RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 010850
(499 letters)
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 445 bits (1146), Expect = e-153
Identities = 185/494 (37%), Positives = 268/494 (54%), Gaps = 39/494 (7%)
Query: 14 SLKAVYGEGLQLEEA----------ERRFDNLNSKFIQVFAQPPDVYARCPGRVNLIGEH 63
S + +Y +G E+ R L F F P Y R PGRVN+IGEH
Sbjct: 11 SSENLYFQGHMATESPATRRVQVAEHPRLLKLKEMFNSKFGSIPKFYVRAPGRVNIIGEH 70
Query: 64 IDYEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYNMCTYPAEPDQEIDMKHH 123
IDY GYSVLPMA+ QD ++A+ + L++AN + Y + A + +ID
Sbjct: 71 IDYCGYSVLPMAVEQDVLIAVEPVKTY----ALQLANTNPLYPDFSTSAN-NIQIDKTKP 125
Query: 124 QWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMA 183
W +YF+CG K E+ + G++ LVDG +P SGLSSS+A VC + + +
Sbjct: 126 LWHNYFLCGLKGIQEH-----FGLSNLTGMNCLVDGNIPPSSGLSSSSALVCCAGLVTLT 180
Query: 184 AFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAG 243
G + K E+A++ + E++IGT+ GGMDQ+IS +A+ G A+LI+F+P+R TDV+LP+G
Sbjct: 181 VLGRNLSKVELAEICAKSERYIGTEGGGMDQSISFLAEEGTAKLIEFSPLRATDVKLPSG 240
Query: 244 GTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGL 303
FV+A+S E KA A S++N RV+ECRL A +LA ++ KV L +V+
Sbjct: 241 AVFVIANSCVEMNKA--ATSHFNIRVMECRLAAKLLAKYKSLQWD----KVLRLEEVQAK 294
Query: 304 CVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYK 363
+ + ++ L EPY +I + L + S +K
Sbjct: 295 -----LGISLEEMLLVTEDALHPEPYNPEEICRCLGISLEELRTQILSPNTQD--VLIFK 347
Query: 364 LHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEEL 423
L+QRA HVYSEA RV FK + E+ ++ LG+LMN SH SC +YECSCPEL++L
Sbjct: 348 LYQRAKHVYSEAARVLQFKKICEE--APENMVQLLGELMNQSHMSCRDMYECSCPELDQL 405
Query: 424 VNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRIDRGVINNNDLGL 483
V++CR GA G+RLTGAGWGGC V++V F+ N+ + +YQ R +
Sbjct: 406 VDICRKFGAQGSRLTGAGWGGCTVSMVPADKLPSFLANVHKAYYQ----RSDGSLAPEKQ 461
Query: 484 YVFASKPSSGAAKF 497
+FA+KP GA
Sbjct: 462 SLFATKPGGGALVL 475
>3v2u_C Protein GAL3; rossmann fold, GHMP superfamily, transcription
regulation, transcription; HET: GLA ATP; 2.10A
{Saccharomyces cerevisiae} PDB: 3v5r_A 2aj4_A*
Length = 520
Score = 408 bits (1050), Expect = e-138
Identities = 153/525 (29%), Positives = 237/525 (45%), Gaps = 43/525 (8%)
Query: 8 PVPTFWSLKAVYGEGLQLEEAERRFDNLNSKFIQVFAQPPDVYARCPGRVNLIGEHIDYE 67
VP F S E++ + F Q + PD AR PGRVNLIGEHIDY
Sbjct: 4 NVPIFSSPVRDLPR-----SFEQKHLAVVDAFFQTYHVKPDFIARSPGRVNLIGEHIDYC 58
Query: 68 GYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYNMCTYPAEPD---QEIDMKHHQ 124
+SVLP+AI D + A++ D K + + N K+ + D ID +
Sbjct: 59 DFSVLPLAIDVDMLCAVKILDEKNPS--ITLTNADPKFAQRKFDLPLDGSYMAIDPSVSE 116
Query: 125 WGHYFICGYKAFYEYVK---AKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVAL 181
W +YF CG + Y+K + + P VG I +PTG GLSS+ +
Sbjct: 117 WSNYFKCGLHVAHSYLKKIAPERFNNTPLVGAQIFCQSDIPTGGGLSSAFTCAAALATIR 176
Query: 182 M-AAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNP-IRTTDVQ 239
++ KK++ ++T E ++G +GGMDQA S+ + A ++F P ++ T +
Sbjct: 177 ANMGKNFDISKKDLTRITAVAEHYVGVNNGGMDQATSVYGEEDHALYVEFRPKLKATPFK 236
Query: 240 LP----AGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMK--PQEAISK 293
P +FV+A++L +S K TA +NYN RV+E + A LA + + + S
Sbjct: 237 FPQLKNHEISFVIANTLVKSNKFETAPTNYNLRVIEVTVAANALATRYSVALPSHKDNSN 296
Query: 294 VKTLSDVEGLCVAFACKNGSSDPVFAVKEF----------LRKEPYTALDIEKITEEKLT 343
+ + + + +A + P L +E ++ E T
Sbjct: 297 SERGNLRDFMDAYYARYENQAQPWNGDIGTGIERLLKMLQLVEESFSRKKSGFTVHEAST 356
Query: 344 SIFANSSSSL-----DVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSN--LSEEDKLK 396
++ + + KL+QRA HVYSE+ RV ++S ++ED
Sbjct: 357 ALNCSREEFTRDYLTTFPVRFQVLKLYQRAKHVYSESLRVLKALKMMTSATFHTDEDFFT 416
Query: 397 KLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDS 456
G LMN+S SC LYECSC E ++ ++ NG+ G+RLTGAGWGGC + LV +
Sbjct: 417 DFGRLMNESQASCDKLYECSCIETNQICSIALANGSFGSRLTGAGWGGCTIHLVPSGANG 476
Query: 457 ---QFILNLKEQFYQSRIDRGVINNNDLGLYVFASKPSSGAAKFK 498
Q L E+FY R + +L + SKP+ G ++
Sbjct: 477 NVEQVRKALIEKFYNVRYPDLT--DEELKDAIIVSKPALGTCLYE 519
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA;
2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Length = 419
Score = 277 bits (711), Expect = 5e-89
Identities = 117/485 (24%), Positives = 179/485 (36%), Gaps = 98/485 (20%)
Query: 19 YGEGLQLEEAERRFDNLNSKFIQVFAQPPDV-YARCPGRVNLIGEHIDYEGYSVLPMAIR 77
+ E L KF +VF +V Y PGR+NLIGEH DY G V P +I
Sbjct: 18 GSHMSIVVENSTVLSALTEKFAEVFGDTKEVEYFFSPGRINLIGEHTDYNGGYVFPASIT 77
Query: 78 QDTIVAIRKHDSKEAEKVLKIANVSDKYNMCTYPAEPDQEIDMKHHQWGHYFICGYKAFY 137
T R + K KV + K + + D+ W +Y K
Sbjct: 78 IGTTGLARLREDK---KVKLYSENFPKLGVIEFDL--DEVEKKDGELWSNYV----KGMI 128
Query: 138 EYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQL 197
+K G ++ G ++L+ G +PT SGLSSS + V L F + VP+ E+ QL
Sbjct: 129 VMLKGAGYEIDK--GFELLIKGEIPTASGLSSSASLELLVGVVLDDLFNLNVPRLELVQL 186
Query: 198 TCECE-QFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVA------H 250
+ E +IG SG +DQ + A +D N ++ V + +V
Sbjct: 187 GQKTENDYIGVNSGILDQFAIGFGEVKKAIELDCNTLKYEMVPVELRDYDIVIMNTNKPR 246
Query: 251 SLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACK 310
+L E S YN R E R + +L +++L ++
Sbjct: 247 ALTE--------SKYNERFAETREALKRMQTRLD---------IQSLGEL---------- 279
Query: 311 NGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAH 370
S++ A + + E L +RA H
Sbjct: 280 --SNEEFDANTDLIGDET-----------------------------------LIKRARH 302
Query: 371 VYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRN- 429
E R + + L K G+L+N SH S YE + EL+ L +
Sbjct: 303 AVYENNRTKIAQK----AFVAGN-LTKFGELLNASHASLKDDYEVTGLELDTLAETAQKQ 357
Query: 430 NGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRIDRGVINNNDLGLYVFASK 489
G LGAR+TGAG+GGC +ALV S F + + + + + ++
Sbjct: 358 AGVLGARMTGAGFGGCAIALVAHDNVSAFRKAVGQVYEE---------VVGYPASFYVAQ 408
Query: 490 PSSGA 494
SG+
Sbjct: 409 IGSGS 413
>1wuu_A Galactokinase; galactosemia, GHMP superfamily, transferase; HET:
GLA ANP; 2.50A {Homo sapiens} SCOP: d.14.1.5 d.58.26.7
Length = 399
Score = 267 bits (684), Expect = 3e-85
Identities = 114/502 (22%), Positives = 172/502 (34%), Gaps = 116/502 (23%)
Query: 1 MARHEELPVPTFWSLKAVYGEGLQLEEAERRFDNLNSKFIQVFAQPPDVYARCPGRVNLI 60
MA H + F + F P++ PGRVNLI
Sbjct: 1 MAHHHHHHAALRQ------------PQVAELLAEARRAFREEFGAEPELAVSAPGRVNLI 48
Query: 61 GEHIDYEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYNMCTYPAEPDQEIDM 120
GEH DY VLPMA+ T++ + + + + ++
Sbjct: 49 GEHTDYNQGLVLPMALELMTVLVGSPRKDGLVSLLTTSEGADEPQRLQFPLPTAQRSLEP 108
Query: 121 KHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVA 180
+W +Y K +Y A L G +V +VP G GLSSS + ++
Sbjct: 109 GTPRWANYV----KGVIQYYPAAPLP-----GFSAVVVSSVPLGGGLSSSASLEVATYTF 159
Query: 181 LMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQ 239
L AQ+ + E F G G MDQ IS+M + G A LID + T+ V
Sbjct: 160 LQQLCPDSGTIAARAQVCQQAEHSFAGMPCGIMDQFISLMGQKGHALLIDCRSLETSLVP 219
Query: 240 LPAGG-TFVVA-----HSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISK 293
L ++ HSLA S Y R +C A
Sbjct: 220 LSDPKLAVLITNSNVRHSLASS--------EYPVRRRQCEEVA-------------RALG 258
Query: 294 VKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFANSSSSL 353
++L +V E+L +
Sbjct: 259 KESLREV-------------------------------------QLEELEAA-------R 274
Query: 354 DVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLY 413
D+++ + +RA HV E +R L D + G LM +SH S Y
Sbjct: 275 DLVSK----EGFRRARHVVGEIRRTAQAAA----ALRRGD-YRAFGRLMVESHRSLRDDY 325
Query: 414 ECSCPELEELVNVCRN-NGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRID 472
E SCPEL++LV G G+R+TG G+GGC V L++ S + +++E +
Sbjct: 326 EVSCPELDQLVEAALAVPGVYGSRMTGGGFGGCTVTLLEASAAPHAMRHIQEHYG----- 380
Query: 473 RGVINNNDLGLYVFASKPSSGA 494
+ S+ + GA
Sbjct: 381 --------GTATFYLSQAADGA 394
>2cz9_A Probable galactokinase; structural genomics, NPPSFA, national
project protein structural and functional analyses;
1.50A {Pyrococcus horikoshii} PDB: 2dei_A* 2dej_A*
1s4e_A*
Length = 350
Score = 264 bits (676), Expect = 1e-84
Identities = 92/447 (20%), Positives = 157/447 (35%), Gaps = 101/447 (22%)
Query: 49 VYARCPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYNMC 108
+ + PGRVNLIGEH DY V+PMAI T + KH E +L + +
Sbjct: 2 IKVKSPGRVNLIGEHTDYTYGYVMPMAINLYTKIEAEKHG----EVILYSEHFGE----- 52
Query: 109 TYPAEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLS 168
+ K + W Y + K +VG G+ V G +P G+GLS
Sbjct: 53 --ERKFSLNDLRKENSWIDYVKGIFWVL----KESDYEVG---GIKGRVSGNLPLGAGLS 103
Query: 169 SSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAKSGFAEL 227
SS +F L + +++ L + E +F+G G +DQ + + G
Sbjct: 104 SSASFEVGILETLDKLYNLKLDSLSKVLLAKKAENEFVGVPCGILDQFAVVFGREGNVIF 163
Query: 228 IDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKP 287
+D + + + P + +V ++ ++ A+S Y R + +L
Sbjct: 164 LDTHTLDYEYIPFPKDVSILVFYT---GVRRELASSEYAERKHIAEESLKIL-------- 212
Query: 288 QEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFA 347
+ +V ++ K+
Sbjct: 213 -----GKGSSKEV-----------------------------REGELSKLPPL------- 231
Query: 348 NSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHH 407
+ ++ E RV +D +E ++++G ++ +H
Sbjct: 232 ----------------HRKFFGYIVRENARVLEVRD-----ALKEGNVEEVGKILTTAHW 270
Query: 408 SCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFY 467
+ YE SC EL+ V GA GARLTGAG+GG +ALV + + ++
Sbjct: 271 DLAKNYEVSCKELDFFVERALKLGAYGARLTGAGFGGSAIALVDKEDAETIGEEILREYL 330
Query: 468 QSRIDRGVINNNDLGLYVFASKPSSGA 494
+ R F +PS G
Sbjct: 331 K----RFPWKAR-----HFIVEPSDGV 348
>1kkh_A Mevalonate kinase; mixed beta sheet, phosphate-binding loop,
beta-alpha-beta, transferase; 2.40A {Methanocaldococcus
jannaschii} SCOP: d.14.1.5 d.58.26.3 PDB: 1vis_A
Length = 317
Score = 134 bits (339), Expect = 1e-35
Identities = 41/205 (20%), Positives = 75/205 (36%), Gaps = 10/205 (4%)
Query: 46 PPDVYARCPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKY 105
+ P +V L GEH GY + MAI + + I++ E I N++D
Sbjct: 3 GSHMIIETPSKVILFGEHAVVYGYRAISMAIDLTSTIEIKETQEDEI-----ILNLNDLN 57
Query: 106 NMCTYPAEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGS 165
+ I+ + Y +C K +Y+ + P G I + +P
Sbjct: 58 KSLGLNLNEIKNINPNNFGDFKYCLCAIKNTLDYLNIE-----PKTGFKINISSKIPISC 112
Query: 166 GLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSGFA 225
GL SS + + A+ + E+ EIA+L E+ I ++ D +
Sbjct: 113 GLGSSASITIGTIKAVSGFYNKELKDDEIAKLGYMVEKEIQGKASITDTSTITYKGILEI 172
Query: 226 ELIDFNPIRTTDVQLPAGGTFVVAH 250
+ F I+ + F++ +
Sbjct: 173 KNNKFRKIKGEFEEFLKNCKFLIVY 197
Score = 105 bits (263), Expect = 3e-25
Identities = 30/148 (20%), Positives = 57/148 (38%), Gaps = 11/148 (7%)
Query: 323 FLRKEPYTALDIEKITEEKLTS--IFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHA 380
++ + + E K I + + ++ E +V
Sbjct: 171 EIKNNKFRKIKGEFEEFLKNCKFLIVYAEKRKKKTAELVNEVAKIENKDEIFKEIDKV-- 228
Query: 381 FKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGA 440
+ L ++ + G LM +H S P+L+ +V++ G GA+LTGA
Sbjct: 229 ----IDEALKIKN-KEDFGKLMTKNHELLKK-LNISTPKLDRIVDIGNRFG-FGAKLTGA 281
Query: 441 GWGGCVVALVKESIDSQFILNLKEQFYQ 468
G GGCV+ LV E + + + L ++ +
Sbjct: 282 GGGGCVIILVNEEKEKELLKELNKEDVR 309
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite,
transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Length = 332
Score = 124 bits (314), Expect = 4e-32
Identities = 39/248 (15%), Positives = 76/248 (30%), Gaps = 30/248 (12%)
Query: 37 SKFIQVFAQPPDVYARCPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHDSKEAEKVL 96
S + G+V L GEH G + I + T + +
Sbjct: 2 SHMSKPVKSKTTGKNIGYGKVILFGEHFVVHGAEAIVAGISEYTECRLEINPGVPG---- 57
Query: 97 KIANVSDKYNMCTYPAEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDIL 156
V D+ I Q I ++ +++K GL +
Sbjct: 58 --LQVDDQRP----------AIPGYIAQKRDEQIKAHQLVLDHLKVDL----SGDGLKMF 101
Query: 157 VDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGTQSGGMDQA 215
+ G + SG+ +S + V + + AL + + + +E+ E + GT SG + A
Sbjct: 102 IGGPLVPSSGIGASASDVVAFSRALSELYQLNLTDEEVNLSAFVGEGGYHGTPSGADNTA 161
Query: 216 ISIMAKSGFAELIDFNPIRT--TDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECR 273
+ G L ++ + VV + A TA + ++ +
Sbjct: 162 AT----YGGLILYRRQNGKSVFKPIAFQQRLYLVVVGTGI---NASTAKVVNDVHKMKQQ 214
Query: 274 LTAIVLAI 281
+
Sbjct: 215 QPVQFKRL 222
Score = 100 bits (251), Expect = 1e-23
Identities = 41/139 (29%), Positives = 67/139 (48%), Gaps = 24/139 (17%)
Query: 357 NAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECS 416
+ +L+ H+ S+A+ L + D L++LG LMN +H C + + S
Sbjct: 215 QPVQFKRLYDNYTHIVSQAREA----------LQKGD-LQRLGQLMNANHDLCRQI-DVS 262
Query: 417 CPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILN-LKEQFYQSRIDRGV 475
C ELE +V CR GALGA+L+G G GG VAL S I+ LK + +++
Sbjct: 263 CRELESIVQTCRTYGALGAKLSGTGRGGIAVALAASSDQRDAIVKGLKAKCPEAK----- 317
Query: 476 INNNDLGLYVFASKPSSGA 494
++ + +PS+ +
Sbjct: 318 ------FIWRYTVQPSAAS 330
>1kvk_A MK, mevalonate kinase; RMK, ATP, GHMP, transferase; HET: ATP; 2.40A
{Rattus norvegicus} SCOP: d.14.1.5 d.58.26.3 PDB:
2r42_A* 2r3v_A
Length = 395
Score = 121 bits (303), Expect = 2e-30
Identities = 69/440 (15%), Positives = 124/440 (28%), Gaps = 103/440 (23%)
Query: 47 PDVYARCPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYN 106
+ PG+V L GEH G L +A+ T + +R + + L + ++
Sbjct: 4 EVLLVSAPGKVILHGEHAVVHGKVALAVALNLRTFLVLRPQSNGKVSLNLPNVGIKQVWD 63
Query: 107 MCTYP-------------------AEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDV 147
+ T E +++ AF A
Sbjct: 64 VATLQLLDTGFLEQGDVPAPTLEQLEKLKKVAGLPRDCVGNEGLSLLAFLYLYLAICRKQ 123
Query: 148 GPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGT 207
LDI+V +P G+GL SS A+ AL+ A ++T +
Sbjct: 124 RTLPSLDIMVWSELPPGAGLGSSAAYSVCVAAALLTAC---------EEVTNPLKDRGSI 174
Query: 208 QSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNN 267
S + SI + E + D + S +
Sbjct: 175 GSWPEEDLKSINKWAYEGERVIHGNPSGVD----------------------NSVSTWGG 212
Query: 268 RVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGS-SDPVFAVKEFLRK 326
+ + L ++ + + S V V+ L K
Sbjct: 213 ALRYQQGKMSSLKRLPALQ----------------ILLTNTKVPRSTKALVAGVRSRLIK 256
Query: 327 EPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVS 386
P + + + V E
Sbjct: 257 FPEIMAPLLTSIDA-----------------------ISLECERVLGEMA---------- 283
Query: 387 SNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCV 446
++ L +LM+ + H + L L++L V +G L ++LTGAG GGC
Sbjct: 284 -AAPVPEQYLVLEELMDMNQHHLNAL-GVGHASLDQLCQVTAAHG-LHSKLTGAGGGGCG 340
Query: 447 VALVKESIDSQFILNLKEQF 466
+ L+K ++ + K+
Sbjct: 341 ITLLKPGLERAKVEAAKQAL 360
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 111 bits (280), Expect = 1e-27
Identities = 40/205 (19%), Positives = 59/205 (28%), Gaps = 32/205 (15%)
Query: 49 VYARCPGRVNLIGEHIDYEGYSVLPMAIRQDTI-VAIRKHDSKEAEKVLKIANVSDKYNM 107
Y G++ LIGEH G + + I V I +S + SD Y
Sbjct: 7 GYGESTGKIILIGEHAVTFGEPAIAVPFNAGKIKVLIEALESGNYSSIK-----SDVY-- 59
Query: 108 CTYPAEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGL 167
D + + F E L + + +P GL
Sbjct: 60 -----------DGMLYDAPDHLKSLVNRFVELNNITE-------PLAVTIQTNLPPSRGL 101
Query: 168 SSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGTQSGGMDQAISIMAKSGFAE 226
SS A + A G + K+E+ + EQ G SG Q I
Sbjct: 102 GSSAAVAVAFVRASYDFLGKSLTKEELIEKANWAEQIAHGKPSGIDTQTIVSG---KPVW 158
Query: 227 LIDFNPIRTTDVQLPAGGTFVVAHS 251
+ + L G VV +
Sbjct: 159 FQKGHAETLKTLSLD--GYMVVIDT 181
Score = 103 bits (258), Expect = 1e-24
Identities = 30/111 (27%), Positives = 52/111 (46%), Gaps = 6/111 (5%)
Query: 355 VLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYE 414
V + K + Q +HV K V D + + L D+ N+ H L
Sbjct: 191 VHDVHKLCEDPQYMSHVKHIGKLVLRASD----VIEHHK-FEALADIFNECHADLKAL-T 244
Query: 415 CSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQ 465
S ++E+L+ + + NGA+ +LTGAG GG ++ L K+ ++ I+ E+
Sbjct: 245 VSHDKIEQLMKIGKENGAIAGKLTGAGRGGSMLLLAKDLPTAKNIVKAVEK 295
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET: DP6;
2.50A {Streptococcus pneumoniae}
Length = 292
Score = 108 bits (271), Expect = 1e-26
Identities = 25/204 (12%), Positives = 56/204 (27%), Gaps = 41/204 (20%)
Query: 49 VYARCPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYNMC 108
+ ++ LIGEH GY + + + + +
Sbjct: 6 GVGQAHSKIILIGEHAVVYGYPAISLPLLEVEVTCKVVPA-------------------- 45
Query: 109 TYPAEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLS 168
+ + A EY+ + +D +P G+
Sbjct: 46 ------ESPWRLYEE---DTLSMAVYASLEYLNI------TEACIRCEIDSAIPEKRGMG 90
Query: 169 SSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGTQSGGMDQAISIMAKSGFAEL 227
SS A ++ A+ + ++P + L E SG + +
Sbjct: 91 SSAAISIAAIRAVFDYYQADLPHDVLEILVNRAEMIAHMNPSGLDAKTCLSDQP-----I 145
Query: 228 IDFNPIRTTDVQLPAGGTFVVAHS 251
+ T++++ V+A +
Sbjct: 146 RFIKNVGFTELEMDLSAYLVIADT 169
Score = 98.2 bits (245), Expect = 5e-23
Identities = 27/116 (23%), Positives = 50/116 (43%), Gaps = 8/116 (6%)
Query: 355 VLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYE 414
+ + K H E + +S++D + LG +++ +H
Sbjct: 179 IQVVQNKGKDALPFLHALGE--LTQQAEI----AISQKD-AEGLGQILSQAHLHLKE-IG 230
Query: 415 CSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSR 470
S E + LV ++GALGA+++G G GGC++ALV +Q + E+ +
Sbjct: 231 VSSLEADSLVETALSHGALGAKMSGGGLGGCIIALVTNLTHAQELAERLEEKGAVQ 286
>3k85_A D-glycero-D-manno-heptose 1-phosphate kinase; bacteriodes
thetaiotaomicron, protein structure initiative II(PSI
II), nysgxrc; 2.28A {Bacteroides thetaiotaomicron}
Length = 357
Score = 102 bits (255), Expect = 5e-24
Identities = 34/200 (17%), Positives = 62/200 (31%), Gaps = 22/200 (11%)
Query: 49 VYARCPGRVNLIGEHID------YEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVS 102
V ++ P R+ L G D G +L I I + +S +I +
Sbjct: 4 VRSKAPLRLGLAGGGSDVSPYSDIYGGLILNATINLYAYCTIEETNSG------RIEINA 57
Query: 103 DKYNMCTYPAEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVP 162
C Q ++ Y + P I P
Sbjct: 58 YDAQCCKSYLSMSQ---LEIDGEASLIKGVYNRIIRDYR------LEPKSFKITTYNDAP 108
Query: 163 TGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGTQSGGMDQAISIMAK 221
GSGL +S+ V A + + + E ++L E E+ +G G DQ +
Sbjct: 109 AGSGLGTSSTMVVCILKAFIEWLSLPLGDYETSRLAYEIERKDLGLSGGKQDQYAAAFGG 168
Query: 222 SGFAELIDFNPIRTTDVQLP 241
+ E + + + +++
Sbjct: 169 FNYMEFLQNDLVIVNPLKMK 188
Score = 86.5 bits (214), Expect = 1e-18
Identities = 19/121 (15%), Positives = 50/121 (41%), Gaps = 7/121 (5%)
Query: 348 NSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTV--SSNLSEEDKLKKLGDLMNDS 405
S SS ++N K+ + + +H K + + + + + ++ +
Sbjct: 206 RSRSSAAIINEQKKNTSEGNQTAI----EAMHKIKQSAIDTKLALLKGDVGEFARILGEG 261
Query: 406 HHS-CSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKE 464
+ + + P ++E +V GA+ +++GAG GG ++ +V+ + + + L
Sbjct: 262 WENKKKMAGAITNPMIQEAFDVATGAGAMAGKVSGAGGGGFIMFVVEPTRKEEVVRALNN 321
Query: 465 Q 465
Sbjct: 322 L 322
>3k17_A LIN0012 protein; protein structure initiative II(PSI II), NYSGXRC,
structural genomics, NEW YORK SGX research center for
structural genomics; HET: PGE; 2.10A {Listeria innocua}
Length = 365
Score = 84.3 bits (208), Expect = 7e-18
Identities = 28/176 (15%), Positives = 67/176 (38%), Gaps = 18/176 (10%)
Query: 47 PDVYARCPGRVNLIGEHIDYE-GYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKY 105
+ + PG++ + GE+ E G++ + A+ + + + + E +
Sbjct: 5 NKLQVKIPGKLYVAGEYAVVESGHTAILTAVNRYITLTLEDSERNEL-------WIPHYE 57
Query: 106 NMCTYPAEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPT-- 163
N ++P + + D +H + ++K++G+++ P + ++++ +
Sbjct: 58 NPVSWPIGGELKPDGEHW---TFTAEAINIATTFLKSEGIELTP---VKMVIETELIDQS 111
Query: 164 --GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAIS 217
GL SS A + ALM F E+ + +L + D A
Sbjct: 112 GAKYGLGSSAAATVAVINALMTKFYPEISMLKKFKLAALSHLVVQGNGSCGDIASC 167
Score = 64.3 bits (156), Expect = 2e-11
Identities = 13/76 (17%), Positives = 27/76 (35%), Gaps = 6/76 (7%)
Query: 391 EEDKLKKLGDLMNDSHH-----SCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGC 445
+ L + ++ L+EL + N G + +G+G G C
Sbjct: 263 HTKDEELLYSSIKENRRILQELGTKAGVNIETSLLKELADSAENMGG-AGKSSGSGGGDC 321
Query: 446 VVALVKESIDSQFILN 461
+A K ++ ++N
Sbjct: 322 GIAFSKTKELAEKLVN 337
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 74.5 bits (182), Expect = 4e-14
Identities = 72/481 (14%), Positives = 137/481 (28%), Gaps = 136/481 (28%)
Query: 5 EELPVPTFWS--LKAVYGEGLQLEEAERRFDNLNSKFIQVFAQPPDVYARCPGRVNLIGE 62
+++P + + + R F L SK ++ + + E
Sbjct: 39 QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK-------QEEMVQK------FVEE 85
Query: 63 HIDYEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYNMCTYPAEPDQEIDMKH 122
+ Y L I+ + + I YN D ++ K
Sbjct: 86 VLRIN-YKFLMSPIKTEQR-------QPSMMTRMYIEQRDRLYN--------DNQVFAK- 128
Query: 123 HQWGHYFICGYKAFYEYVKA-KGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSS-TVA 180
Y + + + + +A L ++L+DG GSG + VC S V
Sbjct: 129 -----YNVSRLQPYLKLRQALLELRPAK----NVLIDG--VLGSGKTWVALDVCLSYKVQ 177
Query: 181 LMAAFGV--------EVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNP 232
F + P+ + L Q + D + +I
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI-------------K 224
Query: 233 IRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNN-----------RVVE-----CR--- 273
+R HS+ L+ + + Y N + C+
Sbjct: 225 LRI--------------HSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILL 270
Query: 274 ------LTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVK------ 321
+T + A + S T +V+ L + + P +
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL 330
Query: 322 ----EFLRKEPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKR 377
E +R T + + + +KLT+I SSL+VL A+ K+ R + V+ +
Sbjct: 331 SIIAESIRDGLATWDNWKHVNCDKLTTII---ESSLNVLEPAEYRKMFDRLS-VFPPS-- 384
Query: 378 VHAFKDTVS---SNLSEED------KLKKLGDLMNDSH------HSCSVLYECSCPELEE 422
H +S ++ + D KL K + S + +
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYA 444
Query: 423 L 423
L
Sbjct: 445 L 445
Score = 40.2 bits (93), Expect = 0.002
Identities = 68/473 (14%), Positives = 132/473 (27%), Gaps = 130/473 (27%)
Query: 4 HEELPVPTFW-SLKAVYGEGLQLEEAERRFDNLNSKFIQVFAQPPDVYARCPGRVNLIGE 62
++ FW +LK LE + L + + D + R++ I
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQ----KLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 63 HIDYEGYSVLPMAIRQDTIVAIRKH-----------DSKEAE------KVL---KIANVS 102
+ ++ + + ++K K+L + V+
Sbjct: 233 ELRR--------------LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT 278
Query: 103 DKYNMCTYPAEPDQEIDMKHHQWGHYFICGYKAFYE-YVK---AKGLDVGPPVGLDILVD 158
D + T I + HH VK K LD P L V
Sbjct: 279 DFLSAATT-----THISLDHHSMT---------LTPDEVKSLLLKYLDC-RPQDLPREVL 323
Query: 159 GTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQ----LTCECEQFIGTQSGGMDQ 214
T P S + + +A C++ ++
Sbjct: 324 TTNP----------RRLSIIAESI--------RDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 215 AISIMAKSGFAELIDFNPIRTTDVQLPAG---------GTFVVAHSLAESLKAITAASNY 265
+ F L F P +P V + + K
Sbjct: 366 LEPAEYRKMFDRLSVFPP----SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 266 NNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVF------- 318
+ +I L +K+ K + + +++ D + F + +
Sbjct: 422 KEST--ISIPSIYLELKV--KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477
Query: 319 ---------AVKEFLRKEPYTALDIEKITEEKL---TSIFANSSSSLDVLNAAKQYKLHQ 366
+ L + + LD + E+K+ ++ + S S L+ L K YK +
Sbjct: 478 GHHLKNIEHPERMTLFRMVF--LDFRFL-EQKIRHDSTAWNASGSILNTLQQLKFYKPYI 534
Query: 367 RAAHVYSEAKRVHAFKD---TVSSNL--SEEDKLKKLGDLMNDSHHSCSVLYE 414
E + V+A D + NL S+ L ++ LM + ++E
Sbjct: 535 CDNDPKYE-RLVNAILDFLPKIEENLICSKYTDLLRIA-LMAED----EAIFE 581
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 70.4 bits (172), Expect = 2e-13
Identities = 29/226 (12%), Positives = 59/226 (26%), Gaps = 26/226 (11%)
Query: 49 VYARCPGRVNLIGEHID-YEGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYNM 107
+ + G++ GE+ G L I I + S +
Sbjct: 4 IAVKTCGKLYWAGEYAILEPGQLALIKDIPIYMRAEIAF-------------SDSYRIYS 50
Query: 108 CTYPAEPDQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGS-- 165
+ D + + +++ +G + + G +
Sbjct: 51 DMFDFAVDLRPNPDY----SLIQETIALMGDFLAVRGQ---NLRPFSLAIYGKMEREGKK 103
Query: 166 -GLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSGF 224
GL SS + V AL+A + + V + + +LT G D A
Sbjct: 104 FGLGSSGSVVVLVVKALLALYNLSVDQNLLFKLTSAVLLKRGDNGSMGDLACIAA--EDL 161
Query: 225 AELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVV 270
F+ + V+ S+ + + V
Sbjct: 162 VLYQSFDRQKVAAWLEEENLATVLERDWGFSISQVKPTLECDFLVG 207
Score = 59.6 bits (144), Expect = 6e-10
Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 7/89 (7%)
Query: 391 EEDKLKKLGDLMNDSHHSCSVLY-ECSCPELEELVNVCRNNGALGARLTGAGWGGCVVAL 449
E+ K +K+ + + + L + P L +L ++ A A+ +GAG G C +AL
Sbjct: 246 EQGKSEKIIEQVEVASKLLEGLSTDIYTPLLRQLKEASQDLQA-VAKSSGAGGGDCGIAL 304
Query: 450 VKESIDSQFILN-LK----EQFYQSRIDR 473
++ ++ + N E YQ RI
Sbjct: 305 SFDAQSTKTLKNRWADLGIELLYQERIGH 333
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 70.1 bits (171), Expect = 1e-12
Identities = 72/422 (17%), Positives = 139/422 (32%), Gaps = 123/422 (29%)
Query: 7 LPVPTFWSLKAVYGEGLQLEEAERRFDNLNSKFIQVFAQPPDVYARCPGRVNLIGEHIDY 66
L VPT A + QL+E +F ++ +P + +A D
Sbjct: 20 LLVPT-----ASFFIASQLQE----------QFNKILPEPTEGFAA------------DD 52
Query: 67 EGYSVLPMAIRQDTIVA--IRKHDSKEAEKVLKIA--NVSDKY---N-----MCTYPAEP 114
E + + + V+ + + ++VL + + Y N E
Sbjct: 53 EPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEN 112
Query: 115 DQEIDMKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFV 174
D + K + I K + A+ + P + S L + V
Sbjct: 113 DTTLV-KTKEL----I---KNYIT---ARIM-AKRPF--------DKKSNSALFRA---V 149
Query: 175 CSSTVALMAAFG----VEVPKKEIAQL----TCECEQFIGTQSGGMDQ--AISIMAKSGF 224
L+A FG + +E+ L I + + + ++ A+ F
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF 209
Query: 225 AELIDF-----NPIRTTDVQLPAGGTFVVAHSLAESLKAI--TAASNYNNRVVECRLTAI 277
+ ++ NP T D +++ S+ S I ++Y VV +L
Sbjct: 210 TQGLNILEWLENPSNTPDKD------YLL--SIPISCPLIGVIQLAHY---VVTAKL--- 255
Query: 278 VLAIKLGMKPQEAISKVKTLSDV-EGLCVAFACKNGSSDPVF--AVKEFLR--------- 325
LG P E S +K + +GL A A S F +V++ +
Sbjct: 256 -----LGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRC 310
Query: 326 KE--PYTAL------DIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKR 377
E P T+L D + E + + + S+ + + + Q +++ +H+ K+
Sbjct: 311 YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQV----QDYVNKTNSHL-PAGKQ 365
Query: 378 VH 379
V
Sbjct: 366 VE 367
Score = 47.4 bits (112), Expect = 1e-05
Identities = 60/338 (17%), Positives = 101/338 (29%), Gaps = 129/338 (38%)
Query: 20 GEGLQL-----------EEAERRFDNLNSKFIQ--VFAQPPDVYARCPGRVNLIGEHIDY 66
G G+ L A+ F + I V P ++ G G+ I
Sbjct: 1630 GMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK---GKRI-R 1685
Query: 67 EGYSVLPMAIRQDTIVAIRKHDSKEAEKVLKIANVSDKYNMCTYPAEPDQEID------- 119
E YS + D + EK+ K N + T+ + +
Sbjct: 1686 ENYSAMIFETIVD--------GKLKTEKIFKEIN--EHSTSYTFRS-EKGLLSATQFTQP 1734
Query: 120 -MKHHQWGHYFICGYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGS---GLS----SST 171
+ + A +E +K+KGL +P + G S +
Sbjct: 1735 AL--------TLMEK-AAFEDLKSKGL---------------IPADATFAGHSLGEYA-- 1768
Query: 172 AFVC-------SSTVALMA----AFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAI--SI 218
A S V ++ V VP+ E +G + GM AI
Sbjct: 1769 ALASLADVMSIESLVEVVFYRGMTMQVAVPRDE-----------LGRSNYGM-IAINPGR 1816
Query: 219 MAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYN-----------N 267
+A S E + +VV + + NYN
Sbjct: 1817 VAASFSQEALQ----------------YVVERVGKRTGWLVEIV-NYNVENQQYVAAGDL 1859
Query: 268 RVVECRLTAIVLAIKLGMKPQEAISKVK---TLSDVEG 302
R ++ +T ++ IKL K I +++ +L +VEG
Sbjct: 1860 RALDT-VTNVLNFIKL-QKID--IIELQKSLSLEEVEG 1893
Score = 45.0 bits (106), Expect = 5e-05
Identities = 53/329 (16%), Positives = 98/329 (29%), Gaps = 133/329 (40%)
Query: 203 QFIGTQSGGM---------------DQA-ISIMAKSGF--AELIDFNPIRTTDVQLPAGG 244
Q G+Q GM ++A GF +++ NP+ T
Sbjct: 1624 Q--GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLT-------- 1673
Query: 245 TFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLC 304
H E K I NY+ + E + + K+ + E + T +GL
Sbjct: 1674 ----IHFGGEKGKRIRE--NYSAMIFETIVDGKLKTEKIFKEINEHSTSY-TFRSEKGLL 1726
Query: 305 ------------VAFAC-----KNG--SSDPVFA---VKEFLRKEPYTALDIEKITEEKL 342
+ A G +D FA + E Y AL
Sbjct: 1727 SATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE------YAAL---------- 1770
Query: 343 TSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKD----------TVSSNLSEE 392
A+ + + + + + + R + R + V+++ S+E
Sbjct: 1771 ----ASLADVMSIESLVEV--VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE 1824
Query: 393 DKLKKLGDLMNDSHHSCSVLYECSCPELEELVN--------VCRNNGALGARLTGAGWGG 444
L+ + + + + L E+VN V G
Sbjct: 1825 A-LQYV----------VERVGKRT-GWLVEIVNYNVENQQYVA---------------AG 1857
Query: 445 CVVALVKESIDSQFILN-LKEQFYQSRID 472
+ AL +++ + +LN +K Q +ID
Sbjct: 1858 DLRAL--DTVTN--VLNFIKLQ----KID 1878
>3hul_A HSK, HK, homoserine kinase; structural genomics, putative
homoserine kinase, THRB, amino-acid biosynthesis,
ATP-binding, cytoplasm; 2.19A {Listeria monocytogenes}
Length = 298
Score = 39.1 bits (92), Expect = 0.002
Identities = 13/54 (24%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 418 PELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRI 471
P L ++ +V +N GA A L+GA G V+ ++ ++ +L+ + +
Sbjct: 225 PHLAQIRDVAKNQGAYAACLSGA--GPTVLVFAPRNLANKLQTSLQTLEIDADV 276
Score = 34.1 bits (79), Expect = 0.078
Identities = 11/55 (20%), Positives = 22/55 (40%)
Query: 148 GPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 202
+++ +P GL SS+A V + + + K+E ++ E E
Sbjct: 67 PNLTPHHLVMTCDIPPARGLGSSSAAVVAGIELANTLAELNLSKEEKVRIAAEIE 121
>1h72_C HK, homoserine kinase; transferase, threonine biosynthesis; HET:
ANP; 1.8A {Methanococcus jannaschii} SCOP: d.14.1.5
d.58.26.1 PDB: 1fwl_A 1fwk_A* 1h73_A* 1h74_A*
Length = 296
Score = 36.1 bits (84), Expect = 0.018
Identities = 10/61 (16%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 418 PELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQF---YQSRIDRG 474
P ++ ++ G ++G+ G ++A KE + L++ + ++ + +G
Sbjct: 236 PNYFKIKEEVKD-KVYGITISGS--GPSIIAFPKEEFIDEVENILRDYYENTIRTEVGKG 292
Query: 475 V 475
V
Sbjct: 293 V 293
Score = 33.7 bits (78), Expect = 0.12
Identities = 15/57 (26%), Positives = 23/57 (40%)
Query: 146 DVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 202
D G+ I + V GSGL SS A + A+ F + + K ++ E
Sbjct: 70 DFNIGKGVKITIKKGVKAGSGLGSSAASSAGTAYAINELFKLNLDKLKLVDYASYGE 126
>2hke_A Diphosphomevalonate decarboxylase, putative; mevalonate diphosphate
decarboxylase, lyase; 1.80A {Trypanosoma brucei}
Length = 380
Score = 33.6 bits (76), Expect = 0.12
Identities = 19/121 (15%), Positives = 44/121 (36%), Gaps = 9/121 (7%)
Query: 86 KHDSKEAEKVLKIANVS---DKYNMCT---YPAEPDQEIDMKHHQWGHYFICG---YKAF 136
K + E + + S + D E D + ++
Sbjct: 22 KREGGETLILPTNDSFSITLSASPFRSKTSVELRDDIETDTLRLNGTEVDVGKTPRVQSM 81
Query: 137 YEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQ 196
++++ + ++I+ + PT +G++SS + C+ + AL+ AF +A+
Sbjct: 82 LLHLRSTCPEELKNKKVNIVSENNFPTAAGMASSASGYCAMSAALIRAFKSTTNVSMLAR 141
Query: 197 L 197
L
Sbjct: 142 L 142
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 34.0 bits (79), Expect = 0.13
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 168 SSSTAFVCSSTVALMAAFGV 187
SSS A C ++ALM + GV
Sbjct: 443 SSSMASACGGSLALMDS-GV 461
>3gme_A Polyribonucleotide nucleotidyltransferase; protein-RNA complex,
cytoplasm, nucleotidyltransferase, RNA- binding,
transferase, hydrolase; 2.40A {Escherichia coli E24377A}
PDB: 3gll_A 3gcm_A 3h1c_A 3cdj_A
Length = 549
Score = 33.6 bits (78), Expect = 0.14
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 168 SSSTAFVCSSTVALMAAFGV 187
SSS A VC +++ALM A GV
Sbjct: 437 SSSMASVCGASLALMDA-GV 455
>3cdi_A Polynucleotide phosphorylase; mRNA turnover, RNAse, RNA
degradation, kinase, transferase; 2.60A {Escherichia
coli} PDB: 1sro_A
Length = 723
Score = 33.6 bits (78), Expect = 0.17
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 163 TGSGLSSSTAFVCSSTVALMAAFGV 187
T S SSS A VC +++ALM A GV
Sbjct: 438 TESNGSSSMASVCGASLALMDA-GV 461
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 33.6 bits (78), Expect = 0.18
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 168 SSSTAFVCSSTVALMAAFGV 187
SSS A VC S++A+M A GV
Sbjct: 453 SSSMATVCGSSLAMMDA-GV 471
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 33.3 bits (77), Expect = 0.19
Identities = 12/25 (48%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 163 TGSGLSSSTAFVCSSTVALMAAFGV 187
GS S+S VC+ST++L+ A GV
Sbjct: 473 LGSNGSTSMGSVCASTMSLLNA-GV 496
>3pyf_A 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; transferase;
HET: ANP; 1.70A {Mycobacterium tuberculosis} PDB:
3pyd_A* 3pye_A* 3pyg_A* 4ed4_A* 4dxl_A* 4emd_A*
Length = 306
Score = 32.1 bits (74), Expect = 0.36
Identities = 8/34 (23%), Positives = 12/34 (35%), Gaps = 2/34 (5%)
Query: 417 CPELEELVNVCRNNGALGARLTGAGWGGCVVALV 450
P L + GAL ++G+ G L
Sbjct: 234 DPALARALRAGVEAGALAGIVSGS--GPTCAFLC 265
>2je6_B RRP41, exosome complex exonuclease 1; nuclease, hydrolase,
exonuclease, phosphorolytic, exoribonuclease, RNA
degradation; HET: 1PE; 1.6A {Sulfolobus solfataricus}
SCOP: d.14.1.4 d.101.1.1 PDB: 2jea_B* 2jeb_B* 2br2_B
2c37_B* 2c38_B* 2c39_B* 3l7z_B
Length = 250
Score = 31.8 bits (73), Expect = 0.39
Identities = 5/20 (25%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 168 SSSTAFVCSSTVALMAAFGV 187
S + ++++AL A G+
Sbjct: 139 GSRLVSLMAASLALADA-GI 157
>3m7n_D Probable exosome complex exonuclease 1; exosome, RNA, exonuclease,
hydrolase, nuclease, hydrolase-RN; 2.40A {Archaeoglobus
fulgidus} PDB: 3m85_D 2ba0_F 2ba1_E
Length = 258
Score = 31.9 bits (73), Expect = 0.44
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 168 SSSTAFVCSSTVALMAAFGV 187
S TA + +++VAL+ A GV
Sbjct: 135 GSRTACLNAASVALVDA-GV 153
>2po1_A Probable exosome complex exonuclease 1; RNAse PH,
hydrolase/hydrolase/RNA complex; 1.94A {Pyrococcus
abyssi} PDB: 2po0_A* 2pnz_A 2po2_A*
Length = 249
Score = 31.1 bits (71), Expect = 0.59
Identities = 5/20 (25%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 168 SSSTAFVCSSTVALMAAFGV 187
+ A + ++++AL A G+
Sbjct: 135 GTRVAGITAASLALADA-GI 153
>3f0n_A Mevalonate pyrophosphate decarboxylase; cholesterol biosynthesis,
lipid synthesis, lyase, steroid biosynthesis, sterol
biosynthesis; 1.90A {Mus musculus} PDB: 3d4j_A
Length = 414
Score = 31.3 bits (70), Expect = 0.69
Identities = 17/87 (19%), Positives = 29/87 (33%), Gaps = 3/87 (3%)
Query: 114 PDQEIDMKHHQWGHYF--ICGY-KAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSS 170
+E D+ + I + L + + + PT +GL+SS
Sbjct: 82 NGREEDVGQPRLQACLREIRRLARKRRSTEDGDTLPLSLSYKVHVASVNNFPTAAGLASS 141
Query: 171 TAFVCSSTVALMAAFGVEVPKKEIAQL 197
A L +GVE E+A+
Sbjct: 142 AAGYACLAYTLAQVYGVEGDLSEVARR 168
>1uek_A 4-(cytidine 5'-diphospho)-2C-methyl-D-erythritol kinase;
non-mevalonate pathway, GHMP superfamily; 1.70A {Thermus
thermophilus} SCOP: d.14.1.5 d.58.26.5
Length = 275
Score = 31.0 bits (71), Expect = 0.88
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 417 CPELEELVNVCRNNGALGARLTGAGWGGCVVALV 450
PEL+E+ R G G ++G+ G L
Sbjct: 210 FPELKEVRGRMRALGLRGVLMSGS--GSAFFGLA 241
>1fi4_A Mevalonate 5-diphosphate decarboxylase; mixed alpha/beta structure,
ATP binding, CHOL biosynthesis, structural genomics,
PSI; 2.27A {Saccharomyces cerevisiae} SCOP: d.14.1.5
d.58.26.2
Length = 416
Score = 30.6 bits (68), Expect = 1.1
Identities = 12/46 (26%), Positives = 23/46 (50%)
Query: 153 LDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLT 198
L I+ + PT +GL+SS A + A+ + + EI+++
Sbjct: 124 LHIVSENNFPTAAGLASSAAGFAALVSAIAKLYQLPQSTSEISRIA 169
>2nn6_B Exosome complex exonuclease RRP41; RNA, exosome, PM/SCL,
phosphorolytic, hydrolase/transferase complex; 3.35A
{Homo sapiens} SCOP: d.14.1.4 d.101.1.1
Length = 249
Score = 30.3 bits (69), Expect = 1.2
Identities = 6/20 (30%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 168 SSSTAFVCSSTVALMAAFGV 187
+ A V ++T+A++ A G+
Sbjct: 137 GTYAACVNAATLAVLDA-GI 155
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.5 bits (65), Expect = 1.3
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 22/49 (44%)
Query: 391 EEDKLKKLGDLMNDSHHSCSV-LYEC-SCPELEELVNVCRNNGALGARL 437
E+ LKKL + S+ LY S P L A+ A +
Sbjct: 18 EKQALKKL-----QA----SLKLYADDSAPAL-----------AIKATM 46
>3hkm_A OS03G0854200 protein; RNAse PH domain, phosphorylase, hydrolase;
1.98A {Oryza sativa japonica group}
Length = 246
Score = 29.3 bits (66), Expect = 2.8
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 168 SSSTAFVCSSTVALMAAFGVEVPKKEIAQLTC 199
S + + AL+ A G+ + K + C
Sbjct: 114 SLLPCAINACCAALVFA-GIPL-KHLAVAIGC 143
>2v8p_A 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase;
nucleotide-binding, isoprene biosynthesis, transferase,
ATP-binding, non-mevalonate; HET: CDP ADP; 2.1A {Aquifex
aeolicus} PDB: 2v2v_A* 2v2q_A* 2v34_A* 2v2z_A* 2vf3_A*
Length = 271
Score = 29.0 bits (66), Expect = 3.4
Identities = 7/47 (14%), Positives = 16/47 (34%), Gaps = 3/47 (6%)
Query: 417 CPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLK 463
PE+ E+ ++G+ G V S + + ++
Sbjct: 219 YPEINEVYRFVEY-LGFKPFVSGS--GSTVYFFGGASEELKKAAKMR 262
>2wnr_B Probable exosome complex exonuclease 1; phosphate binding, 3'-5'
exoribonuclease, hydrolase; 2.65A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 240
Score = 28.7 bits (65), Expect = 3.4
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 168 SSSTAFVCSSTVALMAA 184
+ A + +++VAL A
Sbjct: 135 GTRCAGITAASVALADA 151
>1oys_A Ribonuclease PH; transferase, tRNA processing; 2.40A {Bacillus
subtilis} SCOP: d.14.1.4 d.101.1.1 PDB: 1oyp_A 1oyr_A
Length = 245
Score = 28.4 bits (64), Expect = 4.3
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 168 SSSTAFVCSSTVALMAAFGVEVPKKEIAQ 196
+ TA + + +A+ A G + I
Sbjct: 124 GTRTASITGAFLAMAIAIGKLIKAGTIKT 152
>3edp_A LIN2111 protein; APC88337, listeria innocua CLIP11262, structural
GE PSI-2, protein structure initiative, midwest center
for STR genomics, MCSG; 2.09A {Listeria innocua}
Length = 236
Score = 28.0 bits (63), Expect = 5.5
Identities = 11/62 (17%), Positives = 22/62 (35%), Gaps = 8/62 (12%)
Query: 244 GTFVVAHSLAESLKAIT------AASNYNNRVVECRLTAI--VLAIKLGMKPQEAISKVK 295
G +V A+++ +T N + + + A GMK E + +K
Sbjct: 70 GLYVQPKLTAQNILEMTGVMKNDTNENLKKDIKDFYIRKAGKFYAEIFGMKENELVYSIK 129
Query: 296 TL 297
+
Sbjct: 130 FV 131
>2nn6_F MTR3, exosome component 6; RNA, exosome, PM/SCL, phosphorolytic,
hydrolase/transferase complex; 3.35A {Homo sapiens}
SCOP: d.14.1.4 d.101.1.1
Length = 272
Score = 27.9 bits (62), Expect = 6.5
Identities = 8/24 (33%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 168 SSSTAFVCSSTVALMAAFGVEVPK 191
S+ A + ++ +AL A GVE+
Sbjct: 156 SALAAALTAAALALADA-GVEMYD 178
>3lto_A Mevalonate diphosphate decarboxylase; protein structure initiative
II(PSI II), NYSGXRC, structural genomics; 2.27A
{Legionella pneumophila}
Length = 323
Score = 27.9 bits (61), Expect = 8.0
Identities = 16/76 (21%), Positives = 25/76 (32%)
Query: 134 KAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKE 193
K F +++ G G I P SGL+SS + + T A K
Sbjct: 74 KRFIDHLVRLKEYFGYVGGFLIQSSNNFPHSSGLASSASSFAALTKCASIALSELTQKPL 133
Query: 194 IAQLTCECEQFIGTQS 209
+ +G+ S
Sbjct: 134 PSIDEQAQLSRLGSGS 149
>2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined
alpha helices; 2.20A {Corynebacterium glutamicum atcc
13032} PDB: 2du9_A
Length = 129
Score = 27.1 bits (60), Expect = 8.2
Identities = 10/61 (16%), Positives = 22/61 (36%), Gaps = 7/61 (11%)
Query: 244 GTFVVAHSLAESLKAITAASNYNNRVVECRLTAIV-LAIKLGMKPQEAISKVKTLSDVEG 302
G FV A + A + + + ++ +I LG + + +++ G
Sbjct: 65 GMFVSAQAPALIRE------RRDAAFAATYVAPLIDESIHLGFTRARIHALLDQVAESRG 118
Query: 303 L 303
L
Sbjct: 119 L 119
>3q60_A ROP5B; pseudokinase, transferase; HET: ATP; 1.72A {Toxoplasma
gondii} PDB: 3q5z_A*
Length = 371
Score = 27.7 bits (61), Expect = 8.7
Identities = 28/213 (13%), Positives = 59/213 (27%), Gaps = 36/213 (16%)
Query: 239 QLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLS 298
+ AG +F + + LK Y A+V A+ + PQ A + V +L
Sbjct: 3 HMEAGDSF-----MRDLLKREEELIGYCREEALKEPAAMVEAVTATVWPQNAETTVDSLL 57
Query: 299 DVEGLCV---------AFA----CKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTSI 345
+ + ++ FA+K F + ++E++ E
Sbjct: 58 SQGERKLKLVEPLRVGDRSVVFLVRDVERLEDFALKVFTMGAENSRSELERLHEATF--- 114
Query: 346 FANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDS 405
A L + + + + +L D +
Sbjct: 115 -------------AAARLLGESPEEARDRRRLLLPSDAVAVQSQPPFAQLSPGQDDYAVA 161
Query: 406 HHSCSVLYECSCPELEELVNVCRNNGALGARLT 438
++ ++ S +LE L +
Sbjct: 162 NY-LLLMPAASV-DLELLFSTLDFVYVFRGDEG 192
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.133 0.390
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,694,250
Number of extensions: 470259
Number of successful extensions: 1069
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1011
Number of HSP's successfully gapped: 65
Length of query: 499
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 401
Effective length of database: 3,965,535
Effective search space: 1590179535
Effective search space used: 1590179535
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: 59 (26.3 bits)