RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11141
(566 letters)
>gnl|CDD|178029 PLN02407, PLN02407, diphosphomevalonate decarboxylase.
Length = 343
Score = 337 bits (866), Expect = e-112
Identities = 149/316 (47%), Positives = 191/316 (60%), Gaps = 43/316 (13%)
Query: 109 IEITFQRMH--AKTSVALSPDFTEDKLWLNGKKLA--------------------EQEKS 146
I +T H A T+VA+SP F +D+LWLNGK+++ E E+
Sbjct: 33 ISVTLDPDHLCATTTVAVSPSFDQDRLWLNGKEISLSGGRYQNCLREIRARATDVEDEEK 92
Query: 147 SREMA--DWK---MHICSENNFPTAAGLASSAAGYSCLVFTLAYALGLNT---SEVSHIA 198
++ DW+ +HI S NNFPTAAGLASSAAG++CLVF LA + + E+S IA
Sbjct: 93 GIKITKKDWEKLHVHIASYNNFPTAAGLASSAAGFACLVFALAKLMNVKEDFPGELSAIA 152
Query: 199 RQGSGSACRSMFGGFVRWKTLPEGQQSDGNGDIGRKQCELSNAEQIISESYWGSMRVIIL 258
RQGSGSACRS++GGFV+W G++ DG+ I A Q+ E +W + +II
Sbjct: 153 RQGSGSACRSLYGGFVKWNM---GKKEDGSDSI---------AVQLADEKHWDDLVIIIA 200
Query: 259 VVNDQAKSTSSTDGMQRTTLTSTLYEHRVNTIVPSRCSGMEEALRARDFPRFAELTMKDS 318
VV+ + K TSST GM+ + TS L +HR +VP R MEEA++ RDF FA+LT DS
Sbjct: 201 VVSSRQKETSSTSGMRESVETSPLLQHRAKEVVPKRILQMEEAIKNRDFASFAKLTCADS 260
Query: 319 NQFHACCLDTYPPIVYMNDTSHSIVRFVHEFNTVVGETKVAYTFDAGPNACLYVLENTVP 378
NQFHA CLDT PPI YMNDTS I+ V ++N G +VAYTFDAGPNA L L V
Sbjct: 261 NQFHATCLDTSPPIFYMNDTSRRIISLVEKWNRSEGTPQVAYTFDAGPNAVLIALNRKVA 320
Query: 379 L-LLSTLVQYFPPSSG 393
LL L+ YFPPSS
Sbjct: 321 AQLLQRLLYYFPPSSD 336
Score = 74.1 bits (182), Expect = 2e-14
Identities = 33/84 (39%), Positives = 48/84 (57%), Gaps = 15/84 (17%)
Query: 457 LMFTLAYALGLNT---SEVSHIARQGSGSACRSMFGGFVRWKTLPEGQQSEGNGDIGRKQ 513
L+F LA + + E+S IARQGSGSACRS++GGFV+W G++ +G+ I
Sbjct: 130 LVFALAKLMNVKEDFPGELSAIARQGSGSACRSLYGGFVKWNM---GKKEDGSDSI---- 182
Query: 514 FELSNAEQIISESYWGSMRVIILV 537
A Q+ E +W + +II V
Sbjct: 183 -----AVQLADEKHWDDLVIIIAV 201
Score = 54.4 bits (131), Expect = 6e-08
Identities = 23/39 (58%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 32 IEVAYTFDAGPNACLYVLENTVPL-LLSTLVQYFPPSSG 69
+VAYTFDAGPNA L L V LL L+ YFPPSS
Sbjct: 298 PQVAYTFDAGPNAVLIALNRKVAAQLLQRLLYYFPPSSD 336
>gnl|CDD|130307 TIGR01240, mevDPdecarb, diphosphomevalonate decarboxylase. This
enzyme catalyzes the last step in the synthesis of
isopentenyl diphosphate (IPP) in the mevalonate pathway.
Alternate names: mevalonate diphosphate decarboxylase;
pyrophosphomevalonate decarboxylase [Central
intermediary metabolism, Other].
Length = 305
Score = 230 bits (587), Expect = 3e-71
Identities = 111/292 (38%), Positives = 155/292 (53%), Gaps = 29/292 (9%)
Query: 109 IEITFQRMHAKTSVALSPDFTEDKLWLNG--KKLAEQEKSSREMADW--------KMHIC 158
I +T ++ TSVA + +F D +LNG + + EK+S + D+ K+HI
Sbjct: 30 ISLTLSQLRTLTSVAFADEFERDTFYLNGTLQHSIDNEKTSNCLDDFRQLRKEQEKLHIV 89
Query: 159 SENNFPTAAGLASSAAGYSCLVFTLA--YALGLNTSEVSHIARQGSGSACRSMFGGFVRW 216
S+NNFPTAAGLASSA+G + LV A Y L L+TSE+S IAR+GSGSACRS+FGG+V W
Sbjct: 90 SQNNFPTAAGLASSASGLAALVSACAKLYQLPLDTSELSRIARKGSGSACRSLFGGYVAW 149
Query: 217 KTLPEGQQSDGNGDIGRKQCELSNAEQIISESYWGSMRVIILVVNDQAKSTSSTDGMQRT 276
+ + S A Q+ +S W + +LVVND K SS GMQ T
Sbjct: 150 EKGKDDHSS--------------AAVQVADDSDWPQXAMCVLVVNDIKKDVSSRQGMQLT 195
Query: 277 TLTSTLYEHRVNTIVPSRCSGMEEALRARDFPRFAELTMKDSNQFHACCLDTYPPIVYMN 336
TS L++ + +VP +A++ +DF F + T +S HA LD +PP Y+N
Sbjct: 196 VATSELFKEWIEHVVP-DFEVXRKAIKTKDFATFGKETEANSLSMHATTLDAFPPFFYLN 254
Query: 337 DTSHSIVRFVHEFNTVVGETKVAYTFDAGPNACLYVLENTVPLLLSTLVQYF 388
DTS + VH G T +T DAGPN + L + L + + F
Sbjct: 255 DTSKRAMSAVHTLRQ--GGTICYFTMDAGPNVKVLYLAENLSKLFEFIYKLF 304
Score = 60.3 bits (146), Expect = 7e-10
Identities = 30/76 (39%), Positives = 41/76 (53%), Gaps = 14/76 (18%)
Query: 462 AYALGLNTSEVSHIARQGSGSACRSMFGGFVRWKTLPEGQQSEGNGDIGRKQFELSNAEQ 521
Y L L+TSE+S IAR+GSGSACRS+FGG+V W+ + S A Q
Sbjct: 117 LYQLPLDTSELSRIARKGSGSACRSLFGGYVAWEKGKDDHSSA--------------AVQ 162
Query: 522 IISESYWGSMRVIILV 537
+ +S W + +LV
Sbjct: 163 VADDSDWPQXAMCVLV 178
Score = 36.9 bits (85), Expect = 0.022
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 4/46 (8%)
Query: 19 WDKKLNKESKKYYIEVAYTFDAGPNACLYVLENTVPLLLSTLVQYF 64
L + +T DAGPN + L + L + + F
Sbjct: 263 AVHTLRQGG----TICYFTMDAGPNVKVLYLAENLSKLFEFIYKLF 304
>gnl|CDD|225941 COG3407, MVD1, Mevalonate pyrophosphate decarboxylase [Lipid
metabolism].
Length = 329
Score = 229 bits (586), Expect = 2e-70
Identities = 104/281 (37%), Positives = 138/281 (49%), Gaps = 29/281 (10%)
Query: 120 TSVALSPDFTEDKLWLNGKKLA-EQEKSSREM--------ADWKMHICSENNFPTAAGLA 170
T+ L+ + ED LNG+ E EK+ R + +K+ I S NNFPTAAGLA
Sbjct: 47 TAEELTENDEEDTFILNGELSEDENEKARRVLDRFRKEYGISFKVKIVSYNNFPTAAGLA 106
Query: 171 SSAAGYSCLVFTLAYALGLN--TSEVSHIARQGSGSACRSMFGGFVRWKTLPEGQQSDGN 228
SSAAG + L L L+ +S IAR GSGSA RS+FGGFV W G
Sbjct: 107 SSAAGAAALAAALNRLYDLDLDDEFLSRIARLGSGSASRSIFGGFVLW--------EKGE 158
Query: 229 GDIGRKQCELSNAEQIISESYWGSMRVIILVVNDQAKSTSSTDGMQRTTLTSTLYEHRVN 288
G E S AEQ+ W + +I+LV++ + K SS +GMQ T TS Y+ +
Sbjct: 159 G-------EDSAAEQLFRLDLWKELAMIVLVISPKKKKVSSREGMQLTAETSPFYDAWLE 211
Query: 289 TIVPSRCSGMEEALRARDFPRFAELTMKDSNQFHACCLDTYPPIVYMNDTSHSIVRFVHE 348
M+EA+R +DF + EL DS + HA + + PP Y+ D S I+ FVHE
Sbjct: 212 HSEEDLEE-MKEAIREKDFEKIGELAENDSLEMHATLMSSGPPFFYLTDESLRIIEFVHE 270
Query: 349 FNTVVGETKVAYTFDAGPNACLYVLENTVPLLLSTLVQYFP 389
V +T DAGPN + LE + LL L
Sbjct: 271 LRKEGN--AVYFTMDAGPNVKVITLEENLIDLLEILKTLEC 309
Score = 62.0 bits (151), Expect = 2e-10
Identities = 33/88 (37%), Positives = 43/88 (48%), Gaps = 15/88 (17%)
Query: 462 AYALGLNTSEVSHIARQGSGSACRSMFGGFVRWKTLPEGQQSEGNGDIGRKQFELSNAEQ 521
Y L L+ +S IAR GSGSA RS+FGGFV W +G G E S AEQ
Sbjct: 122 LYDLDLDDEFLSRIARLGSGSASRSIFGGFVLW--------EKGEG-------EDSAAEQ 166
Query: 522 IISESYWGSMRVIILVHLEYVPRVSNDT 549
+ W + +I+LV +VS+
Sbjct: 167 LFRLDLWKELAMIVLVISPKKKKVSSRE 194
Score = 32.7 bits (75), Expect = 0.44
Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 6/57 (10%)
Query: 15 SWFYWDKK------LNKESKKYYIEVAYTFDAGPNACLYVLENTVPLLLSTLVQYFP 65
+FY + E +K V +T DAGPN + LE + LL L
Sbjct: 253 PFFYLTDESLRIIEFVHELRKEGNAVYFTMDAGPNVKVITLEENLIDLLEILKTLEC 309
>gnl|CDD|215839 pfam00288, GHMP_kinases_N, GHMP kinases N terminal domain. This
family includes homoserine kinases, galactokinases and
mevalonate kinases.
Length = 67
Score = 46.4 bits (111), Expect = 6e-07
Identities = 21/67 (31%), Positives = 27/67 (40%), Gaps = 10/67 (14%)
Query: 156 HICSENNFPTAAGLASSAAGYSCLVFTLAYALGLNTS-----EVSHIARQGSGSA----- 205
I E+N P AGL SSAA L+ L GL S ++ A G
Sbjct: 1 DIEIESNIPLGAGLGSSAALAVALLLALNELFGLPLSKEELARLALEAEGAIGVNSGDDV 60
Query: 206 CRSMFGG 212
S++GG
Sbjct: 61 AASVYGG 67
>gnl|CDD|234906 PRK01123, PRK01123, shikimate kinase; Provisional.
Length = 282
Score = 33.3 bits (77), Expect = 0.29
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 15/69 (21%)
Query: 160 ENNFPTAAGLASSAAGYSCLVFTLAYALGLNTSEVSHIARQG-----------SGS---A 205
++ P A+GL SS+A + V ALG + ++ I R G +G+ A
Sbjct: 81 KSEIPLASGLKSSSAAANATVLATLDALGEDLDDLD-ILRLGVKASRDAGVTVTGAFDDA 139
Query: 206 CRSMFGGFV 214
C S FGG
Sbjct: 140 CASYFGGVT 148
>gnl|CDD|238598 cd01193, INT_IntI, IntI (E2) integrases, site-specific tyrosine
recombinases, DNA breaking-rejoining enzymes, N- and
C-terminal domains. This CD includes integrases which
are components of multiresistant integrons and mediate
recombination between a proximal attI site and a
secondary target called the attC (or 59-base element)
present on various mobile gene cassettes.
Integron-integrases are present in many natural
occurring mobile elements, including transposons and
conjugative plasmids. Vibrio, Shewanella, Xanthomonas
and Pseudomonas species harbor chromosomal
super-integrons. All integron-integrases carry large
inserts unlike the TnpF ermF-like proteins also seen in
this group.
Length = 242
Score = 32.2 bits (74), Expect = 0.48
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 5/43 (11%)
Query: 436 PKIL--DDIPNNHLLNEAGAPKH-LMFTLAYALGLNTSEVSHI 475
P +L +++ LL KH L+ +L Y GL SE +
Sbjct: 68 PVVLSPEEV--RRLLGALTGLKHRLILSLLYGCGLRLSECLRL 108
>gnl|CDD|224599 COG1685, COG1685, Archaeal shikimate kinase [Amino acid transport
and metabolism / Coenzyme metabolism].
Length = 278
Score = 31.9 bits (73), Expect = 0.71
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 15/69 (21%)
Query: 160 ENNFPTAAGLASSAAGYSCLVFTLAYALGLNTSEVSHIARQG-----------SGS---A 205
E+ P +GL SS+A + LV + ALG + I R G +G+ A
Sbjct: 76 ESEIPVGSGLKSSSAASNALVKAVLKALGEEIDDFE-ILRLGARASKEAGVSVTGAFDDA 134
Query: 206 CRSMFGGFV 214
C S GG V
Sbjct: 135 CASYLGGIV 143
>gnl|CDD|224742 COG1829, COG1829, Predicted archaeal kinase (sugar kinase
superfamily) [General function prediction only].
Length = 283
Score = 31.2 bits (71), Expect = 1.2
Identities = 24/94 (25%), Positives = 36/94 (38%), Gaps = 13/94 (13%)
Query: 132 KLWLNGKKLAEQEKSSREMAD----WKMHICSENNFPTAAGLASSAAGYSCLVFTLAYAL 187
+ LNGKK +R++ + + + E+ P G S AG LA L
Sbjct: 50 GVRLNGKK--IDLPITRKVIEKLGPDGVGVRIESPVPLGCGYGVSGAGALGTALALAEEL 107
Query: 188 GLNT---SEVSHIA----RQGSGSACRSMFGGFV 214
GL + ++H+A G G GG V
Sbjct: 108 GLGEESAARIAHVAEVENGTGLGDVVAQYTGGLV 141
>gnl|CDD|233637 TIGR01920, Shik_kin_archae, shikimate kinase. This model
represents the shikimate kinase (SK) gene found in
archaea which is only distantly related to homoserine
kinase (thrB) and not atr all to the bacterial SK
enzyme. The SK from M. janaschii has been overexpressed
in E. coli and characterized. SK catalyzes the fifth
step of the biosynthesis of chorismate from
D-erythrose-4-phosphate and phosphoenolpyruvate [Amino
acid biosynthesis, Aromatic amino acid family].
Length = 261
Score = 30.5 bits (69), Expect = 2.0
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 15/69 (21%)
Query: 160 ENNFPTAAGLASSAAGYSCLVFTLAYALGLNTSEVSHIARQGSGS--------------A 205
E+ P +GL SS+A + LV + A G+ ++ I R G+ A
Sbjct: 70 ESEIPAGSGLKSSSALVNALVEAVLKAKGVEIDDID-ILRLGARLSKDAGLSVTGAFDDA 128
Query: 206 CRSMFGGFV 214
S GG V
Sbjct: 129 AASYLGGIV 137
>gnl|CDD|224493 COG1577, ERG12, Mevalonate kinase [Lipid metabolism].
Length = 307
Score = 30.4 bits (69), Expect = 2.2
Identities = 23/83 (27%), Positives = 31/83 (37%), Gaps = 27/83 (32%)
Query: 154 KMHICSENNFPTAAGLASSAAGYSCLVFTLAYALGLNT---SEVS-----------HIAR 199
+ I SE P AGL SSAA ++A L+ E+S +
Sbjct: 85 SLEIDSE--IPIGAGLGSSAA------VSVAVIKALSAYFGVELSPEELAKLANKVELIV 136
Query: 200 QGSGS----ACRSMFGGFVRWKT 218
QG S A +GG V +K
Sbjct: 137 QGKASGIDIAT-ITYGGLVAFKK 158
>gnl|CDD|223161 COG0083, ThrB, Homoserine kinase [Amino acid transport and
metabolism].
Length = 299
Score = 29.5 bits (67), Expect = 4.0
Identities = 21/78 (26%), Positives = 30/78 (38%), Gaps = 17/78 (21%)
Query: 154 KMHICSENNFPTAAGLASSAAGYSCLVFTLA-----YALGLNTSEVSHIARQGSG----- 203
K+ I E P GL SSAA +V LA L L+ E+ +A + G
Sbjct: 79 KIRI--EKGIPLGRGLGSSAA---SIVAALAAANELAGLPLSKEELLQLALEIEGHPDNV 133
Query: 204 SACRSMFGGFVRWKTLPE 221
+ + GG V +
Sbjct: 134 APA--VLGGLVLVEEESG 149
>gnl|CDD|129295 TIGR00191, thrB, homoserine kinase. Homoserine kinase is part of
the threonine biosynthetic pathway.Homoserine kinase is
a member of the GHMP kinases (Galactokinase, Homoserine
kinase, Mevalonate kinase, Phosphomevalonate kinase) and
shares with them an amino-terminal domain probably
related to ATP binding.P.aeruginosa homoserine kinase
seems not to be homologous (see PROSITE:PDOC0054) [Amino
acid biosynthesis, Aspartate family].
Length = 302
Score = 29.7 bits (67), Expect = 4.5
Identities = 21/69 (30%), Positives = 30/69 (43%), Gaps = 13/69 (18%)
Query: 154 KMHICSENNFPTAAGLASSAAGYSCLVFTLAYA-----LGLNTSEVSHIARQGSG---SA 205
K+ + E N P GL SSAA +V LA A L L+ + A + G +
Sbjct: 82 KVTL--EKNIPLGRGLGSSAAA---IVAALAAANELCGLPLSKERLLDYASELEGHPDNV 136
Query: 206 CRSMFGGFV 214
++ GGF
Sbjct: 137 APALLGGFQ 145
>gnl|CDD|213022 cd10917, CE4_NodB_like_6s_7s, Catalytic NodB homology domain of
rhizobial NodB-like proteins. This family belongs to
the large and functionally diverse carbohydrate
esterase 4 (CE4) superfamily, whose members show strong
sequence similarity with some variability due to their
distinct carbohydrate substrates. It includes many
rhizobial NodB chitooligosaccharide N-deacetylase (EC
3.5.1.-)-like proteins, mainly from bacteria and
eukaryotes, such as chitin deacetylases (EC 3.5.1.41),
bacterial peptidoglycan N-acetylglucosamine
deacetylases (EC 3.5.1.-), and acetylxylan esterases
(EC 3.1.1.72), which catalyze the N- or O-deacetylation
of substrates such as acetylated chitin, peptidoglycan,
and acetylated xylan. All members of this family
contain a catalytic NodB homology domain with the same
overall topology and a deformed (beta/alpha)8 barrel
fold with 6- or 7 strands. Their catalytic activity is
dependent on the presence of a divalent cation,
preferably cobalt or zinc, and they employ a conserved
His-His-Asp zinc-binding triad closely associated with
the conserved catalytic base (aspartic acid) and acid
(histidine) to carry out acid/base catalysis. Several
family members show diversity both in metal ion
specificities and in the residues that coordinate the
metal.
Length = 171
Score = 28.0 bits (63), Expect = 8.7
Identities = 11/31 (35%), Positives = 14/31 (45%), Gaps = 6/31 (19%)
Query: 33 EVAYTFDAGPNACLYVLENTVPLLLSTLVQY 63
VA TFD GP+ P +L L +Y
Sbjct: 2 VVALTFDDGPDP------EYTPKILDILAEY 26
>gnl|CDD|179677 PRK03926, PRK03926, mevalonate kinase; Provisional.
Length = 302
Score = 28.5 bits (64), Expect = 8.8
Identities = 27/91 (29%), Positives = 40/91 (43%), Gaps = 21/91 (23%)
Query: 148 REMADWK-MHICSENNFPTAAGLASSAAGYSCLVFTLA-----YALGLNTSEVSHIAR-- 199
RE AD + + + P +GL SSAA V T+ LGL+ E++ +
Sbjct: 68 REEADKDGVTVSITSQIPVGSGLGSSAA---VTVATIGALNRLLGLGLSLEEIAKLGHKV 124
Query: 200 ----QGSGSACR---SMFGGFVRWKTLPEGQ 223
QG+ S S GGFV T+P+ +
Sbjct: 125 ELLVQGAASPTDTYVSTMGGFV---TIPDRK 152
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 0.401
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 28,306,312
Number of extensions: 2699296
Number of successful extensions: 1970
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1950
Number of HSP's successfully gapped: 25
Length of query: 566
Length of database: 10,937,602
Length adjustment: 102
Effective length of query: 464
Effective length of database: 6,413,494
Effective search space: 2975861216
Effective search space used: 2975861216
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: 62 (27.5 bits)