RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 020300
(328 letters)
>gnl|CDD|215285 PLN02521, PLN02521, galactokinase.
Length = 497
Score = 565 bits (1459), Expect = 0.0
Identities = 233/303 (76%), Positives = 263/303 (86%)
Query: 26 GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSG 85
GSGLSSS A VCS+ +A+MAA G+ KKE+AQ TC+CE+ IGTQSGGMDQAISIMA+ G
Sbjct: 161 GSGLSSSAALVCSAAIAIMAALGLNFTKKEVAQFTCKCERHIGTQSGGMDQAISIMAQQG 220
Query: 86 FAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKL 145
A+LIDFNP+R TDVQLPAGGTFV+A+SLAES KA+TAA+NYNNRVVECRL AIVLA+KL
Sbjct: 221 VAKLIDFNPVRATDVQLPAGGTFVIANSLAESNKAVTAATNYNNRVVECRLAAIVLAVKL 280
Query: 146 GMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLT 205
GM +EAISKVKTLSDVEGLCV+FA +GSSDP AVKE L + PYTA +IE+I E LT
Sbjct: 281 GMSAEEAISKVKTLSDVEGLCVSFAGSHGSSDPAVAVKELLHEGPYTAEEIEEILGESLT 340
Query: 206 SIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMN 265
SIF NS +SL VL AAK +KLHQRA HVYSEAKRVHAF+DTVSS+LSEE+KLKKLGDLMN
Sbjct: 341 SIFKNSPTSLAVLKAAKHFKLHQRAVHVYSEAKRVHAFRDTVSSSLSEEEKLKKLGDLMN 400
Query: 266 DSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLK 325
+SH+SCSVLYECSCPELEELV VCR+NGALGARLTGAGWGGC VALVKE+I QFIL LK
Sbjct: 401 ESHYSCSVLYECSCPELEELVKVCRDNGALGARLTGAGWGGCAVALVKEAIVPQFILALK 460
Query: 326 VLF 328
F
Sbjct: 461 EKF 463
>gnl|CDD|223231 COG0153, GalK, Galactokinase [Carbohydrate transport and
metabolism].
Length = 390
Score = 167 bits (426), Expect = 6e-49
Identities = 88/293 (30%), Positives = 125/293 (42%), Gaps = 68/293 (23%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAK 83
+G+GLSSS A + +AL F + + K E+A++ E QF+G G MDQ S K
Sbjct: 126 IGAGLSSSAALEVAVALALQRLFNLPLDKAELAKIAQVAENQFVGVNCGIMDQLASAFGK 185
Query: 84 SGFAELIDFNPIRTTDVQLPAGG-TFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLA 142
A L+D + V P GG + V+ +S K A S YN R EC A L
Sbjct: 186 KDHALLLDCRTLEYEPVPFPVGGVSIVIVNSNV---KRELADSEYNERRAECEEAAEFLG 242
Query: 143 IKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEE 202
+ + K+L DV + + A++ + +P
Sbjct: 243 VSI-----------KSLRDV------------TDEEFAALQAEIEVDP------------ 267
Query: 203 KLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGD 262
K+ +RA HV +E +RV + L + G+
Sbjct: 268 ----------------------KIARRARHVVTENQRV---LEAA--KALRSGDLTEFGE 300
Query: 263 LMNDSHHSCSVLYECSCPELEELVN-VCRNNGALGARLTGAGWGGCVVALVKE 314
LMN+SH S YE +CPEL+ LV GA GAR+TGAG+GGCV+ALV
Sbjct: 301 LMNESHESLRDDYEVTCPELDTLVEIALAAGGAYGARMTGAGFGGCVIALVPN 353
>gnl|CDD|232841 TIGR00131, gal_kin, galactokinase. Galactokinase 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.The galactokinases found by This model are
divided into two sets. Prokaryotic forms are generally
shorter. The eukaryotic forms are longer because of
additional central regions and in some cases are known
to be bifunctional, with regulatory activities that are
independent of galactokinase activity [Energy
metabolism, Sugars].
Length = 386
Score = 150 bits (380), Expect = 2e-42
Identities = 94/304 (30%), Positives = 126/304 (41%), Gaps = 74/304 (24%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAK 83
GSGLSSS AF C+ L + + K+I E F+G G MDQA S++ K
Sbjct: 121 TGSGLSSSAAFECAVGAVLQNMGHLPLDSKQILLRIQVAENHFVGVNCGIMDQAASVLGK 180
Query: 84 SGFAELIDFNPIRTTDVQLPAGG-TFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLA 142
A L++ ++ T + P G FV+A++ +K A SNYN R EC A LA
Sbjct: 181 EDHALLVECRSLKATPFKFPQLGIAFVIANTN---VKRTLAPSNYNTRRQECTTAANFLA 237
Query: 143 IKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEE 202
L D Y A I ++T+
Sbjct: 238 ATD----------KGALRDF-------------------------MNEYFARYIARLTK- 261
Query: 203 KLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRV----HAFKDTVSSNLSEEDKLK 258
+ L +RA HV SE RV A KD D K
Sbjct: 262 ------------MLPLVE-------ERAKHVVSENLRVLKAVKAMKD--------ND-FK 293
Query: 259 KLGDLMNDSHHSCSVLYECSCPELEELV-NVCRNNGALGARLTGAGWGGCVVALVKESID 317
+ G LMN+SH SC YEC+CPE++ELV + NG+ G+R+TGAG+GGC V LV
Sbjct: 294 QFGALMNESHASCDDDYECTCPEIDELVCSAALVNGSGGSRMTGAGFGGCTVHLVPNENV 353
Query: 318 SQFI 321
+
Sbjct: 354 DKVR 357
>gnl|CDD|235407 PRK05322, PRK05322, galactokinase; Provisional.
Length = 387
Score = 105 bits (265), Expect = 7e-26
Identities = 84/310 (27%), Positives = 121/310 (39%), Gaps = 85/310 (27%)
Query: 26 GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAKS 84
G+GLSSS + + V L F +++ + E+ +L + E +FIG SG MDQ M K
Sbjct: 124 GAGLSSSASIELLTGVILKDLFNLDLDRLELVKLGQKTENEFIGVNSGIMDQFAIGMGKK 183
Query: 85 GFAELIDFNPIRTTDVQLPAGGTFVV------AHSLAESLKAITAASNYNNRVVECRLTA 138
A L+D N + V L G +V LA+S YN R EC
Sbjct: 184 DHAILLDCNTLEYEYVPLDLGDYVIVIMNTNKRRELADS--------KYNERRAEC---- 231
Query: 139 IVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEK 198
++A+ +++ D++ L L E+
Sbjct: 232 -----------EKALEELQKKLDIKSLG--------------------------ELTEEE 254
Query: 199 ITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRV----HAFKDTVSSNLSEE 254
E ++ K RA H +E +R A K
Sbjct: 255 FDEYS------------YLIKDETLLK---RARHAVTENQRTLKAVKALKA--------- 290
Query: 255 DKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVC-RNNGALGARLTGAGWGGCVVALVK 313
L+K G LMN SH S YE + EL+ LV + G LGAR+TGAG+GGC +A+VK
Sbjct: 291 GDLEKFGRLMNASHVSLRDDYEVTGLELDTLVEAAWKQEGVLGARMTGAGFGGCAIAIVK 350
Query: 314 ESIDSQFILN 323
+ F N
Sbjct: 351 KDKVEAFKEN 360
>gnl|CDD|179937 PRK05101, PRK05101, galactokinase; Provisional.
Length = 382
Score = 83.4 bits (207), Expect = 6e-18
Identities = 82/293 (27%), Positives = 113/293 (38%), Gaps = 76/293 (25%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAK 83
G+GLSSS + + + + + EIA E E QF+G G MDQ IS + K
Sbjct: 123 QGAGLSSSASLEVAVGQTFQQLYHLPLSGAEIALNGQEAENQFVGCNCGIMDQLISALGK 182
Query: 84 SGFAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAI 143
A LID + T V +P G V+ +S ++K S YN R +C A
Sbjct: 183 KDHALLIDCRSLETKAVPMPEGVAVVIINS---NVKRGLVDSEYNTRRQQCETAA----- 234
Query: 144 KLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEK 203
VK L DV F DPV A
Sbjct: 235 --------RFFGVKALRDVT--LEQFNAVAAELDPVVA---------------------- 262
Query: 204 LTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDL 263
+RA HV +E R L+ D LK++G+L
Sbjct: 263 ------------------------KRARHVITENARTLEAASA----LAAGD-LKRMGEL 293
Query: 264 MNDSHHSCSVLYECSCPELEELV----NVCRNNGALGARLTGAGWGGCVVALV 312
M +SH S +E + P+++ LV V + G G R+TG G+GGC+VALV
Sbjct: 294 MAESHASMRDDFEITVPQIDTLVEIVKAVIGDQG--GVRMTGGGFGGCIVALV 344
>gnl|CDD|235163 PRK03817, PRK03817, galactokinase; Provisional.
Length = 351
Score = 79.3 bits (196), Expect = 1e-16
Identities = 38/89 (42%), Positives = 52/89 (58%), Gaps = 5/89 (5%)
Query: 226 LHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEEL 285
L +RA +V E +RV +D L E D ++ LG+L+ +SH + YE SC EL+
Sbjct: 231 LRKRAGYVLRENERVLKVRDA----LKEGD-IETLGELLTESHWDLADNYEVSCEELDFF 285
Query: 286 VNVCRNNGALGARLTGAGWGGCVVALVKE 314
V GA GARLTGAG+GG +ALV +
Sbjct: 286 VEFALELGAYGARLTGAGFGGSAIALVDK 314
Score = 63.1 bits (154), Expect = 3e-11
Identities = 35/111 (31%), Positives = 51/111 (45%), Gaps = 4/111 (3%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAK 83
+G+GLSSS + + AL A+ + + K E+A L E E +F+G G MDQ K
Sbjct: 97 IGAGLSSSASLEVAVAYALNEAYNLNLSKLELALLAREAENEFVGVPCGIMDQFAVAFGK 156
Query: 84 SGFAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVEC 134
A +D + V P +V + +K A+S YN R EC
Sbjct: 157 KDHAIFLDTMTLEYEYVPFPEDYEILVFDT---GVKRELASSEYNERRQEC 204
>gnl|CDD|215466 PLN02865, PLN02865, galactokinase.
Length = 423
Score = 77.5 bits (191), Expect = 7e-16
Identities = 76/296 (25%), Positives = 115/296 (38%), Gaps = 67/296 (22%)
Query: 26 GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAKS 84
SGLSSS A + +AL A + V ++ +L E +++G ++G +DQ+ ++++
Sbjct: 143 SSGLSSSAAVGVAYLLALENANNLTVSPEDNIELDRLIENEYLGLRNGILDQSAILLSRY 202
Query: 85 GFAELIDFNPIRTTDVQLPAGGT-----FVVAHSLAESLKAITAASNYNNRVVECRLTAI 139
G +D + V L F + + + A+T YN RV EC+ A
Sbjct: 203 GCLTFMDCKTLDHKLVSLQFQQPGGEKPFKILLAFSGLRHALTNKPGYNLRVSECQEAAR 262
Query: 140 VLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKI 199
L G E + L +VE E Y A
Sbjct: 263 FLLEASGNDELEPL-----LCNVE------------------------PEVYEAH----- 288
Query: 200 TEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHA-FKDTVSSNLSEEDKLK 258
+ KL ++ A +RA H +SE RV + S NL E
Sbjct: 289 -KCKLEAVLA------------------RRAEHYFSENMRVIKGVEAWASGNLEE----- 324
Query: 259 KLGDLMNDSHHSCSVLYECSCPELEELVNVC-RNNGALGARLTGAGWGGCVVALVK 313
G L++ S S YEC C L +L + + G GAR +GAG+ GC VA V
Sbjct: 325 -FGKLISASGLSSIENYECGCEPLIQLYEILLKAPGVYGARFSGAGFRGCCVAFVD 379
>gnl|CDD|224493 COG1577, ERG12, Mevalonate kinase [Lipid metabolism].
Length = 307
Score = 68.1 bits (167), Expect = 5e-13
Identities = 30/64 (46%), Positives = 41/64 (64%), Gaps = 7/64 (10%)
Query: 253 EEDKLKKLGDLMNDSHHSCSVLYEC---SCPELEELVNVCRNNGALGARLTGAGWGGCVV 309
+ ++LG+LMN + L + S PEL+ELV R+ GALGA+LTGAG GGC++
Sbjct: 221 QTGDFEELGELMNINQG----LLKALGVSTPELDELVEAARSLGALGAKLTGAGGGGCII 276
Query: 310 ALVK 313
AL K
Sbjct: 277 ALAK 280
Score = 43.1 bits (102), Expect = 1e-04
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKS 84
+G+GL SS A + AL A FGVE+ +E+A+L + E + ++ G+D A
Sbjct: 94 IGAGLGSSAAVSVAVIKALSAYFGVELSPEELAKLANKVELIVQGKASGIDIATITY--G 151
Query: 85 GFAELIDFNPIRTTDVQLPAGGTFVVAH 112
G +++ GT V+
Sbjct: 152 GLVAFKKGFDFEK--LEIELLGTLVIGD 177
>gnl|CDD|240351 PTZ00298, PTZ00298, mevalonate kinase; Provisional.
Length = 328
Score = 68.3 bits (167), Expect = 6e-13
Identities = 33/91 (36%), Positives = 46/91 (50%), Gaps = 12/91 (13%)
Query: 225 KLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEE 284
+L + SEAK ++ L ++G+LMN +H C L SC EL+
Sbjct: 218 RLLENYNACVSEAKEA-----------LQKGNLFRVGELMNANHDLCQKL-TVSCRELDS 265
Query: 285 LVNVCRNNGALGARLTGAGWGGCVVALVKES 315
+V CR GALGA+++G G GG VVAL
Sbjct: 266 IVQTCRTYGALGAKMSGTGRGGLVVALAASE 296
>gnl|CDD|179063 PRK00555, PRK00555, galactokinase; Provisional.
Length = 363
Score = 67.2 bits (164), Expect = 2e-12
Identities = 35/112 (31%), Positives = 54/112 (48%), Gaps = 5/112 (4%)
Query: 204 LTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDL 263
++S+ A L L A +RA HV +E +RV F ++ + G L
Sbjct: 221 VSSLRAVQDRGLAALGAIADPIDARRARHVLTENQRVLDFAAALADS-----DFTAAGQL 275
Query: 264 MNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKES 315
+ SH S +E + ++ + + GALGAR+TG G+GGCV+ALV
Sbjct: 276 LTASHASMRDDFEITTERIDLIADSAVRAGALGARMTGGGFGGCVIALVPAD 327
Score = 55.3 bits (133), Expect = 1e-08
Identities = 35/120 (29%), Positives = 52/120 (43%), Gaps = 1/120 (0%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAK 83
+GSGLSSS A C+ A+ AA G + + E A+L E +++G +G +DQ ++
Sbjct: 102 IGSGLSSSAALECAVLGAVGAATGTRIDRLEQARLAQRAENEYVGAPTGLLDQLAALFGA 161
Query: 84 SGFAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAI 143
A LIDF + V VV + + A Y R C A L +
Sbjct: 162 PKTALLIDFRDLTVRPVAFDPDAAGVVLLLMDSRARHRHAGGEYAARRASCERAAADLGV 221
>gnl|CDD|233017 TIGR00549, mevalon_kin, mevalonate kinase. This model represents
mevalonate kinase, the third step in the mevalonate
pathway of isopentanyl pyrophosphate (IPP) biosynthesis.
IPP is a common intermediate for a number of pathways
including cholesterol biosynthesis. This model covers
enzymes from eukaryotes, archaea and bacteria. The
related enzyme from the same pathway, phosphmevalonate
kinase, serves as an outgroup for this clade. Paracoccus
exhibits two genes within the
phosphomevalonate/mevalonate kinase family, one of which
falls between trusted and noise cutoffs of this model.
The degree of divergence is high, but if the trees
created from this model are correct, the proper names of
these genes have been swapped [Central intermediary
metabolism, Other].
Length = 274
Score = 65.8 bits (161), Expect = 2e-12
Identities = 28/62 (45%), Positives = 41/62 (66%), Gaps = 7/62 (11%)
Query: 253 EEDKLKKLGDLMNDSH---HSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVV 309
E+ ++ LG+LMN + + V S P+L++LV + R GALGA+LTGAG GGC++
Sbjct: 217 EDGDVESLGELMNINQGLLKALGV----SHPKLDQLVEIARKAGALGAKLTGAGGGGCMI 272
Query: 310 AL 311
AL
Sbjct: 273 AL 274
Score = 43.4 bits (103), Expect = 8e-05
Identities = 28/88 (31%), Positives = 39/88 (44%), Gaps = 4/88 (4%)
Query: 26 GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSG 85
G GL SS A + AL FG E+ K+E+A+L E E+ + G+D A S G
Sbjct: 91 GRGLGSSAAVAVALIRALADYFGSELSKEELAELANEAEKIAHGKPSGIDTATSTS--GG 148
Query: 86 FAELIDFNPIRTTDVQLPAGGTFVVAHS 113
T + L G FV+A +
Sbjct: 149 PVYFEKGEGEFTKLISLD--GYFVIADT 174
>gnl|CDD|219894 pfam08544, GHMP_kinases_C, GHMP kinases C terminal. This family
includes homoserine kinases, galactokinases and
mevalonate kinases.
Length = 86
Score = 58.7 bits (142), Expect = 2e-11
Identities = 29/77 (37%), Positives = 44/77 (57%), Gaps = 3/77 (3%)
Query: 249 SNLSEEDKLKKLGDLMNDSHHSC--SVLYECSCPELEELVNVCRNNGALGARLTGAGWGG 306
L E D L+ LG+L+N++ S + PEL+EL+ R GALGA+L+G+G G
Sbjct: 3 EALREGD-LELLGELLNENALSLEPLLYLGILSPELDELLEELRELGALGAKLSGSGGGP 61
Query: 307 CVVALVKESIDSQFILN 323
V AL K+ D++ +
Sbjct: 62 TVFALFKDEEDAEEVAE 78
>gnl|CDD|215839 pfam00288, GHMP_kinases_N, GHMP kinases N terminal domain. This
family includes homoserine kinases, galactokinases and
mevalonate kinases.
Length = 67
Score = 55.3 bits (134), Expect = 3e-10
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 1/57 (1%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIM 81
LG+GL SS A + +AL FG+ + K+E+A+L E E IG S G D A S+
Sbjct: 10 LGAGLGSSAALAVALLLALNELFGLPLSKEELARLALEAEGAIGVNS-GDDVAASVY 65
>gnl|CDD|179677 PRK03926, PRK03926, mevalonate kinase; Provisional.
Length = 302
Score = 58.1 bits (141), Expect = 1e-09
Identities = 27/58 (46%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 255 DKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALV 312
LG+LMN + L S EL EL+ R GALGA++TGAG GGC+VAL
Sbjct: 211 GDYVSLGELMNINQGLLDAL-GVSTKELSELIYAARTAGALGAKITGAGGGGCMVALA 267
Score = 37.7 bits (88), Expect = 0.005
Identities = 18/56 (32%), Positives = 28/56 (50%)
Query: 26 GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIM 81
GSGL SS A ++ AL G+ + +EIA+L + E + + D +S M
Sbjct: 87 GSGLGSSAAVTVATIGALNRLLGLGLSLEEIAKLGHKVELLVQGAASPTDTYVSTM 142
>gnl|CDD|240347 PTZ00290, PTZ00290, galactokinase; Provisional.
Length = 468
Score = 52.5 bits (126), Expect = 1e-07
Identities = 25/81 (30%), Positives = 47/81 (58%), Gaps = 5/81 (6%)
Query: 251 LSEEDKLKKLGDLMNDSHHSCSVLYECSCPELE---ELVNVCRNNGALGARLTGAGWGGC 307
LS E++ +K G+++N H L + + PEL+ EL+N G G R+ G G+GGC
Sbjct: 356 LSREERFRKAGEILNAGHQGMRDLMKITTPELDFIHELIN--EEKGVAGGRMMGGGFGGC 413
Query: 308 VVALVKESIDSQFILNLKVLF 328
++ L+K++ + + +++ F
Sbjct: 414 IILLLKKNAVDRVVAHVREKF 434
Score = 30.6 bits (69), Expect = 1.4
Identities = 22/86 (25%), Positives = 34/86 (39%), Gaps = 29/86 (33%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEV---------------------PKKEIAQLTCEC 63
+G+G+S+S +F VAL+ A V K+E+ +L +
Sbjct: 145 MGAGMSASASF----GVALLNAINTVVTRRYKGCPTSPGRRYSILPPMSKEELIELAKQA 200
Query: 64 E----QFIGTQSGGMDQAISIMAKSG 85
+F G G MDQ IS A+
Sbjct: 201 RRIETEFCGVNVGIMDQFISAFAEED 226
>gnl|CDD|226917 COG4542, PduX, Protein involved in propanediol utilization, and
related proteins (includes coumermycin biosynthetic
protein), possible kinase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 293
Score = 37.1 bits (86), Expect = 0.009
Identities = 14/39 (35%), Positives = 22/39 (56%)
Query: 26 GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 64
G G++SSTA + ++ A G E+ + EIA+L E
Sbjct: 95 GKGMASSTADLVATARATARFLGRELRESEIAKLCVSIE 133
>gnl|CDD|225325 COG2605, COG2605, Predicted kinase related to galactokinase and
mevalonate kinase [General function prediction only].
Length = 333
Score = 34.7 bits (80), Expect = 0.060
Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 6/75 (8%)
Query: 242 AFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYE-CSCPELEELVNVCRNNGALGARLT 300
KD + N + + G +++ + L S ++ + + NGA G +L+
Sbjct: 232 EMKDALVRN-----DIPEFGQILDRGWEAKKKLSSRISNDAIDRIYELALKNGAYGGKLS 286
Query: 301 GAGWGGCVVALVKES 315
GAG GG ++ S
Sbjct: 287 GAGGGGFLLFFCDPS 301
Score = 30.0 bits (68), Expect = 1.7
Identities = 25/74 (33%), Positives = 33/74 (44%), Gaps = 12/74 (16%)
Query: 26 GSGLSSSTAFVCSSTVALMAAF----GVEVPKKEIAQLTCECEQFIGTQSGG-MDQAISI 80
GSGL SS+AFV VAL+ A G + E+A+ E E+ GG DQ
Sbjct: 101 GSGLGSSSAFV----VALLNALHAWKGESLGPYELAREAYEIEREDLKIVGGKQDQ---Y 153
Query: 81 MAKSGFAELIDFNP 94
A G ++F
Sbjct: 154 AAAFGGFNFMEFRG 167
>gnl|CDD|236995 PRK11824, PRK11824, polynucleotide phosphorylase/polyadenylase;
Provisional.
Length = 693
Score = 33.9 bits (79), Expect = 0.13
Identities = 15/25 (60%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGV 49
L S SSS A VC S++ALM A GV
Sbjct: 432 LESNGSSSMASVCGSSLALMDA-GV 455
>gnl|CDD|224599 COG1685, COG1685, Archaeal shikimate kinase [Amino acid transport
and metabolism / Coenzyme metabolism].
Length = 278
Score = 32.3 bits (74), Expect = 0.25
Identities = 14/35 (40%), Positives = 21/35 (60%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQL 59
+GSGL SS+A + A++ A G E+ EI +L
Sbjct: 81 VGSGLKSSSAASNALVKAVLKALGEEIDDFEILRL 115
>gnl|CDD|206769 cd11364, RNase_PH_PNPase_2, Polyribonucleotide
nucleotidyltransferase, repeat 2. Polyribonucleotide
nucleotidyltransferase (PNPase) is a member of the
RNase_PH family, named after the bacterial Ribonuclease
PH, a 3'-5' exoribonuclease. Structurally, all members
of this family form hexameric rings. In the case of
PNPase the complex is a trimer, since each monomer
contains two tandem copies of the domain. PNPase is
involved in mRNA degradation in a 3'-5' direction and in
quality control of ribosomal RNA precursors, with the
second repeat containing the active site. PNPase is part
of the RNA degradosome complex and binds to the
scaffolding domain of the endoribonuclease RNase E.
Length = 223
Score = 31.7 bits (73), Expect = 0.33
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIA 57
L S SSS A VC ++ALM A GV + K +A
Sbjct: 110 LESNGSSSMASVCGGSLALMDA-GVPI-KAPVA 140
>gnl|CDD|234271 TIGR03591, polynuc_phos, polyribonucleotide nucleotidyltransferase.
Members of this protein family are polyribonucleotide
nucleotidyltransferase, also called polynucleotide
phosphorylase. Some members have been shown also to have
additional functions as guanosine pentaphosphate
synthetase and as poly(A) polymerase (see model
TIGR02696 for an exception clade, within this family)
[Transcription, Degradation of RNA].
Length = 684
Score = 31.7 bits (73), Expect = 0.52
Identities = 12/20 (60%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 30 SSSTAFVCSSTVALMAAFGV 49
SSS A VC ++ALM A GV
Sbjct: 433 SSSMASVCGGSLALMDA-GV 451
>gnl|CDD|237379 PRK13412, fkp, bifunctional
fucokinase/L-fucose-1-P-guanylyltransferase;
Provisional.
Length = 974
Score = 31.7 bits (72), Expect = 0.59
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 26 GSGLSSSTAFVCSSTV--ALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQA 77
GSGL +S+ + ++TV A+ G+ K EI T EQ + T G DQ
Sbjct: 738 GSGLGTSS--ILAATVLGAISDFCGLAWDKNEICNRTLVLEQLLTTGGGWQDQY 789
>gnl|CDD|224106 COG1185, Pnp, Polyribonucleotide nucleotidyltransferase
(polynucleotide phosphorylase) [Translation, ribosomal
structure and biogenesis].
Length = 692
Score = 31.4 bits (72), Expect = 0.83
Identities = 16/34 (47%), Positives = 19/34 (55%), Gaps = 4/34 (11%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVP-KKEIA 57
L S SSS A VC ++ALM A VP K +A
Sbjct: 430 LESNGSSSMASVCGGSLALMDA---GVPIKAPVA 460
>gnl|CDD|234906 PRK01123, PRK01123, shikimate kinase; Provisional.
Length = 282
Score = 30.2 bits (69), Expect = 1.2
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQL 59
L SGL SS+A ++ +A + A G ++ +I +L
Sbjct: 86 LASGLKSSSAAANATVLATLDALGEDLDDLDILRL 120
>gnl|CDD|215248 PLN02451, PLN02451, homoserine kinase.
Length = 370
Score = 30.1 bits (68), Expect = 1.4
Identities = 15/40 (37%), Positives = 21/40 (52%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 64
LGSGL SS A ++ VA+ FG + K ++ E E
Sbjct: 145 LGSGLGSSAASAAAAAVAVNELFGSPLGKDDLVLAGLESE 184
>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 = 29.7 bits (67), Expect = 1.6
Identities = 15/35 (42%), Positives = 22/35 (62%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQL 59
GSGL SS+A V + A++ A GVE+ +I +L
Sbjct: 75 AGSGLKSSSALVNALVEAVLKAKGVEIDDIDILRL 109
>gnl|CDD|215363 PLN02677, PLN02677, mevalonate kinase.
Length = 387
Score = 30.2 bits (68), Expect = 1.7
Identities = 22/63 (34%), Positives = 32/63 (50%), Gaps = 9/63 (14%)
Query: 252 SEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGA--LGARLTGAGWGGCVV 309
+E+KLK+L + MN L +C + V R L ++LTGAG GGCV+
Sbjct: 291 EKEEKLKELME-MNQG------LLQCMGVSHSSIETVLRTTLKYKLVSKLTGAGGGGCVL 343
Query: 310 ALV 312
L+
Sbjct: 344 TLL 346
Score = 29.8 bits (67), Expect = 2.0
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 14/69 (20%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFG-------------VEVPKKEIA-QLTCECEQFIGTQ 70
LGSGL SS AF + + AL+AA ++ E+ + E E+ I +
Sbjct: 140 LGSGLGSSAAFCVALSAALLAASDSISVSTGGNGWSSLDETDLELVNKWAFEGEKIIHGK 199
Query: 71 SGGMDQAIS 79
G+D +S
Sbjct: 200 PSGIDNTVS 208
>gnl|CDD|223099 COG0020, UppS, Undecaprenyl pyrophosphate synthase [Lipid
metabolism].
Length = 245
Score = 29.6 bits (67), Expect = 1.9
Identities = 18/65 (27%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 144 KLGMKPQEAISKVKTLS-DVEGLCVAFACKNGS-SDPVFAVKEFLRKEPYTALDIEKITE 201
+L + +EAI K + + + GL + A G + V AV++ L E I E
Sbjct: 114 RLPEEVREAIEKAEEKTKNNTGLTLNIAVNYGGRDEIVDAVRKIAEDVAAGKLSPEDIDE 173
Query: 202 EKLTS 206
E ++S
Sbjct: 174 ELISS 178
>gnl|CDD|216923 pfam02190, LON, ATP-dependent protease La (LON) domain. This
domain has been shown to be part of the PUA superfamily.
Length = 191
Score = 28.5 bits (64), Expect = 3.3
Identities = 17/85 (20%), Positives = 34/85 (40%), Gaps = 6/85 (7%)
Query: 180 FAVKEFLRKEPYTALDIEKITEEKLTSIF----ANSSSSLDVLNAAKQYKLHQRAAHVYS 235
F + E ++EPY ++E + EE+L + A ++ + L
Sbjct: 87 FRILELEQEEPYLVAEVEDLPEEELEELLEALEALVKELIEKIKELLPLLLPLELLLKID 146
Query: 236 EAKRVHAFKDTVSSNL--SEEDKLK 258
+ + D ++S L S E+K +
Sbjct: 147 DIEDPGRLADLIASLLPLSPEEKQE 171
>gnl|CDD|234624 PRK00089, era, GTPase Era; Reviewed.
Length = 292
Score = 28.9 bits (66), Expect = 3.4
Identities = 12/29 (41%), Positives = 14/29 (48%), Gaps = 2/29 (6%)
Query: 184 EFLRKE-PY-TALDIEKITEEKLTSIFAN 210
L E PY A++IEK E L I A
Sbjct: 201 RLLGDELPYSVAVEIEKFEERGLVRIEAT 229
>gnl|CDD|222027 pfam13288, DXPR_C, DXP reductoisomerase C-terminal domain. This is
the C-terminal domain of the
1-deoxy-D-xylulose-5-phosphate reductoisomerase enzyme.
This domain forms a left handed super-helix.
Length = 118
Score = 27.8 bits (63), Expect = 3.4
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 11/60 (18%)
Query: 170 ACKNGSSDPVF-------AVKEFLRKE-PYTALDIEKITEEKLTSIFANSSSSL-DVLNA 220
A + G + P AV FL + + LDI +I E+ L + SL D+L A
Sbjct: 53 ALRAGGTAPAVLNAANEVAVAAFLEGKIGF--LDIARIVEKVLDAHEPIEPPSLEDILEA 110
>gnl|CDD|216392 pfam01255, Prenyltransf, Putative undecaprenyl diphosphate
synthase. Previously known as uncharacterized protein
family UPF0015, a single member of this family has been
identified as an undecaprenyl diphosphate synthase.
Length = 222
Score = 28.3 bits (64), Expect = 4.2
Identities = 13/42 (30%), Positives = 16/42 (38%), Gaps = 1/42 (2%)
Query: 165 LCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTS 206
L +A G + V AVK R L E I EE +
Sbjct: 116 LNIAL-NYGGRDEIVDAVKRLARDVADGKLSPEDIDEEVIEK 156
>gnl|CDD|215187 PLN02328, PLN02328, lysine-specific histone demethylase 1 homolog.
Length = 808
Score = 28.8 bits (64), Expect = 4.6
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 228 QRAAHVYSEA-KRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEEL 285
+ AA++ A +R D V+++ E+D L +L D + + S S+L++ + E L
Sbjct: 670 REAANILRVARRRSLCIDDKVNNDEEEDDCLDQLFDTPDLTFGSFSILFDPRSNDPESL 728
>gnl|CDD|223161 COG0083, ThrB, Homoserine kinase [Amino acid transport and
metabolism].
Length = 299
Score = 28.3 bits (64), Expect = 6.1
Identities = 15/40 (37%), Positives = 22/40 (55%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 64
LG GL SS A + ++ A G+ + K+E+ QL E E
Sbjct: 88 LGRGLGSSAASIVAALAAANELAGLPLSKEELLQLALEIE 127
Score = 27.6 bits (62), Expect = 8.8
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 280 PELEELVNVCRNNGALGARLTGAG 303
P E+ GALGA L+GAG
Sbjct: 230 PGYAEVREAALEAGALGATLSGAG 253
>gnl|CDD|162819 TIGR02354, thiF_fam2, thiamine biosynthesis protein ThiF, family 2.
Members of the HesA/MoeB/ThiF family of proteins
(pfam00899) include a number of members encoded in the
midst of thiamine biosynthetic operons. This mix of
known and putative ThiF proteins shows a deep split in
phylogenetic trees, with one the E. coli ThiF and the E.
coli MoeB proteins seemingly more closely related than
E. coli ThiF and Campylobacter (for example) ThiF. This
model represents the divergent clade of putative ThiF
proteins such found in Campylobacter [Biosynthesis of
cofactors, prosthetic groups, and carriers, Thiamine].
Length = 200
Score = 27.5 bits (61), Expect = 7.5
Identities = 23/97 (23%), Positives = 41/97 (42%), Gaps = 10/97 (10%)
Query: 180 FAVKEFLRK-EPYTALDI--EKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAH-VYS 235
A+KE + + PYT ++ EKITEE + F ++ + + A+ + A Y
Sbjct: 77 EALKENISEINPYTEIEAYDEKITEENIDKFFKDADIVCEAFDNAEAKAMLVNAVLEKYK 136
Query: 236 EAKRVHA--FKDTVSSNLSEEDKLKK----LGDLMND 266
+ + A +N + K+ K GD +D
Sbjct: 137 DKYLIAASGLAGYDDANSIKTRKISKHFYLCGDGKSD 173
>gnl|CDD|188029 TIGR00154, ispE, 4-diphosphocytidyl-2C-methyl-D-erythritol kinase.
Members of this family of GHMP kinases were previously
designated as conserved hypothetical protein YchB or as
isopentenyl monophosphate kinase. It is now known, in
tomato and E. coli, to encode
4-diphosphocytidyl-2C-methyl-D-erythritol kinase, an
enzyme of the deoxyxylulose phosphate pathway of
terpenoid biosynthesis [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 294
Score = 27.9 bits (62), Expect = 7.5
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 280 PELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLK 325
E+ + +N G R++G+ G CV AL +++ +L
Sbjct: 229 TEVAQALNWLLEYGLAPERMSGS--GPCVFALFDMESEAEQVLEQA 272
>gnl|CDD|227512 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 28.0 bits (62), Expect = 9.0
Identities = 16/67 (23%), Positives = 28/67 (41%), Gaps = 6/67 (8%)
Query: 201 EEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNL--SEEDKLK 258
E+ + S LN K+YK+H++ HV + + S+L E + K
Sbjct: 557 EQLVQSTEIKLDELKVDLNR-KRYKIHKQVIHVIDITSKFKI---NIQSSLEDLENELGK 612
Query: 259 KLGDLMN 265
+ +L N
Sbjct: 613 VIEELRN 619
>gnl|CDD|206402 pfam14234, DUF4336, Domain of unknown function (DUF4336).
Length = 314
Score = 27.6 bits (62), Expect = 9.4
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 94 PIRTTDVQLPAGGTFVVA 111
PIR T V+L GG +V A
Sbjct: 19 PIRMTVVKLKDGGLWVYA 36
>gnl|CDD|176506 cd08563, GDPD_TtGDE_like, Glycerophosphodiester phosphodiesterase
domain of Thermoanaerobacter tengcongensis and similar
proteins. This subfamily corresponds to the
glycerophosphodiester phosphodiesterase domain (GDPD)
present in Thermoanaerobacter tengcongensis
glycerophosphodiester phosphodiesterase (TtGDE, EC
3.1.4.46) and its uncharacterized homologs. Members in
this family show high sequence similarity to Escherichia
coli GP-GDE, which catalyzes the degradation of
glycerophosphodiesters to produce
sn-glycerol-3-phosphate (G3P) and the corresponding
alcohols. Despite the fact that most of GDPD family
members exist as the monomer, TtGDE can function as a
dimeric unit. Its catalytic mechanism is based on the
general base-acid catalysis, which is similar to that of
phosphoinositide-specific phospholipases C (PI-PLCs, EC
3.1.4.11). A divalent metal cation is required for the
enzyme activity of TtGDE.
Length = 230
Score = 27.5 bits (62), Expect = 9.6
Identities = 12/48 (25%), Positives = 19/48 (39%), Gaps = 10/48 (20%)
Query: 88 ELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECR 135
E +D RTT+ G V E LK + A S ++ + +
Sbjct: 50 ETVD----RTTN------GKGYVKDLTLEELKKLDAGSWFDEKFTGEK 87
>gnl|CDD|187704 cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase H is longer and
more complex than their prokaryotic counterparts and
unlike prokaryote, RNase H are essential in higher
eukaryote. Ribonuclease H (RNase H) is classified into
two families, type 1 (prokaryotic RNase HI, eukaryotic
RNase H1 and viral RNase H) and type 2 (prokaryotic
RNase HII and HIII, and eukaryotic RNase H2). RNase H is
an endonuclease that cleaves the RNA strand of an
RNA/DNA hybrid in a sequence non-specific manner. RNase
H is involved in DNA replication, repair and
transcription. One of the important functions of RNase H
is to remove Okazaki fragments during DNA replication.
RNase H is widely present in various organisms,
including bacteria, archaea and eukaryote and most
prokaryotic and eukaryotic genomes contain multiple
RNase H genes. Despite the lack of amino acid sequence
homology, Type 1 and type 2 RNase H share a main-chain
fold and steric configurations of the four acidic
active-site (DEDD) residues and have the same catalytic
mechanism and functions in cells. Eukaryotic RNase H is
longer and more complex than in prokaryotes. Almost all
eukaryotic RNase HI have highly conserved regions at the
N-terminal called hybrid binding domain (HBD). It is
speculated that the HBD contributes to binding the
RNA/DNA hybrid. Prokaryotes and some single-cell
eukaryotes do not require RNase H for viability, but
RNase H is essential in higher eukaryotes. RNase H
knockout mice lack mitochondrial DNA replication and die
as embryos.
Length = 150
Score = 26.8 bits (60), Expect = 9.9
Identities = 10/17 (58%), Positives = 11/17 (64%), Gaps = 3/17 (17%)
Query: 289 CRNNGALGARLTGAGWG 305
CR NG GAR AG+G
Sbjct: 8 CRGNGRSGAR---AGYG 21
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 0.131 0.372
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,897,671
Number of extensions: 1479737
Number of successful extensions: 1476
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1451
Number of HSP's successfully gapped: 64
Length of query: 328
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 231
Effective length of database: 6,635,264
Effective search space: 1532745984
Effective search space used: 1532745984
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 (21.8 bits)
S2: 59 (26.4 bits)