containing a hexapeptide repeat motif
characteristic of the acyltransferase superfamily of
enzymes. The trimer interface mainly involves the
C-terminal LbH subdomain while the dimer (of trimers)
interface is mediated by the N-terminal alpha helical
subdomain.
Length = 101
Score = 25.5 bits (57), Expect = 4.7
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 5/32 (15%)
Query: 69 LGPSTIAEAASAGANCIV-----AGSSVFGAP 95
LG TI + GAN +V A S+V G P
Sbjct: 70 LGNITIGDNVKIGANAVVTKDVPANSTVVGVP 101
>gnl|CDD|200082 TIGR01172, cysE, serine O-acetyltransferase. Cysteine biosynthesis
[Amino acid biosynthesis, Serine family].
Length = 162
Score = 25.7 bits (57), Expect = 5.5
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 5/32 (15%)
Query: 69 LGPSTIAEAASAGANCIV-----AGSSVFGAP 95
LG + E A GAN +V G++V G P
Sbjct: 129 LGNIEVGENAKIGANSVVLKDVPPGATVVGVP 160
>gnl|CDD|221052 pfam11268, DUF3071, Protein of unknown function (DUF3071). Some
members in this family of proteins are annotated as
DNA-binding proteins however this cannot be confirmed.
Currently no function is known.
Length = 169
Score = 25.7 bits (57), Expect = 5.8
Identities = 25/85 (29%), Positives = 34/85 (40%), Gaps = 16/85 (18%)
Query: 39 GGQKFMPEMMDKVRSL----RNRYPSLDIEVDGGLGPSTIAEAASAGAN----CIVAGSS 90
G++F + D++R+ R R ++IEVD L P I AGA+ AG
Sbjct: 22 DGERFRLPVDDRLRAALRGDRARLGQVEIEVDPTLSPREIQARIRAGASAEEVAEAAGVP 81
Query: 91 V-----FGAP---EPAHVISLMRKS 107
F P E A V L R
Sbjct: 82 EERVERFEGPVLAERARVAELARAV 106
>gnl|CDD|240079 cd04728, ThiG, Thiazole synthase (ThiG) is the tetrameric enzyme
that is involved in the formation of the thiazole moiety
of thiamin pyrophosphate, an essential ubiquitous
cofactor that plays an important role in carbohydrate
and amino acid metabolism. ThiG catalyzes the formation
of thiazole from 1-deoxy-D-xylulose 5-phosphate (DXP)
and dehydroglycine, with the help of the sulfur carrier
protein ThiS that carries the sulfur needed for thiazole
assembly on its carboxy terminus (ThiS-COSH).
Length = 248
Score = 25.5 bits (57), Expect = 6.0
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 65 VDGGLG-PSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVE 109
VD G+G PS A+A GA+ ++ +++ A +P + + +VE
Sbjct: 180 VDAGIGTPSDAAQAMELGADAVLLNTAIAKAKDPVAMARAFKLAVE 225
>gnl|CDD|223871 COG0800, Eda, 2-keto-3-deoxy-6-phosphogluconate aldolase
[Carbohydrate transport and metabolism].
Length = 211
Score = 25.6 bits (57), Expect = 6.2
Identities = 20/80 (25%), Positives = 34/80 (42%), Gaps = 7/80 (8%)
Query: 18 PLVEG-ANPVEMVLVMTVEPGFGGQKFMP-EMMDKVRSLRNR---YPSLDIEVDGGLGPS 72
P + G A P E++ + E G KF P E++ L+ +P + GG+
Sbjct: 108 PYIPGVATPTEIMAAL--ELGASALKFFPAEVVGGPAMLKALAGPFPQVRFCPTGGVSLD 165
Query: 73 TIAEAASAGANCIVAGSSVF 92
A+ +AG + GS +
Sbjct: 166 NAADYLAAGVVAVGLGSWLV 185
>gnl|CDD|188632 cd00452, KDPG_aldolase, KDPG and KHG aldolase. KDPG and KHG
aldolase. This family belongs to the class I adolases
whose reaction mechanism involves Schiff base formation
between a substrate carbonyl and lysine residue in the
active site. 2-keto-3-deoxy-6-phosphogluconate (KDPG)
aldolase, is best known for its role in the
Entner-Doudoroff pathway of bacteria, where it catalyzes
the reversible cleavage of KDPG to pyruvate and
glyceraldehyde-3-phosphate. 2-keto-4-hydroxyglutarate
(KHG) aldolase, which has enzymatic specificity toward
glyoxylate, forming KHG in the presence of pyruvate, and
is capable of regulating glyoxylate levels in the
glyoxylate bypass, an alternate pathway when bacteria
are grown on acetate carbon sources.
Length = 190
Score = 25.6 bits (57), Expect = 6.2
Identities = 10/44 (22%), Positives = 20/44 (45%)
Query: 51 VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGA 94
+++L+ +P + GG+ AE +AG + GS +
Sbjct: 134 IKALKGPFPQVRFMPTGGVSLDNAAEWLAAGVVAVGGGSLLPKD 177
>gnl|CDD|238203 cd00331, IGPS, Indole-3-glycerol phosphate synthase (IGPS); an
enzyme in the tryptophan biosynthetic pathway,
catalyzing the ring closure reaction of
1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate
(CdRP) to indole-3-glycerol phosphate (IGP),
accompanied by the release of carbon dioxide and water.
IGPS is active as a separate monomer in most organisms,
but is also found fused to other enzymes as part of a
bifunctional or multifunctional enzyme involved in
tryptophan biosynthesis.
Length = 217
Score = 25.5 bits (57), Expect = 6.4
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 21/81 (25%)
Query: 18 PLVEGANPVEMVL-----------VMTVEPGFGGQKFMPEMMDKVRSLRNRYPSL--DIE 64
+ E +PVE+ V+T F G E + VR P L D
Sbjct: 26 LIREDFDPVEIAKAYEKAGAAAISVLTEPKYFQGS---LEDLRAVREA-VSLPVLRKDFI 81
Query: 65 VDGGLGPSTIAEAASAGANCI 85
+D P I EA +AGA+ +
Sbjct: 82 ID----PYQIYEARAAGADAV 98
>gnl|CDD|236255 PRK08385, PRK08385, nicotinate-nucleotide pyrophosphorylase;
Provisional.
Length = 278
Score = 25.8 bits (57), Expect = 6.5
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 50 KVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAG 88
K LR R + IEV GG+ P I E A + I G
Sbjct: 224 KREGLRER---VKIEVSGGITPENIEEYAKLDVDVISLG 259
>gnl|CDD|147701 pfam05690, ThiG, Thiazole biosynthesis protein ThiG. This family
consists of several bacterial thiazole biosynthesis
protein G sequences. ThiG, together with ThiF and ThiH,
is proposed to be involved in the synthesis of
4-methyl-5-(b-hydroxyethyl)thiazole (THZ) which is an
intermediate in the thiazole production pathway.
Length = 246
Score = 25.6 bits (57), Expect = 6.9
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 65 VDGGLG-PSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVE 109
VD G+G PS A+A GA+ ++ +++ A +P + + +VE
Sbjct: 179 VDAGIGTPSDAAQAMELGADAVLLNTAIARAKDPVAMARAFKLAVE 224
>gnl|CDD|236361 PRK08999, PRK08999, hypothetical protein; Provisional.
Length = 312
Score = 25.6 bits (57), Expect = 7.2
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 67 GGLGPSTIAEAASAGA 82
GGLGP + EA GA
Sbjct: 287 GGLGPGDLEEAREHGA 302
>gnl|CDD|237520 PRK13813, PRK13813, orotidine 5'-phosphate decarboxylase;
Provisional.
Length = 215
Score = 25.3 bits (56), Expect = 8.1
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 2/51 (3%)
Query: 49 DKVRSLRNRYPSLDIEVDGGLGPS--TIAEAASAGANCIVAGSSVFGAPEP 97
++VR +R+R + G+G A+A AGA+ ++ G S++ A +P
Sbjct: 151 ERVRYIRSRLGDELKIISPGIGAQGGKAADAIKAGADYVIVGRSIYNAADP 201
>gnl|CDD|220286 pfam09544, DUF2381, Protein of unknown function (DUF2381). This
family consists of at least 8 paralogs in Myxococcus
xanthus, a member of the Deltaproteobacteria. The
function is unknown.
Length = 289
Score = 25.4 bits (56), Expect = 8.6
Identities = 9/35 (25%), Positives = 12/35 (34%)
Query: 3 PGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPG 37
P L G +E +GA P V+ P
Sbjct: 80 PVEDLAEGERLELTVRFADGAAPARAAFVLVTHPA 114
>gnl|CDD|221263 pfam11847, DUF3367, Domain of unknown function (DUF3367). This
domain is functionally uncharacterized. This domain is
found in bacteria and archaea. This presumed domain is
typically between 667 to 694 amino acids in length.
Length = 677
Score = 25.5 bits (56), Expect = 9.3
Identities = 20/67 (29%), Positives = 27/67 (40%), Gaps = 9/67 (13%)
Query: 33 TVEPGFGGQKFMPEMMDKV--RSLRNRYPSLDI-EVDGGLGPSTIAEAASAGANCIVAGS 89
T FG Q + + LR RYP+L++ V GG P + G +V
Sbjct: 541 TRVATFGPQVGPDDADGTLNDSGLRPRYPALEVYTVAGGGAPGLAYLVDADGT--LV--- 595
Query: 90 SVFGAPE 96
V G PE
Sbjct: 596 -VDGGPE 601
>gnl|CDD|217120 pfam02581, TMP-TENI, Thiamine monophosphate synthase/TENI.
Thiamine monophosphate synthase (TMP) (EC:2.5.1.3)
catalyzes the substitution of the pyrophosphate of
2-methyl-4-amino-5- hydroxymethylpyrimidine
pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole
phosphate to yield thiamine phosphate. This Pfam family
also includes the regulatory protein TENI.
Length = 180
Score = 25.2 bits (56), Expect = 9.4
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 67 GGLGPSTIAEAASAGANCIVAGSSV 91
GG+ P + E AGA+ + S++
Sbjct: 156 GGITPENVPEVLEAGADGVAVVSAI 180
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.313 0.132 0.374
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,839,892
Number of extensions: 507451
Number of successful extensions: 650
Number of sequences better than 10.0: 1
Number of HSP's gapped: 632
Number of HSP's successfully gapped: 113
Length of query: 115
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 36
Effective length of database: 7,433,636
Effective search space: 267610896
Effective search space used: 267610896
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (24.1 bits)