RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 037779
(310 letters)
>gnl|CDD|179769 PRK04180, PRK04180, pyridoxal biosynthesis lyase PdxS; Provisional.
Length = 293
Score = 572 bits (1478), Expect = 0.0
Identities = 210/284 (73%), Positives = 249/284 (87%), Gaps = 1/284 (0%)
Query: 26 VKVGLAQMLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIK 85
VK G A+ML+GGVIMDVV EQA+IAEEAGA AVMALERVPADIRA GGVARM+DP++I+
Sbjct: 8 VKRGFAEMLKGGVIMDVVNAEQAKIAEEAGAVAVMALERVPADIRAAGGVARMADPKMIE 67
Query: 86 QIKSSVTIPVMAKARIGHFVEAQILEAIGVDYVDESEVLTPADEENHINKHNFRVPFVCG 145
+I +V+IPVMAKARIGHFVEAQILEA+GVDY+DESEVLTPADEE HI+K +F VPFVCG
Sbjct: 68 EIMDAVSIPVMAKARIGHFVEAQILEALGVDYIDESEVLTPADEEYHIDKWDFTVPFVCG 127
Query: 146 CRNLGESLRRIREGAAMIRTKGEAGTGNIVEAVRHVRSVMGDIRVLRNMDDDEVFTFAKN 205
RNLGE+LRRI EGAAMIRTKGEAGTGN+VEAVRH+R + G+IR L +M +DE++T AK
Sbjct: 128 ARNLGEALRRIAEGAAMIRTKGEAGTGNVVEAVRHMRQINGEIRRLTSMSEDELYTAAKE 187
Query: 206 IAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRA 265
+ APY+LV + +LGRLPVV+FAAGG+ATPADAA+MMQLG DGVFVGSG+FKSGDP +RA
Sbjct: 188 LQAPYELVKEVAELGRLPVVNFAAGGIATPADAALMMQLGADGVFVGSGIFKSGDPEKRA 247
Query: 266 RAIVQAVTNYSDPDVLAEVSCGLGEAMVGIDLNDVKV-ERYANR 308
RAIV+A T+Y DP+VLAEVS GLGEAMVGID++++ ER R
Sbjct: 248 RAIVEATTHYDDPEVLAEVSKGLGEAMVGIDIDELPPEERLQER 291
>gnl|CDD|240078 cd04727, pdxS, PdxS is a subunit of the pyridoxal 5'-phosphate
(PLP) synthase, an important enzyme in deoxyxylulose
5-phosphate (DXP)-independent pathway for de novo
biosynthesis of PLP, present in some eubacteria, in
archaea, fungi, plants, plasmodia, and some metazoa.
Together with PdxT, PdxS forms the PLP synthase, a
heteromeric glutamine amidotransferase (GATase), whereby
PdxT produces ammonia from glutamine and PdxS combines
ammonia with five- and three-carbon phosphosugars to
form PLP. PLP is the biologically active form of vitamin
B6, an essential cofactor in many biochemical processes.
PdxS subunits form two hexameric rings.
Length = 283
Score = 539 bits (1390), Expect = 0.0
Identities = 210/283 (74%), Positives = 247/283 (87%), Gaps = 1/283 (0%)
Query: 28 VGLAQMLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQI 87
G AQML+GGVIMDV EQARIAEEAGA AVMALERVPADIRA GGVARM+DP++IK+I
Sbjct: 1 RGFAQMLKGGVIMDVTNAEQARIAEEAGAVAVMALERVPADIRAAGGVARMADPKMIKEI 60
Query: 88 KSSVTIPVMAKARIGHFVEAQILEAIGVDYVDESEVLTPADEENHINKHNFRVPFVCGCR 147
+V+IPVMAK RIGHFVEAQILEA+GVD +DESEVLTPADEE+HI+KH F+VPFVCG R
Sbjct: 61 MDAVSIPVMAKVRIGHFVEAQILEALGVDMIDESEVLTPADEEHHIDKHKFKVPFVCGAR 120
Query: 148 NLGESLRRIREGAAMIRTKGEAGTGNIVEAVRHVRSVMGDIRVLRNMDDDEVFTFAKNIA 207
NLGE+LRRI EGAAMIRTKGEAGTGN+VEAVRH+R+V G+IR L++M ++E++ AK I
Sbjct: 121 NLGEALRRISEGAAMIRTKGEAGTGNVVEAVRHMRAVNGEIRKLQSMSEEELYAVAKEIQ 180
Query: 208 APYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARA 267
APY+LV +T +LGRLPVV+FAAGGVATPADAA+MMQLG DGVFVGSG+FKS +P +RARA
Sbjct: 181 APYELVKETAKLGRLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSENPEKRARA 240
Query: 268 IVQAVTNYSDPDVLAEVSCGLGEAMVGIDLNDVKVE-RYANRS 309
IV+AVT+Y DP++LAEVS GLGEAMVGID+ +K E R R
Sbjct: 241 IVEAVTHYDDPEILAEVSEGLGEAMVGIDIASLKEEERMQERG 283
>gnl|CDD|223292 COG0214, SNZ1, Pyridoxine biosynthesis enzyme [Coenzyme
metabolism].
Length = 296
Score = 521 bits (1345), Expect = 0.0
Identities = 208/293 (70%), Positives = 246/293 (83%), Gaps = 1/293 (0%)
Query: 17 ETTKKSPFSVKVGLAQMLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVA 76
E + VK G AQML+GGVIMDVV EQARIAEEAGA AVMALERVPADIRA GGVA
Sbjct: 2 EELRTGTERVKRGFAQMLKGGVIMDVVNAEQARIAEEAGAVAVMALERVPADIRAAGGVA 61
Query: 77 RMSDPQLIKQIKSSVTIPVMAKARIGHFVEAQILEAIGVDYVDESEVLTPADEENHINKH 136
RM+DP++I++I +V+IPVMAK RIGHFVEAQILEA+GVD +DESEVLTPADEE HINK
Sbjct: 62 RMADPKMIEEIMDAVSIPVMAKVRIGHFVEAQILEALGVDMIDESEVLTPADEEFHINKW 121
Query: 137 NFRVPFVCGCRNLGESLRRIREGAAMIRTKGEAGTGNIVEAVRHVRSVMGDIRVLRNMDD 196
F VPFVCG RNLGE+LRRI EGAAMIRTKGEAGTGN+VEAVRH+R + G+IR L++M +
Sbjct: 122 KFTVPFVCGARNLGEALRRISEGAAMIRTKGEAGTGNVVEAVRHMRKINGEIRRLQSMTE 181
Query: 197 DEVFTFAKNIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVF 256
DE++ AK + APY+LV + +LGRLPVV+FAAGGVATPADAA+MMQLG DGVFVGSG+F
Sbjct: 182 DELYVVAKELQAPYELVKEVAKLGRLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIF 241
Query: 257 KSGDPVRRARAIVQAVTNYSDPDVLAEVSCGLGEAMVGIDLNDVKV-ERYANR 308
KS +P +RA+AIV+A T+Y DP+VLAEVS GLGEAM GID++++ ER R
Sbjct: 242 KSSNPEKRAKAIVEATTHYDDPEVLAEVSEGLGEAMKGIDISELPEEERLQER 294
>gnl|CDD|129443 TIGR00343, TIGR00343, pyridoxal 5'-phosphate synthase, synthase
subunit Pdx1. This protein had been believed to be a
singlet oxygen resistance protein. Subsequent work
showed that it is a protein of pyridoxine (vitamin B6)
biosynthesis, and that pyridoxine quenches the highly
toxic singlet form of oxygen produced by light in the
presence of certain chemicals [Biosynthesis of
cofactors, prosthetic groups, and carriers, Pyridoxine].
Length = 287
Score = 456 bits (1174), Expect = e-163
Identities = 193/279 (69%), Positives = 234/279 (83%), Gaps = 1/279 (0%)
Query: 26 VKVGLAQMLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIK 85
+K GLAQML+GGVIMDVV PEQA+IAEEAGA AVMALERVPADIRA GGVARMSDP++IK
Sbjct: 1 LKKGLAQMLKGGVIMDVVNPEQAKIAEEAGAVAVMALERVPADIRASGGVARMSDPKMIK 60
Query: 86 QIKSSVTIPVMAKARIGHFVEAQILEAIGVDYVDESEVLTPADEENHINKHNFRVPFVCG 145
+I +V+IPVMAK RIGHFVEAQILEA+GVDY+DESEVLTPAD HI+K F+VPFVCG
Sbjct: 61 EIMDAVSIPVMAKVRIGHFVEAQILEALGVDYIDESEVLTPADWTFHIDKKKFKVPFVCG 120
Query: 146 CRNLGESLRRIREGAAMIRTKGEAGTGNIVEAVRHVRSVMGDIRVLRNMDDDEVF-TFAK 204
R+LGE+LRRI EGAAMIRTKGEAGTGNIVEAVRH+R + +IR ++NM ++E AK
Sbjct: 121 ARDLGEALRRINEGAAMIRTKGEAGTGNIVEAVRHMRKINEEIRQIQNMLEEEDLAAVAK 180
Query: 205 NIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRR 264
+ P +L+++ +LG+LPVV+FAAGGVATPADAA+MMQLG DGVFVGSG+FKS +P +
Sbjct: 181 ELRVPVELLLEVLKLGKLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIFKSSNPEKL 240
Query: 265 ARAIVQAVTNYSDPDVLAEVSCGLGEAMVGIDLNDVKVE 303
A+AIV+A T+Y +P+ LAEVS LGEAM GI ++ +
Sbjct: 241 AKAIVEATTHYDNPEKLAEVSKDLGEAMKGISISSISEA 279
>gnl|CDD|201920 pfam01680, SOR_SNZ, SOR/SNZ family. Members of this family are
enzymes involved in a new pathway of
pyridoxine/pyridoxal 5-phosphate biosynthesis. This
family was formerly known as UPF0019.
Length = 197
Score = 365 bits (939), Expect = e-129
Identities = 151/197 (76%), Positives = 175/197 (88%)
Query: 33 MLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVT 92
ML+GGVIMDVV EQARIAEEAGA AVMALERVPADIRA GGVARMSDP++IK+I ++V+
Sbjct: 1 MLKGGVIMDVVNAEQARIAEEAGAVAVMALERVPADIRAAGGVARMSDPKMIKEIMNAVS 60
Query: 93 IPVMAKARIGHFVEAQILEAIGVDYVDESEVLTPADEENHINKHNFRVPFVCGCRNLGES 152
IPVMAK RIGHFVEAQILEAIGVDY+DESEVLTPADE HI+K F VPFVCG RNLGE+
Sbjct: 61 IPVMAKVRIGHFVEAQILEAIGVDYIDESEVLTPADEFFHIDKKKFTVPFVCGARNLGEA 120
Query: 153 LRRIREGAAMIRTKGEAGTGNIVEAVRHVRSVMGDIRVLRNMDDDEVFTFAKNIAAPYDL 212
LRRI EGAAMIRTKGEAGTGN+VEAVRH+R + G+IR L++M +DE++T AK +AAPY+L
Sbjct: 121 LRRIWEGAAMIRTKGEAGTGNVVEAVRHMRLMNGEIRRLQSMSEDELYTVAKELAAPYEL 180
Query: 213 VMQTKQLGRLPVVHFAA 229
V Q +LG+LPVV+FAA
Sbjct: 181 VKQVAELGKLPVVNFAA 197
>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 = 51.4 bits (123), Expect = 8e-08
Identities = 48/220 (21%), Positives = 73/220 (33%), Gaps = 47/220 (21%)
Query: 46 EQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAKARIGHFV 105
E A+ A EAGA A++ R A D +++K++ + +P+ + I
Sbjct: 16 ELAKAAAEAGADAIIVGTRSSDPEEA-----ETDDKEVLKEVAAETDLPLGVQLAINDAA 70
Query: 106 EAQ-----ILEAIGVDYVDESEVLTPADEENHINKHNFR-----VPFVCGCRNLGESLRR 155
A A G D V+ + E+ R V V GE
Sbjct: 71 AAVDIAAAAARAAGADGVEIHGAVGYLAREDLELIRELREAVPDVKVVVKLSPTGELAAA 130
Query: 156 --IREGAAMIRTKGEAGTGNIVEAVRHVRSVMGDIRVLRNMDDDEVFTFAKNIAAPYDLV 213
G + G G +AV + +
Sbjct: 131 AAEEAGVDEVGLGNGGGGGGGRDAVPIADLL----------------------------L 162
Query: 214 MQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
+ K+ ++PV A GG+ P DAA + LG DGV VGS
Sbjct: 163 ILAKRGSKVPV--IAGGGINDPEDAAEALALGADGVIVGS 200
>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 = 50.6 bits (122), Expect = 2e-07
Identities = 20/42 (47%), Positives = 27/42 (64%)
Query: 231 GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAV 272
G+ TP+DAA M+LG D V + + + K+ DPV ARA AV
Sbjct: 183 GIGTPSDAAQAMELGADAVLLNTAIAKAKDPVAMARAFKLAV 224
>gnl|CDD|224933 COG2022, ThiG, Uncharacterized enzyme of thiazole biosynthesis
[Nucleotide transport and metabolism].
Length = 262
Score = 50.7 bits (122), Expect = 2e-07
Identities = 22/53 (41%), Positives = 32/53 (60%), Gaps = 2/53 (3%)
Query: 221 RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAVT 273
+PV+ A G+ TP+DAA M+LG D V + + + ++ DPV ARA AV
Sbjct: 182 DVPVIVDA--GIGTPSDAAQAMELGADAVLLNTAIARAKDPVAMARAFALAVE 232
>gnl|CDD|234687 PRK00208, thiG, thiazole synthase; Reviewed.
Length = 250
Score = 50.4 bits (122), Expect = 3e-07
Identities = 20/42 (47%), Positives = 27/42 (64%)
Query: 231 GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAV 272
G+ TP+DAA M+LG D V + + + +GDPV ARA AV
Sbjct: 183 GIGTPSDAAQAMELGADAVLLNTAIAVAGDPVAMARAFKLAV 224
>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 = 49.9 bits (120), Expect = 4e-07
Identities = 22/52 (42%), Positives = 32/52 (61%), Gaps = 2/52 (3%)
Query: 221 RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAV 272
+PV+ A G+ TP+DAA M+LG D V + + + ++ DPV ARA AV
Sbjct: 174 DVPVIVDA--GIGTPSDAAQAMELGADAVLLNTAIARAKDPVAMARAFKLAV 223
>gnl|CDD|236998 PRK11840, PRK11840, bifunctional sulfur carrier protein/thiazole
synthase protein; Provisional.
Length = 326
Score = 49.7 bits (119), Expect = 7e-07
Identities = 23/52 (44%), Positives = 35/52 (67%), Gaps = 2/52 (3%)
Query: 221 RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAV 272
+PV+ A GV T +DAA+ M+LGCDGV + + + ++ +PV ARA+ AV
Sbjct: 249 TVPVLVDA--GVGTASDAAVAMELGCDGVLMNTAIAEAKNPVLMARAMKLAV 298
Score = 32.0 bits (73), Expect = 0.34
Identities = 25/74 (33%), Positives = 37/74 (50%), Gaps = 6/74 (8%)
Query: 45 PEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAKARIGHF 104
P A+ E+AGA AVM L A I + G + +P I+ I T+PV+ A +G
Sbjct: 208 PIAAKRLEDAGAVAVMPL---GAPIGSGLG---IQNPYTIRLIVEGATVPVLVDAGVGTA 261
Query: 105 VEAQILEAIGVDYV 118
+A + +G D V
Sbjct: 262 SDAAVAMELGCDGV 275
>gnl|CDD|214380 CHL00162, thiG, thiamin biosynthesis protein G; Validated.
Length = 267
Score = 42.4 bits (100), Expect = 1e-04
Identities = 18/52 (34%), Positives = 34/52 (65%), Gaps = 2/52 (3%)
Query: 221 RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAV 272
++PV+ A G+ TP++A+ M+LG GV + + V ++ +P + A+A+ AV
Sbjct: 189 KIPVIIDA--GIGTPSEASQAMELGASGVLLNTAVAQAKNPEQMAKAMKLAV 238
>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 = 41.0 bits (97), Expect = 2e-04
Identities = 22/60 (36%), Positives = 35/60 (58%), Gaps = 3/60 (5%)
Query: 211 DLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQ 270
+L+ + +L +PVV A GG+ TP +AA ++ G DGV V S + + DP AR ++
Sbjct: 140 ELLREIAELVEIPVV--AIGGI-TPENAAEVLAAGADGVAVISAITGADDPAAAARELLA 196
>gnl|CDD|240081 cd04730, NPD_like, 2-Nitropropane dioxygenase (NPD), one of the
nitroalkane oxidizing enzyme families, catalyzes
oxidative denitrification of nitroalkanes to their
corresponding carbonyl compounds and nitrites. NDP is a
member of the NAD(P)H-dependent flavin oxidoreductase
family that reduce a range of alternative electron
acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as
electron donor. Some contain 4Fe-4S cluster to transfer
electron from FAD to FMN.
Length = 236
Score = 40.9 bits (97), Expect = 4e-04
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 206 IAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
+ LV + + +PV+ AAGG+A A + LG DGV +G+
Sbjct: 141 DIGTFALVPEVRDAVDIPVI--AAGGIADGRGIAAALALGADGVQMGT 186
Score = 36.3 bits (85), Expect = 0.013
Identities = 22/67 (32%), Positives = 33/67 (49%), Gaps = 17/67 (25%)
Query: 38 VIMDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVA-------RMSDPQLIKQIKSS 90
VI V + E+AR AE AGA A++ AQG A + L+ +++ +
Sbjct: 105 VIPTVTSVEEARKAEAAGADALV----------AQGAEAGGHRGTFDIGTFALVPEVRDA 154
Query: 91 VTIPVMA 97
V IPV+A
Sbjct: 155 VDIPVIA 161
>gnl|CDD|223120 COG0042, COG0042, tRNA-dihydrouridine synthase [Translation,
ribosomal structure and biogenesis].
Length = 323
Score = 41.2 bits (97), Expect = 4e-04
Identities = 37/106 (34%), Positives = 54/106 (50%), Gaps = 14/106 (13%)
Query: 14 AIYETTKKSPFSVKVGLAQMLRGGVIM-DVVTPEQARIAEEAGACAVMALERVPADIRAQ 72
A+ E P +VK+ R G D++ E ARI E+AGA A+ V RAQ
Sbjct: 129 AMVEAVGDIPVTVKI------RLGWDDDDILALEIARILEDAGADALT----VHGRTRAQ 178
Query: 73 GGVARMSDPQLIKQIKSSV-TIPVMAKARIGHFVEAQ-ILEAIGVD 116
G + +D IK++K +V +IPV+A I +A+ +LE G D
Sbjct: 179 GYLGP-ADWDYIKELKEAVPSIPVIANGDIKSLEDAKEMLEYTGAD 223
Score = 38.5 bits (90), Expect = 0.003
Identities = 68/299 (22%), Positives = 106/299 (35%), Gaps = 88/299 (29%)
Query: 24 FSVKVGLAQMLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQL 83
+V LA M V R+A E GA ++ E V A G +
Sbjct: 9 LRNRVILAPM------AGVTDLPFRRLARELGAYDLLYTEMVSAKALLHGRKKFLLLLDE 62
Query: 84 IK-------QIKSSVTIPVMAKARIGHFVEAQILEAIGVDYVDESEVLTPADEENHINKH 136
++ Q+ S ++A+A A+I E +G D +D +N
Sbjct: 63 LEEERPVAVQLGGSDPE-LLAEA-------AKIAEELGADIID-------------LN-- 99
Query: 137 NFRVPFVCGCRNLGESLR--RIREGAAMIRTKGEAGTGNIVEAVRHVRSVMGD------I 188
CGC S + + GAA+++ IV+A+ +GD I
Sbjct: 100 -------CGCP----SPKVVKGGAGAALLKNPELLA--EIVKAMV---EAVGDIPVTVKI 143
Query: 189 RVLRNMDDDEVFTFAKNIA---------------------APYDLVMQTKQ-LGRLPVVH 226
R+ + DD A+ + A +D + + K+ + +PV
Sbjct: 144 RLGWDDDDILALEIARILEDAGADALTVHGRTRAQGYLGPADWDYIKELKEAVPSIPV-- 201
Query: 227 FAAGGVATPADA-AMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAVTNYSDPDVLAEV 284
A G + + DA M+ G DGV +G G G+P R I T P LAEV
Sbjct: 202 IANGDIKSLEDAKEMLEYTGADGVMIGRGAL--GNPW-LFRQIDYLETGELLPPTLAEV 257
>gnl|CDD|234590 PRK00043, thiE, thiamine-phosphate pyrophosphorylase; Reviewed.
Length = 212
Score = 40.2 bits (95), Expect = 5e-04
Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 217 KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAVTNY 275
+G +P+V A GG+ TP +A +++ G DGV V S + + DP ARA++ A
Sbjct: 156 AAVGDIPIV--AIGGI-TPENAPEVLEAGADGVAVVSAITGAEDPEAAARALLAAFRAA 211
>gnl|CDD|236051 PRK07565, PRK07565, dihydroorotate dehydrogenase 2; Reviewed.
Length = 334
Score = 39.8 bits (94), Expect = 0.001
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 14/78 (17%)
Query: 48 ARIAEEAGACAVMALE----RVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAK----- 98
AR E+AGA ALE +P D G +++ +KS+V+IPV K
Sbjct: 120 ARQIEQAGA---DALELNIYYLPTDPDISGAEVEQRYLDILRAVKSAVSIPVAVKLSPYF 176
Query: 99 ARIGHFVEAQILEAIGVD 116
+ + + + L+A G D
Sbjct: 177 SNLANMAKR--LDAAGAD 192
>gnl|CDD|239200 cd02801, DUS_like_FMN, Dihydrouridine synthase-like (DUS-like)
FMN-binding domain. Members of this family catalyze the
reduction of the 5,6-double bond of a uridine residue on
tRNA. Dihydrouridine modification of tRNA is widely
observed in prokaryotes and eukaryotes, and also in some
archaea. Most dihydrouridines are found in the D loop of
t-RNAs. The role of dihydrouridine in tRNA is currently
unknown, but may increase conformational flexibility of
the tRNA. It is likely that different family members
have different substrate specificities, which may
overlap. 1VHN, a putative flavin oxidoreductase, has
high sequence similarity to DUS. The enzymatic
mechanism of 1VHN is not known at the present.
Length = 231
Score = 38.6 bits (91), Expect = 0.002
Identities = 25/91 (27%), Positives = 39/91 (42%), Gaps = 28/91 (30%)
Query: 48 ARIAEEAGACAVMALERVPADI----------RAQGGVARMSDPQLIKQI----KSSVTI 93
A+I EE GA + D+ + G A + DP+L+ +I + +V I
Sbjct: 73 AKIVEELGADGI--------DLNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVREAVPI 124
Query: 94 PVMAKARIG-----HFVE-AQILEAIGVDYV 118
PV K R+G +E A+ LE G +
Sbjct: 125 PVTVKIRLGWDDEEETLELAKALEDAGASAL 155
Score = 37.5 bits (88), Expect = 0.004
Identities = 46/197 (23%), Positives = 71/197 (36%), Gaps = 74/197 (37%)
Query: 95 VMAKARIGHFVEAQILEAIGVDYVDESEVLTPADEENHINKHNFRVPFVCGCRNLGESLR 154
+A+A A+I+E +G D +D +N GC
Sbjct: 68 TLAEA-------AKIVEELGADGID-------------LN---------MGC-----PSP 93
Query: 155 RIRE---GAAMIRTKGEAGTGNIVEAVRHVRSVMGDIRV---LRNMDDDEVFT--FAKNI 206
++ + GAA+++ IV AVR I V +R DDE T AK +
Sbjct: 94 KVTKGGAGAALLKDPELVA--EIVRAVREA----VPIPVTVKIRLGWDDEEETLELAKAL 147
Query: 207 A---------------------APYDLVMQTKQLGRLPVVHFAAGGVATPADA-AMMMQL 244
A +D + + K+ +PV A G + + DA + Q
Sbjct: 148 EDAGASALTVHGRTREQRYSGPADWDYIAEIKEAVSIPV--IANGDIFSLEDALRCLEQT 205
Query: 245 GCDGVFVGSGVFKSGDP 261
G DGV +G G G+P
Sbjct: 206 GVDGVMIGRGAL--GNP 220
Score = 32.1 bits (74), Expect = 0.28
Identities = 35/99 (35%), Positives = 46/99 (46%), Gaps = 16/99 (16%)
Query: 23 PFSVKVGLAQMLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIRAQG--GVARMSD 80
P +VK+ R G + T E A+ E+AGA A+ V R Q G A D
Sbjct: 125 PVTVKI------RLGWDDEEETLELAKALEDAGASALT----VHGRTREQRYSGPA---D 171
Query: 81 PQLIKQIKSSVTIPVMAKARIGHFVEAQ-ILEAIGVDYV 118
I +IK +V+IPV+A I +A LE GVD V
Sbjct: 172 WDYIAEIKEAVSIPVIANGDIFSLEDALRCLEQTGVDGV 210
>gnl|CDD|223429 COG0352, ThiE, Thiamine monophosphate synthase [Coenzyme
metabolism].
Length = 211
Score = 38.0 bits (89), Expect = 0.003
Identities = 18/65 (27%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 211 DLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQ 270
+ + + ++L +PVV A GG+ + +++ G DGV V S + + DP A+A+
Sbjct: 148 EGLREIRELVNIPVV--AIGGI-NLENVPEVLEAGADGVAVVSAITSAADPAAAAKALRN 204
Query: 271 AVTNY 275
A+ +
Sbjct: 205 ALEDE 209
>gnl|CDD|240080 cd04729, NanE, N-acetylmannosamine-6-phosphate epimerase (NanE)
converts N-acetylmannosamine-6-phosphate to
N-acetylglucosamine-6-phosphate. This reaction is part
of the pathway that allows the usage of sialic acid as a
carbohydrate source. Sialic acids are a family of
related sugars that are found as a component of
glycoproteins, gangliosides, and other
sialoglycoconjugates.
Length = 219
Score = 37.9 bits (89), Expect = 0.003
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 210 YDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
++L+ + ++ +PV+ A G + +P AA ++LG D V VGS
Sbjct: 166 FELLKELRKALGIPVI--AEGRINSPEQAAKALELGADAVVVGS 207
Score = 27.2 bits (61), Expect = 9.0
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 19/86 (22%)
Query: 41 DVVTPEQARIAEEAGACAVMALERVPADIRAQ------GGVARMSDP--QLIKQIKSSVT 92
D+ T E+A A + G DI A+ DP +L+K+++ ++
Sbjct: 129 DISTLEEALNAAKLGF-----------DIIGTTLSGYTEETAKTEDPDFELLKELRKALG 177
Query: 93 IPVMAKARIGHFVEAQILEAIGVDYV 118
IPV+A+ RI +A +G D V
Sbjct: 178 IPVIAEGRINSPEQAAKALELGADAV 203
>gnl|CDD|129820 TIGR00737, nifR3_yhdG, putative TIM-barrel protein, nifR3 family.
This model represents one branch of COG0042 (Predicted
TIM-barrel enzymes, possibly dehydrogenases, nifR3
family). This branch includes NifR3 itself, from
Rhodobacter capsulatus. It excludes a broadly
distributed but more sparsely populated subfamily that
contains sll0926 from Synechocystis PCC6803, HI0634 from
Haemophilus influenzae, and BB0225 from Borrelia
burgdorferi. It also excludes a shorter and more distant
archaeal subfamily.The function of nifR3, a member of
this family, is unknown, but it is found in an operon
with nitrogen-sensing two component regulators in
Rhodobacter capsulatus.Members of this family show a
distant relationship to alpha/beta (TIM) barrel enzymes
such as dihydroorotate dehydrogenase and glycolate
oxidase [Unknown function, General].
Length = 319
Score = 38.1 bits (89), Expect = 0.003
Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 3/49 (6%)
Query: 208 APYDLVMQTKQLGRLPVVHFAAGGVATPADA-AMMMQLGCDGVFVGSGV 255
A +D++ + KQ R+PV G + +P DA AM+ GCDGV +G G
Sbjct: 179 ANWDIIARVKQAVRIPV--IGNGDIFSPEDAKAMLETTGCDGVMIGRGA 225
Score = 37.3 bits (87), Expect = 0.007
Identities = 35/108 (32%), Positives = 51/108 (47%), Gaps = 11/108 (10%)
Query: 15 IYETTKKSPFSVKVGLAQMLRGGVIMDVVT-PEQARIAEEAGACAVMALERVPADIRAQG 73
I + K +V + + +R G + E ARIAE+AGA AV + RAQG
Sbjct: 119 IGKIVKAVVDAVDIPVTVKIRIGWDDAHINAVEAARIAEDAGAQAVT----LHGRTRAQG 174
Query: 74 --GVARMSDPQLIKQIKSSVTIPVMAKARIGHFVEAQ-ILEAIGVDYV 118
G A +I ++K +V IPV+ I +A+ +LE G D V
Sbjct: 175 YSGEANW---DIIARVKQAVRIPVIGNGDIFSPEDAKAMLETTGCDGV 219
Score = 35.4 bits (82), Expect = 0.026
Identities = 27/86 (31%), Positives = 34/86 (39%), Gaps = 13/86 (15%)
Query: 43 VTPEQARIAEEAGACAVMALERVPAD--IRAQGGVARMSDPQLIKQI----KSSVTIPVM 96
E A+I EE GA + P + G A + DP LI +I +V IPV
Sbjct: 76 TMAEAAKINEELGADIIDINMGCPVPKITKKGAGSALLRDPDLIGKIVKAVVDAVDIPVT 135
Query: 97 AKARIG-----HFVE--AQILEAIGV 115
K RIG A+I E G
Sbjct: 136 VKIRIGWDDAHINAVEAARIAEDAGA 161
>gnl|CDD|181086 PRK07695, PRK07695, transcriptional regulator TenI; Provisional.
Length = 201
Score = 36.9 bits (86), Expect = 0.007
Identities = 16/62 (25%), Positives = 33/62 (53%), Gaps = 3/62 (4%)
Query: 211 DLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQ 270
+ + + +PV+ A GG+ TP + ++ G G+ V SG+F S +P +A+ +
Sbjct: 139 EELSDIARALSIPVI--AIGGI-TPENTRDVLAAGVSGIAVMSGIFSSANPYSKAKRYAE 195
Query: 271 AV 272
++
Sbjct: 196 SI 197
Score = 28.1 bits (63), Expect = 4.6
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 3/56 (5%)
Query: 42 VVTPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMA 97
V + E+A AE+ GA V+ P D + +G AR + + I +++IPV+A
Sbjct: 102 VHSLEEAIQAEKNGADYVVYGHVFPTDCK-KGVPAR--GLEELSDIARALSIPVIA 154
>gnl|CDD|234907 PRK01130, PRK01130, N-acetylmannosamine-6-phosphate 2-epimerase;
Provisional.
Length = 221
Score = 36.7 bits (86), Expect = 0.007
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 204 KNIAAP-YDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
K P + L+ + + PV+ A G + TP A ++LG V VG
Sbjct: 155 KKPEEPDFALLKELLKAVGCPVI--AEGRINTPEQAKKALELGAHAVVVGG 203
>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 = 36.7 bits (86), Expect = 0.008
Identities = 11/41 (26%), Positives = 21/41 (51%)
Query: 228 AAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAI 268
+ G++TP D + + G D V +G + ++ DP R +
Sbjct: 177 SESGISTPEDVKRLAEAGADAVLIGESLMRAPDPGAALREL 217
Score = 29.0 bits (66), Expect = 2.5
Identities = 29/112 (25%), Positives = 47/112 (41%), Gaps = 27/112 (24%)
Query: 11 GNGAIYETTKKSPFSVKVGLAQMLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIR 70
G G I E + SP +G + D E A+ E+AGA A+ L + +
Sbjct: 10 GLGVIAEVKRASPS----------KGLIREDFDPVEIAKAYEKAGAAAISVL----TEPK 55
Query: 71 AQGGVARMSDPQLIKQIKSSVTIPVMAKARIGHFV--EAQILEA--IGVDYV 118
G + ++ ++ +V++PV+ K F+ QI EA G D V
Sbjct: 56 YFQG-----SLEDLRAVREAVSLPVLRK----DFIIDPYQIYEARAAGADAV 98
>gnl|CDD|240075 cd04724, Tryptophan_synthase_alpha, Ttryptophan synthase (TRPS)
alpha subunit (TSA). TPRS is a bifunctional tetrameric
enzyme (2 alpha and 2 beta subunits) that catalyzes the
last two steps of L-tryptophan biosynthesis. Alpha and
beta subunit catalyze two distinct reactions which are
both strongly stimulated by the formation of the
complex. The alpha subunit catalyzes the cleavage of
indole 3-glycerol phosphate (IGP) to indole and
d-glyceraldehyde 3-phosphate (G3P). Indole is then
channeled to the active site of the beta subunit, a
PLP-dependent enzyme that catalyzes a replacement
reaction to convert L-serine into L-tryptophan.
Length = 242
Score = 36.7 bits (86), Expect = 0.009
Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 18/75 (24%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIV 269
+L+ + ++ LP+ A G G++TP AA + + DGV VGS A+V
Sbjct: 177 ELIKRIRKYTDLPI---AVGFGISTPEQAAEVAKY-ADGVIVGS-------------ALV 219
Query: 270 QAVTNYSDPDVLAEV 284
+ + + + L +
Sbjct: 220 KIIEEGGEEEALEAL 234
>gnl|CDD|240090 cd04739, DHOD_like, Dihydroorotate dehydrogenase (DHOD) like
proteins. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
This subgroup has the conserved FMN binding site, but
lacks some catalytic residues and may therefore be
inactive.
Length = 325
Score = 36.4 bits (85), Expect = 0.011
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 8/75 (10%)
Query: 48 ARIAEEAGACAV-MALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAK-----ARI 101
AR EEAGA A+ + + +P D G +++ +KS+VTIPV K + +
Sbjct: 118 ARQIEEAGADALELNIYALPTDPDISGAEVEQRYLDILRAVKSAVTIPVAVKLSPFFSAL 177
Query: 102 GHFVEAQILEAIGVD 116
H + L+A G D
Sbjct: 178 AHMAKQ--LDAAGAD 190
>gnl|CDD|223227 COG0149, TpiA, Triosephosphate isomerase [Carbohydrate transport
and metabolism].
Length = 251
Score = 36.1 bits (84), Expect = 0.016
Identities = 12/43 (27%), Positives = 17/43 (39%)
Query: 230 GGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAV 272
G V A + Q DG VG K+ D + A+ +A
Sbjct: 209 GSVKPGNAAELAAQPDIDGALVGGASLKADDFLAILEALAKAK 251
>gnl|CDD|216365 pfam01207, Dus, Dihydrouridine synthase (Dus). Members of this
family catalyze the reduction of the 5,6-double bond of
a uridine residue on tRNA. Dihydrouridine modification
of tRNA is widely observed in prokaryotes and
eukaryotes, and also in some archae. Most
dihydrouridines are found in the D loop of t-RNAs. The
role of dihydrouridine in tRNA is currently unknown, but
may increase conformational flexibility of the tRNA. It
is likely that different family members have different
substrate specificities, which may overlap. Dus 1 from
Saccharomyces cerevisiae acts on pre-tRNA-Phe, while Dus
2 acts on pre-tRNA-Tyr and pre-tRNA-Leu. Dus 1 is active
as a single subunit, requiring NADPH or NADH, and is
stimulated by the presence of FAD. Some family members
may be targeted to the mitochondria and even have a role
in mitochondria.
Length = 309
Score = 35.8 bits (83), Expect = 0.023
Identities = 29/76 (38%), Positives = 37/76 (48%), Gaps = 6/76 (7%)
Query: 44 TPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAKARIGH 103
E AR E+AGA A+ V RAQ +D IKQ+K +V+IPV+A I
Sbjct: 140 AVEIARRVEDAGAQALT----VHGRTRAQNYEGP-ADWDAIKQVKQAVSIPVIANGDITD 194
Query: 104 FVEAQ-ILEAIGVDYV 118
+AQ L G D V
Sbjct: 195 AEDAQRCLSYTGADGV 210
Score = 32.7 bits (75), Expect = 0.19
Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 205 NIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADA-AMMMQLGCDGVFVGSG 254
A +D + Q KQ + + A G + DA + G DGV +G G
Sbjct: 167 EGPADWDAIKQVKQ--AVSIPVIANGDITDAEDAQRCLSYTGADGVMIGRG 215
Score = 31.9 bits (73), Expect = 0.34
Identities = 25/86 (29%), Positives = 35/86 (40%), Gaps = 13/86 (15%)
Query: 46 EQARIAEEAGACAVMALERVPAD--IRAQGGVARMSDPQLIKQI----KSSVTIPVMAKA 99
E A++ + GA + PA R G A + DP L+ QI +V IPV K
Sbjct: 70 EAAKLVADLGADIIDINMGCPAKKVTRGGAGAALLRDPDLVAQIVKAVVKAVDIPVTVKI 129
Query: 100 RIG-------HFVEAQILEAIGVDYV 118
RIG A+ +E G +
Sbjct: 130 RIGWDESHENAVEIARRVEDAGAQAL 155
>gnl|CDD|237285 PRK13111, trpA, tryptophan synthase subunit alpha; Provisional.
Length = 258
Score = 35.1 bits (82), Expect = 0.027
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 20/75 (26%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIV 269
+LV + K LPV A G G++TP AA + DGV VGS A+V
Sbjct: 190 ELVARLKAHTDLPV---AVGFGISTPEQAAAIAA-VADGVIVGS-------------ALV 232
Query: 270 QAVTNYSDPDVLAEV 284
+ + +P+ L +
Sbjct: 233 KIIEE--NPEALEAL 245
>gnl|CDD|181670 PRK09140, PRK09140, 2-dehydro-3-deoxy-6-phosphogalactonate
aldolase; Reviewed.
Length = 206
Score = 33.6 bits (78), Expect = 0.084
Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 224 VVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPV----RRARAIVQA 271
V FA GGV TP + A + G G +GS +++ G RARA V A
Sbjct: 152 VPVFAVGGV-TPENLAPYLAAGAAGFGLGSALYRPGQSAEEVAERARAFVAA 202
>gnl|CDD|223212 COG0134, TrpC, Indole-3-glycerol phosphate synthase [Amino acid
transport and metabolism].
Length = 254
Score = 33.7 bits (78), Expect = 0.084
Identities = 11/41 (26%), Positives = 20/41 (48%)
Query: 230 GGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQ 270
G++TP D + + G D VG + ++ DP R ++
Sbjct: 214 SGISTPEDVRRLAKAGADAFLVGEALMRADDPEEALRELLT 254
Score = 29.9 bits (68), Expect = 1.5
Identities = 30/111 (27%), Positives = 42/111 (37%), Gaps = 25/111 (22%)
Query: 11 GNGAIYETTKKSPFSVKVGLAQMLRGGVI-MDVVTPEQARIAEEAGACAVMALERVPADI 69
I E K SP G+I D E A+ EE GA A+ L
Sbjct: 45 KPAVIAEVKKASP-----------SKGLIREDFDPVEIAKAYEEGGAAAISVLTDPK--- 90
Query: 70 RAQGGVARMSDPQLIKQIKSSVTIPVMAKARIGHFVEAQILEA--IGVDYV 118
QG + ++ ++++V +PV+ K I QI EA G D V
Sbjct: 91 YFQG------SFEDLRAVRAAVDLPVLRKDFI--IDPYQIYEARAAGADAV 133
>gnl|CDD|201134 pfam00290, Trp_syntA, Tryptophan synthase alpha chain.
Length = 258
Score = 33.4 bits (77), Expect = 0.100
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 210 YDLVMQTKQLGRLPV-VHFAAGGVATPADAAMMMQLGCDGVFVGS 253
+LV + K+ +PV V F G++TP + G DGV VGS
Sbjct: 186 DELVERLKKYTNVPVAVGF---GISTPEHVKKIA-AGADGVIVGS 226
>gnl|CDD|184165 PRK13585, PRK13585,
1-(5-phosphoribosyl)-5-[(5-
phosphoribosylamino)methylideneamino]
imidazole-4-carboxamide isomerase; Provisional.
Length = 241
Score = 33.0 bits (76), Expect = 0.13
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 222 LPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFK 257
+PV+ A+GGV T D + + G GV VGS ++K
Sbjct: 194 IPVI--ASGGVTTLDDLRALKEAGAAGVVVGSALYK 227
>gnl|CDD|235912 PRK07028, PRK07028, bifunctional hexulose-6-phosphate
synthase/ribonuclease regulator; Validated.
Length = 430
Score = 33.1 bits (76), Expect = 0.16
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 209 PYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAI 268
P +L+ + + +P+ AGG+ AA + G D V VG + KS D AR I
Sbjct: 150 PLELLKEVSEEVSIPIA--VAGGL-DAETAAKAVAAGADIVIVGGNIIKSADVTEAARKI 206
Query: 269 VQAV 272
+A+
Sbjct: 207 REAI 210
>gnl|CDD|215798 pfam00218, IGPS, Indole-3-glycerol phosphate synthase.
Length = 254
Score = 32.6 bits (75), Expect = 0.17
Identities = 30/107 (28%), Positives = 48/107 (44%), Gaps = 13/107 (12%)
Query: 14 AIYETTKKSPFSVKVGLAQMLRGGVIMDVVTPEQARIAEEAGACAVMALERVPADIRAQG 73
A+ E+ + +V A +G + D E AR+ E AGA A+ L QG
Sbjct: 40 ALRESRGRPALIAEVKKASPSKGLIREDFDPAEIARVYEAAGASAISVLTEPK---YFQG 96
Query: 74 GVARMSDPQLIKQIKSSVTIPVMAKARIGHFVEAQILEA--IGVDYV 118
+ +++++ +V++PV+ K I E QI EA G D V
Sbjct: 97 ------SLEYLREVREAVSLPVLRKDFI--IDEYQIYEARAYGADTV 135
Score = 27.2 bits (61), Expect = 9.7
Identities = 10/38 (26%), Positives = 19/38 (50%)
Query: 224 VVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDP 261
V+ A G++TP D + + G + VG + ++ D
Sbjct: 210 VLLVAESGISTPEDVEKLAKHGANAFLVGESLMRAPDV 247
>gnl|CDD|161792 TIGR00262, trpA, tryptophan synthase, alpha subunit. Tryptophan
synthase catalyzes the last step in the biosynthesis of
tryptophan. The alpha chain is responsible for the aldol
cleavage of indoleglycerol phosphate to indole and
glyceraldehyde 3-phosphate. In bacteria and plants each
domain is found on a separate subunit (alpha and beta
chains), while in fungi the two domains are fused
together on a single multifunctional protein. The
signature pattern for trpA contains three conserved
acidic residues
[LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-
[AGLI]-[DE]-G and this is located between residues 43-58
of the model. The Sulfolobus solfataricus trpA is known
to be quite divergent from other known trpA sequences
[Amino acid biosynthesis, Aromatic amino acid family].
Length = 256
Score = 32.7 bits (75), Expect = 0.17
Identities = 22/60 (36%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 201 TFAKNIAAP--YDLVMQTKQLGRLPV-VHFAAGGVATPADAAMMMQLGCDGVFVGSGVFK 257
T A+N AA +LV + K PV V F G++ P + G DGV VGS + K
Sbjct: 176 TGARNRAASALNELVKRLKAYSAKPVLVGF---GISKPEQVKQAIDAGADGVIVGSAIVK 232
>gnl|CDD|238223 cd00381, IMPDH, IMPDH: The catalytic domain of the inosine
monophosphate dehydrogenase. IMPDH catalyzes the
NAD-dependent oxidation of inosine 5'-monophosphate
(IMP) to xanthosine 5' monophosphate (XMP). It is a
rate-limiting step in the de novo synthesis of the
guanine nucleotides. There is often a CBS domain
inserted in the middle of this domain, which is proposed
to play a regulatory role. IMPDH is a key enzyme in the
regulation of cell proliferation and differentiation. It
has been identified as an attractive target for
developing chemotherapeutic agents.
Length = 325
Score = 32.5 bits (75), Expect = 0.23
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 3/38 (7%)
Query: 217 KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSG 254
K+ + V+ AG V T A ++ G DGV VG G
Sbjct: 131 KKYPNVDVI---AGNVVTAEAARDLIDAGADGVKVGIG 165
>gnl|CDD|239202 cd02808, GltS_FMN, Glutamate synthase (GltS) FMN-binding domain.
GltS is a complex iron-sulfur flavoprotein that
catalyzes the reductive synthesis of L-glutamate from
2-oxoglutarate and L-glutamine via intramolecular
channelling of ammonia, a reaction in the plant, yeast
and bacterial pathway for ammonia assimilation. It is a
multifunctional enzyme that functions through three
distinct active centers, carrying out L-glutamine
hydrolysis, conversion of 2-oxoglutarate into
L-glutamate, and electron uptake from an electron donor.
Length = 392
Score = 32.5 bits (75), Expect = 0.24
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 228 AAGGVATPADAAMMMQLGCDGVFVGSG 254
A+GG+ T AD A + LG D V +G+
Sbjct: 290 ASGGLRTGADVAKALALGADAVGIGTA 316
>gnl|CDD|224981 COG2070, COG2070, Dioxygenases related to 2-nitropropane
dioxygenase [General function prediction only].
Length = 336
Score = 32.3 bits (74), Expect = 0.25
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 222 LPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
+PV+ AAGG+A A + LG DGV +G+
Sbjct: 185 IPVI--AAGGIADGRGIAAALALGADGVQMGT 214
>gnl|CDD|239201 cd02803, OYE_like_FMN_family, Old yellow enzyme (OYE)-like FMN
binding domain. OYE was the first flavin-dependent
enzyme identified, however its true physiological role
remains elusive to this day. Each monomer of OYE
contains FMN as a non-covalently bound cofactor, uses
NADPH as a reducing agent with oxygens, quinones, and
alpha,beta-unsaturated aldehydes and ketones, and can
act as electron acceptors in the catalytic reaction.
Members of OYE family include trimethylamine
dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
reductase, pentaerythriol tetranitrate reductase,
xenobiotic reductase, and morphinone reductase.
Length = 327
Score = 32.2 bits (74), Expect = 0.27
Identities = 21/77 (27%), Positives = 29/77 (37%), Gaps = 8/77 (10%)
Query: 48 ARIAEEAGACAV-----MALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAKARIG 102
A+ EEAG A+ P + L ++IK +V IPV+A I
Sbjct: 234 AKALEEAGVDALHVSGGSYESPPPIIPPPYVPEGYFLE--LAEKIKKAVKIPVIAVGGIR 291
Query: 103 HFVEA-QILEAIGVDYV 118
A +IL D V
Sbjct: 292 DPEVAEEILAEGKADLV 308
>gnl|CDD|236991 PRK11815, PRK11815, tRNA-dihydrouridine synthase A; Provisional.
Length = 333
Score = 32.4 bits (75), Expect = 0.27
Identities = 30/97 (30%), Positives = 43/97 (44%), Gaps = 41/97 (42%)
Query: 48 ARIAEEAG--------ACAVMALERVPADIRAQGGVAR-----MSDPQL----IKQIKSS 90
A++AE+ G C P+D R Q G R M++P+L +K +K +
Sbjct: 83 AKLAEDWGYDEINLNVGC--------PSD-RVQNG--RFGACLMAEPELVADCVKAMKDA 131
Query: 91 VTIPVMAKARIG-----------HFVEAQILEAIGVD 116
V+IPV K RIG FV+ + EA G D
Sbjct: 132 VSIPVTVKHRIGIDDQDSYEFLCDFVD-TVAEA-GCD 166
>gnl|CDD|223245 COG0167, PyrD, Dihydroorotate dehydrogenase [Nucleotide transport
and metabolism].
Length = 310
Score = 32.2 bits (74), Expect = 0.29
Identities = 12/40 (30%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 220 GRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSG 259
G +P++ GG+ T DA + G V VG+ + G
Sbjct: 240 GDIPII--GVGGIETGEDALEFILAGASAVQVGTALIYKG 277
>gnl|CDD|132611 TIGR03572, WbuZ, glycosyl amidation-associated protein WbuZ. This
clade of sequences is highly similar to the HisF
protein, but generally represents the second HisF
homolog in the genome where the other is an authentic
HisF observed in the context of a complete histidine
biosynthesis operon. The similarity between these WbuZ
sequences and true HisFs is such that often the closest
match by BLAST of a WbuZ is a HisF. Only by making a
multiple sequence alignment is the homology relationship
among the WbuZ sequences made apparent. WbuZ genes are
invariably observed in the presence of a homolog of the
HisH protein (designated WbuY) and a proposed N-acetyl
sugar amidotransferase designated in WbuX in E. coli ,
IfnA in P. aeriginosa and PseA in C. jejuni. Similarly,
this trio of genes is invariably found in the context of
saccharide biosynthesis loci. It has been shown that the
WbuYZ homologs are not essential components of the
activity expressed by WbuX, leading to the proposal that
these to proteins provide ammonium ions to the
amidotransferase when these are in low concentration.
WbuY (like HisH) is proposed to act as a glutaminase to
release ammonium. In histidine biosynthesis this is also
dispensible in the presence of exogenous ammonium ion.
HisH and HisF form a complex such that the ammonium ion
is passed directly to HisF where it is used in an
amidation reaction causing a subsequent cleavage and
cyclization. In the case of WbuYZ, the ammonium ion
would be passed from WbuY to WbuZ. WbuZ, being
non-essential and so similar to HisF that a sugar
substrate is unlikely, would function instead as a
amoonium channel to the WbuX protein which does the
enzymatic work.
Length = 232
Score = 31.9 bits (73), Expect = 0.31
Identities = 29/82 (35%), Positives = 39/82 (47%), Gaps = 13/82 (15%)
Query: 40 MDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAKA 99
D V E AR AE+ GA ++ L + D +G D +LIK + +V+IPV+A
Sbjct: 153 RDPV--EWAREAEQLGAGEIL-LNSIDRDGTMKG-----YDLELIKTVSDAVSIPVIALG 204
Query: 100 RIG---HFVEAQILEAIGVDYV 118
G VE LEA G V
Sbjct: 205 GAGSLDDLVEV-ALEA-GASAV 224
>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 = 31.8 bits (73), Expect = 0.34
Identities = 20/66 (30%), Positives = 28/66 (42%), Gaps = 3/66 (4%)
Query: 203 AKNIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPV 262
A P D + + K+L + V AGG+ TP + G D V VG + + DP
Sbjct: 140 AAGGWWPEDDLKKVKKLLGVKVA--VAGGI-TPDTLPEFKKAGADIVIVGRAITGAADPA 196
Query: 263 RRARAI 268
AR
Sbjct: 197 EAAREF 202
>gnl|CDD|225110 COG2200, Rtn, c-di-GMP phosphodiesterase class I (EAL domain)
[Signal transduction mechanisms].
Length = 256
Score = 31.9 bits (73), Expect = 0.35
Identities = 17/60 (28%), Positives = 23/60 (38%), Gaps = 10/60 (16%)
Query: 190 VLRNMDDDEVFTFAKNIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGV 249
V D + I V +LG L VV A GV T ++ +LGCD +
Sbjct: 182 VRDLETDARDQAIVRAI------VALAHKLG-LTVV---AEGVETEEQLDLLRELGCDYL 231
>gnl|CDD|113257 pfam04481, DUF561, Protein of unknown function (DUF561). Protein
of unknown function found in a cyanobacterium, and the
chloroplasts of algae.
Length = 243
Score = 31.6 bits (72), Expect = 0.40
Identities = 45/224 (20%), Positives = 85/224 (37%), Gaps = 57/224 (25%)
Query: 79 SDPQLIKQIKSSVTIPVMAKARIGHFVEAQ-ILEAI--GVD---------------YVDE 120
+DPQL+K +KS IP+ A VE + + EA+ G D +
Sbjct: 48 ADPQLVKVVKSVSNIPICVSA-----VEPELLYEAVLAGADLVEIGNFDSFYKQGRVLSV 102
Query: 121 SEVLTPADEENHINKH---NFRVPFVCGCR---NLGESLRRIREGAAMIRTKGEAGTGNI 174
E++ E + H +P + + NL + L + G +I+T+G +I
Sbjct: 103 CEIIALVKETRKLLPHTPLCVTIPHILKLKEQINLAKQLESL--GIDLIQTEG--KITSI 158
Query: 175 VEAVRHVRSVMGDIRVLRNMDDDEVFTFAKNIAAPYDLVMQTKQLGRLPVVHFAAGGVAT 234
+ + +D + A +A+ Y++ +LPV+ A G+ +
Sbjct: 159 SKN---------------HCVNDLIEKSASTLASTYEISKHV----QLPVI--CASGL-S 196
Query: 235 PADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAI--VQAVTNYS 276
+ G G+ +GS V K D + I ++ + +
Sbjct: 197 DVTVPLAFSYGASGIGIGSAVSKLNDIEKMVNYISEIKKAISGT 240
>gnl|CDD|235973 PRK07226, PRK07226, fructose-bisphosphate aldolase; Provisional.
Length = 267
Score = 31.7 bits (73), Expect = 0.42
Identities = 22/64 (34%), Positives = 28/64 (43%), Gaps = 8/64 (12%)
Query: 222 LPVVHFAAGGVATPADAAMM------MQLGCDGVFVGSGVFKSGDPVRRARAIVQAVTNY 275
+PVV AGG T D + M+ G GV VG VF+ DP RAI V
Sbjct: 197 VPVV--IAGGPKTDTDREFLEMVRDAMEAGAAGVAVGRNVFQHEDPEAITRAISAVVHEG 254
Query: 276 SDPD 279
+ +
Sbjct: 255 ASVE 258
>gnl|CDD|240466 cd12886, SPRY_like, SPRY domain-like in bacteria. This family
contains SPRY-like domains that are found only in
bacterial and are mostly uncharacterized. SPRY domains,
first identified in the SP1A kinase of Dictyostelium and
rabbit Ryanodine receptor (hence the name), are
homologous to B30.2. SPRY domains have been identified
in at least 11 eukaryotic protein families, covering a
wide range of functions, including regulation of
cytokine signaling (SOCS), RNA metabolism (DDX1 and
hnRNP), immunity to retroviruses (TRIM5alpha),
intracellular calcium release (ryanodine receptors or
RyR) and regulatory and developmental processes (HERC1
and Ash2L).
Length = 128
Score = 30.5 bits (69), Expect = 0.44
Identities = 19/54 (35%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 227 FAAG---GVATPADAAMMMQLGCDGVFVGSGVFKSGD-PVRRARAIVQAVTNYS 276
F AG GVA DA + +GV+ GSG G P + AVT S
Sbjct: 65 FTAGDVIGVALDLDAGKI-WFYKNGVWQGSGSPAPGTNPAFAGTQVYPAVTGGS 117
>gnl|CDD|234723 PRK00311, panB, 3-methyl-2-oxobutanoate hydroxymethyltransferase;
Reviewed.
Length = 264
Score = 31.6 bits (73), Expect = 0.46
Identities = 18/50 (36%), Positives = 26/50 (52%), Gaps = 15/50 (30%)
Query: 46 EQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPV 95
E A+ EEAGA A++ LE VPA+ L K+I +++IP
Sbjct: 165 EDAKALEEAGAFALV-LECVPAE--------------LAKEITEALSIPT 199
>gnl|CDD|223347 COG0269, SgbH, 3-hexulose-6-phosphate synthase and related proteins
[Carbohydrate transport and metabolism].
Length = 217
Score = 31.1 bits (71), Expect = 0.48
Identities = 20/73 (27%), Positives = 31/73 (42%), Gaps = 1/73 (1%)
Query: 203 AKNIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPV 262
A + D + + K+L L AGG+ TP D + +G D V VG + + DP
Sbjct: 144 AAGKSWGEDDLEKIKKLSDLGAKVAVAGGI-TPEDIPLFKGIGADIVIVGRAITGAKDPA 202
Query: 263 RRARAIVQAVTNY 275
AR + +
Sbjct: 203 EAARKFKEEIDKI 215
>gnl|CDD|225555 COG3010, NanE, Putative N-acetylmannosamine-6-phosphate epimerase
[Carbohydrate transport and metabolism].
Length = 229
Score = 31.1 bits (71), Expect = 0.56
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 210 YDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGV 255
+ LV Q G V+ A G TP A +++G D V VGS +
Sbjct: 170 FQLVKQLSDAGC-RVI--AEGRYNTPEQAKKAIEIGADAVVVGSAI 212
>gnl|CDD|239204 cd02810, DHOD_DHPD_FMN, Dihydroorotate dehydrogenase (DHOD) and
Dihydropyrimidine dehydrogenase (DHPD) FMN-binding
domain. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
DHPD catalyzes the first step in pyrimidine degradation:
the NADPH-dependent reduction of uracil and thymine to
the corresponding 5,6-dihydropyrimidines. DHPD contains
two FAD, two FMN and eight [4Fe-4S] clusters, arranged
in two electron transfer chains that pass its
homodimeric interface twice. Two of the Fe-S clusters
show a hitherto unobserved coordination involving a
glutamine residue.
Length = 289
Score = 31.2 bits (71), Expect = 0.56
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 4/51 (7%)
Query: 220 GRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQ 270
+P++ GG+ + D M+ G V V + + G V R I +
Sbjct: 242 LDIPII--GVGGIDSGEDVLEMLMAGASAVQVATALMWDGPDV--IRKIKK 288
>gnl|CDD|234891 PRK01033, PRK01033, imidazole glycerol phosphate synthase subunit
HisF; Provisional.
Length = 258
Score = 31.1 bits (71), Expect = 0.63
Identities = 19/74 (25%), Positives = 35/74 (47%), Gaps = 11/74 (14%)
Query: 46 EQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMA---KARIG 102
E A+ E GA ++ L + D +G D +L+K ++++ IP++A +
Sbjct: 156 ELAKEYEALGAGEIL-LNSIDRDGTMKG-----YDLELLKSFRNALKIPLIALGGAGSLD 209
Query: 103 HFVEAQILEAIGVD 116
VEA + +G D
Sbjct: 210 DIVEA--ILNLGAD 221
>gnl|CDD|235274 PRK04302, PRK04302, triosephosphate isomerase; Provisional.
Length = 223
Score = 31.0 bits (71), Expect = 0.67
Identities = 16/47 (34%), Positives = 24/47 (51%)
Query: 227 FAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAVT 273
G++T D ++LG DGV + SGV K+ DP R +V +
Sbjct: 177 LCGAGISTGEDVKAALELGADGVLLASGVVKAKDPEAALRDLVSPLA 223
>gnl|CDD|223361 COG0284, PyrF, Orotidine-5'-phosphate decarboxylase [Nucleotide
transport and metabolism].
Length = 240
Score = 30.7 bits (70), Expect = 0.69
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 221 RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQA 271
G V TP +A ++ G D + VG + ++GDPV ARAI +
Sbjct: 186 GAGSQGGDQGRVMTPGEA---VRAGADYIVVGRPITQAGDPVAAARAIARE 233
>gnl|CDD|218318 pfam04898, Glu_syn_central, Glutamate synthase central domain. The
central domain of glutamate synthase connects the amino
terminal amidotransferase domain with the FMN-binding
domain and has an alpha / beta overall topology. This
domain appears to be a rudimentary form of the
FMN-binding TIM barrel according to SCOP.
Length = 288
Score = 31.0 bits (71), Expect = 0.74
Identities = 19/75 (25%), Positives = 36/75 (48%), Gaps = 18/75 (24%)
Query: 55 GACAV---MALERVPADIRAQGGVARMSDPQLIKQIKSSVT---IPVMAKARI------- 101
GA A+ +A E + D+ +G + +S + +K + ++ + +M+K I
Sbjct: 218 GASAINPYLAYETI-RDLHRRGLLKELSLEEAVKNYRKAIEKGLLKIMSKMGISTLQSYR 276
Query: 102 GHFVEAQILEAIGVD 116
G AQI EA+G+
Sbjct: 277 G----AQIFEAVGLS 287
>gnl|CDD|234710 PRK00278, trpC, indole-3-glycerol-phosphate synthase; Reviewed.
Length = 260
Score = 30.9 bits (71), Expect = 0.77
Identities = 13/41 (31%), Positives = 21/41 (51%)
Query: 231 GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQA 271
G+ TP D + + G D V VG + ++ DP R ++ A
Sbjct: 219 GIFTPEDLKRLAKAGADAVLVGESLMRADDPGAALRELLGA 259
>gnl|CDD|240086 cd04735, OYE_like_4_FMN, Old yellow enzyme (OYE)-related FMN
binding domain, group 4. Each monomer of OYE contains
FMN as a non-covalently bound cofactor, uses NADPH as a
reducing agent with oxygens, quinones, and
alpha,beta-unsaturated aldehydes and ketones, and can
act as electron acceptors in the catalytic reaction.
Other members of OYE family include trimethylamine
dehydrogenase, 2,4-dienoyl-CoA reductase, enoate
reductase, pentaerythriol tetranitrate reductase,
xenobiotic reductase, and morphinone reductase.
Length = 353
Score = 31.0 bits (71), Expect = 0.82
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 2/36 (5%)
Query: 220 GRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGV 255
GRLP++ A G + TP DA ++ G D V +G G+
Sbjct: 283 GRLPLI--AVGSINTPDDALEALETGADLVAIGRGL 316
>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 = 30.6 bits (70), Expect = 0.85
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 3/37 (8%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAI 268
TP DA ++ G D + VG + ++ DPV A AI
Sbjct: 183 GGTPEDA---IRAGADYIVVGRPITQAADPVAAAEAI 216
>gnl|CDD|232779 TIGR00007, TIGR00007, phosphoribosylformimino-5-aminoimidazole
carboxamide ribotide isomerase. This protein family
consists of HisA,
phosphoribosylformimino-5-aminoimidazole carboxamide
ribotide isomerase, the enzyme catalyzing the fourth
step in histidine biosynthesis. It is closely related to
the enzyme HisF for the sixth step. Examples of this
enzyme in Actinobacteria have been found to be
bifunctional, also possessing phosphoribosylanthranilate
isomerase activity ; the trusted cutoff here has now
been raised to 275.0 to exclude the bifunctional group,
now represented by model TIGR01919. HisA from
Lactococcus lactis was reported to be inactive
(MEDLINE:93322317) [Amino acid biosynthesis, Histidine
family].
Length = 230
Score = 30.2 bits (69), Expect = 0.94
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 216 TKQL-GRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
TK+L + V A+GGV++ D + +LG GV VG
Sbjct: 181 TKELVKAVNVPVIASGGVSSIDDLIALKKLGVYGVIVGK 219
>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 = 30.4 bits (69), Expect = 0.94
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 238 AAMMMQLGCDGVFVGSGVFKSGDPVRRARAI 268
+ G D + VG G++ + DPV A+ I
Sbjct: 183 LEDAKEAGADVIIVGRGIYAAEDPVEAAKRI 213
>gnl|CDD|188634 cd00945, Aldolase_Class_I, Class I aldolases. Class I aldolases.
The class I aldolases use an active-site lysine which
stabilizes a reaction intermediates via Schiff base
formation, and have TIM beta/alpha barrel fold. The
members of this family include
2-keto-3-deoxy-6-phosphogluconate (KDPG) and
2-keto-4-hydroxyglutarate (KHG) aldolases,
transaldolase, dihydrodipicolinate synthase sub-family,
Type I 3-dehydroquinate dehydratase, DeoC and DhnA
proteins, and metal-independent
fructose-1,6-bisphosphate aldolase. Although
structurally similar, the class II aldolases use a
different mechanism and are believed to have an
independent evolutionary origin.
Length = 201
Score = 30.0 bits (68), Expect = 1.1
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 220 GRLPVVHFAAGGVATPADAAMMMQLGCDGVFVG 252
GR+ V AAGG+ T DA ++ G DG+
Sbjct: 171 GRVGVK--AAGGIKTLEDALAAIEAGADGIGTS 201
>gnl|CDD|238923 cd01948, EAL, EAL domain. This domain is found in diverse bacterial
signaling proteins. It is called EAL after its conserved
residues and is also known as domain of unknown function
2 (DUF2). The EAL domain has been shown to stimulate
degradation of a second messenger, cyclic di-GMP, and is
a good candidate for a diguanylate phosphodiesterase
function. Together with the GGDEF domain, EAL might be
involved in regulating cell surface adhesiveness in
bacteria.
Length = 240
Score = 30.2 bits (69), Expect = 1.2
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 4/33 (12%)
Query: 217 KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGV 249
LG L VV A GV T ++ +LGCD V
Sbjct: 199 HSLG-LKVV---AEGVETEEQLELLRELGCDYV 227
>gnl|CDD|240082 cd04731, HisF, The cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). Imidazole glycerol phosphate synthase
(IGPS) catalyzes the fifth step of histidine
biosynthesis, the formation of the imidazole ring. IGPS
converts
N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-
carboxamide ribonucleotide (PRFAR) to imidazole glycerol
phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide)
ribonucleotide (AICAR). This conversion involves two
tightly coupled reactions in distinct active sites of
IGPS. The two catalytic domains can be fused, like in
fungi and plants, or peformed by a heterodimer
(HisH-glutaminase and HisF-cyclase), like in bacteria.
Length = 243
Score = 30.1 bits (69), Expect = 1.2
Identities = 29/80 (36%), Positives = 40/80 (50%), Gaps = 13/80 (16%)
Query: 40 MDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAKA 99
+D V E A+ EE GA ++ L + D +G D +LI+ + S+V IPV+A
Sbjct: 149 LDAV--EWAKEVEELGAGEIL-LTSMDRDGTKKG-----YDLELIRAVSSAVNIPVIASG 200
Query: 100 RIG---HFVEAQILEAIGVD 116
G HFVEA E G D
Sbjct: 201 GAGKPEHFVEA--FEEGGAD 218
Score = 29.0 bits (66), Expect = 3.2
Identities = 18/85 (21%), Positives = 35/85 (41%), Gaps = 8/85 (9%)
Query: 229 AGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRA------RAIVQAVTNYSDPDVLA 282
GG+ + DA +++ G D V + S ++ + +R + +V ++ D
Sbjct: 77 GGGIRSLEDARRLLRAGADKVSINSAAVENPELIREIAKRFGSQCVVVSIDAKRRGDGGY 136
Query: 283 EVSCGLGEAMVGIDLND--VKVERY 305
EV G G+D + +VE
Sbjct: 137 EVYTHGGRKPTGLDAVEWAKEVEEL 161
>gnl|CDD|215995 pfam00563, EAL, EAL domain. This domain is found in diverse
bacterial signaling proteins. It is called EAL after its
conserved residues. The EAL domain is a good candidate
for a diguanylate phosphodiesterase function. The domain
contains many conserved acidic residues that could
participate in metal binding and might form the
phosphodiesterase active site.
Length = 231
Score = 29.7 bits (67), Expect = 1.4
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 10/63 (15%)
Query: 187 DIRVLRNMDDDEVFTFAKNIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGC 246
D ++++ D E + + A + LG V A GV T ++ +LG
Sbjct: 171 DRSFIKDLSDPESRALLRALIA------LARSLGIKVV----AEGVETEEQLELLKELGI 220
Query: 247 DGV 249
D V
Sbjct: 221 DYV 223
>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 = 29.8 bits (68), Expect = 1.5
Identities = 9/39 (23%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 230 GGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAI 268
GG+ ++ + G D + GS +F S D + +
Sbjct: 173 GGI-NLETIPLLAEAGADVLVAGSALFGSDDYAEAIKEL 210
>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 = 29.5 bits (67), Expect = 1.6
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 217 KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAI 268
+P+V A GG+ T +AA ++ G DGV V S + ++ DP A+ +
Sbjct: 148 ATSIDIPIV--AIGGI-TLENAAEVLAAGADGVAVVSAIMQAADPKAAAKQL 196
>gnl|CDD|236782 PRK10871, nlpD, lipoprotein NlpD; Provisional.
Length = 319
Score = 29.8 bits (67), Expect = 1.6
Identities = 17/36 (47%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 205 NIAAPYDL-VMQTKQLGRLPVVHFAAGGVATPADAA 239
NI APY L V QT Q+G G T ADAA
Sbjct: 90 NIQAPYSLNVGQTLQVGNASGTPITGGNAITQADAA 125
>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 = 29.6 bits (67), Expect = 1.6
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 229 AGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAV 272
AGG+ +++LG D V VG + K+ DP AR I + +
Sbjct: 164 AGGI-NLDTIPDVIKLGPDIVIVGGAITKAADPAEAARQIRKLI 206
>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 = 29.4 bits (67), Expect = 1.7
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 211 DLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGV 255
+ + + +PVV A GG+ TP + +++ G DGV V S +
Sbjct: 139 EGLRAIAEAVNIPVV--AIGGI-TPENVPEVLEAGADGVAVVSAI 180
>gnl|CDD|224329 COG1411, COG1411, Uncharacterized protein related to proFAR
isomerase (HisA) [General function prediction only].
Length = 229
Score = 29.8 bits (67), Expect = 1.7
Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 209 PYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARA 267
Y+L+ + +L PV+ GGV D +++ +G GV V + + + P+ +A
Sbjct: 169 DYELLTKVLELSEHPVL--LGGGVGGMEDLELLLGMGVSGVLVATALHEGVVPLEVEQA 225
>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 = 29.4 bits (67), Expect = 1.8
Identities = 17/39 (43%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 230 GGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAI 268
G VATPA A G D + VG + ++ DPV A AI
Sbjct: 177 GRVATPAVAI---GAGADIIVVGRPITQAADPVEAAEAI 212
>gnl|CDD|240074 cd04723, HisA_HisF, Phosphoribosylformimino-5-aminoimidazole
carboxamide ribonucleotide (ProFAR) isomerase (HisA) and
the cyclase subunit of imidazoleglycerol phosphate
synthase (HisF). The ProFAR isomerase catalyzes the
fourth step in histidine biosynthesis, an isomerisation
of the aminoaldose moiety of ProFAR to the aminoketose
of PRFAR
(N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-
phospho-ribosyl)-4-imidazolecarboxamide). In bacteria
and archaea, ProFAR isomerase is encoded by the HisA
gene. The Imidazole glycerol phosphate synthase (IGPS)
catalyzes the fifth step of histidine biosynthesis, the
formation of the imidazole ring. IGPS converts
N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-
carboxamide ribonucleotide (PRFAR) to imidazole glycerol
phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide)
ribonucleotide (AICAR). This conversion involves two
tightly coupled reactions in distinct active sites of
IGPS. The two catalytic domains can be fused, like in
fungi and plants, or peformed by a heterodimer
(HisH-glutaminase and HisF-cyclase), like in bacteria.
Length = 233
Score = 29.5 bits (67), Expect = 2.0
Identities = 12/40 (30%), Positives = 18/40 (45%)
Query: 228 AAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARA 267
AAGGV + D ++ +LG G V S + G +
Sbjct: 194 AAGGVRSVEDLELLKKLGASGALVASALHDGGLTLEDVVR 233
>gnl|CDD|129825 TIGR00742, yjbN, tRNA dihydrouridine synthase A. This model
represents one branch of COG0042 (Predicted TIM-barrel
enzymes, possibly dehydrogenases, nifR3 family). It
represents a distinct subset by a set of shared unique
motifs, a conserved pattern of insertions/deletions
relative to other nifR3 homologs, and by subclustering
based on cross-genome bidirectional best hits. Members
are found in species as diverse as the proteobacteria, a
spirochete, a cyanobacterium, and Deinococcus
radiodurans. NifR3 itself, a protein of unknown function
associated with nitrogen regulation in Rhodobacter
capsulatus, is not a member of this branch. Members of
this family show a distant relationship to alpha/beta
(TIM) barrel enzymes such as dihydroorotate
dehydrogenase and glycolate oxidase [Protein synthesis,
tRNA and rRNA base modification].
Length = 318
Score = 29.4 bits (66), Expect = 2.2
Identities = 21/64 (32%), Positives = 31/64 (48%), Gaps = 8/64 (12%)
Query: 46 EQARIAEEAGACAVMALERVPADIRAQG---GVARMSDPQLI----KQIKSSVTIPVMAK 98
+ A+IAE+ G + P+D R Q G M + L+ K ++ +V IPV K
Sbjct: 71 KCAKIAEKRGYDEINLNVGCPSD-RVQNGNFGACLMGNADLVADCVKAMQEAVNIPVTVK 129
Query: 99 ARIG 102
RIG
Sbjct: 130 HRIG 133
>gnl|CDD|119340 cd00377, ICL_PEPM, Members of the ICL/PEPM enzyme family catalyze
either P-C or C-C bond formation/cleavage. Known
members are phosphoenolpyruvate mutase (PEPM),
phosphonopyruvate hydrolase (PPH), carboxyPEP mutase
(CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate
lyase (ICL), and 2-methylisocitrate lyase (MICL).
Isocitrate lyase (ICL) catalyzes the conversion of
isocitrate to succinate and glyoxylate, the first
committed step in the glyoxylate pathway. This
carbon-conserving pathway is present in most
prokaryotes, lower eukaryotes and plants, but has not
been observed in vertebrates. PEP mutase (PEPM) turns
phosphoenolpyruvate (PEP) into phosphonopyruvate
(P-pyr), an important intermediate in the formation of
organophosphonates, which function as antibiotics or
play a role in pathogenesis or signaling. P-pyr can be
hydrolyzed by phosphonopyruvate hydrolase (PPH) to from
pyruvate and phosphate. Oxaloacetate acetylhydrolase
(OAH) catalyzes the hydrolytic cleavage of oxaloacetate
to form acetate and oxalate, an important pathway to
produce oxalate in filamentous fungi.
2-methylisocitrate lyase (MICL) cleaves
2-methylisocitrate to pyruvate and succinate, part of
the methylcitrate cycle for the alpha-oxidation of
propionate.
Length = 243
Score = 29.4 bits (67), Expect = 2.2
Identities = 20/78 (25%), Positives = 34/78 (43%), Gaps = 14/78 (17%)
Query: 30 LAQMLRGG---VIMDVVTPEQARIAEEAGACAV------MALERVPADIRAQGGVARMSD 80
L +L G V+ AR+AE AG A+ +A D GG+ + +
Sbjct: 1 LRALLESGGPLVLPGAWDALSARLAERAGFKAIYTSGAGVAASLGLPD----GGLLTLDE 56
Query: 81 -PQLIKQIKSSVTIPVMA 97
+++I +V +PV+A
Sbjct: 57 VLAAVRRIARAVDLPVIA 74
>gnl|CDD|235465 PRK05437, PRK05437, isopentenyl pyrophosphate isomerase;
Provisional.
Length = 352
Score = 29.4 bits (67), Expect = 2.4
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 4/39 (10%)
Query: 84 IKQIKSSVTIPVMAKARIGH---FVEAQILEAIGVDYVD 119
I +I S++ +PV+ K +G A+ L GV +D
Sbjct: 178 IAEIVSALPVPVIVKE-VGFGISKETAKRLADAGVKAID 215
>gnl|CDD|185008 PRK15048, PRK15048, methyl-accepting chemotaxis protein II;
Provisional.
Length = 553
Score = 29.6 bits (66), Expect = 2.5
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 151 ESLRRIREGAAMIRTKGEAGTGNIVEAVRHVRSVMGDI 188
+S+ R+ G+ ++ + GE NIV AV V +MG+I
Sbjct: 421 DSVSRVDTGSVLVESAGETMN-NIVNAVTRVTDIMGEI 457
>gnl|CDD|233564 TIGR01768, GGGP-family, geranylgeranylglyceryl phosphate synthase
family protein. This model represents a family of
sequences including geranylgeranylglyceryl phosphate
synthase which catalyzes the first committed step in the
synthesis of ether-linked membrane lipids in archaea.
The clade of bacterial sequences may have the same
function or a closely related function. This model
supercedes TIGR00265, which has been retired.
Length = 223
Score = 29.0 bits (65), Expect = 2.7
Identities = 9/37 (24%), Positives = 16/37 (43%)
Query: 227 FAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVR 263
F GG+ + A M + G D + G+ + + D
Sbjct: 183 FVGGGIRSVEKAREMAEAGADTIVTGNVIEEDVDKAL 219
>gnl|CDD|110632 pfam01645, Glu_synthase, Conserved region in glutamate synthase.
This family represents a region of the glutamate
synthase protein. This region is expressed as a separate
subunit in the glutamate synthase alpha subunit from
archaebacteria, or part of a large multidomain enzyme in
other organisms. The aligned region of these proteins
contains a putative FMN binding site and Fe-S cluster.
Length = 367
Score = 29.2 bits (66), Expect = 2.8
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 224 VVHFAAGGVATPADAAMMMQLGCDGVFVGSG 254
V A GG+ T AD A LG D V++G+
Sbjct: 274 VSLIADGGLRTGADVAKAAALGADAVYIGTA 304
>gnl|CDD|217344 pfam03060, NMO, Nitronate monooxygenase. Nitronate monooxygenase
(NMO), formerly referred to as 2-nitropropane
dioxygenase (NPD) (EC:1.13.11.32), is an FMN-dependent
enzyme that uses molecular oxygen to oxidize (anionic)
alkyl nitronates and, in the case of the enzyme from
Neurospora crassa, (neutral) nitroalkanes to the
corresponding carbonyl compounds and nitrite. Previously
classified as 2-nitropropane dioxygenase, but it is now
recognized that this was the result of the slow
ionization of nitroalkanes to their nitronate (anionic)
forms. The enzymes from the fungus Neurospora crassa and
the yeast Williopsis saturnus var. mrakii (formerly
classified as Hansenula mrakii) contain non-covalently
bound FMN as the cofactor. Active towards linear alkyl
nitronates of lengths between 2 and 6 carbon atoms and,
with lower activity, towards propyl-2-nitronate. The
enzyme from N. crassa can also utilize neutral
nitroalkanes, but with lower activity. One atom of
oxygen is incorporated into the carbonyl group of the
aldehyde product. The reaction appears to involve the
formation of an enzyme-bound nitronate radical and an
a-peroxynitroethane species, which then decomposes,
either in the active site of the enzyme or after
release, to acetaldehyde and nitrite.
Length = 329
Score = 29.3 bits (66), Expect = 2.8
Identities = 28/89 (31%), Positives = 38/89 (42%), Gaps = 21/89 (23%)
Query: 38 VIMDVVTPEQARIAEEAGACAVMALERVPADIRAQGGVA--------RMSDPQLIKQIKS 89
VI V + ++AR AE AGA AV+ AQG A ++ L+ +
Sbjct: 140 VIPTVSSAKEARKAEAAGADAVV----------AQGPEAGGHIGTFVGVTTFLLVPTVVD 189
Query: 90 SVTIPVMAKARIG---HFVEAQILEAIGV 115
+V IPV+A I A L A GV
Sbjct: 190 AVDIPVIAAGGIADGRGIAAALALGAEGV 218
>gnl|CDD|240083 cd04732, HisA, HisA. Phosphoribosylformimino-5-aminoimidazole
carboxamide ribonucleotide (ProFAR) isomerase catalyzes
the fourth step in histidine biosynthesis, an
isomerisation of the aminoaldose moiety of ProFAR to the
aminoketose of PRFAR
(N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-
phospho-ribosyl)-4-imidazolecarboxamide). In bacteria
and archaea, ProFAR isomerase is encoded by the HisA
gene.
Length = 234
Score = 28.6 bits (65), Expect = 3.2
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 221 RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
+PV+ A+GGV++ D + +LG GV VG
Sbjct: 190 GIPVI--ASGGVSSLDDIKALKELGVAGVIVGK 220
>gnl|CDD|119342 cd06557, KPHMT-like, Ketopantoate hydroxymethyltransferase (KPHMT)
is the first enzyme in the pantothenate biosynthesis
pathway. Ketopantoate hydroxymethyltransferase (KPHMT)
catalyzes the first committed step in the biosynthesis
of pantothenate (vitamin B5), which is a precursor to
coenzyme A and is required for penicillin biosynthesis.
Length = 254
Score = 28.9 bits (66), Expect = 3.3
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 15/50 (30%)
Query: 46 EQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPV 95
E A EEAGA A++ LE VPA+ L K+I +++IP
Sbjct: 162 EDALALEEAGAFALV-LECVPAE--------------LAKEITEALSIPT 196
>gnl|CDD|240093 cd04742, NPD_FabD, 2-Nitropropane dioxygenase (NPD)-like domain,
associated with the (acyl-carrier-protein)
S-malonyltransferase FabD. NPD is part of the
nitroalkaneoxidizing enzyme family, that catalyzes
oxidative denitrification of nitroalkanes to their
corresponding carbonyl compounds and nitrites. NDPs are
members of the NAD(P)H-dependent flavin oxidoreductase
family that reduce a range of alternative electron
acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as
electron donor. Some contain 4Fe-4S cluster to transfer
electron from FAD to FMN.
Length = 418
Score = 29.1 bits (66), Expect = 3.3
Identities = 13/26 (50%), Positives = 15/26 (57%)
Query: 228 AAGGVATPADAAMMMQLGCDGVFVGS 253
AAGG+ TP AA LG D + GS
Sbjct: 224 AAGGIGTPEAAAAAFALGADFIVTGS 249
>gnl|CDD|178988 PRK00364, groES, co-chaperonin GroES; Reviewed.
Length = 95
Score = 27.4 bits (62), Expect = 3.3
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 3 DTGVVTVYGNGAIYETTKKSPFSVKVG 29
G V G G + ++ P VKVG
Sbjct: 36 QEGEVVAVGPGRRLDNGERVPLDVKVG 62
>gnl|CDD|129513 TIGR00419, tim, triosephosphate isomerase. Triosephosphate
isomerase (tim/TPIA) is the glycolytic enzyme that
catalyzes the reversible interconversion of
glyceraldehyde 3-phosphate and dihydroxyacetone
phosphate. The active site of the enzyme is located
between residues 240-258 of the model
([AV]-Y-E-P-[LIVM]-W-[SA]-I-G-T-[GK]) with E being the
active site residue. There is a slight deviation from
this sequence within the archeal members of this family
[Energy metabolism, Glycolysis/gluconeogenesis].
Length = 205
Score = 28.6 bits (64), Expect = 3.5
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 230 GGVATPADAAMMMQLGCDGVFVGSGVFKS 258
G++T DA + QLG +GV + SG K+
Sbjct: 176 AGISTGEDAELAAQLGAEGVLLASGSLKA 204
>gnl|CDD|166620 PLN02979, PLN02979, glycolate oxidase.
Length = 366
Score = 28.5 bits (63), Expect = 4.2
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 206 IAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGV 255
I+A ++V T+ GR+PV F GGV D + LG G+F+G V
Sbjct: 265 ISALEEVVKATQ--GRIPV--FLDGGVRRGTDVFKALALGASGIFIGRPV 310
>gnl|CDD|215273 PLN02495, PLN02495, oxidoreductase, acting on the CH-CH group of
donors.
Length = 385
Score = 28.7 bits (64), Expect = 4.2
Identities = 16/33 (48%), Positives = 19/33 (57%)
Query: 230 GGVATPADAAMMMQLGCDGVFVGSGVFKSGDPV 262
GGV T DAA + LG D V V +GV G P+
Sbjct: 277 GGVETGGDAAEFILLGADTVQVCTGVMMHGYPL 309
>gnl|CDD|234695 PRK00230, PRK00230, orotidine 5'-phosphate decarboxylase; Reviewed.
Length = 230
Score = 28.2 bits (64), Expect = 4.6
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQ 270
V TPA A + G D + VG + ++ DP AI+
Sbjct: 190 VMTPAQA---IAAGSDYIVVGRPITQAADPAAAYEAILA 225
>gnl|CDD|223312 COG0234, GroS, Co-chaperonin GroES (HSP10) [Posttranslational
modification, protein turnover, chaperones].
Length = 96
Score = 26.8 bits (60), Expect = 4.9
Identities = 10/27 (37%), Positives = 11/27 (40%)
Query: 3 DTGVVTVYGNGAIYETTKKSPFSVKVG 29
G V G G E + P VKVG
Sbjct: 36 QEGEVVAVGPGRRDENGELVPLDVKVG 62
>gnl|CDD|239205 cd02811, IDI-2_FMN, Isopentenyl-diphosphate:dimethylallyl
diphosphate isomerase type 2 (IDI-2) FMN-binding domain.
Two types of IDIs have been characterized at present.
The long known IDI-1 is only dependent on divalent
metals for activity, whereas IDI-2 requires a metal, FMN
and NADPH. IDI-2 catalyzes the interconversion of
isopentenyl diphosphate (IPP) and dimethylallyl
diphosphate (DMAPP) in the mevalonate pathway.
Length = 326
Score = 28.2 bits (64), Expect = 5.4
Identities = 10/39 (25%), Positives = 20/39 (51%), Gaps = 4/39 (10%)
Query: 84 IKQIKSSVTIPVMAK---ARIGHFVEAQILEAIGVDYVD 119
I+++ ++++PV+ K I A+ L GV +D
Sbjct: 170 IEELVKALSVPVIVKEVGFGISRET-AKRLADAGVKAID 207
>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 = 28.0 bits (63), Expect = 5.4
Identities = 18/39 (46%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 230 GGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAI 268
V TPA A + G D + VG G+ +GDPV ARAI
Sbjct: 182 QRVTTPAVA---KEAGADIIIVGRGITGAGDPVAAARAI 217
>gnl|CDD|239203 cd02809, alpha_hydroxyacid_oxid_FMN, Family of homologous
FMN-dependent alpha-hydroxyacid oxidizing enzymes. This
family occurs in both prokaryotes and eukaryotes.
Members of this family include flavocytochrome b2
(FCB2), glycolate oxidase (GOX), lactate monooxygenase
(LMO), mandelate dehydrogenase (MDH), and long chain
hydroxyacid oxidase (LCHAO). In green plants, glycolate
oxidase is one of the key enzymes in photorespiration
where it oxidizes glycolate to glyoxylate. LMO catalyzes
the oxidation of L-lactate to acetate and carbon
dioxide. MDH oxidizes (S)-mandelate to phenylglyoxalate.
It is an enzyme in the mandelate pathway that occurs in
several strains of Pseudomonas which converts
(R)-mandelate to benzoate.
Length = 299
Score = 28.2 bits (64), Expect = 5.4
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 231 GVATPADAAMMMQLGCDGVFV 251
G+ TP DA + G DG+ V
Sbjct: 179 GILTPEDALRAVDAGADGIVV 199
>gnl|CDD|233750 TIGR02151, IPP_isom_2, isopentenyl-diphosphate delta-isomerase,
type 2. Isopentenyl-diphosphate delta-isomerase (IPP
isomerase) interconverts isopentenyl diphosphate and
dimethylallyl diphosphate. This model represents the
type 2 enzyme. FMN, NADPH, and Mg2+ are required by this
form, which lacks homology to the type 1 enzyme
(TIGR02150). IPP is precursor to many compounds,
including enzyme cofactors, sterols, and isoprenoids
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 333
Score = 28.0 bits (63), Expect = 6.5
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 84 IKQIKSSVTIPVMAKARIGHFVEAQI---LEAIGVDYVD 119
I +I S +++PV+ K +G + ++ L GV +D
Sbjct: 171 IAEICSQLSVPVIVK-EVGFGISKEVAKLLADAGVSAID 208
>gnl|CDD|224560 COG1646, COG1646, Predicted phosphate-binding enzymes, TIM-barrel
fold [General function prediction only].
Length = 240
Score = 27.6 bits (62), Expect = 6.6
Identities = 12/46 (26%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 227 FAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAV 272
GG+ +P A M + G D + G+ + + D +A V+A+
Sbjct: 195 IVGGGIRSPEQAREMAEAGADTIVTGTIIEEDPD---KALETVEAI 237
>gnl|CDD|166134 PLN02493, PLN02493, probable peroxisomal (S)-2-hydroxy-acid
oxidase.
Length = 367
Score = 28.2 bits (62), Expect = 6.6
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 206 IAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGV 255
I+A ++V T+ GR+PV F GGV D + LG G+F+G V
Sbjct: 266 ISALEEVVKATQ--GRIPV--FLDGGVRRGTDVFKALALGASGIFIGRPV 311
>gnl|CDD|233651 TIGR01949, AroFGH_arch, predicted
phospho-2-dehydro-3-deoxyheptonate aldolase. This model
represents a clade of sequences related to
fructose-bisphosphate aldolase (class I, included within
pfam01791). The members of this clade appear to be
phospho-2-dehydro-3-deoxyheptonate aldolases. This
enzyme is the first step of the chorismate biosynthesis
pathway. Evidence for this assignment is based on gene
clustering and phylogenetic profiling. A group of
species lack members of the three other types of
phospho-2-dehydro-3-deoxyheptonate aldolase (represented
by TIGR00034, TIGR01358 and TIGR01361), and also
aparrently lack the well-known forms of step 2
(3-dehydroquinate synthase), but contain all other steps
of the pathway: Desulfovibrio, Aquifex, Archaeoglobus,
Halobacterium, Methanopyrus, Methanococcus and
Methanobacterium. The clade of sequences represented
here is limited strictly to this group of organisms. In
Desulfovibrio, Aquifex, Archaeoglobus, Halobacterium and
Methanosarcina the genes found by this model are
clustered with other genes from the chorismate,
phenylalanine, tyrosine and tryptophan biosynthesis
pathways. In addition, these genes in Desulfovibrio,
Archaeoglobus, Halobacterium, Methanosarcina and
Methanopyrus are adjacent to a gene which hits pfam01959
which also has the property of having members only in
those species which lack steps 1 and 2. Together these
two genes appear to perform the synthesis of
3-dehydroquinate. It is presumed that the substrates and
the chemical transformations involved are identical, but
this has not yet been proven experimentally.
Length = 258
Score = 27.9 bits (62), Expect = 6.9
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 242 MQLGCDGVFVGSGVFKSGDPVRRARAIVQAVTNYSDPD 279
M+ G GV VG +F+ DPV +A+ + V +D +
Sbjct: 217 MEAGAAGVAVGRNIFQHDDPVGITKAVCKIVHENADVE 254
>gnl|CDD|178201 PLN02591, PLN02591, tryptophan synthase.
Length = 250
Score = 27.7 bits (62), Expect = 7.2
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 212 LVMQTKQLGRLPV-VHFAAGGVATPADAAMMMQLGCDGVFVGSGVFK 257
L+ + K++ PV V F G++ P A + G DGV VGS + K
Sbjct: 180 LLQELKEVTDKPVAVGF---GISKPEHAKQIAGWGADGVIVGSAMVK 223
>gnl|CDD|205939 pfam13766, ECH_C, 2-enoyl-CoA Hydratase C-terminal region. This
is the C-terminal region of enoyl-CoA hydratase.
Length = 117
Score = 26.7 bits (60), Expect = 7.2
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 20 KKSPFSVKVGLAQMLRG 36
SP S+KV L Q+ RG
Sbjct: 41 SGSPLSLKVTLEQLRRG 57
>gnl|CDD|236318 PRK08639, PRK08639, threonine dehydratase; Validated.
Length = 420
Score = 27.8 bits (63), Expect = 7.3
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 46 EQARIAEEAGACAVMALERVPADIR 70
++ +AE AGA ++ ALE +I+
Sbjct: 280 KEGIVAEPAGALSIAALELYKDEIK 304
>gnl|CDD|237520 PRK13813, PRK13813, orotidine 5'-phosphate decarboxylase;
Provisional.
Length = 215
Score = 27.6 bits (62), Expect = 7.4
Identities = 16/43 (37%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 228 AAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQ 270
A GG ADA G D V VG ++ + DP A+AI +
Sbjct: 173 AQGG--KAADAIKA---GADYVIVGRSIYNAADPREAAKAINE 210
>gnl|CDD|233350 TIGR01302, IMP_dehydrog, inosine-5'-monophosphate dehydrogenase.
This model describes IMP dehydrogenase, an enzyme of GMP
biosynthesis. This form contains two CBS domains. This
model describes a rather tightly conserved cluster of
IMP dehydrogenase sequences, many of which are
characterized. The model excludes two related families
of proteins proposed also to be IMP dehydrogenases, but
without characterized members. These are related
families are the subject of separate models [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 450
Score = 28.1 bits (63), Expect = 7.4
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 223 PVVHFAAGGVATPADAAMMMQLGCDGVFVGSG 254
P + AG VAT A ++ G DG+ VG G
Sbjct: 264 PDLDIIAGNVATAEQAKALIDAGADGLRVGIG 295
>gnl|CDD|216281 pfam01070, FMN_dh, FMN-dependent dehydrogenase.
Length = 302
Score = 27.8 bits (63), Expect = 7.5
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 231 GVATPADAAMMMQLGCDGVFV 251
G+ +P DA ++ G DG+ V
Sbjct: 177 GILSPEDAKRAVEAGVDGIVV 197
>gnl|CDD|197951 smart00883, Cpn10, Chaperonin 10 Kd subunit. The chaperonins are
'helper' molecules required for correct folding and
subsequent assembly of some proteins. These are
required for normal cell growth, and are
stress-induced, acting to stabilise or protect
disassembled polypeptides under heat-shock conditions.
Type I chaperonins present in eubacteria, mitochondria
and chloroplasts require the concerted action of 2
proteins, chaperonin 60 (cpn60) and chaperonin 10
(cpn10). The 10 kDa chaperonin (cpn10 - or groES in
bacteria) exists as a ring-shaped oligomer of between
six to eight identical subunits, while the 60 kDa
chaperonin (cpn60 - or groEL in bacteria) forms a
structure comprising 2 stacked rings, each ring
containing 7 identical subunits. These ring structures
assemble by self-stimulation in the presence of
Mg2+-ATP. The central cavity of the cylindrical cpn60
tetradecamer provides as isolated environment for
protein folding whilst cpn-10 binds to cpn-60 and
synchronizes the release of the folded protein in an
Mg2+-ATP dependent manner. The binding of cpn10 to
cpn60 inhibits the weak ATPase activity of cpn60.
Length = 93
Score = 26.2 bits (59), Expect = 7.5
Identities = 10/26 (38%), Positives = 12/26 (46%)
Query: 4 TGVVTVYGNGAIYETTKKSPFSVKVG 29
G V G G E ++ P VKVG
Sbjct: 36 EGEVVAVGPGKRLENGERVPLDVKVG 61
>gnl|CDD|178226 PLN02617, PLN02617, imidazole glycerol phosphate synthase hisHF.
Length = 538
Score = 28.1 bits (63), Expect = 7.7
Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 9/64 (14%)
Query: 46 EQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPVMAKARIG--- 102
E A+ EE GA ++ L + D + +G D +L+K + +VTIPV+A + G
Sbjct: 442 ELAKAVEELGAGEIL-LNCIDCDGQGKG-----FDIELVKLVSDAVTIPVIASSGAGTPE 495
Query: 103 HFVE 106
HF +
Sbjct: 496 HFSD 499
>gnl|CDD|232930 TIGR00342, TIGR00342, tRNA sulfurtransferase ThiI. Members of this
protein family are "ThiI", a sulfurtransferase involved
in 4-thiouridine modification of tRNA. This protein
often is bifunctional, with genetically separable
activities, where the C-terminal rhodanese-like domain
(residues 385 to 482 in E. coli ThiI), a domain not
included in this model, is sufficient to synthesize the
thiazole moiety of thiamine (see TIGR04271). Note that
ThiI, because of its role in tRNA modification, may
occur in species (such as Mycoplasma genitalium) that
lack de novo thiamine biosynthesis [Biosynthesis of
cofactors, prosthetic groups, and carriers, Thiamine,
Protein synthesis, tRNA and rRNA base modification].
Length = 371
Score = 27.8 bits (62), Expect = 8.0
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 224 VVHFAAGGVATPADAAMMMQLGCDGVFV 251
V+ +GG+ +P A MMM+ GC V V
Sbjct: 175 VLALLSGGIDSPVAAFMMMKRGCRVVAV 202
>gnl|CDD|183799 PRK12862, PRK12862, malic enzyme; Reviewed.
Length = 763
Score = 27.9 bits (63), Expect = 8.3
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 274 NYSDPDVLAEVSCGLGEAMVGIDLNDVK 301
+ SDPD L E+ L GI+L D+K
Sbjct: 118 DESDPDKLVEIVAALEPTFGGINLEDIK 145
>gnl|CDD|202027 pfam01884, PcrB, PcrB family. This family contains proteins that
are related to PcrB. The function of these proteins is
unknown.
Length = 231
Score = 27.5 bits (61), Expect = 8.4
Identities = 11/45 (24%), Positives = 20/45 (44%)
Query: 227 FAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQA 271
GG+ + A M + G D + G+ + + G R AI++
Sbjct: 186 IVGGGIKSGEKAKEMARAGADVIVTGNVIEEKGKVERAIDAILET 230
>gnl|CDD|240092 cd04741, DHOD_1A_like, Dihydroorotate dehydrogenase (DHOD) class 1A
FMN-binding domain. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
Length = 294
Score = 27.3 bits (61), Expect = 9.4
Identities = 17/75 (22%), Positives = 22/75 (29%), Gaps = 20/75 (26%)
Query: 220 GRLP--VVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVRRARAIVQAVTNYSD 277
LP + GGV A M G V VG+ + K G
Sbjct: 238 RLLPSEIQIIGVGGVLDGRGAFRMRLAGASAVQVGTALGKEG------------------ 279
Query: 278 PDVLAEVSCGLGEAM 292
P V A + L +
Sbjct: 280 PKVFARIEKELEDIW 294
>gnl|CDD|223490 COG0413, PanB, Ketopantoate hydroxymethyltransferase [Coenzyme
metabolism].
Length = 268
Score = 27.5 bits (62), Expect = 9.6
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 15/50 (30%)
Query: 46 EQARIAEEAGACAVMALERVPADIRAQGGVARMSDPQLIKQIKSSVTIPV 95
E A+ EEAGA A++ LE VPA+ L K+I ++IP
Sbjct: 165 EDAKALEEAGAFALV-LECVPAE--------------LAKEITEKLSIPT 199
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
0.320 0.135 0.386
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: 16,453,229
Number of extensions: 1673597
Number of successful extensions: 2259
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2229
Number of HSP's successfully gapped: 211
Length of query: 310
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 213
Effective length of database: 6,635,264
Effective search space: 1413311232
Effective search space used: 1413311232
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.4 bits)