RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 031549
(157 letters)
>gnl|CDD|215192 PLN02334, PLN02334, ribulose-phosphate 3-epimerase.
Length = 229
Score = 262 bits (671), Expect = 2e-90
Identities = 102/158 (64%), Positives = 118/158 (74%), Gaps = 2/158 (1%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVE-ISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVY 59
MVTNP DYV KAGAS FTFH+E S + L+Q+IKS GM+ GV L PGT VE V
Sbjct: 73 MVTNPEDYVPDFAKAGASIFTFHIEQASTIHLHRLIQQIKSAGMKAGVVLNPGTPVEAVE 132
Query: 60 PLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEA 119
P+VE V+MVLVM+VEPGFGGQ F+P MMDKVR+LR +YP LDIEVDGG+GPSTI +A
Sbjct: 133 PVVEKGL-VDMVLVMSVEPGFGGQSFIPSMMDKVRALRKKYPELDIEVDGGVGPSTIDKA 191
Query: 120 ASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQKNS 157
A AGAN IVAGS+VFGAP+ A VIS +R SVE A
Sbjct: 192 AEAGANVIVAGSAVFGAPDYAEVISGLRASVEKAAVAV 229
>gnl|CDD|240303 PTZ00170, PTZ00170, D-ribulose-5-phosphate 3-epimerase;
Provisional.
Length = 228
Score = 221 bits (564), Expect = 4e-74
Identities = 83/151 (54%), Positives = 111/151 (73%), Gaps = 1/151 (0%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYP 60
MV+NP +V+ KAGAS FTFH+E ++D+ + + ++I+ GM+ GVA+KP T VE ++P
Sbjct: 73 MVSNPEKWVDDFAKAGASQFTFHIEATEDDPKAVARKIREAGMKVGVAIKPKTPVEVLFP 132
Query: 61 LVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAA 120
L++ V+MVLVMTVEPGFGGQ FM +MM KVR LR RYP L+I+VDGG+ TI AA
Sbjct: 133 LIDTDL-VDMVLVMTVEPGFGGQSFMHDMMPKVRELRKRYPHLNIQVDGGINLETIDIAA 191
Query: 121 SAGANCIVAGSSVFGAPEPAHVISLMRKSVE 151
AGAN IVAGSS+F A + I L+R+SV+
Sbjct: 192 DAGANVIVAGSSIFKAKDRKQAIELLRESVQ 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 = 207 bits (530), Expect = 3e-69
Identities = 73/151 (48%), Positives = 98/151 (64%), Gaps = 8/151 (5%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYP 60
MV NP Y+E KAGA TFH E + D+ +Q IK GM+ GVAL PGT VE + P
Sbjct: 65 MVENPERYIEAFAKAGADIITFHAEAT-DHLHRTIQLIKELGMKAGVALNPGTPVEVLEP 123
Query: 61 LVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYP----SLDIEVDGGLGPSTI 116
++ V++VLVM+V PGFGGQKF+PE+++K+R LR P +L IEVDGG+ TI
Sbjct: 124 YLD---EVDLVLVMSVNPGFGGQKFIPEVLEKIRKLRELIPENNLNLLIEVDGGINLETI 180
Query: 117 AEAASAGANCIVAGSSVFGAPEPAHVISLMR 147
A AGA+ +VAGS++FG+ + A I +R
Sbjct: 181 PLLAEAGADVLVAGSALFGSDDYAEAIKELR 211
>gnl|CDD|235515 PRK05581, PRK05581, ribulose-phosphate 3-epimerase; Validated.
Length = 220
Score = 185 bits (471), Expect = 4e-60
Identities = 68/153 (44%), Positives = 96/153 (62%), Gaps = 8/153 (5%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYP 60
MV NP YV KAGA TFHVE + ++ L+Q IKS G++ G+ L P T +E +
Sbjct: 69 MVENPDRYVPDFAKAGADIITFHVE-ASEHIHRLLQLIKSAGIKAGLVLNPATPLEPLED 127
Query: 61 LVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRN----RYPSLDIEVDGGLGPSTI 116
+++ +++VL+M+V PGFGGQKF+PE+++K+R LR R + IEVDGG+ I
Sbjct: 128 VLD---LLDLVLLMSVNPGFGGQKFIPEVLEKIRELRKLIDERGLDILIEVDGGINADNI 184
Query: 117 AEAASAGANCIVAGSSVFGAPEPAHVISLMRKS 149
E A AGA+ VAGS+VFGAP+ I +R
Sbjct: 185 KECAEAGADVFVAGSAVFGAPDYKEAIDSLRAE 217
>gnl|CDD|223114 COG0036, Rpe, Pentose-5-phosphate-3-epimerase [Carbohydrate
transport and metabolism].
Length = 220
Score = 176 bits (448), Expect = 1e-56
Identities = 65/156 (41%), Positives = 96/156 (61%), Gaps = 7/156 (4%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYP 60
MV NP Y+E KAGA TFH E ++ +Q IK G++ G+ L P T +E + P
Sbjct: 69 MVENPDRYIEAFAKAGADIITFHAEATEHIH-RTIQLIKELGVKAGLVLNPATPLEALEP 127
Query: 61 LVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYP---SLDIEVDGGLGPSTIA 117
+++ V++VL+M+V PGFGGQKF+PE+++K+R LR + IEVDGG+ TI
Sbjct: 128 VLD---DVDLVLLMSVNPGFGGQKFIPEVLEKIRELRAMIDERLDILIEVDGGINLETIK 184
Query: 118 EAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDA 153
+ A+AGA+ VAGS++FGA + I +R + A
Sbjct: 185 QLAAAGADVFVAGSALFGADDYKATIRELRGELLKA 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 = 153 bits (388), Expect = 8e-48
Identities = 55/141 (39%), Positives = 82/141 (58%), Gaps = 8/141 (5%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYP 60
MV P + +AGA +FH E S D+ +Q IK G + G+ L P T ++ +
Sbjct: 65 MVEEPDRIIPDFAEAGADIISFHAEAS-DHPHRTIQLIKEAGAKAGLVLNPATPLDAIEY 123
Query: 61 LVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPS----LDIEVDGGLGPSTI 116
L++ +++VL+M+V PGFGGQ F+P ++ K+R +R IEVDGG+ I
Sbjct: 124 LLD---DLDLVLLMSVNPGFGGQSFIPSVLPKIRKVRKMIDEGGLDTLIEVDGGVNLDNI 180
Query: 117 AEAASAGANCIVAGSSVFGAP 137
+ A AGA+ +VAGS+VFGAP
Sbjct: 181 PQIAEAGADVLVAGSAVFGAP 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 = 153 bits (388), Expect = 1e-47
Identities = 61/151 (40%), Positives = 92/151 (60%), Gaps = 8/151 (5%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYP 60
MV NP Y+E +AGA T H E + ++ L+Q IK G + G+ L P T +E +
Sbjct: 64 MVENPDRYIEDFAEAGADIITVHPE-ASEHIHRLLQLIKDLGAKAGIVLNPATPLEFLEY 122
Query: 61 LVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLR---NRY-PSLDIEVDGGLGPSTI 116
++ V++VL+M+V PGFGGQKF+P+ ++K+R +R + S+ IEVDGG+
Sbjct: 123 VLP---DVDLVLLMSVNPGFGGQKFIPDTLEKIREVRKMIDENGLSILIEVDGGVNDDNA 179
Query: 117 AEAASAGANCIVAGSSVFGAPEPAHVISLMR 147
E A AGA+ +VAGS++FGA + VI +R
Sbjct: 180 RELAEAGADILVAGSAIFGADDYKEVIRSLR 210
>gnl|CDD|236616 PRK09722, PRK09722, allulose-6-phosphate 3-epimerase; Provisional.
Length = 229
Score = 112 bits (283), Expect = 9e-32
Identities = 54/138 (39%), Positives = 77/138 (55%), Gaps = 11/138 (7%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVE-ISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVY 59
MVT+P DY++ L AGA T H E I+ ++ L+ I+ GM+ G+ L P T VE +
Sbjct: 67 MVTDPQDYIDQLADAGADFITLHPETINGQAFR-LIDEIRRAGMKVGLVLNPETPVESIK 125
Query: 60 PLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSL-----RNRYPSLDIEVDGGLGPS 114
+ ++ + VMTV+PGF GQ F+PEM+DK+ L RN L IEVDG
Sbjct: 126 YYIH---LLDKITVMTVDPGFAGQPFIPEMLDKIAELKALRERNGLEYL-IEVDGSCNQK 181
Query: 115 TIAEAASAGANCIVAGSS 132
T + AGA+ + G+S
Sbjct: 182 TYEKLMEAGADVFIVGTS 199
>gnl|CDD|136958 PRK08745, PRK08745, ribulose-phosphate 3-epimerase; Provisional.
Length = 223
Score = 109 bits (274), Expect = 2e-30
Identities = 61/160 (38%), Positives = 98/160 (61%), Gaps = 11/160 (6%)
Query: 1 MVTNPLDYVEP-LGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVY 59
++ P+D + P AGA+ +FH E S+ + +Q IKS G + G+ L P T V+
Sbjct: 69 LMVEPVDRIVPDFADAGATTISFHPEASR-HVHRTIQLIKSHGCQAGLVLNPATPVD--- 124
Query: 60 PLVEGANP-VEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLD----IEVDGGLGPS 114
+++ P +++VLVM+V PGFGGQ F+P +DK+R++R + +L +E+DGG+
Sbjct: 125 -ILDWVLPELDLVLVMSVNPGFGGQAFIPSALDKLRAIRKKIDALGKPIRLEIDGGVKAD 183
Query: 115 TIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQ 154
I A+AGA+ VAGS++F AP+ A VI+ MR +V +
Sbjct: 184 NIGAIAAAGADTFVAGSAIFNAPDYAQVIAQMRAAVAAVR 223
>gnl|CDD|181575 PRK08883, PRK08883, ribulose-phosphate 3-epimerase; Provisional.
Length = 220
Score = 108 bits (272), Expect = 3e-30
Identities = 60/159 (37%), Positives = 93/159 (58%), Gaps = 9/159 (5%)
Query: 1 MVTNPLDYVEP-LGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVY 59
++ P+D + P KAGAS TFHVE S ++ +Q IK G + GV L P T + +
Sbjct: 65 LMVKPVDRIIPDFAKAGASMITFHVEAS-EHVDRTLQLIKEHGCQAGVVLNPATPLHHLE 123
Query: 60 PLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPS----LDIEVDGGLGPST 115
+++ V+++L+M+V PGFGGQ F+P +DK+R++R + +E+DGG+
Sbjct: 124 YIMD---KVDLILLMSVNPGFGGQSFIPHTLDKLRAVRKMIDESGRDIRLEIDGGVKVDN 180
Query: 116 IAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQ 154
I E A AGA+ VAGS++FG P+ VI MR + +
Sbjct: 181 IREIAEAGADMFVAGSAIFGQPDYKAVIDEMRAELAKVK 219
>gnl|CDD|169179 PRK08005, PRK08005, epimerase; Validated.
Length = 210
Score = 66.6 bits (162), Expect = 3e-14
Identities = 40/134 (29%), Positives = 67/134 (50%), Gaps = 4/134 (2%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYP 60
MV++P ++ L H E S N E++ I++ G + G+AL P T +
Sbjct: 66 MVSSPQRWLPWLAAIRPGWIFIHAE-SVQNPSEILADIRAIGAKAGLALNPATPLLPYRY 124
Query: 61 LVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAA 120
L A ++ +++MT EP GQ+F+ M +KV R +P+ + DGG+ A
Sbjct: 125 L---ALQLDALMIMTSEPDGRGQQFIAAMCEKVSQSREHFPAAECWADGGITLRAARLLA 181
Query: 121 SAGANCIVAGSSVF 134
+AGA +V G ++F
Sbjct: 182 AAGAQHLVIGRALF 195
>gnl|CDD|169215 PRK08091, PRK08091, ribulose-phosphate 3-epimerase; Validated.
Length = 228
Score = 40.6 bits (95), Expect = 9e-05
Identities = 29/156 (18%), Positives = 68/156 (43%), Gaps = 10/156 (6%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSK--GMRPGVALKPGTSVEEV 58
MV + + + AGA T VE + ++ + + + G+ L P T + +
Sbjct: 76 MVRDQFEVAKACVAAGADIVTLQVE-QTHDLALTIEWLAKQKTTVLIGLCLCPETPISLL 134
Query: 59 YPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLD----IEVDGGLGPS 114
P ++ ++++ ++T++P G + ++D+V + NR + I +DG +
Sbjct: 135 EPYLD---QIDLIQILTLDPRTGTKAPSDLILDRVIQVENRLGNRRVEKLISIDGSMTLE 191
Query: 115 TIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSV 150
+ + +V+GS++F E + + S+
Sbjct: 192 LASYLKQHQIDWVVSGSALFSQGELKTTLKEWKSSL 227
>gnl|CDD|223347 COG0269, SgbH, 3-hexulose-6-phosphate synthase and related proteins
[Carbohydrate transport and metabolism].
Length = 217
Score = 40.7 bits (96), Expect = 9e-05
Identities = 15/70 (21%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 82 GQKFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAH 141
G+ + + ++K++ L + + V GG+ P I GA+ ++ G ++ GA +PA
Sbjct: 146 GKSWGEDDLEKIKKLSD--LGAKVAVAGGITPEDIPLFKGIGADIVIVGRAITGAKDPAE 203
Query: 142 VISLMRKSVE 151
++ ++
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 = 40.3 bits (94), Expect = 1e-04
Identities = 28/131 (21%), Positives = 43/131 (32%), Gaps = 23/131 (17%)
Query: 20 FTFHVEISKDN--WQELVQRIKSKGMRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVE 77
F H DN W + R+K E VE + + V+
Sbjct: 162 FANHRTFLNDNFDWGGAIGRLKQTA-------------PERKITVEADTIEQALTVLQAS 208
Query: 78 PG-FGGQKFMPEMMDKVRSLRNRYPSLD----IEVDGGLGPSTIAEAASAGANCIVAGSS 132
P KF P+ ++ L R D + GG+ P IA+ AG + + +
Sbjct: 209 PDILQLDKFTPQ---QLHHLHERLKFFDHIPTLAAAGGINPENIADYIEAGIDLFITSAP 265
Query: 133 VFGAPEPAHVI 143
+ AP V
Sbjct: 266 YYAAPCDIKVK 276
>gnl|CDD|172549 PRK14057, PRK14057, epimerase; Provisional.
Length = 254
Score = 39.3 bits (91), Expect = 3e-04
Identities = 22/93 (23%), Positives = 50/93 (53%), Gaps = 7/93 (7%)
Query: 46 GVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLR----NRYP 101
G++L P T ++ + P++ + VE++ ++ V PG+G + ++ ++V L ++
Sbjct: 136 GISLCPATPLDVIIPIL---SDVEVIQLLAVNPGYGSKMRSSDLHERVAQLLCLLGDKRE 192
Query: 102 SLDIEVDGGLGPSTIAEAASAGANCIVAGSSVF 134
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 = 38.6 bits (91), Expect = 5e-04
Identities = 14/54 (25%), Positives = 21/54 (38%)
Query: 84 KFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP 137
PE + + L P + +E GG+ I A G + I G+ AP
Sbjct: 209 NMSPEELKEAVKLLKGLPRVLLEASGGITLENIRAYAETGVDVISTGALTHSAP 262
>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 = 37.2 bits (86), Expect = 0.001
Identities = 30/121 (24%), Positives = 48/121 (39%), Gaps = 5/121 (4%)
Query: 14 KAGASGFTFHVE--ISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYPLVEGANPVEMV 71
AGA G H EL++ ++ V +K + E E A V+ V
Sbjct: 82 AAGADGVEIHGAVGYLAREDLELIRELREAVPDVKVVVKLSPTGELAAAAAEEAG-VDEV 140
Query: 72 LVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLDIEVDGGLG-PSTIAEAASAGANCIVAG 130
+ G GG+ +P + L R + + GG+ P AEA + GA+ ++ G
Sbjct: 141 GLGNGGGGGGGRDAVPIADL-LLILAKRGSKVPVIAGGGINDPEDAAEALALGADGVIVG 199
Query: 131 S 131
S
Sbjct: 200 S 200
>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 = 37.0 bits (86), Expect = 0.001
Identities = 12/44 (27%), Positives = 22/44 (50%)
Query: 105 IEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRK 148
+ V GG+ TI + G + ++ G ++ A +PA +RK
Sbjct: 161 VAVAGGINLDTIPDVIKLGPDIVIVGGAITKAADPAEAARQIRK 204
>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 = 35.7 bits (83), Expect = 0.003
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 1/55 (1%)
Query: 84 KFMPEMMDK-VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP 137
F PE + + V L R + +EV GG+ + E A G + I G+ P
Sbjct: 108 NFSPEEVREAVEELDERAGRVLLEVSGGITLDNVLEYAKTGVDVISVGALTHSVP 162
>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 = 36.0 bits (84), Expect = 0.004
Identities = 13/40 (32%), Positives = 21/40 (52%)
Query: 109 GGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRK 148
GG+ P AE +AGA+ + S++ GA +PA +
Sbjct: 157 GGITPENAAEVLAAGADGVAVISAITGADDPAAAARELLA 196
>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 = 34.3 bits (79), Expect = 0.016
Identities = 27/144 (18%), Positives = 50/144 (34%), Gaps = 13/144 (9%)
Query: 14 KAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYPLVEGANPVEMVLV 73
K GA H K++ + + G R +A+ TS+ G + +E V+
Sbjct: 74 KLGADMVNVHGVAGKESVEAAKEAASEFGRRGLLAVAELTSMGS---EAYGEDTMEAVIE 130
Query: 74 MTVE------PGFGGQKFMPEMMDKVRSLRNRY-PSLDIEVDGGLGP---STIAEAASAG 123
E G + + K P + ++ T+ +A AG
Sbjct: 131 YAKEAKEFGLDGPVCSAEEAKEIRKATGDFLILTPGIRLDSKDADDQQRVVTLEDAKEAG 190
Query: 124 ANCIVAGSSVFGAPEPAHVISLMR 147
A+ I+ G ++ A +P +R
Sbjct: 191 ADVIIVGRGIYAAEDPVEAAKRIR 214
>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 = 33.7 bits (78), Expect = 0.019
Identities = 14/39 (35%), Positives = 23/39 (58%)
Query: 105 IEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVI 143
+ V GG+ P T+ E AGA+ ++ G ++ GA +PA
Sbjct: 161 VAVAGGITPDTLPEFKKAGADIVIVGRAITGAADPAEAA 199
>gnl|CDD|234590 PRK00043, thiE, thiamine-phosphate pyrophosphorylase; Reviewed.
Length = 212
Score = 33.2 bits (77), Expect = 0.026
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 87 PEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPA 140
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 = 33.1 bits (76), Expect = 0.045
Identities = 14/54 (25%), Positives = 30/54 (55%)
Query: 102 SLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQK 155
S+ I V GGL T A+A +AGA+ ++ G ++ + + +R++++ +
Sbjct: 162 SIPIAVAGGLDAETAAKAVAAGADIVIVGGNIIKSADVTEAARKIREAIDSGKP 215
Score = 26.9 bits (60), Expect = 5.6
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 5/49 (10%)
Query: 88 EMMDKVRSLRNRYPSLDIEVD---GGLGPSTIAEAASAGAN--CIVAGS 131
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 = 32.7 bits (75), Expect = 0.061
Identities = 10/37 (27%), Positives = 18/37 (48%)
Query: 107 VDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVI 143
V GG+ + EA AGA+ +V G ++ + +
Sbjct: 335 VAGGVRVENVEEALKAGADILVVGRAITKSKDVRRAA 371
>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 = 32.3 bits (74), Expect = 0.065
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 84 KFMPEMMDK-VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPE 138
KF PE + + V LR+ P + + GG+ A A+AGA+ +V + + P
Sbjct: 211 KFSPEELAELVPKLRSLAPPVLLAAAGGINIENAAAYAAAGADILVTSAPYYAKPA 266
>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 = 32.0 bits (74), Expect = 0.092
Identities = 26/115 (22%), Positives = 45/115 (39%), Gaps = 16/115 (13%)
Query: 24 VEISKDNWQELVQRIKSKGMRPGVAL----KPGTSVEEVYPLVE---GANPVEMVLVMTV 76
E +N +E ++ K G+ +L T E V + + A E+ L TV
Sbjct: 110 REEDLENAEEAIEAAKEAGLEVEGSLEDAFGCKTDPEYVLEVAKALEEAGADEISLKDTV 169
Query: 77 EPGFGGQKFMPEMMDKVRSLRNRYPSLDIEV----DGGLGPSTIAEAASAGANCI 127
G E+ + V++LR P + + + GL + A AGA+ +
Sbjct: 170 -----GLATPEEVAELVKALREALPDVPLGLHTHNTLGLAVANSLAALEAGADRV 219
>gnl|CDD|223361 COG0284, PyrF, Orotidine-5'-phosphate decarboxylase [Nucleotide
transport and metabolism].
Length = 240
Score = 31.9 bits (73), Expect = 0.11
Identities = 28/158 (17%), Positives = 50/158 (31%), Gaps = 13/158 (8%)
Query: 8 YVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRP-GVALKPGTSVEEVYPLVEGAN 66
+ GA T H D + + +++ G V E + +
Sbjct: 81 AAKAAADLGADAVTVHAFGGFDMLRAAKEALEAGGPFVLAVTSLTSMG-ELQLAELGINS 139
Query: 67 PVEMVLV----MTVEPGFGGQKFMPEMMDKVRSLRNRY-----PSLDIEVDGGL--GPST 115
+E ++ + E G G E + +R + P + GG T
Sbjct: 140 SLEEQVLRLAKLAGEAGLDGVVCSAEEVAAIREILGPDFLILTPGIGAGSQGGDQGRVMT 199
Query: 116 IAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDA 153
EA AGA+ IV G + A +P + + +
Sbjct: 200 PGEAVRAGADYIVVGRPITQAGDPVAAARAIAREIARE 237
>gnl|CDD|181392 PRK08332, PRK08332, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 1740
Score = 31.3 bits (70), Expect = 0.19
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 3/60 (5%)
Query: 11 PLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVALK--PGTSVEEVYPLVEGANPV 68
P G+ GF +H EI W +LV+ IK G+R + P SV + G P+
Sbjct: 1430 PKGELPVEGF-YHPEIWNLPWDKLVEEIKKYGVRNAMVTTCPPTGSVSMIADTSSGIEPI 1488
>gnl|CDD|183962 PRK13305, sgbH, 3-keto-L-gulonate-6-phosphate decarboxylase;
Provisional.
Length = 218
Score = 30.6 bits (69), Expect = 0.23
Identities = 14/71 (19%), Positives = 34/71 (47%), Gaps = 2/71 (2%)
Query: 82 GQKFMPEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAH 141
GQ++ + ++++L + L++ + GG+ P+ + +AG ++ GA PA
Sbjct: 145 GQQWGEADLARMKALSDI--GLELSITGGITPADLPLFKDIRVKAFIAGRALAGAANPAQ 202
Query: 142 VISLMRKSVED 152
V + ++
Sbjct: 203 VAADFHAQIDA 213
>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 = 30.7 bits (70), Expect = 0.25
Identities = 31/125 (24%), Positives = 48/125 (38%), Gaps = 31/125 (24%)
Query: 25 EISKDNWQELVQRIKSKGMRPGVALKP----GTSVEEVYPLVE-----GANPV---EMVL 72
E D V+ +S G+ V L T + + +VE GA + + V
Sbjct: 103 EEVADRAVAAVEAARSAGID--VELGCEDAGRTDLAFLIEVVEVAQEAGATRINIADTVG 160
Query: 73 VMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLDIEV----DGGLGPSTIAEAASAGA---N 125
V+T E D + +L++R P + IEV D G+ + A AGA +
Sbjct: 161 VLT----------PNEAADLISALKDRVPPVIIEVHCHNDLGMAVANSLAAVEAGADRVD 210
Query: 126 CIVAG 130
V G
Sbjct: 211 GTVNG 215
>gnl|CDD|233902 TIGR02506, NrdE_NrdA, ribonucleoside-diphosphate reductase, alpha
subunit. This model represents the alpha (large) chain
of the class I ribonucleotide reductase (RNR). RNR's are
responsible for the conversion of the ribose sugar of
RNA into the deoxyribose sugar of DNA. This is the
rate-limiting step of DNA biosynthesis. Class I RNR's
generate the required radical (on tyrosine) via a
"non-heme" iron cofactor which resides in the beta
(small) subunit. The alpha subunit contains the
catalytic and allosteric regulatory sites. The mechanism
of this enzyme requires molecular oxygen. E. Coli
contains two versions of this enzyme which are regulated
independently (NrdAB and NrdEF, where NrdA and NrdE are
the large chains ). Most organisms contain only one, but
the application of the gene symbols NrdA and NrdE are
somewhat arbitrary. This model identifies RNR's in
diverse clades of bacteria, eukaryotes as well as
numerous DNA viruses and phage [Purines, pyrimidines,
nucleosides, and nucleotides, 2'-Deoxyribonucleotide
metabolism].
Length = 617
Score = 30.8 bits (70), Expect = 0.30
Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 21 TFHVEISKDNWQELVQRIKSKGMRPGV--ALKPGTSVEEVYPLVEGANPV 68
+ ++++W+ L +RIK G+R AL P S ++ + E PV
Sbjct: 446 KTSMAPTEEDWEALRERIKEYGLRNSQLTALMPTASSSQLTGVTESIEPV 495
>gnl|CDD|223429 COG0352, ThiE, Thiamine monophosphate synthase [Coenzyme
metabolism].
Length = 211
Score = 29.9 bits (68), Expect = 0.43
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 109 GGLGPSTIAEAASAGANCIVAGSSVFGAPEPA 140
GG+ + E AGA+ + S++ A +PA
Sbjct: 165 GGINLENVPEVLEAGADGVAVVSAITSAADPA 196
>gnl|CDD|217257 pfam02867, Ribonuc_red_lgC, Ribonucleotide reductase, barrel
domain.
Length = 516
Score = 29.8 bits (68), Expect = 0.49
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 17 ASGFTFHVEISKDNWQELVQRIKSKGMR 44
+ FH +++W+EL + IK G+R
Sbjct: 346 YAKGEFHAIPLREDWEELREDIKKHGLR 373
>gnl|CDD|180831 PRK07088, PRK07088, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 764
Score = 29.8 bits (67), Expect = 0.55
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 2/42 (4%)
Query: 29 DNWQELVQRIKSKGMRPG--VALKPGTSVEEVYPLVEGANPV 68
+ W++L + IK GMR G A+ P S + G +PV
Sbjct: 620 ERWKKLKEEIKKYGMRNGYITAVAPTGSTSNIANTTAGIDPV 661
>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 = 29.1 bits (66), Expect = 0.66
Identities = 13/54 (24%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 87 PEMMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPA 140
E++ ++ + P + I GG+ AE +AGA+ + S++ A +P
Sbjct: 140 VELLREIAATSIDIPIVAI---GGITLENAAEVLAAGADGVAVVSAIMQAADPK 190
>gnl|CDD|180397 PRK06096, PRK06096, molybdenum transport protein ModD; Provisional.
Length = 284
Score = 28.9 bits (65), Expect = 0.91
Identities = 20/122 (16%), Positives = 42/122 (34%), Gaps = 16/122 (13%)
Query: 29 DNWQELVQRIKSKGMRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPG-FGGQKFMP 87
+W + +++ P + +VE P E + + +P KF P
Sbjct: 174 QDWSGAINQLRRHA--------PEKKI-----VVEADTPKEAIAALRAQPDVLQLDKFSP 220
Query: 88 EMMDKVRSLRNRY-PSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLM 146
+ ++ + P + + GG+ +T+ A G + + + AP V L
Sbjct: 221 QQATEIAQIAPSLAPHCTLSLAGGINLNTLKNYADCGIRLFITSAPYYAAPADIKVS-LQ 279
Query: 147 RK 148
Sbjct: 280 PA 281
>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 = 28.7 bits (65), Expect = 1.0
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 115 TIAEAASAGANCIVAGSSVFGAPEPAHV 142
T A A AGA+ IV G + A +P
Sbjct: 181 TPAVAIGAGADIIVVGRPITQAADPVEA 208
>gnl|CDD|235054 PRK02615, PRK02615, thiamine-phosphate pyrophosphorylase;
Provisional.
Length = 347
Score = 29.1 bits (66), Expect = 1.1
Identities = 12/46 (26%), Positives = 19/46 (41%)
Query: 109 GGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVEDAQ 154
GG+ S I E AGA + ++ GA +P + K +
Sbjct: 301 GGIDKSNIPEVLQAGAKRVAVVRAIMGAEDPKQATQELLKQLSREN 346
>gnl|CDD|233781 TIGR02212, lolCE, lipoprotein releasing system, transmembrane
protein, LolC/E family. This model describes the LolC
protein, and its paralog LolE found in some species.
These proteins are homologous to permease proteins of
ABC transporters. In some species, two paralogs occur,
designated LolC and LolE. In others, a single form is
found and tends to be designated LolC [Protein fate,
Protein and peptide secretion and trafficking].
Length = 411
Score = 28.8 bits (65), Expect = 1.1
Identities = 23/66 (34%), Positives = 29/66 (43%), Gaps = 12/66 (18%)
Query: 19 GFTFHVEISK-----DNWQELVQRIKSKGMRPGV-ALKPGTSVEEVYPLVEGANPVEMVL 72
G H I +WQEL++RI PGV A P S + LV+ A V V
Sbjct: 58 GVIPHAIIESKQNPIIDWQELLERIL---KNPGVKAAAPIVSGQ---ALVQSAGKVSGVQ 111
Query: 73 VMTVEP 78
V V+P
Sbjct: 112 VRGVDP 117
>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 = 28.8 bits (65), Expect = 1.1
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 103 LDIEVDGGLGPSTIAEAAS-AGANCIVAGSSVFGAPEPA 140
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 = 28.6 bits (65), Expect = 1.1
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 4/37 (10%)
Query: 111 LGPSTIAEAASAGANCIV--AGSSVFGAPEPAHVISL 145
+GP TI AA AG I AG ++ + VI+
Sbjct: 168 IGPDTIETAAEAGLAGIAVEAGKTLV--LDREAVIAA 202
>gnl|CDD|221679 pfam12635, DUF3780, Protein of unknown function (DUF3780). This
family of proteins is functionally uncharacterized.This
family of proteins is found in bacteria. Proteins in
this family are typically between 189 and 206 amino
acids in length. There are two conserved sequence
motifs: PEERWWL and GWR. This family is found in a very
sporadic set of bacterial species, suggesting that it
may have been horizontally transferred. One protein is
annotated as plasmid borne.
Length = 189
Score = 28.1 bits (63), Expect = 1.7
Identities = 17/80 (21%), Positives = 28/80 (35%), Gaps = 28/80 (35%)
Query: 13 GKAGASGFTFHVEISKDNW--------QELVQRIKSKGMRPGVALKPGTSVEEVYPLVEG 64
G+ G V++S+ W +E +R++ K ++P K G
Sbjct: 44 GRNGQPDDELRVQLSRKKWKAIAETLKREFNERLREKKLKPS-RWKTGD----------- 91
Query: 65 ANPVE-------MVLVMTVE 77
N VE VL +E
Sbjct: 92 -NLVERLLGKELCVLAWAIE 110
>gnl|CDD|239736 cd03767, SR_Res_par, Serine recombinase (SR) family, Partitioning
(par)-Resolvase subfamily, catalytic domain; Serine
recombinases catalyze site-specific recombination of
DNA molecules by a concerted, four-strand cleavage and
rejoining mechanism which involves a transient
phosphoserine linkage between DNA and the enzyme. They
are functionally versatile and include resolvases,
invertases, integrases, and transposases. This subgroup
is composed of proteins similar to the E. coli
resolvase found in the par region of the RP4 plasmid,
which encodes a highly efficient partitioning system.
This protein is part of a complex stabilization system
involved in the resolution of plasmid dimers during
cell division. Similar to Tn3 and other resolvases,
members of this family may contain a C-terminal DNA
binding domain.
Length = 146
Score = 27.3 bits (61), Expect = 2.2
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 26 ISKDNWQELVQRIKSKGMR 44
+ D+W+ L I +KG+R
Sbjct: 74 LPLDDWETLKASIAAKGLR 92
>gnl|CDD|180598 PRK06512, PRK06512, thiamine-phosphate pyrophosphorylase;
Provisional.
Length = 221
Score = 27.7 bits (62), Expect = 2.2
Identities = 10/38 (26%), Positives = 17/38 (44%)
Query: 107 VDGGLGPSTIAEAASAGANCIVAGSSVFGAPEPAHVIS 144
V G ++ E A GA + +VF A +P ++
Sbjct: 169 VQAGSDLASAVEVAETGAEFVALERAVFDAHDPPLAVA 206
>gnl|CDD|180387 PRK06078, PRK06078, pyrimidine-nucleoside phosphorylase; Reviewed.
Length = 434
Score = 27.7 bits (62), Expect = 2.5
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 22 FHVEISKDNWQELVQRIK 39
FHVEIS++++ +LV K
Sbjct: 130 FHVEISQEDFIKLVNENK 147
>gnl|CDD|236991 PRK11815, PRK11815, tRNA-dihydrouridine synthase A; Provisional.
Length = 333
Score = 27.8 bits (63), Expect = 2.6
Identities = 12/30 (40%), Positives = 19/30 (63%), Gaps = 2/30 (6%)
Query: 91 DKVRSLRNRYPSLDIEVDGGLGPSTIAEAA 120
D+V L+ +P L IE++GG+ T+ EA
Sbjct: 194 DRVYRLKRDFPHLTIEINGGI--KTLEEAK 221
>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 = 2.7
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 13/71 (18%)
Query: 89 MMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP----EPAHVIS 144
+++ R +R PSL + + +A A I G G P + + +
Sbjct: 356 ILEATRRVRLPQPSLTVRYHAKSPDKFLKKA----AEVIRLG---LGYPAFFNDEVVIPA 408
Query: 145 LMRK--SVEDA 153
L+RK S+EDA
Sbjct: 409 LLRKGVSLEDA 419
>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 = 27.1 bits (61), Expect = 3.1
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 115 TIAEAASAGANCIVAGSSVFGAPEPA 140
T +A AGA+ IV G + A +P
Sbjct: 185 TPEDAIRAGADYIVVGRPITQAADPV 210
>gnl|CDD|237170 PRK12677, PRK12677, xylose isomerase; Provisional.
Length = 384
Score = 27.6 bits (62), Expect = 3.2
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 5 PLDYVEPLGKAGASGFTFH 23
P++ V L + GA G TFH
Sbjct: 33 PVEAVHKLAELGAYGVTFH 51
>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 = 27.4 bits (62), Expect = 3.4
Identities = 13/48 (27%), Positives = 20/48 (41%), Gaps = 4/48 (8%)
Query: 85 FMPEMMDK-VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGS 131
PE + + V L+ R +E GG+ I A G + I G+
Sbjct: 211 MSPEELREAVALLKGRVL---LEASGGITLENIRAYAETGVDYISVGA 255
>gnl|CDD|223235 COG0157, NadC, Nicotinate-nucleotide pyrophosphorylase [Coenzyme
metabolism].
Length = 280
Score = 27.1 bits (61), Expect = 3.8
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 84 KFMPEMMDK-VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGAP 137
PE + + V+ L +L +E GG+ I E A G + I G+ AP
Sbjct: 216 NMSPEELKEAVKLLGLAGRAL-LEASGGITLENIREYAETGVDVISVGALTHSAP 269
>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 = 3.8
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 103 LDIEVDGGLGPSTIAEAASAGAN 125
D+ DG +GP T+A AS G N
Sbjct: 13 PDVAADGIIGPKTLAALASMGEN 35
>gnl|CDD|201855 pfam01552, Pico_P2B, Picornavirus 2B protein. Poliovirus
infection leads to drastic alterations in membrane
permeability late during infection. Proteins 2B and 2BC
enhance membrane permeability.
Length = 99
Score = 26.4 bits (59), Expect = 3.8
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 7 DYVEPLGKAGASGFTFHV 24
DY++ LG A +GFT +
Sbjct: 5 DYIQQLGNAFGTGFTDEI 22
>gnl|CDD|239150 cd02749, Macro, Macro domain, a high-affinity ADP-ribose binding
module found in a variety of proteins as a stand-alone
domain or in combination with other domains like in
histone macroH2A and some PARPs (poly ADP-ribose
polymerases). Some macro domains recognize poly
ADP-ribose as a ligand. Previously identified as
displaying an Appr-1"-p (ADP-ribose-1"-monophosphate)
processing activity, the macro domain may play roles in
distinct ADP-ribose pathways, such as the
ADP-ribosylation of proteins, an important
post-translational modification which occurs in DNA
repair, transcription, chromatin biology, and long-term
memory formation, among other processes.
Length = 147
Score = 26.6 bits (59), Expect = 3.9
Identities = 7/49 (14%), Positives = 16/49 (32%), Gaps = 2/49 (4%)
Query: 1 MVTNPLDYVEPLGKAGASGFTFHVEISKDNWQELVQRIKSKGMRPGVAL 49
+ N + G + K+ +E + K ++ G A+
Sbjct: 17 AIVNAANSSGRDGGGVN--LAISKKAGKELEEESKKLRKELELQVGEAV 63
>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 = 4.3
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 8/62 (12%)
Query: 84 KFMPEMMDK-VRSLRNR-------YPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFG 135
PE +D V L+ R P + IE GGL I A G + G+ +
Sbjct: 213 SGSPEELDPAVLILKARAHLDGKGLPRVKIEASGGLDEENIRAYAETGVDVFGVGTLLHS 272
Query: 136 AP 137
AP
Sbjct: 273 AP 274
>gnl|CDD|236266 PRK08447, PRK08447, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 789
Score = 27.4 bits (61), Expect = 4.5
Identities = 10/28 (35%), Positives = 19/28 (67%), Gaps = 2/28 (7%)
Query: 30 NWQELVQRIKSKGMRPG--VALKPGTSV 55
+W+ L +++K GMR G +A+ P +S+
Sbjct: 637 DWEGLREKVKKDGMRNGYLMAIAPTSSI 664
>gnl|CDD|181700 PRK09209, PRK09209, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 761
Score = 27.0 bits (60), Expect = 4.7
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 2/28 (7%)
Query: 29 DNWQELVQRIKSKGMRPG--VALKPGTS 54
W EL ++ G+R +A+ P S
Sbjct: 616 PQWDELAAQVAENGVRNAYLMAVAPNMS 643
>gnl|CDD|180725 PRK06843, PRK06843, inosine 5-monophosphate dehydrogenase;
Validated.
Length = 404
Score = 26.9 bits (59), Expect = 4.7
Identities = 10/42 (23%), Positives = 23/42 (54%)
Query: 89 MMDKVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAG 130
+++ V+ ++ +YP+LD+ + + S GA+C+ G
Sbjct: 181 IIELVKKIKTKYPNLDLIAGNIVTKEAALDLISVGADCLKVG 222
>gnl|CDD|215325 PLN02605, PLN02605, monogalactosyldiacylglycerol synthase.
Length = 382
Score = 26.9 bits (60), Expect = 4.7
Identities = 10/19 (52%), Positives = 11/19 (57%)
Query: 112 GPSTIAEAASAGANCIVAG 130
GP TIAEA G I+ G
Sbjct: 291 GPGTIAEALIRGLPIILNG 309
>gnl|CDD|224933 COG2022, ThiG, Uncharacterized enzyme of thiazole biosynthesis
[Nucleotide transport and metabolism].
Length = 262
Score = 26.8 bits (60), Expect = 4.8
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 107 VDGGLG-PSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVE 151
VD G+G PS A+A GA+ ++ +++ A +P + +VE
Sbjct: 187 VDAGIGTPSDAAQAMELGADAVLLNTAIARAKDPVAMARAFALAVE 232
>gnl|CDD|176509 cd08566, GDPD_AtGDE_like, Glycerophosphodiester phosphodiesterase
domain of Agrobacterium tumefaciens and similar
proteins. This subfamily corresponds to the
glycerophosphodiester phosphodiesterase domain (GDPD)
present in Agrobacterium tumefaciens
glycerophosphodiester phosphodiesterase (AtGDE, EC
3.1.4.46) and its uncharacterized eukaryotic homolgoues.
Members in this family shows high sequence similarity to
Escherichia coli GP-GDE, which catalyzes the degradation
of glycerophosphodiesters to produce
sn-glycerol-3-phosphate (G3P) and the corresponding
alcohols. AtGDE exists as a hexamer that is a trimer of
dimers, which is unique among current known GDPD family
members. However, it remains unclear if the hexamer
plays a physiological role in AtGDE enzymatic function.
Length = 240
Score = 26.9 bits (60), Expect = 4.8
Identities = 8/46 (17%), Positives = 18/46 (39%), Gaps = 2/46 (4%)
Query: 22 FHVEISKDNWQELVQRIKSKGMRPGVALKPGTSVEEVYPLVEGANP 67
++++ + E++ +K G V K + EE + P
Sbjct: 103 LNLDLKDADLDEVIALVKKHGALDQVIFK--SYSEEQAKELRALAP 146
>gnl|CDD|239508 cd03415, CbiX_CbiC, Archaeal sirohydrochlorin cobalt chelatase
(CbiX) single domain. Proteins in this subgroup contain
a single CbiX domain N-terminal to a precorrin-8X
methylmutase (CbiC) domain. CbiX is a cobaltochelatase,
responsible for the chelation of Co2+ into
sirohydrochlorin, while CbiC catalyzes the conversion
of cobalt-precorrin 8 to cobyrinic acid by methyl
rearrangement. Both CbiX and CbiC are involved in
vitamin B12 biosynthesis.
Length = 125
Score = 26.3 bits (58), Expect = 5.0
Identities = 8/32 (25%), Positives = 17/32 (53%)
Query: 14 KAGASGFTFHVEISKDNWQELVQRIKSKGMRP 45
K G + + E ++ NW++L+ + S+G
Sbjct: 29 KLGVPVYLTYNEYAEPNWRDLLNELLSEGYGH 60
>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 = 26.5 bits (59), Expect = 5.0
Identities = 25/85 (29%), Positives = 34/85 (40%), Gaps = 16/85 (18%)
Query: 81 GGQKFMPEMMDKVRSL----RNRYPSLDIEVDGGLGPSTIAEAASAGAN----CIVAGSS 132
G++F + D++R+ R R ++IEVD L P I AGA+ AG
Sbjct: 22 DGERFRLPVDDRLRAALRGDRARLGQVEIEVDPTLSPREIQARIRAGASAEEVAEAAGVP 81
Query: 133 V-----FGAP---EPAHVISLMRKS 149
F P E A V L R
Sbjct: 82 EERVERFEGPVLAERARVAELARAV 106
>gnl|CDD|223871 COG0800, Eda, 2-keto-3-deoxy-6-phosphogluconate aldolase
[Carbohydrate transport and metabolism].
Length = 211
Score = 26.8 bits (60), Expect = 5.1
Identities = 20/80 (25%), Positives = 34/80 (42%), Gaps = 7/80 (8%)
Query: 60 PLVEG-ANPVEMVLVMTVEPGFGGQKFMP-EMMDKVRSLRNR---YPSLDIEVDGGLGPS 114
P + G A P E++ + E G KF P E++ L+ +P + GG+
Sbjct: 108 PYIPGVATPTEIMAAL--ELGASALKFFPAEVVGGPAMLKALAGPFPQVRFCPTGGVSLD 165
Query: 115 TIAEAASAGANCIVAGSSVF 134
A+ +AG + GS +
Sbjct: 166 NAADYLAAGVVAVGLGSWLV 185
>gnl|CDD|223975 COG1045, CysE, Serine acetyltransferase [Amino acid transport and
metabolism].
Length = 194
Score = 26.5 bits (59), Expect = 5.9
Identities = 13/51 (25%), Positives = 18/51 (35%), Gaps = 7/51 (13%)
Query: 111 LGPSTIAEAASAGANCIV-----AGSSVFGAPEPAHVISLMRKSVEDAQKN 156
LG I + A GA +V ++V G PA VI +
Sbjct: 135 LGNIEIGDNAKIGAGSVVLKDVPPNATVVG--VPARVIGRPGSKKPVRDMD 183
>gnl|CDD|237077 PRK12364, PRK12364, ribonucleotide-diphosphate reductase subunit
alpha; Provisional.
Length = 842
Score = 27.0 bits (60), Expect = 5.9
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 2/41 (4%)
Query: 30 NWQELVQRIKSKGMRPG--VALKPGTSVEEVYPLVEGANPV 68
WQ L + + GMR +A+ P +S + G +PV
Sbjct: 699 EWQRLAREVAENGMRNAYLLAVAPTSSTSIIAGTTAGVDPV 739
>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 = 6.2
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 5/32 (15%)
Query: 111 LGPSTIAEAASAGANCIV-----AGSSVFGAP 137
LG TI + GAN +V A S+V G P
Sbjct: 70 LGNITIGDNVKIGANAVVTKDVPANSTVVGVP 101
>gnl|CDD|234695 PRK00230, PRK00230, orotidine 5'-phosphate decarboxylase; Reviewed.
Length = 230
Score = 26.3 bits (59), Expect = 6.2
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 115 TIAEAASAGANCIVAGSSVFGAPEPA 140
T A+A +AG++ IV G + A +PA
Sbjct: 192 TPAQAIAAGSDYIVVGRPITQAADPA 217
>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 = 26.3 bits (59), Expect = 7.0
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 107 VDGGLG-PSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVE 151
VD G+G PS A+A GA+ ++ +++ A +P + + +VE
Sbjct: 180 VDAGIGTPSDAAQAMELGADAVLLNTAIAKAKDPVAMARAFKLAVE 225
>gnl|CDD|220459 pfam09892, DUF2119, Uncharacterized protein conserved in archaea
(DUF2119). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 193
Score = 26.2 bits (58), Expect = 7.3
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 9/87 (10%)
Query: 22 FHVEI---SKDNWQELV--QRIKSKGMRPGVALKPGTSVEEVYPLVEGANPVEMVLVMTV 76
F+ E+ SK+N+ +L R+ G+ P + L G + V P + + L +T+
Sbjct: 79 FYFELHSYSKENYDKLTSLNRVNLIGVPPLIDLGNGVLLGSVSPWIRKKYFPKEDLCLTL 138
Query: 77 E-PGFGGQ---KFMPEMMDKVRSLRNR 99
E P + +F+ E+++ + R+R
Sbjct: 139 EIPNWKSDESLEFVAEILEVGKESRSR 165
>gnl|CDD|133133 cd06602, GH31_MGAM_SI_GAA, This family includes the following three
closely related glycosyl hydrolase family 31 (GH31)
enzymes: maltase-glucoamylase (MGAM), sucrase-isomaltase
(SI), and lysosomal acid alpha-glucosidase (GAA), also
known as acid-maltase. MGAM is one of the two enzymes
responsible for catalyzing the last glucose-releasing
step in starch digestion. SI is implicated in the
digestion of dietary starch and major disaccharides such
as sucrose and isomaltose, while GAA degrades glycogen
in the lysosome, cleaving both alpha-1,4 and alpha-1,6
glucosidic linkages. MGAM and SI are anchored to
small-intestinal brush-border epithelial cells. The
absence of SI from the brush border membrane or its
malfunction is associated with malabsorption disorders
such as congenital sucrase-isomaltase deficiency (CSID).
The domain architectures of MGAM and SI include two
tandem GH31 catalytic domains, an N-terminal domain
found near the membrane-bound end, and a C-terminal
luminal domain. Both of the tandem GH31 domains of MGAM
and SI are included in this family. The domain
architecture of GAA includes an N-terminal TFF (trefoil
factor family) domain in addition to the GH31 catalytic
domain. Deficient GAA expression causes pompe disease,
an autosomal recessive genetic disorder also known as
glycogen storage disease type II (GSDII).
Length = 339
Score = 26.4 bits (59), Expect = 7.4
Identities = 9/47 (19%), Positives = 13/47 (27%), Gaps = 7/47 (14%)
Query: 20 FTFH-VEISKDNWQELVQRIKSKGMR------PGVALKPGTSVEEVY 59
FT V E V + + G P ++ T Y
Sbjct: 56 FTLDPVRFPGLKMPEFVDELHANGQHYVPILDPAISANEPTGSYPPY 102
>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 = 25.9 bits (58), Expect = 7.5
Identities = 10/44 (22%), Positives = 20/44 (45%)
Query: 93 VRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAGSSVFGA 136
+++L+ +P + GG+ AE +AG + GS +
Sbjct: 134 IKALKGPFPQVRFMPTGGVSLDNAAEWLAAGVVAVGGGSLLPKD 177
>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 = 26.4 bits (59), Expect = 7.7
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 107 VDGGLG-PSTIAEAASAGANCIVAGSSVFGAPEPAHVISLMRKSVE 151
VD G+G PS A+A GA+ ++ +++ A +P + + +VE
Sbjct: 179 VDAGIGTPSDAAQAMELGADAVLLNTAIARAKDPVAMARAFKLAVE 224
>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 = 26.3 bits (59), Expect = 7.8
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 21/81 (25%)
Query: 60 PLVEGANPVEMVL-----------VMTVEPGFGGQKFMPEMMDKVRSLRNRYPSL--DIE 106
+ E +PVE+ V+T F G E + VR P L D
Sbjct: 26 LIREDFDPVEIAKAYEKAGAAAISVLTEPKYFQGS---LEDLRAVREA-VSLPVLRKDFI 81
Query: 107 VDGGLGPSTIAEAASAGANCI 127
+D P I EA +AGA+ +
Sbjct: 82 ID----PYQIYEARAAGADAV 98
>gnl|CDD|200082 TIGR01172, cysE, serine O-acetyltransferase. Cysteine biosynthesis
[Amino acid biosynthesis, Serine family].
Length = 162
Score = 25.7 bits (57), Expect = 8.3
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 5/32 (15%)
Query: 111 LGPSTIAEAASAGANCIV-----AGSSVFGAP 137
LG + E A GAN +V G++V G P
Sbjct: 129 LGNIEVGENAKIGANSVVLKDVPPGATVVGVP 160
>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 = 26.2 bits (58), Expect = 8.3
Identities = 9/35 (25%), Positives = 12/35 (34%)
Query: 45 PGVALKPGTSVEEVYPLVEGANPVEMVLVMTVEPG 79
P L G +E +GA P V+ P
Sbjct: 80 PVEDLAEGERLELTVRFADGAAPARAAFVLVTHPA 114
>gnl|CDD|236255 PRK08385, PRK08385, nicotinate-nucleotide pyrophosphorylase;
Provisional.
Length = 278
Score = 26.2 bits (58), Expect = 8.6
Identities = 15/39 (38%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 92 KVRSLRNRYPSLDIEVDGGLGPSTIAEAASAGANCIVAG 130
K LR R + IEV GG+ P I E A + I G
Sbjct: 224 KREGLRER---VKIEVSGGITPENIEEYAKLDVDVISLG 259
>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 = 26.2 bits (58), Expect = 8.6
Identities = 20/67 (29%), Positives = 27/67 (40%), Gaps = 9/67 (13%)
Query: 75 TVEPGFGGQKFMPEMMDKV--RSLRNRYPSLDI-EVDGGLGPSTIAEAASAGANCIVAGS 131
T FG Q + + LR RYP+L++ V GG P + G +V
Sbjct: 541 TRVATFGPQVGPDDADGTLNDSGLRPRYPALEVYTVAGGGAPGLAYLVDADGT--LV--- 595
Query: 132 SVFGAPE 138
V G PE
Sbjct: 596 -VDGGPE 601
>gnl|CDD|235952 PRK07187, PRK07187, ribonucleotide-diphosphate reductase subunit
alpha; Validated.
Length = 721
Score = 26.2 bits (58), Expect = 8.9
Identities = 10/23 (43%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 22 FHVEI-SKDNWQELVQRIKSKGM 43
+ V I ++ +WQELV+ IK G+
Sbjct: 553 YGVTIPTQADWQELVEDIKKTGL 575
>gnl|CDD|183107 PRK11376, hlyE, hemolysin E; Provisional.
Length = 303
Score = 26.2 bits (57), Expect = 9.7
Identities = 11/43 (25%), Positives = 25/43 (58%)
Query: 65 ANPVEMVLVMTVEPGFGGQKFMPEMMDKVRSLRNRYPSLDIEV 107
A P +++ ++ G K +PE+ +K++S++N + +L V
Sbjct: 187 AGPFGLIISYSIAAGVVEGKLIPELKNKLKSVQNFFTTLSNTV 229
>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 = 9.9
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 95 SLRNRYPSLDIEVDGGLGPSTIAEAA-SAGANCIVAGSSVFGA 136
L+ +YP LD +G S EAA +AG+ + G+++FGA
Sbjct: 185 QLKKQYPDLDTL---SMGMSGDLEAAIAAGSTMVRIGTAIFGA 224
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
0.314 0.133 0.380
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: 8,017,719
Number of extensions: 729855
Number of successful extensions: 948
Number of sequences better than 10.0: 1
Number of HSP's gapped: 917
Number of HSP's successfully gapped: 119
Length of query: 157
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 68
Effective length of database: 6,990,096
Effective search space: 475326528
Effective search space used: 475326528
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: 55 (24.8 bits)