RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 046037
(388 letters)
>gnl|CDD|178172 PLN02557, PLN02557, phosphoribosylformylglycinamidine cyclo-ligase.
Length = 379
Score = 651 bits (1680), Expect = 0.0
Identities = 287/359 (79%), Positives = 305/359 (84%), Gaps = 4/359 (1%)
Query: 31 AYECKLPFLSMASRRVSVNRCVLSMSGSGSS--TSGGLTYKDSGVDIDAGSELVRRIAKM 88
+ A R R S +G + + GLTYKD+GVDIDAGSELVRRIAKM
Sbjct: 22 LPPLRRSAAQAARARRKRARLSPSKAGRSNKDDSEEGLTYKDAGVDIDAGSELVRRIAKM 81
Query: 89 APGIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKP 148
APGIGGFGGLFP GDSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKP
Sbjct: 82 APGIGGFGGLFPFGDSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKP 141
Query: 149 LFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVG 208
LFFLDYFATSHL+VDLAEKVIKGIVDGCQQSDC LLGGETAEMP FYA GEYDLSGFAVG
Sbjct: 142 LFFLDYFATSHLDVDLAEKVIKGIVDGCQQSDCALLGGETAEMPGFYAEGEYDLSGFAVG 201
Query: 209 IVKKDSVIDGKNIVPGDVLIGLPSSGVHSNGFSLVRRVLAQSDLSLKDQLPSENTTLGEA 268
VKKD+VIDGKNIV GDVLIGLPSSGVHSNGFSLVRRVLA+S LSLKDQLP + T+GEA
Sbjct: 202 SVKKDAVIDGKNIVAGDVLIGLPSSGVHSNGFSLVRRVLAKSGLSLKDQLPGASVTIGEA 261
Query: 269 LMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFK 328
LMAPTVIYVKQVLDIIS+GGVKGIAHITGGGFTDNIPRVFPKGLGA I SW+VP +FK
Sbjct: 262 LMAPTVIYVKQVLDIISKGGVKGIAHITGGGFTDNIPRVFPKGLGAKIRTGSWEVPPLFK 321
Query: 329 WIQQAGRIEDSEMRRTFNMGIGMVLVVSKETSHTILEGGCGTYEAYHIGEVVNGEGVSY 387
W+Q+AG IED+EMRRTFNMGIGMVLVVS E + ILE G Y AY IGEV+NGEGV Y
Sbjct: 322 WLQEAGNIEDAEMRRTFNMGIGMVLVVSPEAADRILEE--GAYPAYRIGEVINGEGVVY 378
>gnl|CDD|235439 PRK05385, PRK05385, phosphoribosylaminoimidazole synthetase;
Provisional.
Length = 327
Score = 520 bits (1342), Expect = 0.0
Identities = 187/329 (56%), Positives = 234/329 (71%), Gaps = 17/329 (5%)
Query: 66 LTYKDSGVDIDAGSELVRRIAKMAP---------GIGGFGGLFPL----GDSYLVAGTDG 112
LTYKD+GVDI+AG+ELV RI G+GGFGGLF L + LV+GTDG
Sbjct: 1 LTYKDAGVDIEAGNELVERIKPAVKRTFRPEVLGGLGGFGGLFDLPKGYKEPVLVSGTDG 60
Query: 113 VGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGI 172
VGTKLKLA + G HDTIGIDLVAM VND++ GA+PLFFLDY AT L+ ++A +V+KGI
Sbjct: 61 VGTKLKLAIDLGKHDTIGIDLVAMCVNDLLVQGAEPLFFLDYIATGKLDPEVAAQVVKGI 120
Query: 173 VDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLIGLPS 232
+GC+Q+ C L+GGETAEMP Y G+YDL+GFAVG+V+KD +IDG + GDVLIGL S
Sbjct: 121 AEGCEQAGCALIGGETAEMPGMYHEGDYDLAGFAVGVVEKDKIIDGSKVKEGDVLIGLAS 180
Query: 233 SGVHSNGFSLVRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGVKGI 292
SG+HSNG+SLVR++L DL + TLGE L+ PT IYVK VL ++ E VKG+
Sbjct: 181 SGLHSNGYSLVRKILEVLDLDD-TLPELDGKTLGEELLEPTRIYVKPVLALLKEVDVKGM 239
Query: 293 AHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNMGIGMV 352
AHITGGGF +N+PRV P+GLGA I + SW VP +FKW+Q+ G +E+ EM RTFNMGIGMV
Sbjct: 240 AHITGGGFIENLPRVLPEGLGAEIDKGSWPVPPIFKWLQKLGNVEEEEMYRTFNMGIGMV 299
Query: 353 LVVSKETSHTILE--GGCGTYEAYHIGEV 379
L+V E + L G +A+ IG V
Sbjct: 300 LIVPPEDADAALALLEAAG-EDAWVIGRV 327
>gnl|CDD|100032 cd02196, PurM, PurM (Aminoimidazole Ribonucleotide [AIR]
synthetase), one of eleven enzymes required for purine
biosynthesis, catalyzes the conversion of
formylglycinamide ribonucleotide (FGAM) and ATP to AIR,
ADP, and Pi, the fifth step in de novo purine
biosynthesis. The N-terminal domain of PurM is related
to the ATP-binding domains of hydrogen
expression/formation protein HypE, the AIR synthases,
selenophosphate synthetase (SelD), and FGAM synthase and
is thought to bind ATP.
Length = 297
Score = 483 bits (1245), Expect = e-173
Identities = 184/297 (61%), Positives = 225/297 (75%), Gaps = 8/297 (2%)
Query: 91 GIGGFGGLFPLG-----DSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSG 145
GIGGF GLF LG D LV+GTDGVGTKLKLA E G HDTIGIDLVAM VNDI+ G
Sbjct: 2 GIGGFAGLFDLGLGGYKDPVLVSGTDGVGTKLKLAQEMGKHDTIGIDLVAMCVNDILCQG 61
Query: 146 AKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGF 205
A+PLFFLDY AT L+ ++A +++KGI +GC+Q+ C LLGGETAEMP YA GEYDL+GF
Sbjct: 62 AEPLFFLDYIATGKLDPEVAAEIVKGIAEGCRQAGCALLGGETAEMPGVYAEGEYDLAGF 121
Query: 206 AVGIVKKDSVIDGKNIVPGDVLIGLPSSGVHSNGFSLVRRVLAQSDLSLKDQLPSENTTL 265
AVG+V+KD +IDG I PGDVLIGLPSSG+HSNG+SLVR++L + L D P TL
Sbjct: 122 AVGVVEKDKIIDGSKIKPGDVLIGLPSSGLHSNGYSLVRKILFEEGLDYDDPEPGLGKTL 181
Query: 266 GEALMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPA 325
GE L+ PT IYVK +L ++ + VKG+AHITGGG +N+PRV P+GLGAVI SW++P
Sbjct: 182 GEELLTPTRIYVKPILPLLEKVLVKGMAHITGGGLPENLPRVLPEGLGAVIDLGSWEIPP 241
Query: 326 VFKWIQQAGRIEDSEMRRTFNMGIGMVLVVSKETSHTILE--GGCGTYEAYHIGEVV 380
+FKWIQ+AG + + EM RTFNMGIGMVL+VS+E + +LE G +AY IGEVV
Sbjct: 242 IFKWIQKAGNVSEEEMYRTFNMGIGMVLIVSEEDADEVLEILEKLG-EKAYVIGEVV 297
>gnl|CDD|223228 COG0150, PurM, Phosphoribosylaminoimidazole (AIR) synthetase
[Nucleotide transport and metabolism].
Length = 345
Score = 476 bits (1228), Expect = e-169
Identities = 194/338 (57%), Positives = 241/338 (71%), Gaps = 17/338 (5%)
Query: 63 SGGLTYKDSGVDIDAGSELVRRIAKMAP---------GIGGFGGLFPLGDSY----LVAG 109
LTY D+GVDIDAG+E V RI G+GGF GLF LG +Y LV+G
Sbjct: 1 MTSLTYADAGVDIDAGNEAVERIKPAVKRTRRPEVMGGLGGFAGLFDLGQAYYKPVLVSG 60
Query: 110 TDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVI 169
TDGVGTKL LA + G HDTIGIDLVAM VND+V GA+PLFFLDY AT L+ ++A +++
Sbjct: 61 TDGVGTKLLLAEDAGKHDTIGIDLVAMCVNDLVVQGAEPLFFLDYLATGKLDPEVAAQIV 120
Query: 170 KGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLIG 229
KGI +GC+Q+ C L+GGETAEMP Y G+YDL+GFAVG+V+KD +IDG + GDV+IG
Sbjct: 121 KGIAEGCKQAGCALVGGETAEMPGMYRGGDYDLAGFAVGVVEKDEIIDGSKVKEGDVIIG 180
Query: 230 LPSSGVHSNGFSLVRRVLAQSDLSLKDQLPSE-NTTLGEALMAPTVIYVKQVLDIISEGG 288
L SSG+HSNG+SLVR+++ +S L D+LP E TLGE L+ PT IYVK VL +I EG
Sbjct: 181 LASSGLHSNGYSLVRKIIEESGLDYDDELPEELGKTLGEELLEPTRIYVKPVLALIKEGD 240
Query: 289 VKGIAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNMG 348
VKG+AHITGGGF +N+PRV P+GLGAVI + SW P +FKW+Q+AG +E EM RTFNMG
Sbjct: 241 VKGMAHITGGGFVENLPRVLPEGLGAVIDKPSWPPPPIFKWLQKAGNVEREEMYRTFNMG 300
Query: 349 IGMVLVVSKETSHTILE--GGCGTYEAYHIGEVVNGEG 384
+GMVL+V +E + L G AY IG V GEG
Sbjct: 301 VGMVLIVPEEDAEKALALLKEQG-ETAYVIGRVEAGEG 337
>gnl|CDD|162083 TIGR00878, purM, phosphoribosylaminoimidazole synthetase.
Alternate name: phosphoribosylformylglycinamidine
cyclo-ligase; AIRS; AIR synthase This enzyme is found as
a homodimeric monofunctional protein in prokaryotes and
as part of a larger, multifunctional protein, sometimes
with two copies of this enzyme in tandem, in eukaryotes
[Purines, pyrimidines, nucleosides, and nucleotides,
Purine ribonucleotide biosynthesis].
Length = 332
Score = 426 bits (1098), Expect = e-150
Identities = 180/332 (54%), Positives = 226/332 (68%), Gaps = 15/332 (4%)
Query: 66 LTYKDSGVDIDAGSELVRRIAKMA---------PGIGGFGGLFPLGDSY----LVAGTDG 112
+TY D+GVDIDAG+E V+RI + G+GGF GLF LGD Y LV+GTDG
Sbjct: 1 VTYADAGVDIDAGNEAVKRIKSLVKKTRRPEVMGGLGGFAGLFDLGDKYKEPVLVSGTDG 60
Query: 113 VGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGI 172
VGTKL +A HDTIGIDLVAM+VND++ GA+PLFFLDY A L+ ++A +++KGI
Sbjct: 61 VGTKLLVAEAMNKHDTIGIDLVAMNVNDLLVQGAEPLFFLDYLAVGKLDPEVASQIVKGI 120
Query: 173 VDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLIGLPS 232
+GC+Q+ C L+GGETAEMP Y G YDL+G AVG+V+KD +I G+ + PGDVLIGL S
Sbjct: 121 AEGCKQAGCALVGGETAEMPGMYRGGHYDLAGTAVGVVEKDEIITGEKVKPGDVLIGLGS 180
Query: 233 SGVHSNGFSLVRRVLAQSD-LSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGVKG 291
SG+HSNG SLVR+VL L +D TLGE L+ PT IYVK +L++I E V G
Sbjct: 181 SGIHSNGLSLVRKVLEDIAGLDYEDTPEDFGKTLGEELLEPTRIYVKPILELIKEVEVHG 240
Query: 292 IAHITGGGFTDNIPRVFPKGLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMRRTFNMGIGM 351
+AHITGGG +NIPR P GL AVI SW P +FKWIQ+AG +E+ EM RTFNMG+G
Sbjct: 241 LAHITGGGLLENIPRRLPDGLKAVIDMSSWPQPPIFKWIQEAGNVEEEEMYRTFNMGVGF 300
Query: 352 VLVVSKETSHTILEGGCGTYE-AYHIGEVVNG 382
V++V +E L E A+ IGEV G
Sbjct: 301 VVIVPEEEVDKALALLNARGEKAWVIGEVKKG 332
>gnl|CDD|100027 cd00396, PurM-like, AIR (aminoimidazole ribonucleotide) synthase
related protein. This family includes Hydrogen
expression/formation protein HypE, AIR synthases, FGAM
(formylglycinamidine ribonucleotide) synthase and
Selenophosphate synthetase (SelD). The N-terminal domain
of AIR synthase forms the dimer interface of the
protein, and is suggested as a putative ATP binding
domain.
Length = 222
Score = 117 bits (295), Expect = 6e-31
Identities = 69/263 (26%), Positives = 107/263 (40%), Gaps = 57/263 (21%)
Query: 105 YLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSH-LEVD 163
L TDG+ L + G V +VNDI GA+P+ L + S+ LEVD
Sbjct: 1 SLAMSTDGINPPLAI-----NPWAGGRLAVGGAVNDIAAMGARPIALLASLSLSNGLEVD 55
Query: 164 LAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVP 223
+ E V+ G+ + C Q ++GG T+ P + L+ FA+G+V+KD VID P
Sbjct: 56 ILEDVVDGVAEACNQLGVPIVGGHTSVSPG-TMGHKLSLAVFAIGVVEKDRVIDSSGARP 114
Query: 224 GDVLIGLPSSGVHSNGFSLVRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDI 283
GDVLI + V VL++
Sbjct: 115 GDVLI---------------------------------------------LTGVDAVLEL 129
Query: 284 ISEGGVKGIAHITGGGFTDNIPRVFPK-GLGAVIYEDSWKVPAVFKWIQQAGRIEDSEMR 342
++ G V + IT GG +P + G+GA I ++ + V +W+ E E
Sbjct: 130 VAAGDVHAMHDITDGGLLGTLPELAQASGVGAEIDLEAIPLDEVVRWLCV----EHIEEA 185
Query: 343 RTFNMGIGMVLVVSKETSHTILE 365
FN G+++ V E + +L
Sbjct: 186 LLFNSSGGLLIAVPAEEADAVLL 208
>gnl|CDD|217219 pfam02769, AIRS_C, AIR synthase related protein, C-terminal domain.
This family includes Hydrogen expression/formation
protein HypE, AIR synthases EC:6.3.3.1, FGAM synthase
EC:6.3.5.3 and selenide, water dikinase EC:2.7.9.3. The
function of the C-terminal domain of AIR synthase is
unclear, but the cleft formed between N and C domains is
postulated as a sulphate binding site.
Length = 150
Score = 110 bits (277), Expect = 2e-29
Identities = 61/168 (36%), Positives = 81/168 (48%), Gaps = 27/168 (16%)
Query: 223 PGDVLIGLPSSGVHSNGFSLVRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLD 282
PGDVLI L SSG+H +G SLVR+ L LG+ L+ PT+IYV +L
Sbjct: 2 PGDVLILLGSSGLHGSGLSLVRKGLEDDGA----------VPLGDPLLEPTLIYVVLLL- 50
Query: 283 IISEGGVKGIAHITGGGFTDNIPRVFPK-GLGAVIYEDSWKVPAVFKWIQQAGRIEDSEM 341
+ G VK ITGGG + + P G+GA I D +F+ + EM
Sbjct: 51 -AALGLVKAAHDITGGGLAGALAEMAPASGVGAEIDLDK---VPIFEELL-----LPLEM 101
Query: 342 RRTFNMGIGMVLVVSKETSH--TILEG-GCGTYEAYHIGEVVNGEGVS 386
+ N G G+V+VV +E ILE G A IGEV G G++
Sbjct: 102 LFSENQGRGLVVVVPEEAEAVLAILEEEGL---PAAVIGEVTAGGGLT 146
>gnl|CDD|216008 pfam00586, AIRS, AIR synthase related protein, N-terminal domain.
This family includes Hydrogen expression/formation
protein HypE, AIR synthases EC:6.3.3.1, FGAM synthase
EC:6.3.5.3 and selenide, water dikinase EC:2.7.9.3. The
N-terminal domain of AIR synthase forms the dimer
interface of the protein, and is suggested as a putative
ATP binding domain.
Length = 96
Score = 93.4 bits (233), Expect = 1e-23
Identities = 31/98 (31%), Positives = 48/98 (48%), Gaps = 4/98 (4%)
Query: 93 GGFGGLFPLGDS-YLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFF 151
G + LG+ LV TDGV T + A G VA +++D+ GAKPL
Sbjct: 1 GDDAAVIRLGEGKALVVTTDGVVTHVHFAAID--PYDGGATAVAGNLSDLAAMGAKPLAL 58
Query: 152 LDYFATSH-LEVDLAEKVIKGIVDGCQQSDCVLLGGET 188
LD A L+ + E++++GI + + L+GG+T
Sbjct: 59 LDGLALGEGLDPEWLEEIVRGIAEAANEFGVPLVGGDT 96
>gnl|CDD|100037 cd06061, PurM-like1, AIR synthase (PurM) related protein, subgroup
1 of unknown function. The family of PurM related
proteins includes Hydrogen expression/formation protein
HypE, AIR synthases, FGAM synthase and Selenophosphate
synthetase (SelD). They all contain two conserved
domains and seem to dimerize. The N-terminal domain
forms the dimer interface and is a putative ATP binding
domain.
Length = 298
Score = 53.8 bits (130), Expect = 4e-08
Identities = 33/141 (23%), Positives = 57/141 (40%), Gaps = 15/141 (10%)
Query: 90 PGIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPL 149
PG G + G LV TD + TG G V ++ NDI TSGA+P
Sbjct: 29 PGGGEDAAVVDFGGKVLVVSTDPI---------TGAGKDAGWLAVHIAANDIATSGARPR 79
Query: 150 FFL-DYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYD-LSGFAV 207
+ L + + + +++ I + ++ ++GG T +S A+
Sbjct: 80 WLLVTLLLPPGTDEEELKAIMREINEAAKELGVSIVGGHTE----VTPGVTRPIISVTAI 135
Query: 208 GIVKKDSVIDGKNIVPGDVLI 228
G +KD ++ PGD ++
Sbjct: 136 GKGEKDKLVTPSGAKPGDDIV 156
>gnl|CDD|223684 COG0611, ThiL, Thiamine monophosphate kinase [Coenzyme metabolism].
Length = 317
Score = 53.5 bits (129), Expect = 5e-08
Identities = 23/96 (23%), Positives = 45/96 (46%), Gaps = 8/96 (8%)
Query: 134 VAMSVNDIVTSGAKPLFFL-DYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMP 192
+A++++D+ GA+P FL L+ + E + GI + ++ L+GG+T
Sbjct: 67 LAVNLSDLAAMGARPKAFLLSLGLPPDLDEEWLEALADGIFEAAKKYGVKLIGGDTNR-- 124
Query: 193 DFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI 228
G +S A+G++ K + PGD++
Sbjct: 125 -----GPLSISVTAIGVLPKGRALLRSGAKPGDLVA 155
>gnl|CDD|233738 TIGR02124, hypE, hydrogenase expression/formation protein HypE.
This family contains HypE (or HupE), a protein required
for expression of catalytically active hydrogenase in
many systems. It appears to be an accessory protein
involved in maturation rather than a regulatory protein
involved in expression. HypE shows considerable homology
to the thiamine-monophosphate kinase ThiL (TIGR01379)
and other enzymes.
Length = 320
Score = 50.7 bits (122), Expect = 4e-07
Identities = 35/146 (23%), Positives = 62/146 (42%), Gaps = 12/146 (8%)
Query: 96 GGLFPLGDSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYF 155
+ L L TD L F G IG V +VND+ SGAKPL+ F
Sbjct: 24 AAVLELSGGRLAFSTDSF-VVDPLFFPGG---DIGKLAVCGTVNDVAVSGAKPLYLSCGF 79
Query: 156 ATSH-LEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYD---LSGFAVGIVK 211
++ E+++K + + +++ ++ G+T + G+ D ++ +G++
Sbjct: 80 ILEEGFPIEDLERIVKSMAEAARKAGVKIVTGDTKVVE----KGKADGIFINTTGIGVIP 135
Query: 212 KDSVIDGKNIVPGDVLIGLPSSGVHS 237
I N+ PGD +I + G H
Sbjct: 136 SGIPISAHNLQPGDKIIVSGTIGDHG 161
>gnl|CDD|223386 COG0309, HypE, Hydrogenase maturation factor [Posttranslational
modification, protein turnover, chaperones].
Length = 339
Score = 50.7 bits (122), Expect = 5e-07
Identities = 39/157 (24%), Positives = 68/157 (43%), Gaps = 11/157 (7%)
Query: 83 RRIAKMAPGIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIV 142
RR + G + LGD L TD L F G IG V + ND+
Sbjct: 28 RRDVNVGLANGEDAAIIDLGDGVLAFTTDPF-VIDPLFFPGG---DIGKLAVHGTANDVA 83
Query: 143 TSGAKPLFF-LDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYD 201
SGAKP + + L ++ E+++K I + +++ ++ G+T +P G+
Sbjct: 84 VSGAKPRYLSVGLILPEGLPIEDLERILKSIDEEAEEAGVSIVTGDTKVVPG----GKDP 139
Query: 202 LSG--FAVGIVKKDSVIDGKNIVPGDVLIGLPSSGVH 236
+ +GI+ K+ ++ PGD +I + G+H
Sbjct: 140 IVINTTGIGIIDKEILVSPSGARPGDAVIVTGTIGIH 176
>gnl|CDD|100030 cd02194, ThiL, ThiL (Thiamine-monophosphate kinase) plays a dual
role in de novo biosynthesis and in salvage of exogenous
thiamine. Thiamine salvage occurs in two steps, with
thiamine kinase catalyzing the formation of thiamine
phosphate, and ThiL catalyzing the conversion of this
intermediate to thiamine pyrophosphate. The N-terminal
domain of ThiL binds ATP and is related to the
ATP-binding domains of hydrogen expression/formation
protein HypE, the AIR synthases, FGAM synthase and
selenophosphate synthetase (SelD).
Length = 291
Score = 49.5 bits (119), Expect = 1e-06
Identities = 38/163 (23%), Positives = 68/163 (41%), Gaps = 29/163 (17%)
Query: 80 ELVRRI-AKMAPGIGGFGG------LFPLGDSYLVAGTDGVGTKLKLAFETGIH------ 126
EL+ R+ ++ G G G + LV TD + E G+H
Sbjct: 4 ELIDRLFKRLGAGPGVLLGIGDDAAVLKPPGGRLVVTTDTL-------VE-GVHFPPDTT 55
Query: 127 -DTIGIDLVAMSVNDIVTSGAKPLFFL-DYFATSHLEVDLAEKVIKGIVDGCQQSDCVLL 184
+ IG +A++++D+ GA+PL FL + + E+ +G+ + + L+
Sbjct: 56 PEDIGWKALAVNLSDLAAMGARPLGFLLSLGLPPDTDEEWLEEFYRGLAEAADRYGVPLV 115
Query: 185 GGETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVL 227
GG+T + +S A+G V+K + PGD+L
Sbjct: 116 GGDTTSGSELV------ISVTALGEVEKGKPLRRSGAKPGDLL 152
>gnl|CDD|233387 TIGR01379, thiL, thiamine-monophosphate kinase. This model
describes thiamine-monophosphate kinase, an enzyme that
converts thiamine monophosphate into thiamine
pyrophosphate (TPP, coenzyme B1), an enzyme cofactor.
Thiamine monophosphate may be derived from de novo
synthesis or from unphosphorylated thiamine, known as
vitamin B1. Proteins scoring between the trusted and
noise cutoff for this model include short forms from the
Thermoplasmas (which lack the N-terminal region) and a
highly derived form from Campylobacter jejuni.
Eukaryotes lack this enzyme, and add pyrophosphate from
ATP to unphosphorylated thiamine in a single step
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Thiamine].
Length = 317
Score = 46.9 bits (112), Expect = 7e-06
Identities = 25/102 (24%), Positives = 45/102 (44%), Gaps = 7/102 (6%)
Query: 127 DTIGIDLVAMSVNDIVTSGAKPL-FFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLG 185
+ +G VA++++D+ GA P F L S L+ E G+ + +Q L+G
Sbjct: 58 EDLGWKAVAVNLSDLAAMGATPKWFLLSLGLPSDLDEAWLEAFYDGLFEAAKQYGVPLVG 117
Query: 186 GETAEMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVL 227
G+T P+ ++ A+G K + PGD++
Sbjct: 118 GDTVSSPELV------VTVTAIGEAPKGRALLRSGAKPGDLV 153
>gnl|CDD|233552 TIGR01736, FGAM_synth_II, phosphoribosylformylglycinamidine
synthase II. Phosphoribosylformylglycinamidine synthase
is a single, long polypeptide in most Proteobacteria and
eukarotes. Three proteins are required in Bacillus
subtilis and many other species. This is the longest of
the three and is designated PurL,
phosphoribosylformylglycinamidine synthase II, or FGAM
synthase II [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 715
Score = 45.8 bits (109), Expect = 3e-05
Identities = 53/199 (26%), Positives = 88/199 (44%), Gaps = 27/199 (13%)
Query: 138 VNDIVTSGAKPLFFLD--YFATSHLE--VDLAEKVIKGIVDGCQQSDCV---LLGGETAE 190
+ DI++ GA+P+ LD F L E V+ GI D + + +GGE
Sbjct: 98 LRDILSMGARPIALLDSLRFGPLDDPKNRYLFEGVVAGISD---YGNRIGVPTVGGEVEF 154
Query: 191 MPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLIGLPSS----GVHSNGFSLVRRV 246
+ G ++ VG+V+KD ++ GK PG+ L+ + G+ G +
Sbjct: 155 DESY--NGNPLVNVMCVGLVRKDDIVTGKAKGPGNKLVLVGGKTGRDGIG--GATFASEE 210
Query: 247 LAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPR 306
L++ + ++ P+ +G+ +I + L+ + G VKGI + G T
Sbjct: 211 LSEE--AEEEDRPA--VQVGDPFTEKLLI--EATLEAVDTGLVKGIKDLGAAGLTSASSE 264
Query: 307 VFPK-GLGAVIYEDSWKVP 324
+ K GLGA IY D KVP
Sbjct: 265 MAAKGGLGAEIYLD--KVP 281
>gnl|CDD|100028 cd02192, PurM-like3, AIR synthase (PurM) related protein, subgroup
3 of unknown function. The family of PurM related
proteins includes Hydrogen expression/formation protein
HypE, AIR synthases, FGAM synthase and Selenophosphate
synthetase (SelD). They all contain two conserved
domains and seem to dimerize. The N-terminal domain
forms the dimer interface and is a putative ATP binding
domain.
Length = 283
Score = 44.1 bits (105), Expect = 6e-05
Identities = 29/92 (31%), Positives = 45/92 (48%), Gaps = 10/92 (10%)
Query: 138 VNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPD-FYA 196
V+DI G +PL +D + + A +V++G+ D ++ ++GG T PD Y
Sbjct: 76 VSDIAAMGGRPLAMVDALWSPS--AEAAAQVLEGMRDAAEKFGVPIVGGHTH--PDSPYN 131
Query: 197 AGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI 228
A LS +G +KD +I PGD LI
Sbjct: 132 A----LSVAILGRARKDLLISF-GAKPGDRLI 158
>gnl|CDD|132311 TIGR03267, methan_mark_2, putative methanogenesis marker protein 2.
A single member of this protein family is found in each
of the first ten complete genome sequences of archaeal
methanogens, and nowhere else. Sequence similarity to
various bacterial proteins is reflected in Pfam models
pfam00586 and pfam02769, AIR synthase related protein
N-terminal and C-terminal domains, respectively. The
functions of proteins in this family are unknown, but
their role is likely one essential to methanogenesis
[Energy metabolism, Methanogenesis].
Length = 323
Score = 44.0 bits (104), Expect = 7e-05
Identities = 30/96 (31%), Positives = 52/96 (54%), Gaps = 9/96 (9%)
Query: 134 VAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPD 193
V ++VNDI G KP+ ++ + + +VD+ +V++G+ +G + ++GG T PD
Sbjct: 82 VLVNVNDIAAMGGKPVGMVNVLSIN--DVDVCREVLEGMREGAWKFGVPVVGGHT--HPD 137
Query: 194 FYAAGEYD-LSGFAVGIVKKDSVIDGKNIVPGDVLI 228
Y+ L VGI K+D +I PGD++I
Sbjct: 138 ----TPYNALDVAIVGIAKEDCIIRSDTAKPGDLII 169
>gnl|CDD|100031 cd02195, SelD, Selenophosphate synthetase (SelD) catalyzes the
conversion of selenium to selenophosphate which is
required by a number of bacterial, archaeal and
eukaryotic organisms for synthesis of Secys-tRNA, the
precursor of selenocysteine in selenoenzymes. The
N-terminal domain of SelD is related to the ATP-binding
domains of hydrogen expression/formation protein HypE,
the AIR synthases, and FGAM synthase and is thought to
bind ATP.
Length = 287
Score = 42.9 bits (102), Expect = 1e-04
Identities = 31/99 (31%), Positives = 47/99 (47%), Gaps = 16/99 (16%)
Query: 137 SVNDIVTSGAKPLF-----FLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEM 191
+++DI GAKPL L + E L E ++ G D +++ VL+GG T E
Sbjct: 80 ALSDIYAMGAKPLSALAIVTLPRKLPALQEEVLRE-ILAGGKDKLREAGAVLVGGHTIEG 138
Query: 192 PD-FYAAGEYDLSGFAV-GIVKKDSVIDGKNIVPGDVLI 228
P+ Y G +V G+V + ++ PGDVLI
Sbjct: 139 PEPKY--------GLSVTGLVHPNKILRNSGAKPGDVLI 169
>gnl|CDD|235583 PRK05731, PRK05731, thiamine monophosphate kinase; Provisional.
Length = 318
Score = 42.1 bits (100), Expect = 2e-04
Identities = 43/159 (27%), Positives = 63/159 (39%), Gaps = 30/159 (18%)
Query: 83 RRIAKMAPGIGGFGGLF-PLGDSYLVAGTDGVGTKLKLAFETGIH---DTIGIDLV---A 135
RR + GIG L P LV TD G+H D + + A
Sbjct: 15 RRPSSRELGIGDDAALLGPPPGQRLVVSTD--------MLVEGVHFRPDWSSPEDLGYKA 66
Query: 136 MSVN--DIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGIVDG----CQQSDCVLLGGETA 189
++VN D+ GA+P FL A + L DL E ++ + DG + L+GG+T
Sbjct: 67 LAVNLSDLAAMGARPAAFL--LALA-LPKDLDEAWLEALADGLFELADRYGAELIGGDTT 123
Query: 190 EMPDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI 228
PD +S A+G V + PGD++
Sbjct: 124 RGPDL------SISVTAIGDVPGGRALRRSGAKPGDLVA 156
>gnl|CDD|223124 COG0046, PurL, Phosphoribosylformylglycinamidine (FGAM) synthase,
synthetase domain [Nucleotide transport and metabolism].
Length = 743
Score = 42.6 bits (101), Expect = 3e-04
Identities = 50/202 (24%), Positives = 90/202 (44%), Gaps = 33/202 (16%)
Query: 138 VNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSD---CV---LLGGETAEM 191
+ D+++ GA+P+ LD +++ ++KG+V G + + +GGE
Sbjct: 124 IRDVLSMGARPIALLDSLRFGIPDIEKTRYIMKGVVAGI--AAYGNEIGVPTVGGEFR-- 179
Query: 192 PDFYAAGEYD----LSGFAVGIVKKDSVIDGKNIVPGDVLI--GLPS--SGVHSNGFSLV 243
F Y ++ VG+++K+ ++ G+ I PGD LI G + G+ F+ +
Sbjct: 180 --FDE--SYVGNPLVNAGCVGLIRKEHIVKGEAIGPGDKLILLGGKTGRDGIGGATFASM 235
Query: 244 RRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDN 303
+ S ++ PS +G+ M + +L+ + G +KGI + GG +
Sbjct: 236 ----ELGEESEEEDRPS--VQVGDPFMEKRLQEA--ILECVQTGLIKGIQDLGAGGLSCA 287
Query: 304 IPR-VFPKGLGAVIYEDSWKVP 324
I GLGA I D KVP
Sbjct: 288 ISELAAKGGLGAEIDLD--KVP 307
>gnl|CDD|225055 COG2144, COG2144, Selenophosphate synthetase-related proteins
[General function prediction only].
Length = 324
Score = 41.6 bits (98), Expect = 4e-04
Identities = 35/130 (26%), Positives = 60/130 (46%), Gaps = 13/130 (10%)
Query: 100 PLGDSYLVAGTDGVGTKLKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSH 159
+GD L+ DG+ KL A G V ++VND+ G +P+ +D A S
Sbjct: 50 RVGDGKLLIAADGIWGKLIDADPW----WAGYCSVLVNVNDVAAMGGEPVGAVD--AISA 103
Query: 160 LEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFYAAGEYDLSGFA-VGIVKKDSVIDG 218
D A ++++G+ G ++ ++GG T PD Y + G++ ++ +I
Sbjct: 104 KSEDQAREILEGLRKGARKFGVPIVGGHTH--PDT----PYCVLDVVIGGLIAEEPIITS 157
Query: 219 KNIVPGDVLI 228
PGD+LI
Sbjct: 158 GTAKPGDLLI 167
>gnl|CDD|184499 PRK14090, PRK14090, phosphoribosylformylglycinamidine synthase II;
Provisional.
Length = 601
Score = 42.1 bits (99), Expect = 4e-04
Identities = 70/297 (23%), Positives = 120/297 (40%), Gaps = 52/297 (17%)
Query: 82 VRRIAKMAPGIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFETGIHDTI------GIDLVA 135
+RR+ K G G G+ L D Y +A E+ H + V
Sbjct: 40 IRRLPKT--GFEGNAGVVNLDDYYSIA----------FKIESHNHPSAIEPYNGAATGVG 87
Query: 136 MSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMPDFY 195
+ D++ GA+P D + H+ + + +I+GI D +GGE + Y
Sbjct: 88 GIIRDVLAMGARPTAIFD---SLHMS-RIIDGIIEGIADYGNSIGVPTVGGEL-RISSLY 142
Query: 196 AAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI----GLPSSGVHSNGFSLVRRVLAQSD 251
A ++ A G+V+ D ++D K PG V++ G+H F A D
Sbjct: 143 AHNPL-VNVLAAGVVRNDMLVDSKASRPGQVIVIFGGATGRDGIHGASF-------ASED 194
Query: 252 LSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPRVFPKG 311
L+ ++ + +G+ +I + L+++ EG V+G + GG + KG
Sbjct: 195 LT-GEKATKLSIQVGDPFAEKMLI--EAFLEMVEEGLVEGAQDLGAGGVLSATSELVAKG 251
Query: 312 -LGAVIYEDS--WKVPAVFKWIQQAGRIEDSEMRRTFNMGIGMVLVVSKETSHTILE 365
LGA+++ D + P + W I +S+ R M +V S E + ILE
Sbjct: 252 GLGAIVHLDRVPLREPDMEPW---EILISESQER--------MAVVTSPEKASRILE 297
>gnl|CDD|232993 TIGR00476, selD, selenium donor protein. In prokaryotes, the
incorporation of selenocysteine as the 21st amino acid,
encoded by TGA, requires several elements: SelC is the
tRNA itself, SelD acts as a donor of reduced selenium,
SelA modifies a serine residue on SelC into
selenocysteine, and SelB is a selenocysteine-specific
translation elongation factor. 3-prime or 5-prime
non-coding elements of mRNA have been found as probable
structures for directing selenocysteine incorporation.
This model describes SelD, known as selenophosphate
synthetase, selenium donor protein, and selenide,water
dikinase. SelD provides reduced selenium for the
selenium transferase SelA. This protein itself contains
selenocysteine in many species; some member sequences
giving partial hits only may have selenocysteine residue
incorrectly interpreted as a stop codon upstream of the
given sequence. The SelD protein also provides
selenophosphate for the enzyme tRNA 2-selenouridine
synthase, which catalyzes a tRNA base modification. All
genomes with SelD should make selenocysteine,
selenouridine, or both.
Length = 347
Score = 40.6 bits (95), Expect = 9e-04
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 12/97 (12%)
Query: 132 DLVAMSVNDIVTSGAKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGETAEM 191
D+ AM I + ++ L +++ +VI+G D C+++ L GG T
Sbjct: 92 DIYAMGGTPIDA------MLILLGVSNKLTIEVMREVIQGFKDACREAGTSLTGGHTILN 145
Query: 192 PDFYAAGEYDLSGFAVGIVKKDSVIDGKNIVPGDVLI 228
P G G+ ++ VI GDVLI
Sbjct: 146 P------WPVFGGAVTGVCPEEEVITPSGAQVGDVLI 176
>gnl|CDD|100033 cd02197, HypE, HypE (Hydrogenase expression/formation protein).
HypE is involved in Ni-Fe hydrogenase biosynthesis.
HypE dehydrates its own carbamoyl moiety in an
ATP-dependent process to yield the enzyme thiocyanate.
The N-terminal domain of HypE is related to the
ATP-binding domains of the AIR synthases,
selenophosphate synthetase (SelD), and FGAM synthase and
is thought to bind ATP.
Length = 293
Score = 39.7 bits (94), Expect = 0.002
Identities = 26/101 (25%), Positives = 51/101 (50%), Gaps = 12/101 (11%)
Query: 134 VAMSVNDIVTSGAKPLFFLDYFATSH-LEVDLAEKVIKGIVDGCQQSDCVLLGGETAEMP 192
V +VND+ GAKPL+ F ++ E+++K + + +++ ++ G+T +P
Sbjct: 63 VCGTVNDLAMMGAKPLYLSLGFILEEGFPLEDLERIVKSMAEAAREAGVKIVTGDTKVVP 122
Query: 193 DFYAAGEYD-----LSGFAVGIVKKDSVIDGKNIVPGDVLI 228
G+ D +G +G++ + +I NI PGD +I
Sbjct: 123 ----KGKADGIFINTTG--IGVIPRGVIISPSNIRPGDKII 157
>gnl|CDD|100034 cd02203, PurL_repeat1, PurL subunit of the formylglycinamide
ribonucleotide amidotransferase (FGAR-AT), first repeat.
FGAR-AT catalyzes the ATP-dependent conversion of
formylglycinamide ribonucleotide (FGAR) and glutamine to
formylglycinamidine ribonucleotide (FGAM), ADP,
phosphate, and glutamate in the fourth step of the
purine biosynthetic pathway. In eukaryotes and
Gram-negative bacteria, FGAR-AT is encoded by the purL
gene as a multidomain protein with a molecular mass of
about 140 kDa. In Gram-positive bacteria and archaea
FGAR-AT is a complex of three proteins: PurS, PurL, and
PurQ. PurL itself contains two tandem N- and C-terminal
domains (four domains altogether). The N-terminal
domains bind ATP and are related to the ATP-binding
domains of HypE, ThiL, SelD and PurM.
Length = 313
Score = 37.8 bits (89), Expect = 0.007
Identities = 54/207 (26%), Positives = 82/207 (39%), Gaps = 39/207 (18%)
Query: 140 DIVTSGAKPLFFLDYFATSHLEVD------------LAEKVIKGIVDGCQQSDCVLLGGE 187
DI++ GA+P+ LD L++ + + V+ GI D +GGE
Sbjct: 57 DILSMGARPIALLDGLRFGDLDIPGYEPKGKLSPRRILDGVVAGISDYGNCIGIPTVGGE 116
Query: 188 TAEMPDFYA-----AGEYDLSGFAVGIVKKDSVIDGKNIVPGD--VLIGLPS--SGVHSN 238
P +Y G VGIV KD ++ K PGD VL+G + G+
Sbjct: 117 VRFDPSYYGNPLVNVG-------CVGIVPKDHIVKSKAPGPGDLVVLVGGRTGRDGIGGA 169
Query: 239 GFSLVRRVLAQSDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGVKGIAHITGG 298
FS S+ S + P+ +G+ M + +L+ G + GI + G
Sbjct: 170 TFSSK----ELSENSSELDRPA--VQVGDPFMEKKLQEA--ILEARETGLIVGIQDLGAG 221
Query: 299 GFTDNIPR-VFPKGLGAVIYEDSWKVP 324
G + + GLGA I D KVP
Sbjct: 222 GLSSAVSEMAAKGGLGAEIDLD--KVP 246
>gnl|CDD|239018 cd02067, B12-binding, B12 binding domain (B12-BD). This domain
binds different cobalamid derivates, like B12
(adenosylcobamide) or methylcobalamin or methyl-Co(III)
5-hydroxybenzimidazolylcobamide, it is found in several
enzymes, such as glutamate mutase, methionine synthase
and methylmalonyl-CoA mutase. Cobalamin undergoes a
conformational change on binding the protein; the
dimethylbenzimidazole group, which is coordinated to the
cobalt in the free cofactor, moves away from the corrin
and is replaced by a histidine contributed by the
protein. The sequence Asp-X-His-X-X-Gly, which contains
this histidine ligand, is conserved in many
cobalamin-binding proteins.
Length = 119
Score = 31.3 bits (72), Expect = 0.23
Identities = 25/107 (23%), Positives = 40/107 (37%), Gaps = 17/107 (15%)
Query: 226 VLIGLPSSGVHSNGFSLVRRVLAQS-----DLSLKDQLPSE--NTTLGE--------ALM 270
V+I H G ++V R L + DL + D P E E L+
Sbjct: 2 VVIATVGGDGHDIGKNIVARALRDAGFEVIDLGV-DVPPEEIVEAAKEEDADAIGLSGLL 60
Query: 271 APTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPRVFPKGLGAVIY 317
+ +K+V++ + E G+ I + GG F K +G Y
Sbjct: 61 TTHMTLMKEVIEELKEAGLDDIPVLVGGAIVTR-DFKFLKEIGVDAY 106
>gnl|CDD|237611 PRK14105, PRK14105, selenophosphate synthetase; Provisional.
Length = 345
Score = 32.4 bits (74), Expect = 0.37
Identities = 28/102 (27%), Positives = 51/102 (50%), Gaps = 22/102 (21%)
Query: 132 DLVAMSVNDI----VTSGAKPLFFLDYFATSHLEVDLAEKVIKGIVDGCQQSDCVLLGGE 187
D+ AM +++I V G P L +++A+++++G D C+++D ++GG
Sbjct: 88 DVYAMGLSEIIGVLVILGIPP----------ELPIEVAKEMLQGFQDFCRENDTTIIGGH 137
Query: 188 TAEMPDFYAAGEYDLSGFAV-GIVKKDSVIDGKNIVPGDVLI 228
T P + L G AV G+ K++ ++ GDVLI
Sbjct: 138 TILNP-------WPLIGGAVTGVGKEEDILTKAGAKEGDVLI 172
>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal. The
20S proteasome, multisubunit proteolytic complex, is the
central enzyme of nonlysosomal protein degradation in
both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 211
Score = 31.1 bits (71), Expect = 0.70
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 7/58 (12%)
Query: 66 LTYKDSGVDIDAGSELVRRIAKMAPGIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFET 123
LTY +D++ LV++I + GG+ P G + L+AG D G +L FET
Sbjct: 95 LTY-GEPIDVE---VLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRL---FET 145
>gnl|CDD|100029 cd02193, PurL, Formylglycinamide ribonucleotide amidotransferase
(FGAR-AT) catalyzes the ATP-dependent conversion of
formylglycinamide ribonucleotide (FGAR) and glutamine to
formylglycinamidine ribonucleotide (FGAM), ADP,
phosphate, and glutamate in the fourth step of the
purine biosynthetic pathway. In eukaryotes and
Gram-negative bacteria, FGAR-AT is encoded by the purL
gene as a multidomain protein with a molecular mass of
about 140 kDa. In Gram-positive bacteria and archaea
FGAR-AT is a complex of three proteins: PurS, PurL, and
PurQ. PurL itself contains two tandem N- and C-terminal
domains (four domains altogether). The N-terminal
domains bind ATP and are related to the ATP-binding
domains of HypE, ThiL, SelD and PurM.
Length = 272
Score = 31.5 bits (71), Expect = 0.73
Identities = 34/190 (17%), Positives = 61/190 (32%), Gaps = 29/190 (15%)
Query: 145 GAKPLFFLDYFATSHL---EVDLAEKVIKGIVDGCQQSDCVLLGGE-TAEMPDFYAAGEY 200
AKP+ + S E + +KG+ + C Q + G+ M + G
Sbjct: 39 DAKPIALSANWMASAGHPGEDAILYDAVKGVAELCNQLGLPIPVGKDRMSMKTRWQEGNE 98
Query: 201 DLSGF--------AVGIVKKDSVIDGKNIVPGDVLI--GLPS--SGVHSNGFSLVRRVLA 248
A G V+ D + G+ L+ G +G+ + V
Sbjct: 99 QREMTHPPSLVISAFGRVRDDRHTLPQLSTEGNALLLIGGGKGHNGLGGTALASVALSYR 158
Query: 249 Q-SDLSLKDQLPSENTTLGEALMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPR- 306
Q D S + + P++ EA+ A +++ G + GG +
Sbjct: 159 QLGDKSAQVRDPAQEKGFYEAMQA-----------LVAAGKLLAWHDRGAGGLLVALAEL 207
Query: 307 VFPKGLGAVI 316
VF G +
Sbjct: 208 VFAGHCGVQV 217
>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4. The 20S
proteasome, multisubunit proteolytic complex, is the
central enzyme of nonlysosomal protein degradation in
both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 213
Score = 30.4 bits (69), Expect = 1.1
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 79 SELVRRIAKMAPGIGGFGGLFPLGDSYLVAGTD 111
+LV+R+ + G +GGL P G S+L AG D
Sbjct: 106 EQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWD 138
>gnl|CDD|143445 cd07127, ALDH_PAD-PaaZ, Phenylacetic acid degradation proteins PaaZ
(Escherichia coli) and PaaN (Pseudomonas putida)-like.
Phenylacetic acid degradation (PAD) proteins PaaZ
(Escherichia coli) and PaaN (Pseudomonas putida) are
putative aromatic ring cleavage enzymes of the aerobic
PA catabolic pathway. PaaZ mutants were defective for
growth with PA as a sole carbon source due to
interruption of the putative ring opening system. This
CD is limited to bacterial monofunctional enzymes.
Length = 549
Score = 30.5 bits (69), Expect = 1.5
Identities = 21/89 (23%), Positives = 36/89 (40%), Gaps = 22/89 (24%)
Query: 292 IAHITGGGFTDNI----PRVFPKGLGAVIY--EDSWKVPAVFKWIQQAGRIEDSEMRRTF 345
+ H TG F P +GL AV Y + ++P +W + G+ + M +TF
Sbjct: 130 VMHTTGQAFMMAFQAGGPHAQDRGLEAVAYAWREMSRIPPTAEWEKPQGKHDPLAMEKTF 189
Query: 346 NM---GIGMVLVVSKETSHTILEGGCGTY 371
+ G+ +V+ GC T+
Sbjct: 190 TVVPRGVALVI-------------GCSTF 205
>gnl|CDD|185312 PRK15414, PRK15414, phosphomannomutase CpsG; Provisional.
Length = 456
Score = 29.9 bits (67), Expect = 2.6
Identities = 20/47 (42%), Positives = 26/47 (55%), Gaps = 10/47 (21%)
Query: 117 LKLAFETGIHDTIGIDLVAMSVNDIVTSGAKPLFFLDYFATSHLEVD 163
LKLA G+ D G+D++ DI SG + + YFAT HL VD
Sbjct: 54 LKLALAKGLQDA-GVDVL-----DIGMSGTEEI----YFATFHLGVD 90
>gnl|CDD|236100 PRK07798, PRK07798, acyl-CoA synthetase; Validated.
Length = 533
Score = 29.1 bits (66), Expect = 4.3
Identities = 22/82 (26%), Positives = 31/82 (37%), Gaps = 11/82 (13%)
Query: 262 NTTLGEALMA--PTVIYVKQVLDII--SEGGVKGIAHITGGGFTDNIPRVFPKGLGAVIY 317
+ ++ EAL+ P V+ + D I SE G G + G PR V+
Sbjct: 309 SPSVKEALLELLPNVV----LTDSIGSSETGFGGSGTVAKGAVHTGGPRFTIGPRTVVLD 364
Query: 318 EDSWKVPA---VFKWIQQAGRI 336
ED V WI + G I
Sbjct: 365 EDGNPVEPGSGEIGWIARRGHI 386
>gnl|CDD|223098 COG0019, LysA, Diaminopimelate decarboxylase [Amino acid transport
and metabolism].
Length = 394
Score = 28.8 bits (65), Expect = 5.6
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 266 GEALMAPTVIYVKQVLDIISEGGVKGIAHITGGGFTDNIPRVF 308
G A++A + V +VLD+ E G + I GG D +
Sbjct: 277 GRAIVANAGVLVTEVLDVK-ENGERNFV-IVDGGMNDLMRPAL 317
>gnl|CDD|131703 TIGR02655, circ_KaiC, circadian clock protein KaiC. Members of
this family are the circadian clock protein KaiC, part
of the kaiABC operon that controls circadian rhythm. It
may be universal in Cyanobacteria. Each member has two
copies of the KaiC domain (pfam06745), which is also
found in other proteins. KaiC performs
autophosphorylation and acts as its own transcriptional
repressor [Cellular processes, Other].
Length = 484
Score = 28.8 bits (64), Expect = 5.7
Identities = 18/37 (48%), Positives = 21/37 (56%), Gaps = 6/37 (16%)
Query: 86 AKMAPGIGGF-----GGLFPLGDSYLVAGTDGVGTKL 117
AK+ I GF GGL P+G S LV+GT G G L
Sbjct: 1 AKIRTMIEGFDDISHGGL-PIGRSTLVSGTSGTGKTL 36
>gnl|CDD|173104 PRK14641, PRK14641, hypothetical protein; Provisional.
Length = 173
Score = 27.8 bits (62), Expect = 6.2
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 4/76 (5%)
Query: 53 LSMSGSGSSTS-GGLTYKDSGVDIDAGSELVRRIAKMAPGIGGFGGLFPLGDSY-LVAGT 110
+++ GSG L D+G+ ID + RRI + GL +G+ + L+ +
Sbjct: 29 MTVKGSGKGRKIEVLLDADTGIRIDQCAFFSRRIRERLEEDEELLGL--VGEDFDLMVSS 86
Query: 111 DGVGTKLKLAFETGIH 126
G+G + L + G H
Sbjct: 87 PGLGEPIILPRQYGRH 102
>gnl|CDD|236461 PRK09302, PRK09302, circadian clock protein KaiC; Reviewed.
Length = 509
Score = 28.7 bits (65), Expect = 6.3
Identities = 17/35 (48%), Positives = 19/35 (54%), Gaps = 6/35 (17%)
Query: 85 IAKMAPGIGGF-----GGLFPLGDSYLVAGTDGVG 114
I K+ GI GF GGL P G LV+GT G G
Sbjct: 10 IEKLPTGIEGFDDITHGGL-PKGRPTLVSGTAGTG 43
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 28.3 bits (63), Expect = 6.3
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 79 SELVRRIAKMAPGIGGFGGLFPLGDSYLVAGTD 111
+LV +I + FGGL P G S+L AG D
Sbjct: 108 EQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYD 140
>gnl|CDD|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex,
archaeal, alpha subunit. This protein family describes
the archaeal proteasome alpha subunit, homologous to
both the beta subunit and to the alpha and beta subunits
of eukaryotic proteasome subunits. This family is
universal in the first 29 complete archaeal genomes but
occasionally is duplicated [Protein fate, Degradation of
proteins, peptides, and glycopeptides].
Length = 224
Score = 28.0 bits (63), Expect = 6.7
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 7/58 (12%)
Query: 66 LTYKDSGVDIDAGSELVRRIAKMAPGIGGFGGLFPLGDSYLVAGTDGVGTKLKLAFET 123
LTY +D++ L ++I + GG+ P G + L+AG D G +L FET
Sbjct: 96 LTY-GEPIDVET---LAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRL---FET 146
>gnl|CDD|173361 PTZ00066, PTZ00066, pyruvate kinase; Provisional.
Length = 513
Score = 28.2 bits (63), Expect = 8.5
Identities = 11/22 (50%), Positives = 15/22 (68%), Gaps = 3/22 (13%)
Query: 168 VIKGIVDGCQQSDCVLLGGETA 189
V ++DG +DCV+L GETA
Sbjct: 335 VANAVLDG---TDCVMLSGETA 353
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
0.318 0.137 0.398
Gapped
Lambda K H
0.267 0.0809 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,881,779
Number of extensions: 1985314
Number of successful extensions: 1718
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1670
Number of HSP's successfully gapped: 62
Length of query: 388
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 289
Effective length of database: 6,546,556
Effective search space: 1891954684
Effective search space used: 1891954684
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.7 bits)