RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 012517
(462 letters)
>gnl|CDD|178421 PLN02826, PLN02826, dihydroorotate dehydrogenase.
Length = 409
Score = 747 bits (1931), Expect = 0.0
Identities = 349/411 (84%), Positives = 377/411 (91%), Gaps = 2/411 (0%)
Query: 52 GRLLTGATTLGLVIATGAYVSTVDEATFCGWLFSATKLVNPFFALLDAEVAHTLAVSAAA 111
GRLLTGA +GL IA GAYVSTVDEATFCGWLF+ATKLVNP F LLD E AH+LA+SAAA
Sbjct: 1 GRLLTGAL-IGLAIAGGAYVSTVDEATFCGWLFNATKLVNPLFRLLDPETAHSLAISAAA 59
Query: 112 RGWVPREKRPDPAILGLEVWGRKFSNPLGLAAGFDKNAEAVEGLLGLGFGFVEVGSVTPV 171
RG VPREKRPDP++LG+EVWGR FSNP+GLAAGFDKNAEAVEGLLGLGFGFVE+GSVTP+
Sbjct: 60 RGLVPREKRPDPSVLGVEVWGRTFSNPIGLAAGFDKNAEAVEGLLGLGFGFVEIGSVTPL 119
Query: 172 PQEGNPKPRIFRLRQEGAIINRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEV 231
PQ GNPKPR+FRLR+EGAIINR GFNSEGIVAVAKRLGAQHGKRKLDETS +SS +D+V
Sbjct: 120 PQPGNPKPRVFRLREEGAIINRYGFNSEGIVAVAKRLGAQHGKRKLDETS-SSSFSSDDV 178
Query: 232 KAGGKAGPGILGVNIGKNKTSEDAAADYVQGVHTLSQYADYLVINVSSPNTPGLRMLQGR 291
KAGGKAGPGILGVN+GKNKTSEDAAADYVQGV LSQYADYLVINVSSPNTPGLR LQGR
Sbjct: 179 KAGGKAGPGILGVNLGKNKTSEDAAADYVQGVRALSQYADYLVINVSSPNTPGLRKLQGR 238
Query: 292 KQLKDLVKKVQAARDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNT 351
KQLKDL+KKV AARDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVA+AL +DGLIISNT
Sbjct: 239 KQLKDLLKKVLAARDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVALALGIDGLIISNT 298
Query: 352 TISRPDPVSKNPVAKETGGLSGKPLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYR 411
TISRPD V +P A E GGLSGKPL LS +L+EMY LTRGKIPL+GCGG+SSGEDAY+
Sbjct: 299 TISRPDSVLGHPHADEAGGLSGKPLFDLSTEVLREMYRLTRGKIPLVGCGGVSSGEDAYK 358
Query: 412 KIRAGATLVQLYTAFAYGGPALIPQIKAELAECLERDGFKSIIEAVGADYR 462
KIRAGA+LVQLYTAFAY GPALIP+IKAELA CLERDGFKSI EAVGAD+R
Sbjct: 359 KIRAGASLVQLYTAFAYEGPALIPRIKAELAACLERDGFKSIQEAVGADHR 409
>gnl|CDD|240089 cd04738, DHOD_2_like, Dihydroorotate dehydrogenase (DHOD) class 2.
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, their cellular
location and their natural electron acceptor used to
reoxidize the flavin group. Members of class 1 are
cytosolic enzymes and multimers, while class 2 enzymes
are membrane associated, monomeric and use respiratory
quinones as their physiological electron acceptors.
Length = 327
Score = 497 bits (1283), Expect = e-177
Identities = 196/355 (55%), Positives = 238/355 (67%), Gaps = 34/355 (9%)
Query: 92 PFFALLDAEVAHTLAVSAAARGWVPR---EKRPDPAILGLEVWGRKFSNPLGLAAGFDKN 148
P LLD E AH LA+ A G P D L +EV+G F NP+GLAAGFDKN
Sbjct: 2 PLLFLLDPETAHRLAIRALKLGLGPPLLLLLVYDDPRLEVEVFGLTFPNPVGLAAGFDKN 61
Query: 149 AEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRLRQEGAIINRCGFNSEGIVAVAKRL 208
AEA++ LL LGFGFVEVG+VTP PQ GNPKPR+FRL ++ A+INR GFN++G AVAKRL
Sbjct: 62 AEAIDALLALGFGFVEVGTVTPRPQPGNPKPRLFRLPEDEALINRMGFNNDGADAVAKRL 121
Query: 209 GAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGVNIGKNKTS--EDAAADYVQGVHTL 266
+ + G LGVNIGKNK + EDA DYV GV L
Sbjct: 122 KKRRPRG------------------------GPLGVNIGKNKDTPLEDAVEDYVIGVRKL 157
Query: 267 SQYADYLVINVSSPNTPGLRMLQGRKQLKDLVKKVQAARDEMQWGEEGPPPLLVKIAPDL 326
YADYLV+NVSSPNTPGLR LQG++ L++L+ V+ R+++ PLLVKIAPDL
Sbjct: 158 GPYADYLVVNVSSPNTPGLRDLQGKEALRELLTAVKEERNKL----GKKVPLLVKIAPDL 213
Query: 327 SKEDLEDIAAVAVALRLDGLIISNTTISRPDPVSKNPVAKETGGLSGKPLLSLSNNILKE 386
S E+LEDIA VA+ +DG+I +NTTISRP + ++P+A ETGGLSG PL S +L+E
Sbjct: 214 SDEELEDIADVALEHGVDGIIATNTTISRP-GLLRSPLANETGGLSGAPLKERSTEVLRE 272
Query: 387 MYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKAEL 441
+Y LT GKIP+IG GGISSGEDAY KIRAGA+LVQLYT Y GP L+ +IK EL
Sbjct: 273 LYKLTGGKIPIIGVGGISSGEDAYEKIRAGASLVQLYTGLVYEGPGLVKRIKREL 327
>gnl|CDD|235388 PRK05286, PRK05286, dihydroorotate dehydrogenase 2; Reviewed.
Length = 344
Score = 465 bits (1200), Expect = e-164
Identities = 167/371 (45%), Positives = 219/371 (59%), Gaps = 39/371 (10%)
Query: 88 KLVNPFFALLDAEVAHTLAVSA-------AARGWVPREKRPDPAILGLEVWGRKFSNPLG 140
L P LD E AH L + A + + L + V G F NP+G
Sbjct: 4 PLARPLLFKLDPETAHELTIRALKRASRTPLLSLLRQRLTYTDPRLPVTVMGLTFPNPVG 63
Query: 141 LAAGFDKNAEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRLRQEGAIINRCGFNSEG 200
LAAGFDKN EA++ L LGFGFVEVG+VTP PQ GNPKPR+FRL ++ A+INR GFN++G
Sbjct: 64 LAAGFDKNGEAIDALGALGFGFVEVGTVTPRPQPGNPKPRLFRLPEDEALINRMGFNNDG 123
Query: 201 IVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGVNIGKNKTS--EDAAAD 258
A+A+RL + LG+NIGKNK + EDA D
Sbjct: 124 ADALAERLKKAY-------------------------RGIPLGINIGKNKDTPLEDAVDD 158
Query: 259 YVQGVHTLSQYADYLVINVSSPNTPGLRMLQGRKQLKDLVKKVQAARDEMQWGEEGPPPL 318
Y+ + L YADY +N+SSPNTPGLR LQ + L +L+ ++ A+ E+ G PL
Sbjct: 159 YLICLEKLYPYADYFTVNISSPNTPGLRDLQYGEALDELLAALKEAQAEL----HGYVPL 214
Query: 319 LVKIAPDLSKEDLEDIAAVAVALRLDGLIISNTTISRPDPVSKNPVAKETGGLSGKPLLS 378
LVKIAPDLS E+L+DIA +A+ +DG+I +NTT+SR + P A E GGLSG+PL
Sbjct: 215 LVKIAPDLSDEELDDIADLALEHGIDGVIATNTTLSRDG-LKGLPNADEAGGLSGRPLFE 273
Query: 379 LSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIK 438
S +++ +Y G++P+IG GGI S EDAY KIRAGA+LVQ+Y+ Y GP L+ +I
Sbjct: 274 RSTEVIRRLYKELGGRLPIIGVGGIDSAEDAYEKIRAGASLVQIYSGLIYEGPGLVKEIV 333
Query: 439 AELAECLERDG 449
LA L RDG
Sbjct: 334 RGLARLLRRDG 344
>gnl|CDD|233243 TIGR01036, pyrD_sub2, dihydroorotate dehydrogenase, subfamily 2.
This model describes enzyme protein dihydroorotate
dehydrogenase exclusively for subfamily 2. It includes
members from bacteria, yeast, plants etc. The
subfamilies 1 and 2 share extensive homology,
particularly toward the C-terminus. This subfamily has a
longer N-terminal region [Purines, pyrimidines,
nucleosides, and nucleotides, Pyrimidine ribonucleotide
biosynthesis].
Length = 336
Score = 351 bits (903), Expect = e-119
Identities = 145/362 (40%), Positives = 200/362 (55%), Gaps = 36/362 (9%)
Query: 89 LVNPFFALLDAEVAHTLAV------SAAARGWVPREKRPDPAILGLEVWGRKFSNPLGLA 142
LV LD E AH + + R L + V G F NPLGLA
Sbjct: 3 LVRKLLFQLDPERAHEFTFQQLRLITGTPFLALLRSLVGAKDKLPVTVLGLTFPNPLGLA 62
Query: 143 AGFDKNAEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRLRQEGAIINRCGFNSEGIV 202
AGFDK+ EA++ L +GFG++E+G+VTP PQ GNPKPR+FRL + +INR GFN+ G
Sbjct: 63 AGFDKDGEAIDALGAMGFGYLEIGTVTPRPQPGNPKPRLFRLIEAEGLINRMGFNNHGAD 122
Query: 203 AVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGVNIGKNK--TSEDAAADYV 260
+ + + K G +G+NIGKNK E A DY+
Sbjct: 123 NLVENVKRARYK-------------------------GPIGINIGKNKDTPVEQAKDDYL 157
Query: 261 QGVHTLSQYADYLVINVSSPNTPGLRMLQGRKQLKDLVKKVQAARDEMQWGEEGPPPLLV 320
+ + YA Y+V+N+SSPNTPGLR LQ + L DL+ ++ ++++Q P+ V
Sbjct: 158 ACLRKIYPYAGYIVVNISSPNTPGLRDLQYGEALDDLLTAIKNEQNDLQ--AHHHVPIAV 215
Query: 321 KIAPDLSKEDLEDIAAVAVALRLDGLIISNTTISRPDPVSKNPVAKETGGLSGKPLLSLS 380
KIAPDLS+ DL IA V +DG+I +NTT+SR V +TGGLSGKPL S
Sbjct: 216 KIAPDLSESDLIQIADSLVRHGIDGVIATNTTVSR-SLVQGPKNCDQTGGLSGKPLQLKS 274
Query: 381 NNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKAE 440
I++ +YL G++P+IG GGI S +DA KI AGA+L+Q+Y+ F Y GP L+ +I
Sbjct: 275 TEIIRRLYLELNGRLPIIGVGGIDSAQDAREKIAAGASLLQIYSGFIYKGPPLVKEIVKH 334
Query: 441 LA 442
+
Sbjct: 335 IV 336
>gnl|CDD|223245 COG0167, PyrD, Dihydroorotate dehydrogenase [Nucleotide transport
and metabolism].
Length = 310
Score = 313 bits (805), Expect = e-105
Identities = 141/344 (40%), Positives = 190/344 (55%), Gaps = 43/344 (12%)
Query: 126 LGLEVWGRKFSNPLGLAAGFD-KNAEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRL 184
L E+ G KF NPLGLAAGFD KN E ++ L LGFG + +VTP PQEGNPKPR+FRL
Sbjct: 2 LSTEILGLKFPNPLGLAAGFDGKNGEELDALAALGFGAIVTKTVTPEPQEGNPKPRLFRL 61
Query: 185 RQEGAIINRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGV 244
++ +INR GFN+ G A + L + K +GV
Sbjct: 62 PEDEGLINRMGFNNPGADAFLEELKLAKYEGK------------------------PIGV 97
Query: 245 NIGKNKT--SEDAAADYVQGVHTLSQYADYLVINVSSPNTPGLRMLQ-GRKQLKDLVKKV 301
NIGKNK SE+A ADY + + AD + +N+S PNTPG R L + L+ L++ V
Sbjct: 98 NIGKNKGGPSEEAWADYARLLEEAGD-ADAIELNISCPNTPGGRALGQDPELLEKLLEAV 156
Query: 302 QAARDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNTTISRPDPVSK 361
+AA P+ VK+AP++ D+++IA A DGLI NTT S +
Sbjct: 157 KAATK---------VPVFVKLAPNI--TDIDEIAKAAEEAGADGLIAINTTKSGMKIDLE 205
Query: 362 N---PVAKETGGLSGKPLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGAT 418
+A ETGGLSG PL ++ ++ E+Y G IP+IG GGI +GEDA I AGA+
Sbjct: 206 TKKPVLANETGGLSGPPLKPIALRVVAELYKRLGGDIPIIGVGGIETGEDALEFILAGAS 265
Query: 419 LVQLYTAFAYGGPALIPQIKAELAECLERDGFKSIIEAVGADYR 462
VQ+ TA Y GP ++ +I LA LE GF+SI + +G+ R
Sbjct: 266 AVQVGTALIYKGPGIVKEIIKGLARWLEEKGFESIQDIIGSALR 309
>gnl|CDD|216348 pfam01180, DHO_dh, Dihydroorotate dehydrogenase.
Length = 290
Score = 292 bits (750), Expect = 8e-97
Identities = 126/325 (38%), Positives = 180/325 (55%), Gaps = 41/325 (12%)
Query: 126 LGLEVWGRKFSNPLGLAAGFDKNAEAVEGLLGLG-FGFVEVGSVTPVPQEGNPKPRIFRL 184
L +++ G KF NP+GLA+GFDK E L LG FG +E+ SVTP PQ GNP PR+FRL
Sbjct: 2 LAVKIPGLKFKNPIGLASGFDKFGEEALKWLALGKFGAIEIKSVTPEPQPGNPTPRVFRL 61
Query: 185 RQEGAIINRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGV 244
++N G N+ G+ AV + L ++ E P LG+
Sbjct: 62 --PEGVLNAMGLNNPGLDAVLEEL-----LKRRKEY------------------PRPLGI 96
Query: 245 NIGKNKTSEDAAADYVQGVHTLSQYADYLVINVSSPNTPGLRMLQGRKQLKDLVKKVQAA 304
+ K ++ + DYV+ + +ADYL +NVS PNTPGLR LQ +L ++ KV
Sbjct: 97 ILSKAGSTVE---DYVEVARKIGPFADYLELNVSCPNTPGLRALQTDPELAAILLKVVKE 153
Query: 305 RDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVAV-ALRLDGLIISNTTISRP--DPVSK 361
+ P+LVK+APDL+ + DIA VA L G+ +NTT+ D ++
Sbjct: 154 VSK--------VPVLVKLAPDLTDIVIIDIADVAAGEDGLTGINATNTTVRGMRIDLKTE 205
Query: 362 NPV-AKETGGLSGKPLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLV 420
+P+ A TGGLSG + ++ +++E+Y +IP+IG GGI +GEDA KI AGA+ V
Sbjct: 206 SPILANGTGGLSGPAIKPIALKVIRELYQRVGPEIPIIGVGGIFTGEDALEKILAGASAV 265
Query: 421 QLYTAFAYGGPALIPQIKAELAECL 445
Q+ TA +GGP + P+I EL E L
Sbjct: 266 QIGTALIFGGPFIFPKIIDELPELL 290
>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 = 192 bits (490), Expect = 5e-58
Identities = 104/323 (32%), Positives = 145/323 (44%), Gaps = 52/323 (16%)
Query: 132 GRKFSNPLGLAAGFD-KNAEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRLRQEG-- 188
G K NP G+AAG K E + GFG V +VT P+ GNP PR+ RL EG
Sbjct: 5 GLKLKNPFGVAAGPLLKTGELIARAAAAGFGAVVYKTVTLHPRPGNPLPRVARLPPEGES 64
Query: 189 -----AIINRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPG-IL 242
I+N G + G+ ++ K PG L
Sbjct: 65 YPEQLGILNSFGLPNLGLDVWL-----------------------QDIAKAKKEFPGQPL 101
Query: 243 GVNIGKNKTSEDAAADYVQGVHTLSQY-ADYLVINVSSPNTPGLRML-QGRKQLKDLVKK 300
++G + + DYV+ + + A L +N+S PN G R L Q + + +L+K
Sbjct: 102 IASVGGS-----SKEDYVELARKIERAGAKALELNLSCPNVGGGRQLGQDPEAVANLLKA 156
Query: 301 VQAARDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNTTISRPDPVS 360
V+AA D PLLVK++P ED+ ++A A DGL NT IS
Sbjct: 157 VKAAVD---------IPLLVKLSPYFDLEDIVELAKAAERAGADGLTAINT-ISGRVVDL 206
Query: 361 KNPVAKE---TGGLSGKPLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGA 417
K TGGLSG P+ L+ + + + IP+IG GGI SGED + AGA
Sbjct: 207 KTVGPGPKRGTGGLSGAPIRPLALRWVARLAARLQLDIPIIGVGGIDSGEDVLEMLMAGA 266
Query: 418 TLVQLYTAFAYGGPALIPQIKAE 440
+ VQ+ TA + GP +I +IK E
Sbjct: 267 SAVQVATALMWDGPDVIRKIKKE 289
>gnl|CDD|240091 cd04740, DHOD_1B_like, Dihydroorotate dehydrogenase (DHOD) class 1B
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 = 296
Score = 121 bits (305), Expect = 4e-31
Identities = 101/341 (29%), Positives = 157/341 (46%), Gaps = 58/341 (17%)
Query: 129 EVWGRKFSNPLGLAAGFDKNAEAVEGLLGLG-FGFVEVGSVTPVPQEGNPKPRIFRLRQE 187
E+ G + NP+ LA+G E + + LG G + S+T P+EGNP PR+
Sbjct: 3 ELAGLRLKNPVILASGTFGFGEELSRVADLGKLGAIVTKSITLEPREGNPPPRVVET--P 60
Query: 188 GAIINRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGVNIG 247
G ++N G + G+ A + L + T P I +I
Sbjct: 61 GGMLNAIGLQNPGVEAFLEELLP---WLREFGT------------------PVI--ASIA 97
Query: 248 KNKTSEDAAADYVQGVHTLSQY-ADYLVINVSSPNTPGLRMLQGR--KQLKDLVKKVQAA 304
++V+ L+ AD + +N+S PN G M G + + ++VK V+ A
Sbjct: 98 G-----STVEEFVEVAEKLADAGADAIELNISCPNVKGGGMAFGTDPEAVAEIVKAVKKA 152
Query: 305 RDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNTTIS-RPDPVSKNP 363
D P++VK+ P+++ D+ +IA A DGL + NT D ++ P
Sbjct: 153 TDV---------PVIVKLTPNVT--DIVEIARAAEEAGADGLTLINTLKGMAIDIETRKP 201
Query: 364 V-AKETGGLSG---KPLLSLSNNILKEMYLLTRG-KIPLIGCGGISSGEDAYRKIRAGAT 418
+ TGGLSG KP+ L+ +Y + + +IP+IG GGI+SGEDA + AGA+
Sbjct: 202 ILGNVTGGLSGPAIKPI------ALRMVYQVYKAVEIPIIGVGGIASGEDALEFLMAGAS 255
Query: 419 LVQLYTAFAYGGPALIPQIKAELAECLERDGFKSIIEAVGA 459
VQ+ TA + P +I L L+ +G KSI E VG
Sbjct: 256 AVQVGTA-NFVDPEAFKEIIEGLEAYLDEEGIKSIEELVGL 295
>gnl|CDD|235982 PRK07259, PRK07259, dihydroorotate dehydrogenase 1B; Reviewed.
Length = 301
Score = 115 bits (290), Expect = 5e-29
Identities = 101/342 (29%), Positives = 152/342 (44%), Gaps = 53/342 (15%)
Query: 126 LGLEVWGRKFSNPLGLAAG-FDKNAEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRL 184
L +E+ G K NP+ A+G F E G G + S T P+EGNP PRI
Sbjct: 2 LSVELPGLKLKNPVMPASGTFGFGGEYARFYDLNGLGAIVTKSTTLEPREGNPTPRIAET 61
Query: 185 RQEGAIINRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGV 244
G ++N G + G+ A + + D P I
Sbjct: 62 --PGGMLNAIGLQNPGVDAFIEEELPW--LEEFDT-------------------PII--A 96
Query: 245 NIGKNKTSEDAAADYVQGVHTLSQY--ADYLVINVSSPNTPGLRMLQGRKQ--LKDLVKK 300
N+ + +E+ +Y + LS+ D + +N+S PN M G ++VK
Sbjct: 97 NVAGS--TEE---EYAEVAEKLSKAPNVDAIELNISCPNVKHGGMAFGTDPELAYEVVKA 151
Query: 301 VQAARDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNTTIS-RPDPV 359
V+ P++VK+ P+++ D+ +IA A DGL + NT D
Sbjct: 152 VKEVVKV---------PVIVKLTPNVT--DIVEIAKAAEEAGADGLSLINTLKGMAIDIK 200
Query: 360 SKNPV-AKETGGLSGKPLLSLSNNILKEMYLLTRG-KIPLIGCGGISSGEDAYRKIRAGA 417
++ P+ A TGGLSG + ++ L+ +Y + + IP+IG GGISS EDA I AGA
Sbjct: 201 TRKPILANVTGGLSGPAIKPIA---LRMVYQVYQAVDIPIIGMGGISSAEDAIEFIMAGA 257
Query: 418 TLVQLYTAFAYGGPALIPQIKAELAECLERDGFKSIIEAVGA 459
+ VQ+ TA + P P+I L L++ G KSI E VG
Sbjct: 258 SAVQVGTAN-FYDPYAFPKIIEGLEAYLDKYGIKSIEEIVGI 298
>gnl|CDD|130109 TIGR01037, pyrD_sub1_fam, dihydroorotate dehydrogenase (subfamily
1) family protein. This family includes subfamily 1
dihydroorotate dehydrogenases while excluding the
closely related subfamily 2 (TIGR01036). This family
also includes a number of uncharacterized proteins and a
domain of dihydropyrimidine dehydrogenase. The
uncharacterized proteins might all be dihydroorotate
dehydrogenase.
Length = 300
Score = 112 bits (281), Expect = 7e-28
Identities = 96/340 (28%), Positives = 155/340 (45%), Gaps = 50/340 (14%)
Query: 126 LGLEVWGRKFSNPLGLAAG-FDKNAEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRL 184
L +E++G +F NPL LA+G E++ + G G V S+ P+ G P I
Sbjct: 1 LEVELFGIRFKNPLILASGIMGSGVESLRRIDRSGAGAVVTKSIGLEPRPGYRNPTIVET 60
Query: 185 RQEGAIINRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGV 244
++N G + G+ A + L K +E P L
Sbjct: 61 P--CGMLNAIGLQNPGVEAFLEEL-----KPVREEF------------------PTPLIA 95
Query: 245 NI-GKNKTSEDAAADYVQGVHTLSQYADYLVINVSSPNTPGLRMLQGR--KQLKDLVKKV 301
++ G S + A+ + + Y D +N+S P+ G + G+ + D+VK V
Sbjct: 96 SVYGS---SVEEFAEVAEKLEKAPPYVDAYELNLSCPHVKGGGIAIGQDPELSADVVKAV 152
Query: 302 QAARDEMQWGEEGPPPLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNTTIS-RPDPVS 360
+ D P+ K++P+++ D+ +IA A DGL + NT + D +
Sbjct: 153 KDKTDV---------PVFAKLSPNVT--DITEIAKAAEEAGADGLTLINTLRGMKIDIKT 201
Query: 361 KNPV-AKETGGLSGKPLLSLSNNILKEMYLLTRG-KIPLIGCGGISSGEDAYRKIRAGAT 418
P+ A +TGGLSG + ++ L+ +Y + + IP+IG GGI+S EDA + AGA+
Sbjct: 202 GKPILANKTGGLSGPAIKPIA---LRMVYDVYKMVDIPIIGVGGITSFEDALEFLMAGAS 258
Query: 419 LVQLYTAFAYGGPALIPQIKAELAECLERDGFKSIIEAVG 458
VQ+ TA Y G A +I L L+ +GF SI E +G
Sbjct: 259 AVQVGTAVYYRGFAF-KKIIEGLIAFLKAEGFTSIEELIG 297
>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 = 78.1 bits (193), Expect = 4e-16
Identities = 81/323 (25%), Positives = 121/323 (37%), Gaps = 46/323 (14%)
Query: 132 GRKFSNPLGLAAG-FDKNAEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRLRQEGAI 190
G S PL AAG + E + L G V S T + GNP+PR +
Sbjct: 5 GLTISPPLMNAAGPWCTTLEDLLELAASSTGAVTTRSSTLAGRPGNPEPRYYAF--PLGS 62
Query: 191 INRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGVNIGKNK 250
IN G + G+ L+ S D + K P + V
Sbjct: 63 INSLGLPNLGL------------DYYLEYIRTIS----DGLPGSAK--PFFISVT----G 100
Query: 251 TSEDAAADYVQGVHTLSQYADYLVINVSSPNTPGLRMLQ-GRKQLKDLVKKVQAARDEMQ 309
++ED AA Y + Q+ + +N+S PN PG + + V+AA
Sbjct: 101 SAEDIAAMYKKIAAHQKQFPLAMELNLSCPNVPGKPPPAYDFDATLEYLTAVKAA----- 155
Query: 310 WGEEGPPPLLVKIAPDLSKEDLEDIAAV--AVALRLDGLIISNT-------TISRPDPVS 360
P+ VK P + +A A A + + +NT R V
Sbjct: 156 ----YSIPVGVKTPPYTDPAQFDTLAEALNAFACPISFITATNTLGNGLVLDPERETVVL 211
Query: 361 KNPVAKETGGLSGKPLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLV 420
GGL+G L L+ ++ L +I +IG GG+ G A+R AGA+ V
Sbjct: 212 --KPKTGFGGLAGAYLHPLALGNVRTFRRLLPSEIQIIGVGGVLDGRGAFRMRLAGASAV 269
Query: 421 QLYTAFAYGGPALIPQIKAELAE 443
Q+ TA GP + +I+ EL +
Sbjct: 270 QVGTALGKEGPKVFARIEKELED 292
>gnl|CDD|235045 PRK02506, PRK02506, dihydroorotate dehydrogenase 1A; Reviewed.
Length = 310
Score = 77.7 bits (192), Expect = 9e-16
Identities = 86/340 (25%), Positives = 129/340 (37%), Gaps = 65/340 (19%)
Query: 132 GRKFSNPLGLAAG-FDKNAEAVEGLLGLGFGFVEVGSVTPVPQEGNPKPRIFRLRQEGAI 190
G KF N L AAG + E +E + G S T P+ GNP+PR
Sbjct: 8 GFKFDNCLMNAAGVYCMTKEELEEVEASAAGAFVTKSATLEPRPGNPEPRYADT--PLGS 65
Query: 191 INRCGFNSEGIVAVAKRLGAQHGKRKLDETSRTSSSPNDEVKAGGKAGPGILGVNIGKNK 250
IN G + G LD E++ G P L V +G +
Sbjct: 66 INSMGLPNLGF------------DYYLDYVL--------ELQKKGPNKPHFLSV-VGLSP 104
Query: 251 TSEDAAADYVQGVHTLSQYADYLVINVSSPNTPGLRMLQGRKQLK-DLVKKVQAARDEMQ 309
+Q S + + +N+S PN PG + Q+ D Q +
Sbjct: 105 EETHTILKKIQA----SDFNGLVELNLSCPNVPG------KPQIAYDFETTEQILEEVFT 154
Query: 310 WGEEGPPPLLVKIAPDLSKEDLEDIAAVAVALRLD----------GLIISNTTISRPDPV 359
+ + PL VK+ P + AA+ L GL+I DP
Sbjct: 155 YFTK---PLGVKLPPYFDIVHFDQAAAIFNKFPLAFVNCINSIGNGLVI--------DPE 203
Query: 360 SKNPVAKETGGLSG------KPLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKI 413
+ V K G G KP +L+N ++ Y I +IG GG+ +G DA+ I
Sbjct: 204 DETVVIKPKNGFGGIGGDYIKPT-ALAN--VRAFYQRLNPSIQIIGTGGVKTGRDAFEHI 260
Query: 414 RAGATLVQLYTAFAYGGPALIPQIKAELAECLERDGFKSI 453
GA++VQ+ TA GPA+ ++ EL + G++S+
Sbjct: 261 LCGASMVQVGTALHKEGPAVFERLTKELKAIMAEKGYQSL 300
>gnl|CDD|239244 cd02940, DHPD_FMN, Dihydropyrimidine dehydrogenase (DHPD)
FMN-binding domain. 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 the dimer interface twice. Two
of the Fe-S clusters show a hitherto unobserved
coordination involving a glutamine residue.
Length = 299
Score = 50.0 bits (120), Expect = 1e-06
Identities = 49/181 (27%), Positives = 83/181 (45%), Gaps = 17/181 (9%)
Query: 270 ADYLVINVSSPNTPGLR-MLQGRKQLKDLVKKVQAARDEMQWGEEGPP-PLLVKIAPDLS 327
AD L +N S P+ R M Q +LV+++ +W E P++ K+ P+++
Sbjct: 127 ADALELNFSCPHGMPERGMGAAVGQDPELVEEI------CRWVREAVKIPVIAKLTPNIT 180
Query: 328 KEDLEDIAAVAVALRLDGLIISNT--TISRPDPVSKNP---VAKET--GGLSGKPLLSLS 380
D+ +IA A DG+ NT ++ D P V +T GG SG + ++
Sbjct: 181 --DIREIARAAKEGGADGVSAINTVNSLMGVDLDGTPPAPGVEGKTTYGGYSGPAVKPIA 238
Query: 381 NNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKAE 440
+ ++ +P+ G GGI S EDA + GA++VQ+ TA G ++ +
Sbjct: 239 LRAVSQIARAPEPGLPISGIGGIESWEDAAEFLLLGASVVQVCTAVMNQGFTIVDDMCTG 298
Query: 441 L 441
L
Sbjct: 299 L 299
>gnl|CDD|236237 PRK08318, PRK08318, dihydropyrimidine dehydrogenase subunit B;
Validated.
Length = 420
Score = 48.0 bits (115), Expect = 6e-06
Identities = 48/176 (27%), Positives = 86/176 (48%), Gaps = 19/176 (10%)
Query: 293 QLKDLVKKVQAARDEMQWGEEGPP-PLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNT 351
Q+ +LV+ +W + G P++VK+ P+++ D+ + A A D + + NT
Sbjct: 151 QVPELVEMY------TRWVKRGSRLPVIVKLTPNIT--DIREPARAAKRGGADAVSLINT 202
Query: 352 --TISRPDPVSKNPV----AKET-GGLSGKPLLSLSNNILKEMYL--LTRGKIPLIGCGG 402
+I+ D P+ K + GG G + ++ N++ E+ TRG +P+ G GG
Sbjct: 203 INSITGVDLDRMIPMPIVNGKSSHGGYCGPAVKPIALNMVAEIARDPETRG-LPISGIGG 261
Query: 403 ISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKAELAECLERDGFKSIIEAVG 458
I + DA I GA VQ+ TA G ++ + + L+ ++ GF S+ + VG
Sbjct: 262 IETWRDAAEFILLGAGTVQVCTAAMQYGFRIVEDMISGLSHYMDEKGFASLEDMVG 317
>gnl|CDD|215273 PLN02495, PLN02495, oxidoreductase, acting on the CH-CH group of
donors.
Length = 385
Score = 46.8 bits (111), Expect = 1e-05
Identities = 59/204 (28%), Positives = 89/204 (43%), Gaps = 25/204 (12%)
Query: 271 DYLVINVSSPN-TPGLRMLQGRKQLKDLVKKVQAARDEMQW-GEEGPPPLLVKIAPDLSK 328
D L IN S P+ P +M Q DL+++V W + P+ K+ P+++
Sbjct: 142 DALEINFSCPHGMPERKMGAAVGQDCDLLEEVCG------WINAKATVPVWAKMTPNIT- 194
Query: 329 EDLEDIAAVAVALRLDGLIISNTTIS---------RPDPVSKNPVAKETGGLSGK---PL 376
D+ A VA+ +G+ NT +S RP+P + GG S K P+
Sbjct: 195 -DITQPARVALKSGCEGVAAINTIMSVMGINLDTLRPEPCVEGY--STPGGYSSKAVRPI 251
Query: 377 -LSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIP 435
L+ I K M L G GG+ +G DA I GA VQ+ T G L+
Sbjct: 252 ALAKVMAIAKMMKSEFPEDRSLSGIGGVETGGDAAEFILLGADTVQVCTGVMMHGYPLVK 311
Query: 436 QIKAELAECLERDGFKSIIEAVGA 459
+ AEL + +++ F SI + GA
Sbjct: 312 NLCAELQDFMKKHNFSSIEDFRGA 335
>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 = 44.1 bits (105), Expect = 9e-05
Identities = 20/62 (32%), Positives = 30/62 (48%)
Query: 392 RGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKAELAECLERDGFK 451
R K L GG+ ED + + AGA +V +A GP I + A L +E G++
Sbjct: 235 RVKASLAASGGVHDAEDVVKYLLAGADVVMTTSALLRHGPDYIGTLLAGLEAWMEEHGYE 294
Query: 452 SI 453
S+
Sbjct: 295 SV 296
>gnl|CDD|236051 PRK07565, PRK07565, dihydroorotate dehydrogenase 2; Reviewed.
Length = 334
Score = 41.8 bits (99), Expect = 4e-04
Identities = 19/62 (30%), Positives = 30/62 (48%)
Query: 392 RGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKAELAECLERDGFK 451
R L G+ ED + + AGA +V + +A GP I I L + +ER G++
Sbjct: 237 RVGADLAATTGVHDAEDVIKMLLAGADVVMIASALLRHGPDYIGTILRGLEDWMERHGYE 296
Query: 452 SI 453
S+
Sbjct: 297 SL 298
>gnl|CDD|224560 COG1646, COG1646, Predicted phosphate-binding enzymes, TIM-barrel
fold [General function prediction only].
Length = 240
Score = 34.2 bits (79), Expect = 0.10
Identities = 18/51 (35%), Positives = 20/51 (39%), Gaps = 7/51 (13%)
Query: 367 ETGGLSGKPLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGA 417
E G +G P + EM PLI GGI S E A AGA
Sbjct: 171 EAGSGAGDP-------VPVEMVSRVLSDTPLIVGGGIRSPEQAREMAEAGA 214
>gnl|CDD|224981 COG2070, COG2070, Dioxygenases related to 2-nitropropane
dioxygenase [General function prediction only].
Length = 336
Score = 34.2 bits (79), Expect = 0.12
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 1/56 (1%)
Query: 394 KIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQI-KAELAECLERD 448
IP+I GGI+ G + GA VQ+ T F A K L + E D
Sbjct: 184 GIPVIAAGGIADGRGIAAALALGADGVQMGTRFLATKEADASDAYKQALLQATEDD 239
>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 = 34.0 bits (78), Expect = 0.12
Identities = 13/27 (48%), Positives = 15/27 (55%)
Query: 394 KIPLIGCGGISSGEDAYRKIRAGATLV 420
LI GGI SGE A RAGA ++
Sbjct: 182 DARLIVGGGIKSGEKAKEMARAGADVI 208
>gnl|CDD|224814 COG1902, NemA, NADH:flavin oxidoreductases, Old Yellow Enzyme
family [Energy production and conversion].
Length = 363
Score = 33.0 bits (76), Expect = 0.27
Identities = 32/138 (23%), Positives = 54/138 (39%), Gaps = 23/138 (16%)
Query: 294 LKDLVKKVQAARDEMQWGEEGPPPLLVKIAP-DLSKE---DLEDIAAVAVALRLDGLIIS 349
L ++V V+ A G + P + V+++P D +E+ +A AL GL+
Sbjct: 202 LLEVVDAVREA-----VGADFP--VGVRLSPDDFFDGGGLTIEEAVELAKALEEAGLVDY 254
Query: 350 NTTISRPDPVSKNPVAKETGGLSGKPLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDA 409
+S + G + + I K +IP+I GGI+ E A
Sbjct: 255 IH-VSEGGYERGGTITVSGPG----YQVEFAARIKK------AVRIPVIAVGGINDPEQA 303
Query: 410 YRKIRAG-ATLVQLYTAF 426
+ +G A LV + F
Sbjct: 304 EEILASGRADLVAMGRPF 321
>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 = 32.8 bits (76), Expect = 0.27
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 394 KIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFA 427
IP+I GGI+ G + GA VQ+ T F
Sbjct: 156 DIPVIAAGGIADGRGIAAALALGADGVQMGTRFL 189
>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 = 33.0 bits (76), Expect = 0.28
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 393 GKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAF 426
G++PLI G I++ +DA + GA LV +
Sbjct: 283 GRLPLIAVGSINTPDDALEALETGADLVAIGRGL 316
>gnl|CDD|130830 TIGR01769, GGGP, phosphoglycerol geranylgeranyltransferase. This
model represents geranylgeranylglyceryl phosphate
synthase which catalyzes the first committed step in the
synthesis of ether-linked membrane lipids in archaea.
The active enzyme is reported to be a homopentamer in
Methanobacterium thermoautotrophicum but is reported to
be a homodimer in Thermoplasma acidophilum.
Length = 205
Score = 32.5 bits (74), Expect = 0.32
Identities = 14/26 (53%), Positives = 16/26 (61%)
Query: 395 IPLIGCGGISSGEDAYRKIRAGATLV 420
IPLI GGI S E AY + AGA +
Sbjct: 177 IPLIVGGGIRSPEIAYEIVLAGADAI 202
>gnl|CDD|233108 TIGR00735, hisF, imidazoleglycerol phosphate synthase, cyclase
subunit. [Amino acid biosynthesis, Histidine family].
Length = 254
Score = 32.3 bits (74), Expect = 0.41
Identities = 28/68 (41%), Positives = 35/68 (51%), Gaps = 8/68 (11%)
Query: 395 IPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKAELAECLERDGFKSII 454
IPL GGI S ED + +RAGA V + TA A P LI ELA +R G + I+
Sbjct: 75 IPLTVGGGIKSIEDVDKLLRAGADKVSINTA-AVKNPELI----YELA---DRFGSQCIV 126
Query: 455 EAVGADYR 462
A+ A
Sbjct: 127 VAIDAKRV 134
>gnl|CDD|234996 PRK02083, PRK02083, imidazole glycerol phosphate synthase subunit
HisF; Provisional.
Length = 253
Score = 32.3 bits (75), Expect = 0.42
Identities = 23/49 (46%), Positives = 28/49 (57%), Gaps = 5/49 (10%)
Query: 395 IPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKAELAE 443
IPL GGI S EDA R +RAGA V + +A A P LI +E A+
Sbjct: 75 IPLTVGGGIRSVEDARRLLRAGADKVSINSA-AVANPELI----SEAAD 118
>gnl|CDD|239206 cd02812, PcrB_like, PcrB_like proteins. One member of this family,
a protein from Archaeoglobus fulgidus, has been
characterized as a (S)-3-O-geranylgeranylglyceryl
phosphate synthase (AfGGGPS). AfGGGPS catalyzes the
formation of an ether linkage between
sn-glycerol-1-phosphate (G1P) and geranylgeranyl
diphosphate (GGPP), the committed step in archaeal lipid
biosynthesis. Therefore, it has been proposed that
PcrB-like proteins are either prenyltransferases or are
involved in lipoteichoic acid biosynthesis although the
exact function is still unknown.
Length = 219
Score = 31.1 bits (71), Expect = 0.88
Identities = 14/25 (56%), Positives = 14/25 (56%)
Query: 393 GKIPLIGCGGISSGEDAYRKIRAGA 417
G PLI GGI SGE A AGA
Sbjct: 174 GDTPLIVGGGIRSGEQAKEMAEAGA 198
>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 = 30.9 bits (71), Expect = 0.98
Identities = 22/43 (51%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 395 IPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQI 437
IPL GGI S EDA R +RAGA V + +A A P LI +I
Sbjct: 72 IPLTVGGGIRSLEDARRLLRAGADKVSINSA-AVENPELIREI 113
>gnl|CDD|235237 PRK04169, PRK04169, geranylgeranylglyceryl phosphate synthase-like
protein; Reviewed.
Length = 232
Score = 30.5 bits (70), Expect = 1.5
Identities = 14/44 (31%), Positives = 18/44 (40%)
Query: 396 PLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQIKA 439
PLI GGI S E A + AGA + + + IK
Sbjct: 186 PLIYGGGIRSPEQARELMAAGADTIVVGNIIEEDPKKTVKAIKK 229
>gnl|CDD|215294 PLN02535, PLN02535, glycolate oxidase.
Length = 364
Score = 30.6 bits (69), Expect = 1.6
Identities = 27/113 (23%), Positives = 50/113 (44%), Gaps = 24/113 (21%)
Query: 317 PLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNTTISRPDPVSKNPVAKETGGLSGKPL 376
P+L+K L++ED A AV + + G+I+SN + D
Sbjct: 225 PILIKGV--LTRED----AIKAVEVGVAGIIVSNHGARQLDYSPA--------------- 263
Query: 377 LSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYG 429
+ ++L+E+ G++P++ GG+ G D ++ + GA V + YG
Sbjct: 264 ---TISVLEEVVQAVGGRVPVLLDGGVRRGTDVFKALALGAQAVLVGRPVIYG 313
>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 = 30.5 bits (70), Expect = 1.8
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 394 KIPLIGCGGISSGEDAYRKIRAGATLV 420
+PLI GGI +G D + + GA LV
Sbjct: 255 DLPLIASGGIRNGLDIAKALALGADLV 281
>gnl|CDD|130373 TIGR01306, GMP_reduct_2, guanosine monophosphate reductase,
bacterial. A deep split separates two families of GMP
reductase. The other (TIGR01305) is found in eukaryotic
and some proteobacterial lineages, including E. coli,
while this family is found in a variety of bacterial
lineages [Purines, pyrimidines, nucleosides, and
nucleotides, Nucleotide and nucleoside
interconversions].
Length = 321
Score = 30.3 bits (68), Expect = 1.9
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 396 PLIGCGGISSGEDAYRKIRAGATLVQLYTAFA 427
P+I GGI + D + IR GA++V + + FA
Sbjct: 200 PIIADGGIRTHGDIAKSIRFGASMVMIGSLFA 231
>gnl|CDD|146906 pfam04498, Pox_VP8_L4R, Poxvirus nucleic acid binding protein
VP8/L4R. The 25 kDa product of Vaccinia virus gene L4R
is also known as VP8. VP8 is found in the cores of
Vaccinia virions and is essential for the formation of
transcriptionally competent viral particles. It binds
both single stranded and double stranded DNA and RNA
with similar affinities. Binding is thought to involve
cooperative interactions between protein subunits. The
protein is proteolytically cleaved during viral assembly
at an Ala-Gly-Ala site. Possible roles for VP8 include
packaging and maintaining the DNA genome in a
transcribable configuration; binding ssDNA during
transcription initiation; and cooperation with I8R
protein to unwind early promoter regions. VP8 may also
function in either transcription elongation or release
of mRNA molecules from viral particles.
Length = 218
Score = 30.1 bits (68), Expect = 2.0
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 244 VNIGKNKTSEDAAADYVQ---GVHTLSQYADYLVINVSSPNT 282
VNI K T A++ YV + + +YA+ +++V SP+
Sbjct: 117 VNIYKEDTESAASSSYVNIGANIALVEKYANTNLLDVHSPSA 158
>gnl|CDD|132358 TIGR03315, Se_ygfK, putative selenate reductase, YgfK subunit.
Members of this protein family are YgfK, predicted to be
one subunit of a three-subunit, molybdopterin-containing
selenate reductase. This enzyme is found, typically, in
genomic regions associated with xanthine dehydrogenase
homologs predicted to belong to the selenium-dependent
molybdenum hydroxylases (SDMH). Therefore, the selenate
reductase is suggested to play a role in furnishing
selenide for SelD, the selenophosphate synthase.
Length = 1012
Score = 30.5 bits (69), Expect = 2.1
Identities = 20/72 (27%), Positives = 34/72 (47%), Gaps = 8/72 (11%)
Query: 115 VPREK--RPDPAILGLEVWGRKFSNPLGLAAGFDKNAEAVEGLLG---LGFGFVEVGSVT 169
+P+ K R DP + ++G K P+G AAG + + + ++ G F E+ +V
Sbjct: 29 IPKRKFYRADPGKY-ISLFGEKLETPVGPAAG--PHTQLAQNIVASYLTGGRFFELKTVQ 85
Query: 170 PVPQEGNPKPRI 181
+ PKP I
Sbjct: 86 VLDGLDLPKPCI 97
>gnl|CDD|239933 cd04487, RecJ_OBF2_like, RecJ_OBF2_like: A subfamily of OB folds
corresponding to the second OB fold (OBF2) of
archaeal-specific proteins with similarity to
eubacterial RecJ. RecJ is an ssDNA-specific exonuclease.
Although the overall sequence similarity of these
proteins to eubacterial RecJ proteins is marginal, they
appear to carry motifs, which have been shown to be
essential for nuclease function in Escherichia coli
RecJ. In addition to this OB fold, most proteins in this
subfamily contain: i) an N-terminal OB fold belonging to
a different domain family (the ribosomal S1-like
RNA-binding family); and ii) a domain, C-terminal to
OBF2, characteristic of DHH family proteins. DHH family
proteins include E. coli RecJ, and are predicted to have
a phosphoesterase function.
Length = 73
Score = 28.0 bits (63), Expect = 2.2
Identities = 12/38 (31%), Positives = 15/38 (39%), Gaps = 2/38 (5%)
Query: 166 GSVTPVPQEGNPKPRIFRLRQEGAIINRCGFNSEGIVA 203
G V + Q P IF LR E + F G+ A
Sbjct: 5 GEVVQIKQTSGPT--IFTLRDETGTVWAAAFEEAGVRA 40
>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 = 30.3 bits (69), Expect = 2.2
Identities = 22/76 (28%), Positives = 29/76 (38%), Gaps = 8/76 (10%)
Query: 394 KIPLIGCGGISSGEDAYRKIRAGATLVQ-----LYTAFAYGGPAL---IPQIKAELAECL 445
P+I GG+ +G D + I GA V L A G A+ I I EL +
Sbjct: 254 DAPIIASGGLRTGLDVAKAIALGADAVGMARPFLKAALDEGEEAVIEEIELIIEELKVAM 313
Query: 446 ERDGFKSIIEAVGADY 461
G K+I E
Sbjct: 314 FLTGAKTIAELKKVPL 329
>gnl|CDD|216281 pfam01070, FMN_dh, FMN-dependent dehydrogenase.
Length = 302
Score = 30.1 bits (69), Expect = 2.3
Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 8/70 (11%)
Query: 392 RGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYG----GPA----LIPQIKAELAE 443
G+IP++ GGI G D + + GA V L F YG G A + ++ EL
Sbjct: 223 GGRIPVLVDGGIRRGTDVLKALALGADAVLLGRPFLYGLAAGGEAGVAHALEILRDELER 282
Query: 444 CLERDGFKSI 453
+ G SI
Sbjct: 283 TMALLGCTSI 292
>gnl|CDD|224223 COG1304, idi, Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and
related proteins) [Coenzyme transport and metabolism].
Length = 360
Score = 30.3 bits (69), Expect = 2.3
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 8/71 (11%)
Query: 393 GKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAY----GGPA----LIPQIKAELAEC 444
+I +I GGI SG D + + GA V + F Y GG A ++ I+ EL
Sbjct: 272 DRIEVIADGGIRSGLDVAKALALGADAVGIGRPFLYGLAAGGEAGVERVLEIIRKELKIA 331
Query: 445 LERDGFKSIIE 455
+ G K+I E
Sbjct: 332 MALTGAKNIEE 342
>gnl|CDD|133162 cd06098, phytepsin, Phytepsin, a plant homolog of mammalian
lysosomal pepsins. Phytepsin, a plant homolog of
mammalian lysosomal pepsins, resides in grains, roots,
stems, leaves and flowers. Phytepsin may participate in
metabolic turnover and in protein processing events. In
addition, it highly expressed in several plant tissues
undergoing apoptosis. Phytepsin contains an internal
region consisting of about 100 residues not present in
animal or microbial pepsins. This region is thus called
a plant specific insert. The insert is highly similar to
saponins, which are lysosomal sphingolipid-activating
proteins in mammalian cells. The saponin-like domain may
have a role in the vacuolar targeting of phytepsin.
Phytepsin, as its animal counterparts, possesses a
topology typical of all aspartic proteases. They are
bilobal enzymes, each lobe contributing a catalytic Asp
residue, with an extended active site cleft localized
between the two lobes of the molecule. One lobe has
probably evolved from the other through a gene
duplication event in the distant past. This family of
aspartate proteases is classified by MEROPS as the
peptidase family A1 (pepsin A, clan AA).
Length = 317
Score = 30.0 bits (68), Expect = 2.3
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 7/31 (22%)
Query: 141 LAAGFDKNAEAVEGLLGLGFGFVEVGSVTPV 171
L A FD G+LGLGF + VG PV
Sbjct: 111 LLAKFD-------GILGLGFQEISVGKAVPV 134
>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 = 29.9 bits (68), Expect = 2.5
Identities = 29/106 (27%), Positives = 42/106 (39%), Gaps = 19/106 (17%)
Query: 318 LLVKIAPDLSKEDLEDIAAVAVALRLDGL---IISNTTISRPDPVSKNPVAKETGGLSGK 374
L+ +I + + + DI+ + AL L II TT+S +
Sbjct: 114 LIKRIHEEYNCLLMADISTLEEALNAAKLGFDIIG-TTLSGYTEETAKTE---------D 163
Query: 375 PLLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLV 420
P L LKE L IP+I G I+S E A + + GA V
Sbjct: 164 PDFEL----LKE--LRKALGIPVIAEGRINSPEQAAKALELGADAV 203
>gnl|CDD|235465 PRK05437, PRK05437, isopentenyl pyrophosphate isomerase;
Provisional.
Length = 352
Score = 30.1 bits (69), Expect = 2.6
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 394 KIPLIGCGGISSGEDAYRKIRAGATLV 420
+P+I GGI +G D + + GA V
Sbjct: 261 DLPIIASGGIRNGLDIAKALALGADAV 287
>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 = 29.6 bits (67), Expect = 2.9
Identities = 13/37 (35%), Positives = 19/37 (51%)
Query: 384 LKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLV 420
+K M G++ + GGI + EDA I AGA +
Sbjct: 162 VKLMKEAVGGRVGVKAAGGIKTLEDALAAIEAGADGI 198
>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 = 29.5 bits (67), Expect = 3.1
Identities = 18/43 (41%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 395 IPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQI 437
+PL GGI S EDA + + GA V + TA A P LI +
Sbjct: 75 MPLTVGGGIRSLEDAKKLLSLGADKVSINTA-ALENPDLIEEA 116
>gnl|CDD|218612 pfam05501, DUF755, Domain of unknown function (DUF755). This
family is predominated by ORFs from Circoviridae. The
function of this family remains to be determined.
Length = 122
Score = 28.5 bits (64), Expect = 3.4
Identities = 16/31 (51%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 8 RDFSYRRVIS-STLGRSRHCFSSSSSSSSSS 37
R S R S R R SSSSSSSSSS
Sbjct: 86 RHVSSRSAKKISAKKRRRSSSSSSSSSSSSS 116
>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 = 29.7 bits (68), Expect = 3.4
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 8/70 (11%)
Query: 392 RGKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYG----GPA----LIPQIKAELAE 443
G+I ++ GGI G D + + GA V + F YG G A ++ ++ EL
Sbjct: 225 GGRIEVLLDGGIRRGTDVLKALALGADAVLIGRPFLYGLAAGGEAGVAHVLEILRDELER 284
Query: 444 CLERDGFKSI 453
+ G S+
Sbjct: 285 AMALLGCASL 294
>gnl|CDD|129416 TIGR00316, cdhC, CO dehydrogenase/CO-methylating acetyl-CoA
synthase complex, beta subunit. Nomenclature follows
the description for Methanosarcina thermophila. The
CO-methylating acetyl-CoA synthase is considered the
defining enzyme of the Wood-Ljungdahl pathway, used for
acetate catabolism by sulfate reducing bacteria but for
acetate biosynthesis by acetogenic bacteria such as
oorella thermoacetica (f. Clostridium thermoaceticum)
[Energy metabolism, Chemoautotrophy].
Length = 458
Score = 29.8 bits (67), Expect = 3.4
Identities = 15/61 (24%), Positives = 36/61 (59%), Gaps = 1/61 (1%)
Query: 275 INVSSPNTPGLRMLQGRKQLKDL-VKKVQAARDEMQWGEEGPPPLLVKIAPDLSKEDLED 333
+ ++ P + G +++ +++D+ V+ + DEM+ G+ P ++V++A +EDLE
Sbjct: 25 VELAGPKSYGFELVKVVDKVEDMKVEIIGPDIDEMEEGQRYPFAIIVEVAGSNLEEDLEG 84
Query: 334 I 334
+
Sbjct: 85 V 85
>gnl|CDD|234891 PRK01033, PRK01033, imidazole glycerol phosphate synthase subunit
HisF; Provisional.
Length = 258
Score = 29.1 bits (66), Expect = 4.3
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 396 PLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQI 437
PL GGI + E A + G V + TA A P LI +
Sbjct: 76 PLCYGGGIKTLEQAKKIFSLGVEKVSINTA-ALEDPDLITEA 116
>gnl|CDD|223185 COG0107, HisF, Imidazoleglycerol-phosphate synthase [Amino acid
transport and metabolism].
Length = 256
Score = 29.1 bits (66), Expect = 4.5
Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 395 IPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAYGGPALIPQI 437
IPL GGI S EDA + +RAGA V + +A A P LI +
Sbjct: 75 IPLTVGGGIRSVEDARKLLRAGADKVSINSA-AVKDPELITEA 116
>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 = 4.9
Identities = 16/58 (27%), Positives = 22/58 (37%), Gaps = 12/58 (20%)
Query: 367 ETGGLSGKP----LLSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGATLV 420
E G + +P L++ +L K L GGI S E A AGA +
Sbjct: 156 EAGSGAPEPVPPELVAEVKKVLD--------KARLFVGGGIRSVEKAREMAEAGADTI 205
>gnl|CDD|177516 PHA03070, PHA03070, DNA-binding virion core protein; Provisional.
Length = 249
Score = 28.9 bits (65), Expect = 5.1
Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 244 VNIGKNKTSEDAAADYVQ---GVHTLSQYADYLVINVSSPNT 282
VNI K +++ Y + + +S+YA+ +++V SP+
Sbjct: 148 VNIYKENMESASSSSYTKIGDNIALISKYANTNLLDVHSPSA 189
>gnl|CDD|188431 TIGR03916, rSAM_link_UDG, putative DNA modification/repair radical
SAM protein. This uncharacterized protein of about 400
amino acids in length contains a radical SAM protein in
the N-terminal half. Members are present in about twenty
percent of prokaryotic genomes, always paired with a
member of the conserved hypothetical protein TIGR03915.
Roughly forty percent of the members of that family
exist as fusions with a uracil-DNA glycosylase-like
region, TIGR03914. In DNA, uracil results from
deamidation of cytosine, forming U/G mismatches that
lead to mutation, and so uracil-DNA glycosylase is a DNA
repair enzyme. This indirect connection, and the
recurring role or radical SAM protein in modification
chemistries, suggest that this protein may act in DNA
modification, repair, or both [Unknown function, Enzymes
of unknown specificity].
Length = 415
Score = 28.8 bits (65), Expect = 6.0
Identities = 10/46 (21%), Positives = 23/46 (50%)
Query: 263 VHTLSQYADYLVINVSSPNTPGLRMLQGRKQLKDLVKKVQAARDEM 308
+ AD L +N+ P GL++L K + ++K ++ ++ +
Sbjct: 150 IEEAGLLADRLSVNLELPTEEGLKLLAPEKSHQSILKPMRFIQNGI 195
>gnl|CDD|183033 PRK11197, lldD, L-lactate dehydrogenase; Provisional.
Length = 381
Score = 28.8 bits (65), Expect = 6.2
Identities = 15/36 (41%), Positives = 18/36 (50%)
Query: 393 GKIPLIGCGGISSGEDAYRKIRAGATLVQLYTAFAY 428
G I ++ GI +G D R I GA V L AF Y
Sbjct: 299 GDITILADSGIRNGLDVVRMIALGADTVLLGRAFVY 334
>gnl|CDD|166620 PLN02979, PLN02979, glycolate oxidase.
Length = 366
Score = 28.9 bits (64), Expect = 6.5
Identities = 28/102 (27%), Positives = 45/102 (44%), Gaps = 24/102 (23%)
Query: 317 PLLVKIAPDLSKEDLEDIAAVAVALRLDGLIISNTTISRPDPVSKNPVAKETGGLSGKPL 376
P+LVK L+ ED A +A+ G+I+SN + D V A
Sbjct: 225 PILVKGV--LTGED----ARIAIQAGAAGIIVSNHGARQLDYVPATISA----------- 267
Query: 377 LSLSNNILKEMYLLTRGKIPLIGCGGISSGEDAYRKIRAGAT 418
L+E+ T+G+IP+ GG+ G D ++ + GA+
Sbjct: 268 -------LEEVVKATQGRIPVFLDGGVRRGTDVFKALALGAS 302
>gnl|CDD|180985 PRK07455, PRK07455,
keto-hydroxyglutarate-aldolase/keto-deoxy-
phosphogluconate aldolase; Provisional.
Length = 187
Score = 28.1 bits (63), Expect = 7.0
Identities = 15/30 (50%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 393 GKIPLIGCGGISSGEDAYRKIRAGATLVQL 422
G IPLI GG++ E+A I+AGA V L
Sbjct: 151 GHIPLIPTGGVTL-ENAQAFIQAGAIAVGL 179
>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 = 28.2 bits (64), Expect = 7.8
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 394 KIPLIGCGGISSGEDAYRKIR 414
IP+I G I S EDA R +
Sbjct: 183 SIPVIANGDIFSLEDALRCLE 203
>gnl|CDD|215185 PLN02326, PLN02326, 3-oxoacyl-[acyl-carrier-protein] synthase
III.
Length = 379
Score = 28.5 bits (64), Expect = 8.4
Identities = 9/51 (17%), Positives = 17/51 (33%)
Query: 7 LRDFSYRRVISSTLGRSRHCFSSSSSSSSSSAAYAAPKIPHFSKRGRLLTG 57
+ SS + C S ++ +S + + + P G L G
Sbjct: 2 ILRSGPVACASSRFAKRVRCSSVTTVDGASRPSASKYRRPRRVGSGSKLVG 52
>gnl|CDD|145046 pfam01691, Adeno_E1B_19K, Adenovirus E1B 19K protein / small
t-antigen. This family consists of adenovirus E1B 19K
protein or small t-antigen. The E1B 19K protein
inhibits E1A induced apoptosis and hence prolongs the
viability of the host cell. It can also inhibit
apoptosis mediated by tumour necrosis factor alpha and
Fas antigen. E1B 19K blocks apoptosis by interacting
with and inhibiting the p53-inducible and death-
promoting Bax protein. The E1B region of adenovirus
encodes two proteins E1B 19K the small t-antigen as
found in this family and E1B 55K the large t-antigen
which is not found in this family; both of these
proteins inhibit E1A induced apoptosis.
Length = 135
Score = 27.6 bits (62), Expect = 8.5
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 5/34 (14%)
Query: 1 MAAWKILRDFSY-RRVI----SSTLGRSRHCFSS 29
M KIL DF RR++ + T R F
Sbjct: 1 MDLLKILEDFKSLRRLLEGASNRTSWFWRFLFGG 34
>gnl|CDD|234041 TIGR02868, CydC, thiol reductant ABC exporter, CydC subunit. The
gene pair cydCD encodes an ABC-family transporter in
which each gene contains an N-terminal membrane-spanning
domain (pfam00664) and a C-terminal ATP-binding domain
(pfam00005). In E. coli these genes were discovered as
mutants which caused the terminal heme-copper oxidase
complex cytochrome bd to fail to assemble. Recent work
has shown that the transporter is involved in export of
redox-active thiol compounds such as cysteine and
glutathione. The linkage to assembly of the cytochrome
bd complex is further supported by the conserved operon
structure found outside the gammaproteobacteria
(cydABCD) containing both the transporter and oxidase
genes components. The genes used as the seed members for
this model are all either found in the
gammproteobacterial context or the CydABCD context. All
members of this family scoring above trusted at the time
of its creation were from genomes which encode a
cytochrome bd complex.
Length = 530
Score = 28.5 bits (64), Expect = 8.5
Identities = 21/107 (19%), Positives = 31/107 (28%), Gaps = 12/107 (11%)
Query: 58 ATTLGLVIATGAYVS-TVDEATFCGWLFSATKLVNPFFALLDAEVAHTLAVSAAAR---- 112
A L A + T + F AL A T +AA R
Sbjct: 251 AVLGALWAGGPAVADGRLAPVTLAVLVLLPLAAFEAFAALPAAAQQLTRVRAAAERIVEV 310
Query: 113 ----GWVPREKRPDPAILGLEVWGRKFSNPLGLAAGFDKNAEAVEGL 155
G V P +GL + L+AG+ ++G+
Sbjct: 311 LDAAGPVAEGSAPAAGAVGLGKPTLELR---DLSAGYPGAPPVLDGV 354
>gnl|CDD|236630 PRK09853, PRK09853, putative selenate reductase subunit YgfK;
Provisional.
Length = 1019
Score = 28.8 bits (65), Expect = 8.9
Identities = 10/32 (31%), Positives = 18/32 (56%), Gaps = 3/32 (9%)
Query: 115 VPREK--RPDPAILGLEVWGRKFSNPLGLAAG 144
+P ++ +PD + V+G + P+G AAG
Sbjct: 30 IPEQQFYKPDKGKT-ISVFGETLATPIGPAAG 60
>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 = 28.3 bits (64), Expect = 9.3
Identities = 31/120 (25%), Positives = 43/120 (35%), Gaps = 33/120 (27%)
Query: 317 PLLVKIAPDLSKE---DLEDIAAVAVAL---RLDGLIISNTTISRPDPVSKNPVAKETGG 370
P+ V+++ D LE+ +A AL +D L +S GG
Sbjct: 210 PVGVRLSADDFVPGGLTLEEAIEIAKALEEAGVDALHVS-------------------GG 250
Query: 371 LSGKPLLSLSNNILKEMYLLTRG-------KIPLIGCGGISSGEDAYRKIRAG-ATLVQL 422
P + + E Y L KIP+I GGI E A + G A LV L
Sbjct: 251 SYESPPPIIPPPYVPEGYFLELAEKIKKAVKIPVIAVGGIRDPEVAEEILAEGKADLVAL 310
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
0.316 0.134 0.391
Gapped
Lambda K H
0.267 0.0579 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,073,029
Number of extensions: 2421157
Number of successful extensions: 2905
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2852
Number of HSP's successfully gapped: 87
Length of query: 462
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 362
Effective length of database: 6,502,202
Effective search space: 2353797124
Effective search space used: 2353797124
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 (21.6 bits)
S2: 61 (27.6 bits)