RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780927|ref|YP_003065340.1| UDP-N-acetylglucosamine
1-carboxyvinyltransferase [Candidatus Liberibacter asiaticus str.
psy62]
(430 letters)
>gnl|CDD|31109 COG0766, MurA, UDP-N-acetylglucosamine enolpyruvyl transferase
[Cell envelope biogenesis, outer membrane].
Length = 421
Score = 581 bits (1499), Expect = e-166
Identities = 232/430 (53%), Positives = 307/430 (71%), Gaps = 10/430 (2%)
Query: 1 MDRIKIIGGNKLNGTIAISGAKNASLPVMIASLLTSETLTLENIPDLADVKLLIRILRSH 60
MD++ I GGN LNG + ISGAKNA+LP++ A+LL E +TL N+PDL+DV+ ++ +LR+
Sbjct: 1 MDKLIIEGGNPLNGEVTISGAKNAALPLLAATLLADEPVTLTNVPDLSDVETMLELLRNL 60
Query: 61 GVEILSDSSYNDQNKSYSSTMHFRCRHIVDLTGSYDLVSKMRASFWVIGPLLAREGYARI 120
G ++ + + +I Y+LV KMRAS V+GPLLAR G A++
Sbjct: 61 GAKV----ERDGDG-----ELEIDAPNINSTEAPYELVRKMRASILVLGPLLARFGKAKV 111
Query: 121 SLPGGCAIGTRPVDLFVDSLKSLGVVIKIDGGYVDARVSSKGLRGTSYTFPKVSVGATQV 180
SLPGGCAIG RPVDL + L++LG I+I+ GY++A KGL+G KVSVGAT+
Sbjct: 112 SLPGGCAIGARPVDLHLKGLEALGAEIEIEHGYIEASAP-KGLKGAHIYLDKVSVGATEN 170
Query: 181 MMMVASLSHGDTSIYNAAREPEVVDLAHCLNSMGAKISGMGSSTITIQGVTSLSGTRHRI 240
+MM A L+ G T I NAAREPE+VDLA+ LN MGAKI G G+STITI+GV L G H +
Sbjct: 171 IMMAAVLAEGTTVIENAAREPEIVDLANFLNKMGAKIEGAGTSTITIEGVEKLHGAEHSV 230
Query: 241 LPDRIEAGTYAMAVAMTGGDVILKMTDSSLLKTVFKVMRQTGVDIDIIDEGIRVRWNGEK 300
+PDRIEAGT+ +A A+TGGDV ++ L+ V +R+ GVDI+ ++GIRV G++
Sbjct: 231 IPDRIEAGTFLVAAAITGGDVTIENVRPEHLEAVLAKLREAGVDIEEGEDGIRVDMEGKR 290
Query: 301 LRPVDVITAPFPGFPTDLQAQFMAMMCCAAGISHITETIFENRFMHVQELVRLGARISLS 360
L+ VD+ T P+PGFPTD+QAQFMA++ A G S ITETIFENRFMHV EL+R+GA I L
Sbjct: 291 LKAVDIKTLPYPGFPTDMQAQFMALLTVAEGTSVITETIFENRFMHVPELIRMGANIKLE 350
Query: 361 GQTARVEGVQGLRGAPVMATDLRASVSLVIAALAAQGETEISRVYHLDRGFECLEKKLSR 420
G TA ++GV+ L GAPVMATDLRAS +LV+A L A+GET ++RVYHLDRG+E LE+KL
Sbjct: 351 GNTAVIQGVEQLSGAPVMATDLRASAALVLAGLVAEGETIVNRVYHLDRGYERLEEKLRA 410
Query: 421 CGALIQRIKG 430
GA I+R++G
Sbjct: 411 LGAKIERVEG 420
>gnl|CDD|30128 cd01555, UdpNAET, UDP-N-acetylglucosamine enolpyruvyl transferase
catalyzes enolpyruvyl transfer as part of the first step
in the biosynthesis of peptidoglycan, a component of the
bacterial cell wall. The reaction is phosphoenolpyruvate
+ UDP-N-acetyl-D-glucosamine = phosphate +
UDP-N-acetyl-3-(1-carboxyvinyl)-D-glucosamine. This
enzyme is of interest as a potential target for
anti-bacterial agents. The only other known enolpyruvyl
transferase is the related
5-enolpyruvylshikimate-3-phosphate synthase..
Length = 400
Score = 532 bits (1372), Expect = e-152
Identities = 217/410 (52%), Positives = 284/410 (69%), Gaps = 10/410 (2%)
Query: 12 LNGTIAISGAKNASLPVMIASLLTSETLTLENIPDLADVKLLIRILRSHGVEILSDSSYN 71
L+G + ISGAKNA+LP++ A+LLT E +TL N+PDL DV+ +I +LRS G ++
Sbjct: 1 LSGEVRISGAKNAALPILAAALLTDEPVTLRNVPDLLDVETMIELLRSLGAKV------- 53
Query: 72 DQNKSYSSTMHFRCRHIVDLTGSYDLVSKMRASFWVIGPLLAREGYARISLPGGCAIGTR 131
+T+ +I Y+LV KMRAS V+GPLLAR G AR+SLPGGCAIG R
Sbjct: 54 --EFEGENTLVIDASNINSTEAPYELVRKMRASILVLGPLLARFGEARVSLPGGCAIGAR 111
Query: 132 PVDLFVDSLKSLGVVIKIDGGYVDARVSSKGLRGTSYTFPKVSVGATQVMMMVASLSHGD 191
PVDL + L++LG I+I+ GYV+A+ + L+G SVGAT+ +MM A L+ G
Sbjct: 112 PVDLHLKGLEALGAKIEIEDGYVEAKAA-GRLKGARIYLDFPSVGATENIMMAAVLAEGT 170
Query: 192 TSIYNAAREPEVVDLAHCLNSMGAKISGMGSSTITIQGVTSLSGTRHRILPDRIEAGTYA 251
T I NAAREPE+VDLA+ LN MGAKI G G+ TI I+GV L G H ++PDRIEAGT+
Sbjct: 171 TVIENAAREPEIVDLANFLNKMGAKIEGAGTDTIRIEGVERLHGAEHTVIPDRIEAGTFL 230
Query: 252 MAVAMTGGDVILKMTDSSLLKTVFKVMRQTGVDIDIIDEGIRVRWNGEKLRPVDVITAPF 311
+A A+TGGD+ ++ L+ V +R+ G I+I ++GIRV +G +L+ VD+ TAP+
Sbjct: 231 VAAAITGGDITVENVIPEHLEAVLAKLREMGAKIEIGEDGIRVDGDGGRLKAVDIETAPY 290
Query: 312 PGFPTDLQAQFMAMMCCAAGISHITETIFENRFMHVQELVRLGARISLSGQTARVEGVQG 371
PGFPTDLQAQFMA++ A G S ITETIFENRFMHV EL R+GA I + G TA + GV
Sbjct: 291 PGFPTDLQAQFMALLTQAEGTSVITETIFENRFMHVDELNRMGADIKVEGNTAIIRGVTK 350
Query: 372 LRGAPVMATDLRASVSLVIAALAAQGETEISRVYHLDRGFECLEKKLSRC 421
L GAPVMATDLRA +LV+A LAA+GET IS +YH+DRG+E +E+KL
Sbjct: 351 LSGAPVMATDLRAGAALVLAGLAAEGETIISNIYHIDRGYERIEEKLRAL 400
>gnl|CDD|144020 pfam00275, EPSP_synthase, EPSP synthase (3-phosphoshikimate
1-carboxyvinyltransferase).
Length = 415
Score = 307 bits (789), Expect = 3e-84
Identities = 126/422 (29%), Positives = 193/422 (45%), Gaps = 20/422 (4%)
Query: 8 GGNKLNGTIAISG-AKNASLPVMIASLLTSETLTLENIPDLADVKLLIRILRSHGVEILS 66
GG++LNG + + G N+ +++A+L E+ T+ N+ D D +L++ LR+ G E++
Sbjct: 3 GGSRLNGEVKVPGSKSNSHRALLLAALAAGES-TITNLLDSDDTRLMLEALRALGAEVIE 61
Query: 67 DSSYNDQNKSYSSTMHFRCRHIVDLTGSYDLVSKMRASFWVIGPLLAR--EGYARISLPG 124
F Y+LV + S + PLL R + L G
Sbjct: 62 LDEEKTVVIVEGLGGSFEA--------PYELVLDLGNSGTAMRPLLGRLALQSGEVVLTG 113
Query: 125 GCAIGTRPVDLFVDSLKSLGVVIKIDGGYVDA--RVSSKGLRGTSYTFPKVSVGATQVMM 182
+IG RP+D +D L+ LG I+ GY A +V L G S T ++M
Sbjct: 114 DDSIGERPIDRLLDGLRQLGAEIEYREGYGYAPLKVRGLKLGGVHIDGSISSQFVTSLLM 173
Query: 183 MVASLSHGDTSIYNAAREPEVVDLAHCLNSMGAKISGMGSST-ITIQGVTSLSGTRHRIL 241
+ A L+ G T I N A EP + D + LN GAKI G G+ T I I+G L G +R+
Sbjct: 174 LAALLAEGTTIIENLASEPYIDDTENMLNKFGAKIEGSGTETSIYIKGGQKLPGVEYRVE 233
Query: 242 PDRIEAGTYAMAVAMTGGDVILKMTDSSLLKT---VFKVMRQTGVDIDIID-EGIRVRWN 297
DR A + A A+TGG V ++ + L+ +++ + G +I + I V
Sbjct: 234 GDRSSAAYFLAAAAITGGTVKVENVGINSLQGDRAADEILEKMGAEITQGEDSDIVVGPP 293
Query: 298 GEKLRPVDVITAPFPGFPTDLQAQFMAMMCCAAGISHITETIFENRFMHVQELVRLGARI 357
G + VD+ TAP P T +QA F GIS + + F EL +LGA +
Sbjct: 294 GLRGIDVDMNTAPDPAPTTAVQAAFAEGTSRIEGISELRVKETDRLFAMATELRKLGAEV 353
Query: 358 SLSGQTARVEGVQGLRGAPVMAT-DLRASVSLVIAALAAQGETEISRVYHLDRGFECLEK 416
+ V L+GA V + D RA+++ +A L A+GE I D+ F +
Sbjct: 354 EEGPDGLIITAVVELKGAEVDSYGDHRAAMAFALAGLVAEGEVIIDDPECTDKSFPDFFE 413
Query: 417 KL 418
KL
Sbjct: 414 KL 415
>gnl|CDD|30127 cd01554, EPT-like, Enol pyruvate transferases family includes EPSP
synthases and UDP-N-acetylglucosamine enolpyruvyl
transferase. Both enzymes catalyze the reaction of
enolpyruvyl transfer..
Length = 408
Score = 252 bits (645), Expect = 1e-67
Identities = 101/420 (24%), Positives = 165/420 (39%), Gaps = 24/420 (5%)
Query: 12 LNGTIAISGAKNASLPVMIASLLTSETLTLENIPDLADVKLLIRILRSHGVEI-LSDSSY 70
L+G I + G K+ S +I + L + NI DV +++LR GVEI D
Sbjct: 1 LHGIIRVPGDKSISHRSLIFASLAEGETKVYNILRGEDVLSTMQVLRDLGVEIEDKDGVI 60
Query: 71 NDQNKSYSSTMHFRCRHIVDLTGSYDLVSKMRASFWVIGPLLAREGYARISLPGGCAIGT 130
Q M + +L + A + G L + + L G ++
Sbjct: 61 TIQGVG----MAGLK----APQNALNLGNSGTAIRLISGVLAGADF--EVELFGDDSLSK 110
Query: 131 RPVDLFVDSLKSLGVVIKIDGGYVDA--RVSSKGLRGTSYTFPKVSVGATQVMMMVASLS 188
RP+D LK +G I K L Y P S +M A L+
Sbjct: 111 RPMDRVTLPLKKMGASISGQEERDLPPLLKGGKNLGPIHYEDPIASAQVKSALMFAALLA 170
Query: 189 HGDTSIYNAAREPEVVDLAHCLNSMGAKISGMGSSTITIQGVTSLSGTRHRILPDRIEAG 248
G+T I AA+EP + + L + G IS G+ I +QG L+G ++ + D A
Sbjct: 171 KGETVIIEAAKEPTINHTENMLQTFGGHISVQGTKKIVVQGPQKLTGQKYVVPGDISSAA 230
Query: 249 TYAMAVAMTGGDVILK-MTDSSLLKTVFKVMRQTGVDIDIIDEGIRVRWNGEKLRPVDVI 307
+ +A A+ G ++L+ + + + V+R G I+I ++ I V L+ ++
Sbjct: 231 FFLVAAAIAPGRLVLQNVGINETRTGIIDVLRAMGAKIEIGEDTISV--ESSDLKATEIC 288
Query: 308 TAPFPGFPTDLQAQFMAMMCCAAGISHITETIF------ENRFMHVQELVRLGARISLSG 361
A P D + A G + I + + F+ EL +GA I +
Sbjct: 289 GALIP-RLIDELPIIALLALQAQGTTVIKDAEELKVKETDRIFVVADELNSMGADIEPTA 347
Query: 362 QTARVEGVQGLRGAPVMAT-DLRASVSLVIAALAAQGETEISRVYHLDRGFECLEKKLSR 420
++G + L GA V D R + +AAL A GE E+ R ++ + L
Sbjct: 348 DGMIIKGKEKLHGARVNTFGDHRIGMMTALAALVADGEVELDRAEAINTSYPSFFDDLES 407
>gnl|CDD|30129 cd01556, EPSP_synthase, EPSP synthase domain. 3-phosphoshikimate
1-carboxyvinyltransferase
(5-enolpyruvylshikimate-3-phosphate synthase) (EC
2.5.1.19) catalyses the reaction between
shikimate-3-phosphate (S3P) and phosphoenolpyruvate
(PEP) to form 5-enolpyruvylshkimate-3-phosphate (EPSP),
an intermediate in the shikimate pathway leading to
aromatic amino acid biosynthesis. The reaction is
phosphoenolpyruvate + 3-phosphoshikimate = phosphate +
5-O-(1-carboxyvinyl)-3-phosphoshikimate. It is found in
bacteria and plants but not animals. The enzyme is the
target of the widely used herbicide glyphosate, which
has been shown to occupy the active site. In bacteria
and plants, it is a single domain protein, while in
fungi, the domain is found as part of a multidomain
protein with functions that are all part of the
shikimate pathway..
Length = 409
Score = 101 bits (253), Expect = 4e-22
Identities = 99/418 (23%), Positives = 175/418 (41%), Gaps = 37/418 (8%)
Query: 12 LNGTIAISGAKNASLPVMIASLLTSETLTLENIPDLADVKLLIRILRSHGVEILSDSSYN 71
L+G I + G+K+ S ++ + L +EN+ D D + LR+ G +I
Sbjct: 1 LSGEITVPGSKSISHRALLLAALAEGESRIENLLDSDDTLATLEALRALGAKI------E 54
Query: 72 DQNKSYSSTMHFRCRH----IVDLTGSYDLVSKMRASFWVIGPLLAREGYARISLPGGCA 127
++ + ++D S + MR + G L + G + ++ G +
Sbjct: 55 EEGGTVEIVGGGGLGLPPEAVLDCGNSG---TTMRL---LTGLLALQGGDSVLT--GDES 106
Query: 128 IGTRPVDLFVDSLKSLGVVIK-IDGGYVDARVSSKGLRGTSYTFP-KVSVGATQVMMMVA 185
+ RP+ VD+L+ LG I+ +GG + GL+G P VS +++ A
Sbjct: 107 LRKRPMGRLVDALRQLGAEIEGREGGGYPPLIGGGGLKGGEVEIPGAVSSQFKSALLLAA 166
Query: 186 SLSHGDTSIYNAAREPEV-VDL-AHCLNSMGAKISGMGSSTITIQGVTSLSGTRHRILPD 243
L+ G T+I E + +D L + GA++ G TIT++G G + + D
Sbjct: 167 PLAEGPTTIIIGELESKPYIDHTERMLRAFGAEVEVDGYRTITVKGGQKYKGPEYTVEGD 226
Query: 244 RIEAGTYAMAVAMTGGDVILK-MTDSSLLKTVFKVMRQTGVDIDIIDEGIRVRWNGEKLR 302
A + A A+TG ++++K + +S + V+++ G DI+I +E V +G KL+
Sbjct: 227 ASSAAFFLAAAAITGSEIVIKNVGLNSGDTGIIDVLKEMGADIEIGNEDTVVVESGGKLK 286
Query: 303 PVDVITAPFPGFPTDLQAQFMAMMCCAAGISHITETIFENRFMH-------VQELVRLGA 355
+D+ P D + A G + I E R EL +LGA
Sbjct: 287 GIDIDGNDIP----DEAPTLAVLAAFAEGPTRIR-NAAELRVKESDRIAAMATELRKLGA 341
Query: 356 RISLSGQTARVEGVQGLRGAPVMAT--DLRASVSLVIAALAAQGETEISRVYHLDRGF 411
+ + +EG + T D R ++S IA L A+G I + + F
Sbjct: 342 DVEETEDGLIIEGGPLKGAGVEVYTYGDHRIAMSFAIAGLVAEGGVTIEDPECVAKSF 399
>gnl|CDD|30477 COG0128, AroA, 5-enolpyruvylshikimate-3-phosphate synthase [Amino
acid transport and metabolism].
Length = 428
Score = 86.4 bits (214), Expect = 1e-17
Identities = 83/420 (19%), Positives = 158/420 (37%), Gaps = 37/420 (8%)
Query: 1 MDRIKIIGGNKLNGTIAISGAKNASLPVMIASLLTSETLTLENIPDLADVKLLIRILRSH 60
+ + L GT+ G+K+ S ++ + L T+ N+ D D + LR+
Sbjct: 3 KLTLVVKPS-PLRGTVRAPGSKSISHRALLLAALAEGESTITNLLDSEDTLATLEALRAL 61
Query: 61 GVEILSDSSYNDQNKSYSSTMHFRCRHIVDLTGSYDLVSKMRASFWVIGPLLAREGYARI 120
G I + + + ++D S + +R ++ LLA
Sbjct: 62 GARI--EKEGDTLVVRGTGGELKEPPAVLDCGNS---GTTLR----LLTGLLALGSPGET 112
Query: 121 SLPGGCAIGTRPVDLFVDSLKSLGVVIKIDGGYVDARVSSKG---LRGTSYTFPKVSVGA 177
L G ++ RP+ VD+L+ LG I G ++ KG P S
Sbjct: 113 VLTGDESLRKRPMGPLVDALRQLGAKIDGREGEGYLPLTIKGGLKGGEVEIDGPVSSQQV 172
Query: 178 TQVMMMVASLSHGDTSIYNAAREPEV-VDLA-HCLNSMGAKISGMGSSTITIQGVTSLSG 235
+ ++++ L+ G T I E + +D L + G ++ I G L+
Sbjct: 173 SSLLLLAPLLAEGTTIIVGGVLESKPYIDHTLDMLKAFGVEVE-NEGYRFYIPGGQKLTP 231
Query: 236 TRHRILPDRIEAGTYAMAVAMTGGDVILKMTDSSLLKT---VFKVMRQTGVDIDIIDEGI 292
+ + D A + A A+T + + + T + V+ + G DI+I D+ +
Sbjct: 232 GDYDVPGDYSSAAFFLAAAAITPRSTGITLKNVQPNPTDKGILDVLEKMGADIEIGDDSV 291
Query: 293 RVRWNGEKLRPVDVITAPFPGFPTDLQAQFMAMMCCAAGISHIT--------ETIFENRF 344
+L+ ++V P DL + A G + I E+ +R
Sbjct: 292 LRVRGSGELKGIEVDMDDMP----DLAPTLAVLAAFAEGTTRIRNAEELRVKES---DRI 344
Query: 345 MHV-QELVRLGARISLSGQTARVEGVQGLRGAPVMAT--DLRASVSLVIAALAAQGETEI 401
+ EL +LG + + + G L+GA + + D R +++ +A L ++G I
Sbjct: 345 AAMATELRKLGVEVEETEDGLIITGGTKLKGAGTVDSYGDHRIAMAFAVAGLLSEGGVRI 404
Score = 37.1 bits (86), Expect = 0.010
Identities = 62/321 (19%), Positives = 115/321 (35%), Gaps = 39/321 (12%)
Query: 133 VDLFVDSLKSLGVVIKIDGGYVDARVSSKG---LRGTSYTFPKVSVGATQVMMMVASL-S 188
+++L++LG I+ +G V G + S +++ + +L S
Sbjct: 51 TLATLEALRALGARIEKEGD--TLVVRGTGGELKEPPAVLDCGNSGTTLRLLTGLLALGS 108
Query: 189 HGDTSIY--NAAREPEVVDLAHCLNSMGAKISGMGSST---ITIQGVTSLSGTRHRILPD 243
G+T + + R+ + L L +GAKI G +TI+G G P
Sbjct: 109 PGETVLTGDESLRKRPMGPLVDALRQLGAKIDGREGEGYLPLTIKGGLKG-GEVEIDGPV 167
Query: 244 RIEAGTYAMAVAMTGGDVILKMTDSSLLKTVF-----KVMRQTGVDIDIIDEGIRVRWNG 298
+ + + +A + + L + +++ GV+++ + G
Sbjct: 168 SSQQVSSLLLLAPLLAEGTTIIVGGVLESKPYIDHTLDMLKAFGVEVENEGYRFYIP-GG 226
Query: 299 EKLRPVDVITAPFPGFPTDLQAQFMAMMCCAAGISHITETIFENRFMH------VQELVR 352
+KL P D A F AA T +N + + L +
Sbjct: 227 QKLTPGDYDVPGDYS-----SAAFFLAA--AAITPRSTGITLKNVQPNPTDKGILDVLEK 279
Query: 353 LGARISL-SGQTARVEGVQGLRGAPVMATDL-RASVSLVIAALAAQGETEISRVYHLDRG 410
+GA I + RV G L+G V D+ + +L + A A+G T I L R
Sbjct: 280 MGADIEIGDDSVLRVRGSGELKGIEVDMDDMPDLAPTLAVLAAFAEGTTRIRNAEEL-RV 338
Query: 411 FEC-----LEKKLSRCGALIQ 426
E + +L + G ++
Sbjct: 339 KESDRIAAMATELRKLGVEVE 359
>gnl|CDD|73274 cd01553, EPT_RTPC-like, This domain family includes the
Enolpyruvate transferase (EPT) family and the RNA 3'
phosphate cyclase family (RTPC). These 2 families differ
in that EPT is formed by 3 repeats of an alpha-beta
structural domain while RTPC has 3 similar repeats with
a 4th slightly different domain inserted between the 2nd
and 3rd repeat. They evidently share the same active
site location, although the catalytic residues differ..
Length = 211
Score = 53.2 bits (127), Expect = 1e-07
Identities = 36/209 (17%), Positives = 62/209 (29%), Gaps = 36/209 (17%)
Query: 242 PDRIEAGTYAMAVAMTGGDVI------------LKMTDSSLLKTVFKVMRQTGVDIDIID 289
++ + A++GG + L + LK + K+ T ++
Sbjct: 8 GGGQILRSFLVLAAISGGPITVTGIRPDRAKPGLLRQHLTFLKALEKICGATVEGGELGS 67
Query: 290 EGIRVRWNGEKLRPVDVITAPFP-GFPTDLQAQFMAMMCCAAGISHITETIF-------- 340
+ I R +R DV A G TD+ + ++ A G + +T T
Sbjct: 68 DRISFRPGT--VRGGDVRFAIGSAGSCTDVLQTILPLLLFAKGPTRLTVTGGTDNPSAPP 125
Query: 341 --ENRFMHVQELVRLGA-------RISLSGQTARVEGVQGLRGAPVMATDLRASVSLVIA 391
RF+ EL ++GA R V + + LR V ++
Sbjct: 126 ADFIRFVLEPELAKIGAHQEETLLRHGFYPAGGGVVATEVSPVEKLNTAQLRQLVLPMLL 185
Query: 392 ALAAQGETEISRVYHLDRGFECLEKKLSR 420
A V H L
Sbjct: 186 A----SGAVEFTVAHPSCHLLTNFAVLEA 210
>gnl|CDD|146197 pfam03441, FAD_binding_7, FAD binding domain of DNA photolyase.
Length = 275
Score = 28.4 bits (64), Expect = 3.6
Identities = 9/27 (33%), Positives = 9/27 (33%), Gaps = 13/27 (48%)
Query: 81 MHFRCRHIVDLTGSYDLVSKMRASFWV 107
MH R R IV ASF
Sbjct: 142 MHNRLRMIV-------------ASFLT 155
>gnl|CDD|34540 COG4932, COG4932, Predicted outer membrane protein [Cell envelope
biogenesis, outer membrane].
Length = 1531
Score = 28.4 bits (63), Expect = 3.6
Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 8/95 (8%)
Query: 222 SSTITIQGVTSLSGTRHRILPDR-IEAG--TYAMAVAMTGGDVILKMTDSSLLKTVFKV- 277
+ +T Q L +++ I+ TY A T GD IL S+ + T
Sbjct: 359 NDGLTFQLKFGLIDKAYQVTYTTTIDKSSLTYYSTKATTVGDSILSTNSSASVTTQRGYP 418
Query: 278 --MRQTGVD--IDIIDEGIRVRWNGEKLRPVDVIT 308
++ G + ID I ++ + ++P V+
Sbjct: 419 HLKKKAGYNGATQTIDWEINYNYDEKNIKPATVLL 453
>gnl|CDD|31413 COG1220, HslU, ATP-dependent protease HslVU (ClpYQ), ATPase subunit
[Posttranslational modification, protein turnover,
chaperones].
Length = 444
Score = 28.2 bits (63), Expect = 5.0
Identities = 9/32 (28%), Positives = 19/32 (59%)
Query: 262 ILKMTDSSLLKTVFKVMRQTGVDIDIIDEGIR 293
IL +SL+K +++ GV+++ D+ I+
Sbjct: 344 ILTEPKASLIKQYKALLKTEGVELEFTDDAIK 375
>gnl|CDD|173832 cd00684, Terpene_cyclase_plant_C1, Plant Terpene Cyclases, Class 1.
This CD includes a diverse group of monomeric plant
terpene cyclases (Tspa-Tspf) that convert the acyclic
isoprenoid diphosphates, geranyl diphosphate (GPP),
farnesyl diphosphate (FPP), or geranylgeranyl
diphosphate (GGPP) into cyclic monoterpenes, diterpenes,
or sesquiterpenes, respectively; a few form acyclic
species. Terpnoid cyclases are soluble enzymes localized
to the cytosol (sesquiterpene synthases) or plastids
(mono- and diterpene synthases). All monoterpene and
diterpene synthases have restrict substrate specificity,
however, some sesquiterpene synthases can accept both
FPP and GPP. The catalytic site consists of a large
central cavity formed by mostly antiparallel alpha
helices with two aspartate-rich regions located on
opposite walls. These residues mediate binding of prenyl
diphosphates, via bridging Mg2+ ions (K+ preferred by
gymnosperm cyclases), inducing conformational changes
such that an N-terminal region forms a cap over the
catalytic core. Loss of diphosphate from the
enzyme-bound substrate (GPP, FPP, or GGPP) results in an
allylic carbocation that electrophilically attacks a
double bond further down the terpene chain to effect the
first ring closure. Unlike monoterpene, sesquiterene,
and macrocyclic diterpenes synthases, which undergo
substrate ionization by diphosphate ester scission,
Tpsc-like diterpene synthases catalyze cyclization
reactions by an initial protonation step producing a
copalyl diphosphate intermediate. These enzymes lack the
aspartate-rich sequences mentioned above. Most diterpene
synthases have an N-terminal, internal element (approx
210 aa) whose function is unknown.
Length = 542
Score = 27.9 bits (63), Expect = 5.1
Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 11/67 (16%)
Query: 42 ENIPDLADVKLLIRILRSHGVEILSD--SSYNDQNKSYSSTMHFRCRHIVDLTGSYDLVS 99
N DL L R+LR HG + SD + D++ F+ D+ G L
Sbjct: 93 SNEDDLYTTALGFRLLRQHGYNVSSDVFKKFKDEDGK------FKESLTQDVKGMLSL-- 144
Query: 100 KMRASFW 106
AS
Sbjct: 145 -YEASHL 150
>gnl|CDD|185707 cd07896, Adenylation_kDNA_ligase_like, Adenylation domain of kDNA
ligases and similar proteins. The mitochondrial DNA of
parasitic protozoans is highly unusual. It is termed the
kinetoplast DNA (kDNA) and consists of circular DNA
molecules (maxicircles) and several thousand smaller
circular molecules (minicircles). This group is composed
of kDNA ligase, Chlorella virus DNA ligase, and similar
proteins. kDNA ligase and Chlorella virus DNA ligase are
the smallest known ATP-dependent ligases. They are
involved in DNA replication or repair. ATP-dependent
polynucleotide ligases catalyze phosphodiester bond
formation using nicked nucleic acid substrates with the
high energy nucleotide of ATP as a cofactor in a three
step reaction mechanism. They have a highly modular
architecture consisting of a unique arrangement of two
or more discrete domains. The adenylation and the
C-terminal oligonucleotide/oligosaccharide binding
(OB)-fold domains comprise a catalytic core unit that is
common to most members of the ATP-dependent DNA ligase
family, including this group. The adenylation domain
binds ATP and contains many of the active-site residues.
Length = 174
Score = 27.9 bits (63), Expect = 6.1
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 8/35 (22%)
Query: 291 GIRVRWNGEKLR--------PVDVITAPFPGFPTD 317
G+R W+G++L TA P FP D
Sbjct: 26 GVRAYWDGKQLLSRSGKPIAAPAWFTAGLPPFPLD 60
>gnl|CDD|143498 cd06825, PLPDE_III_VanT, Type III Pyridoxal 5-phosphate
(PLP)-Dependent Enzymes, VanT and similar proteins.
This subfamily is composed of Enterococcus gallinarum
VanT and similar proteins. VanT is a membrane-bound
serine racemase (EC 5.1.1.18) that is essential for
vancomycin resistance in Enterococcus gallinarum. It
converts L-serine into its D-enantiomer (D-serine) for
peptidoglycan synthesis. The C-terminal region of this
protein contains a PLP-binding TIM-barrel domain
followed by beta-sandwich domain, which is homologous to
the fold type III PLP-dependent enzyme, bacterial
alanine racemase (AR). AR exists as homodimers with
active sites that lie at the interface between the TIM
barrel domain of one subunit and the beta-sandwich
domain of the other subunit. On the basis of this
similarity, it has been suggested that dimer formation
of VanT is required for its catalytic activity, and that
it catalyzes the racemization of serine in a
mechanistically similar manner to that of alanine by
bacterial AR. Some biochemical evidence indicates that
VanT also exhibits alanine racemase activity and plays a
role in the racemization of L-alanine. VanT contains a
unique N-terminal transmembrane domain, which may
function as an L-serine transporter. VanT serine
racemases are not related to eukaryotic serine
racemases, which are fold type II PLP-dependent enzymes.
Length = 368
Score = 27.7 bits (62), Expect = 6.2
Identities = 14/33 (42%), Positives = 19/33 (57%), Gaps = 3/33 (9%)
Query: 271 LKTVFKVMRQTGVD---IDIIDEGIRVRWNGEK 300
V +V+ Q G+D + IDEGIR+R G K
Sbjct: 41 DVEVARVLEQIGIDFFAVATIDEGIRLREAGIK 73
>gnl|CDD|176468 cd01596, Aspartase_like, aspartase (L-aspartate ammonia-lyase) and
fumarase class II enzymes. This group contains
aspartase (L-aspartate ammonia-lyase), fumarase class II
enzymes, and related proteins. It is a member of the
Lyase class I family. Members of this family for the
most part catalyze similar beta-elimination reactions in
which a C-N or C-O bond is cleaved with the release of
fumarate as one of the products. These proteins are
active as tetramers. The four active sites of the
homotetrameric enzyme are each formed by residues from
three different subunits. Aspartase catalyzes the
reversible deamination of aspartic acid. Fumarase
catalyzes the reversible hydration/dehydration of
fumarate to L-malate during the Krebs cycle.
Length = 450
Score = 27.8 bits (63), Expect = 6.8
Identities = 17/60 (28%), Positives = 24/60 (40%), Gaps = 17/60 (28%)
Query: 9 GNKLNGTIAISGAK-----NASLPVMIASLLTSETLTLENIPDLADVKLLIRILRSHGVE 63
GN + I ++G+ N PV+ +LL S L LA+ R R VE
Sbjct: 337 GN--DTAITMAGSAGQLELNVFKPVIAYNLLQSIRL-------LANA---CRSFRDKCVE 384
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.321 0.136 0.387
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 4,837,463
Number of extensions: 256214
Number of successful extensions: 693
Number of sequences better than 10.0: 1
Number of HSP's gapped: 647
Number of HSP's successfully gapped: 23
Length of query: 430
Length of database: 6,263,737
Length adjustment: 97
Effective length of query: 333
Effective length of database: 4,167,664
Effective search space: 1387832112
Effective search space used: 1387832112
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 59 (26.4 bits)