RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 022731
(293 letters)
>gnl|CDD|215402 PLN02754, PLN02754, chorismate synthase.
Length = 413
Score = 586 bits (1511), Expect = 0.0
Identities = 252/287 (87%), Positives = 265/287 (92%)
Query: 1 MSVAYRPSHADATYDMKYGVRSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYV 60
MSVAYRPSHADATYD KYGVR+VQGGGRSSARETIGRVA GAVAKKILKQFAGTEILAYV
Sbjct: 121 MSVAYRPSHADATYDFKYGVRAVQGGGRSSARETIGRVAAGAVAKKILKQFAGTEILAYV 180
Query: 61 SQAHNVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCI 120
SQ H+VVLPED+VDHE LTL+Q+ESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCI
Sbjct: 181 SQVHDVVLPEDLVDHETLTLEQIESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCI 240
Query: 121 VRNCPRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGN 180
VRN PRGLGSPVFDKLEAELAKAMMSLPATKGFE+GSGFAGT LTGSEHNDEFY DE G
Sbjct: 241 VRNVPRGLGSPVFDKLEAELAKAMMSLPATKGFEIGSGFAGTLLTGSEHNDEFYMDEHGR 300
Query: 181 IRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDPCVV 240
IRTRTNRSGGIQGGISNGEII MRIAFKPTSTIG+KQNTVTR+ +ETEL ARGRHDPCVV
Sbjct: 301 IRTRTNRSGGIQGGISNGEIIVMRIAFKPTSTIGKKQNTVTRDGQETELRARGRHDPCVV 360
Query: 241 PRAVPMVEAMVALVLMDQLMAQHAQCHLFPINPDLQGTMKLPELEPA 287
PRAVPMVEAMVALVL+DQLMAQ+AQC LFPINP LQ + + A
Sbjct: 361 PRAVPMVEAMVALVLVDQLMAQYAQCELFPINPVLQEPLGIASPAAA 407
>gnl|CDD|143612 cd07304, Chorismate_synthase, Chorismase synthase, the enzyme
catalyzing the final step of the shikimate pathway.
Chorismate synthase (CS;
5-enolpyruvylshikimate-3-phosphate phospholyase;
1-carboxyvinyl-3-phosphoshikimate phosphate-lyase; E.C.
4.2.3.5) catalyzes the seventh and final step in the
shikimate pathway: the conversion of 5-
enolpyruvylshikimate-3-phosphate (EPSP) to chorismate, a
precursor for the biosynthesis of aromatic compounds.
This process has an absolute requirement for reduced FMN
as a co-factor which is thought to facilitate cleavage
of C-O bonds by transiently donating an electron to the
substrate, having no overall change its redox state.
Depending on the capacity of these enzymes to regenerate
the reduced form of FMN, chorismate synthases are
divided into two classes: Enzymes, mostly from plants
and eubacteria, that sequester CS from the cellular
environment, are monofunctiona,l while those that can
generate reduced FMN at the expense of NADPH, such as
found in fungi and the ciliated protozoan Euglena
gracilis, are bifunctional, having an additional
NADPH:FMN oxidoreductase activity. Recently,
bifunctionality of the Mycobacterium tuberculosis enzyme
(MtCS) was determined by measurements of both chorismate
synthase and NADH:FMN oxidoreductase activities. Since
shikimate pathway enzymes are present in bacteria, fungi
and apicomplexan parasites (such as Toxoplasma gondii,
Plasmodium falciparum, and Cryptosporidium parvum) but
absent in mammals, they are potentially attractive
targets for the development of new therapy against
infectious diseases such as tuberculosis (TB).
Length = 344
Score = 415 bits (1069), Expect = e-147
Identities = 147/258 (56%), Positives = 177/258 (68%), Gaps = 4/258 (1%)
Query: 1 MSVAYRPSHADATYDMKYGV-RSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAY 59
+ RP HAD T +KYG +GGGRSSARET RVA GAVAKK+LK+F G E++A+
Sbjct: 89 LKTLPRPGHADYTGFLKYGGFDDRRGGGRSSARETAARVAAGAVAKKLLKEF-GIEVVAH 147
Query: 60 VSQAHNVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTC 119
V + +D E L L++ E + VRCPDPE EKM ID + GDSVGGVV
Sbjct: 148 VKSIGGIEDEPFDLDEEEL-LEEAEESPVRCPDPEAEEKMKELIDEAKKEGDSVGGVVEV 206
Query: 120 IVRNCPRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFG 179
+ P GLGSPVFDKL+A LA+A+MS+PA KG E+GSGF + GSE NDE Y DE G
Sbjct: 207 VATGVPAGLGSPVFDKLDARLAQALMSIPAVKGVEIGSGFEAARMRGSEVNDEIYYDE-G 265
Query: 180 NIRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDPCV 239
I+T+TN +GGI GGISNGE I R+AFKPT +I + Q TV +ETEL +GRHDPC
Sbjct: 266 GIKTKTNNAGGILGGISNGEPIVFRVAFKPTPSIAKPQKTVDLTGEETELAVKGRHDPCA 325
Query: 240 VPRAVPMVEAMVALVLMD 257
VPRAVP+VEAMVALVL D
Sbjct: 326 VPRAVPVVEAMVALVLAD 343
>gnl|CDD|216398 pfam01264, Chorismate_synt, Chorismate synthase.
Length = 346
Score = 414 bits (1066), Expect = e-146
Identities = 147/257 (57%), Positives = 177/257 (68%), Gaps = 5/257 (1%)
Query: 5 YRPSHADATYDMKYGVRSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAH 64
RP HAD TY +KYG R +GGGRSSARET RVA GAVAKK+LK+ G E+ +YVS
Sbjct: 93 PRPGHADLTYFLKYGFRDYRGGGRSSARETAARVAAGAVAKKLLKEL-GIEVRSYVSSIG 151
Query: 65 NVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNC 124
+ E E ++VE + VRCPDPE AE+M ID + GDS+GGVV + R
Sbjct: 152 GIEADEADPAEE--DFEEVEKSPVRCPDPEAAERMEELIDEAKKEGDSLGGVVEVVARGV 209
Query: 125 PRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTR 184
P GLG PVFDKL+A+LAKA+MS+PA KG E+G GFA + GSE NDE Y D G IR +
Sbjct: 210 PAGLGEPVFDKLDADLAKALMSIPAVKGVEIGDGFAAARMRGSEVNDEIYYDG-GRIRRK 268
Query: 185 TNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKE-TELIARGRHDPCVVPRA 243
TN +GGI GGISNGE I +R+AFKPT +I + Q TV E E E+ +GRHDPCVVPRA
Sbjct: 269 TNHAGGILGGISNGEPIVVRVAFKPTPSIAKPQRTVDLETGEEAEIEVKGRHDPCVVPRA 328
Query: 244 VPMVEAMVALVLMDQLM 260
VP+ EAMVALVL D L+
Sbjct: 329 VPVAEAMVALVLADALL 345
>gnl|CDD|235438 PRK05382, PRK05382, chorismate synthase; Validated.
Length = 359
Score = 404 bits (1042), Expect = e-142
Identities = 141/263 (53%), Positives = 173/263 (65%), Gaps = 9/263 (3%)
Query: 5 YRPSHADATYDMKYGVRSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAH 64
RP HAD TY +KYG R +GGGRSSARET RVA GAVAKK+LK+ G E+ +V Q
Sbjct: 95 PRPGHADYTYFLKYGFRDYRGGGRSSARETAARVAAGAVAKKLLKEL-GIEVRGHVVQIG 153
Query: 65 NVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNC 124
+ D + E ++ ++N VRCPDPE E+M ID + GDS+GGVV +
Sbjct: 154 GIEADLDWEEVE----ERADANPVRCPDPEAEEEMEELIDEAKKEGDSLGGVVEVVAEGV 209
Query: 125 PRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTR 184
P GLG PVFDKL+A+LA A+MS+ A KG E+G GFA L GSE NDE Y + I
Sbjct: 210 PAGLGEPVFDKLDADLAHALMSINAVKGVEIGDGFAAARLRGSEVNDEIY---YTGIGRL 266
Query: 185 TNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVT-REKKETELIARGRHDPCVVPRA 243
TN +GGI GGISNGE I +R+AFKPT +I + Q TV R + TEL +GRHDPCVVPRA
Sbjct: 267 TNHAGGILGGISNGEPIVVRVAFKPTPSIRKPQRTVDIRTGEPTELATKGRHDPCVVPRA 326
Query: 244 VPMVEAMVALVLMDQLMAQHAQC 266
VP+ EAMVALVL D L+ + Q
Sbjct: 327 VPVAEAMVALVLADHLLRKRDQL 349
>gnl|CDD|223160 COG0082, AroC, Chorismate synthase [Amino acid transport and
metabolism].
Length = 369
Score = 370 bits (952), Expect = e-128
Identities = 139/267 (52%), Positives = 172/267 (64%), Gaps = 12/267 (4%)
Query: 5 YRPSHADATYDMKYGVRSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAH 64
RP HAD TY +KYG R +GGGRSSARET RVA GAVAKK+L++ G E+L +V
Sbjct: 101 PRPGHADYTYGIKYGFRDYRGGGRSSARETAARVAAGAVAKKLLREL-GIEVLGHVVSIG 159
Query: 65 NVVLPEDVVDHEMLTLDQVESNI--VRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVR 122
+ + L ++VE VRCPDPE E+M ID + GDS+GGVV +
Sbjct: 160 GIEADDS------LDFEEVEQRASPVRCPDPEAEEEMEELIDKAKKEGDSIGGVVEVVAE 213
Query: 123 NCPRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIR 182
P GLG PVFDKL+A+LA A+MS+PA KG E+G GF + GSE NDE D G I
Sbjct: 214 GVPAGLGEPVFDKLDAKLAHALMSIPAVKGVEIGDGFEAARMRGSEANDEITLD--GGIV 271
Query: 183 TRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTRE-KKETELIARGRHDPCVVP 241
+TN +GGI GGI+NGE I +R+AFKPT +I + Q TV E +E E +GRHDPCVVP
Sbjct: 272 RKTNNAGGILGGITNGEPIVVRVAFKPTPSIYKPQRTVDLETGEEVEASTKGRHDPCVVP 331
Query: 242 RAVPMVEAMVALVLMDQLMAQHAQCHL 268
RAVP+VEAMVALVL D L+ + Q
Sbjct: 332 RAVPVVEAMVALVLADHLLRKFGQDPD 358
>gnl|CDD|232792 TIGR00033, aroC, chorismate synthase. Homotetramer (noted in
E.coli) suggests reason for good conservation [Amino
acid biosynthesis, Aromatic amino acid family].
Length = 351
Score = 333 bits (855), Expect = e-114
Identities = 151/261 (57%), Positives = 186/261 (71%), Gaps = 3/261 (1%)
Query: 5 YRPSHADATYDMKYGVRSVQGGGRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAH 64
RP HAD TY +KYG+ +GGGRSSARET RVA GAVAKK+L + +G EI+AYV+Q
Sbjct: 93 PRPGHADYTYWLKYGIDDYRGGGRSSARETAARVAAGAVAKKLLAETSGIEIVAYVTQIG 152
Query: 65 NVVLPEDVVDHEMLTLDQVESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNC 124
V +P D E ++V+S+ VRCPDPE ++M+A ID + GDS+GGVV C+ RN
Sbjct: 153 EVEIPRVYYDPE--EKERVDSSPVRCPDPEAEKEMVAEIDKAKKDGDSIGGVVECVARNV 210
Query: 125 PRGLGSPVFDKLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEFGNIRTR 184
P GLG P+FDKL+A LA AMMS+PA KG E+G GF + GSE NDEF ++ G IR +
Sbjct: 211 PVGLGEPLFDKLDARLAHAMMSIPAVKGVEIGDGFELASMRGSEANDEFVFED-GGIRRK 269
Query: 185 TNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDPCVVPRAV 244
TN SGGI GGI+NGE I +RIAFKPT TIG+ Q TV + +E L +GRHDPCVVPRAV
Sbjct: 270 TNNSGGILGGITNGEPIRVRIAFKPTPTIGKPQKTVDLDTEEPALATKGRHDPCVVPRAV 329
Query: 245 PMVEAMVALVLMDQLMAQHAQ 265
P+VEAM ALVL D L+ Q A
Sbjct: 330 PVVEAMTALVLADALLEQRAS 350
>gnl|CDD|171518 PRK12463, PRK12463, chorismate synthase; Reviewed.
Length = 390
Score = 143 bits (362), Expect = 4e-40
Identities = 103/267 (38%), Positives = 149/267 (55%), Gaps = 12/267 (4%)
Query: 6 RPSHADATYDMKYGVRSVQGG-GRSSARETIGRVAPGAVAKKILKQFAGTEILAYVSQAH 64
RP HAD +KYG R ++ RSSARET RVA GAVAK+ILK+ G EI +V +
Sbjct: 109 RPGHADLNGAIKYGHRDIRNVLERSSARETTVRVAAGAVAKQILKEL-GVEIAGHVLEIG 167
Query: 65 NVVLPEDVVDHEMLTLDQV----ESNIVRCPDPEYAEKMIAAIDAVRVRGDSVGGVVTCI 120
V L+++++ E++ VRC D ++M+ AID + GDS+GG+V I
Sbjct: 168 GV----KAKHISNLSIEEIQTITENSPVRCLDKTVEQEMMDAIDNAKSSGDSIGGIVEVI 223
Query: 121 VRNCPRGLGSPV-FD-KLEAELAKAMMSLPATKGFEVGSGFAGTFLTGSEHNDEFYTDEF 178
P G+GS V +D KL+A+LA A+MS+ A KG E+G GF GS+ +DE DE
Sbjct: 224 AEGMPIGVGSYVHYDRKLDAKLAGAIMSINAFKGAEIGVGFEAARQPGSKVHDEILWDEE 283
Query: 179 GNIRTRTNRSGGIQGGISNGEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDPC 238
+TN +GG++GG++ G I +R KP T+ + +V + KE + R D C
Sbjct: 284 QGYTRKTNNAGGLEGGMTTGMPIVVRGVMKPIPTLYKPLASVDIDTKEAFQASIERSDSC 343
Query: 239 VVPRAVPMVEAMVALVLMDQLMAQHAQ 265
VP A + E++VA L L+ Q +
Sbjct: 344 AVPAAGVVAESVVAWELAHALVEQFGK 370
>gnl|CDD|221709 pfam12684, DUF3799, PDDEXK-like domain of unknown function
(DUF3799). This family of proteins is functionally
uncharacterized. This family of proteins is found in
bacteria and viruses. Proteins in this family are
typically between 265 and 420 amino acids in length. It
appears that these proteins are distantly related to the
PDDEXK superfamily and so these domains are likely to be
nucleases. This family has a C-terminal cysteine cluster
similar to that found in pfam01930.
Length = 237
Score = 30.0 bits (68), Expect = 1.1
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 13/58 (22%)
Query: 41 GAVAKKILKQFAGTEILAYVSQAHNVVLPEDVVDHEMLT---------LDQVESNIVR 89
AV +++L+Q G E Y+ V E D ++T LD+VE NI R
Sbjct: 161 MAVYQELLRQKTGEEFPPYII----AVTKETPPDKAIITIPDDLLDEALDEVEENIER 214
>gnl|CDD|193490 cd04085, delta_endotoxin_C, delta-endotoxin C-terminal domain may
be associated with carbohydrate binding functionality.
Delta-endotoxin C-terminal domain (delta endotoxin
domain III) is part of the activated region of delta
endotoxins, which are insecticidal toxins produced
during sporulation by Bacillus species of bacteria. The
activated endotoxin binds to the gut epithelium and
causes cell lysis leading to death. This activated
region of the delta endotoxin is composed of three
structural domains. The N-terminal helical domain (I) is
involved in membrane insertion and pore formation, while
the second and third domains (II and III) are involved
in receptor binding. Domain III structurally resembles
the carbohydrate binding domain 6 (CBM6) and it is
possible that insect specificity is determined by
protein-protein or protein-carbohydrate interactions
mediated by both domains II and III of the toxin.
Delta-endotoxins are of great interest for development
of new bioinsecticides and in the control of mosquitoes.
Length = 145
Score = 27.6 bits (62), Expect = 4.4
Identities = 16/69 (23%), Positives = 23/69 (33%), Gaps = 25/69 (36%)
Query: 147 LPATKGFEVGSGF---AGTFLTGSEHNDEFYTDEFGNIRTRTNRSGGIQGGISNGEIINM 203
+PA K +GSG G TG G++ T SNG ++
Sbjct: 11 IPAVKASNLGSGSSVIKGPGFTG------------GDLVKLT----------SNGSGGSL 48
Query: 204 RIAFKPTST 212
R+ S
Sbjct: 49 RVTVNSPSL 57
>gnl|CDD|216782 pfam01914, MarC, MarC family integral membrane protein. Integral
membrane protein family that includes the antibiotic
resistance protein MarC. These proteins may be
transporters.
Length = 203
Score = 27.6 bits (62), Expect = 5.5
Identities = 20/68 (29%), Positives = 32/68 (47%), Gaps = 8/68 (11%)
Query: 198 GEIINMRIAFKPTSTIGRKQNTVTREKKETELIARGRHDPCVVPRAVPMVE--AMVALVL 255
G I+ IA K+ T EK+E+E I + VVP A+P++ + +
Sbjct: 76 GGILLFLIAIDMLFGKQSKEKTSKSEKEESEDID----EIAVVPLAIPLIAGPGAITTTM 131
Query: 256 MDQLMAQH 263
+ LMA+H
Sbjct: 132 V--LMAEH 137
>gnl|CDD|180428 PRK06151, PRK06151, N-ethylammeline chlorohydrolase; Provisional.
Length = 488
Score = 28.1 bits (63), Expect = 6.4
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 25 GGGRSSARETIGRVAPGAVA 44
GG R+ R+ +GR+APGA A
Sbjct: 376 GGARALGRDDLGRLAPGAKA 395
>gnl|CDD|235402 PRK05312, pdxA, 4-hydroxythreonine-4-phosphate dehydrogenase;
Provisional.
Length = 336
Score = 27.9 bits (63), Expect = 6.8
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 91 PDPEYAEKMIAAID-AVR-VRGDSVGGVVTC 119
PDP A +IAAI+ AV V VVT
Sbjct: 91 PDPANAAGVIAAIERAVGLVLSGEAAAVVTA 121
>gnl|CDD|237278 PRK13029, PRK13029, 2-oxoacid ferredoxin oxidoreductase; Provisional.
Length = 1186
Score = 27.8 bits (62), Expect = 8.6
Identities = 15/51 (29%), Positives = 22/51 (43%)
Query: 92 DPEYAEKMIAAIDAVRVRGDSVGGVVTCIVRNCPRGLGSPVFDKLEAELAK 142
+ YA + A +D VR VGG + R L + K E E+A+
Sbjct: 987 NAAYAARYRARVDRVRAAEAVVGGGSARLTEAVARNLFKLMAYKDEYEVAR 1037
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 0.134 0.390
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,058,549
Number of extensions: 1458018
Number of successful extensions: 1278
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1257
Number of HSP's successfully gapped: 24
Length of query: 293
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 197
Effective length of database: 6,679,618
Effective search space: 1315884746
Effective search space used: 1315884746
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 (21.7 bits)
S2: 59 (26.5 bits)