RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017802
(365 letters)
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 300 bits (769), Expect = 9e-99
Identities = 131/339 (38%), Positives = 191/339 (56%), Gaps = 23/339 (6%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKS 84
SGLSSS+A VC + + + G + K E+A++ + E++IGT+ GGMDQ+IS +A+
Sbjct: 160 PSSGLSSSSALVCCAGLVTLTVLGRNLSKVELAEICAKSERYIGTEGGGMDQSISFLAEE 219
Query: 85 GFAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIK 144
G A+LI+F+P+R TDV+LP+G FV+A+S E KA A S++N RV+ECRL A +LA
Sbjct: 220 GTAKLIEFSPLRATDVKLPSGAVFVIANSCVEMNKA--ATSHFNIRVMECRLAAKLLAKY 277
Query: 145 LGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKL 204
++ KV L +V+ + + ++ L EPY +I + L
Sbjct: 278 KSLQWD----KVLRLEEVQAK-----LGISLEEMLLVTEDALHPEPYNPEEICRCLGISL 328
Query: 205 TSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLRLLCSEEDKLKKL 264
+ S +KL+QRA HVYSEA RV FK + E+ ++ L
Sbjct: 329 EELRTQILSPNTQD--VLIFKLYQRAKHVYSEAARVLQFKKICEE------APENMVQLL 380
Query: 265 GDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQF 324
G+LMN SH SC +YECSCPEL++LV++CR GA G+RLTGAGWGGC V++V F
Sbjct: 381 GELMNQSHMSCRDMYECSCPELDQLVDICRKFGAQGSRLTGAGWGGCTVSMVPADKLPSF 440
Query: 325 ILNLKEQFYQSRIDRGVINNNDLGLYVFASKPSSGAAKF 363
+ N+ + +YQ R + +FA+KP GA
Sbjct: 441 LANVHKAYYQ----RSDGSLAPEKQSLFATKPGGGALVL 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 = 267 bits (682), Expect = 2e-85
Identities = 101/366 (27%), Positives = 165/366 (45%), Gaps = 30/366 (8%)
Query: 25 LGSGLSSSTAFVCSSTVALM-AAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAK 83
G GLSS+ + ++ KK++ ++T E ++G +GGMDQA S+ +
Sbjct: 158 TGGGLSSAFTCAAALATIRANMGKNFDISKKDLTRITAVAEHYVGVNNGGMDQATSVYGE 217
Query: 84 SGFAELIDFNP-IRTTDVQLP----AGGTFVVAHSLAESLKAITAASNYNNRVVECRLTA 138
A ++F P ++ T + P +FV+A++L +S K TA +NYN RV+E + A
Sbjct: 218 EDHALYVEFRPKLKATPFKFPQLKNHEISFVIANTLVKSNKFETAPTNYNLRVIEVTVAA 277
Query: 139 IVLAIKLGMK--PQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEF----------L 186
LA + + + S + + + + +A + P L
Sbjct: 278 NALATRYSVALPSHKDNSNSERGNLRDFMDAYYARYENQAQPWNGDIGTGIERLLKMLQL 337
Query: 187 RKEPYTALDIEKITEEKLTSIFANSSSSL-----DVLNAAKQYKLHQRAAHVYSEAKRVH 241
+E ++ E T++ + + KL+QRA HVYSE+ RV
Sbjct: 338 VEESFSRKKSGFTVHEASTALNCSREEFTRDYLTTFPVRFQVLKLYQRAKHVYSESLRVL 397
Query: 242 AFKDTVSSNLRLLCSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGA 301
++S ++ED G LMN+S SC LYECSC E ++ ++ NG+ G+
Sbjct: 398 KALKMMTSAT--FHTDEDFFTDFGRLMNESQASCDKLYECSCIETNQICSIALANGSFGS 455
Query: 302 RLTGAGWGGCVVALVKESIDS---QFILNLKEQFYQSRIDRGVINNNDLGLYVFASKPSS 358
RLTGAGWGGC + LV + Q L E+FY R + +L + SKP+
Sbjct: 456 RLTGAGWGGCTIHLVPSGANGNVEQVRKALIEKFYNVRYPDLT--DEELKDAIIVSKPAL 513
Query: 359 GAAKFK 364
G ++
Sbjct: 514 GTCLYE 519
>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 = 187 bits (476), Expect = 2e-56
Identities = 62/337 (18%), Positives = 114/337 (33%), Gaps = 87/337 (25%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAK 83
LG+GLSSS +F L + +++ L + E +F+G G +DQ + +
Sbjct: 98 LGAGLSSSASFEVGILETLDKLYNLKLDSLSKVLLAKKAENEFVGVPCGILDQFAVVFGR 157
Query: 84 SGFAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAI 143
G +D + + + P + +V ++ ++ A+S Y R + +L
Sbjct: 158 EGNVIFLDTHTLDYEYIPFPKDVSILVFYT---GVRRELASSEYAERKHIAEESLKIL-- 212
Query: 144 KLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEK 203
+ +V ++ K+
Sbjct: 213 -----------GKGSSKEV-----------------------------REGELSKLPPL- 231
Query: 204 LTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLRLLCSEEDKLKK 263
+ ++ E RV +D L +E +++
Sbjct: 232 ----------------------HRKFFGYIVRENARVLEVRD-------AL--KEGNVEE 260
Query: 264 LGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQ 323
+G ++ +H + YE SC EL+ V GA GARLTGAG+GG +ALV +
Sbjct: 261 VGKILTTAHWDLAKNYEVSCKELDFFVERALKLGAYGARLTGAGFGGSAIALVDKEDAET 320
Query: 324 FILNLKEQFYQSRIDRGVINNNDLGLYVFASKPSSGA 360
+ ++ + R F +PS G
Sbjct: 321 IGEEILREYLK----RFPWKAR-----HFIVEPSDGV 348
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA;
2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Length = 419
Score = 187 bits (476), Expect = 8e-56
Identities = 77/344 (22%), Positives = 120/344 (34%), Gaps = 90/344 (26%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAK 83
SGLSSS + V L F + VP+ E+ QL + E +IG SG +DQ +
Sbjct: 152 TASGLSSSASLELLVGVVLDDLFNLNVPRLELVQLGQKTENDYIGVNSGILDQFAIGFGE 211
Query: 84 SGFAELIDFNPIRTTDVQLPAGGTFVVA------HSLAESLKAITAASNYNNRVVECRLT 137
A +D N ++ V + +V +L ES YN R E R
Sbjct: 212 VKKAIELDCNTLKYEMVPVELRDYDIVIMNTNKPRALTES--------KYNERFAETREA 263
Query: 138 AIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIE 197
+ +L +++L ++ S++ A + + E
Sbjct: 264 LKRMQTRLD---------IQSLGEL------------SNEEFDANTDLIGDET------- 295
Query: 198 KITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLRLLCSE 257
L +RA H E R +
Sbjct: 296 ----------------------------LIKRARHAVYENNRTKIAQK-------AF--V 318
Query: 258 EDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRN-NGALGARLTGAGWGGCVVALV 316
L K G+L+N SH S YE + EL+ L + G LGAR+TGAG+GGC +ALV
Sbjct: 319 AGNLTKFGELLNASHASLKDDYEVTGLELDTLAETAQKQAGVLGARMTGAGFGGCAIALV 378
Query: 317 KESIDSQFILNLKEQFYQSRIDRGVINNNDLGLYVFASKPSSGA 360
S F + + + + + ++ SG+
Sbjct: 379 AHDNVSAFRKAVGQVYEE---------VVGYPASFYVAQIGSGS 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 = 177 bits (450), Expect = 3e-52
Identities = 80/344 (23%), Positives = 120/344 (34%), Gaps = 99/344 (28%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE-QFIGTQSGGMDQAISIMAK 83
LG GLSSS + ++ L AQ+ + E F G G MDQ IS+M +
Sbjct: 142 LGGGLSSSASLEVATYTFLQQLCPDSGTIAARAQVCQQAEHSFAGMPCGIMDQFISLMGQ 201
Query: 84 SGFAELIDFNPIRTTDVQLPAGG-TFVVA-----HSLAESLKAITAASNYNNRVVECRLT 137
G A LID + T+ V L ++ HSLA S Y R +C
Sbjct: 202 KGHALLIDCRSLETSLVPLSDPKLAVLITNSNVRHSLASS--------EYPVRRRQCEEV 253
Query: 138 AIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIE 197
A ++L +V
Sbjct: 254 A-------------RALGKESLREV----------------------------------- 265
Query: 198 KITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLRLLCSE 257
E+L + D+++ + +RA HV E +R L
Sbjct: 266 --QLEELEAA-------RDLVSK----EGFRRARHVVGEIRRTAQAAA-------AL--R 303
Query: 258 EDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRN-NGALGARLTGAGWGGCVVALV 316
+ G LM +SH S YE SCPEL++LV G G+R+TG G+GGC V L+
Sbjct: 304 RGDYRAFGRLMVESHRSLRDDYEVSCPELDQLVEAALAVPGVYGSRMTGGGFGGCTVTLL 363
Query: 317 KESIDSQFILNLKEQFYQSRIDRGVINNNDLGLYVFASKPSSGA 360
+ S + +++E + + S+ + GA
Sbjct: 364 EASAAPHAMRHIQEHYG-------------GTATFYLSQAADGA 394
>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 = 101 bits (253), Expect = 1e-24
Identities = 30/152 (19%), Positives = 56/152 (36%), Gaps = 15/152 (9%)
Query: 185 FLRKEPYTALDIEKITEEKLTS--IFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHA 242
++ + + E K I + + ++ E +V
Sbjct: 171 EIKNNKFRKIKGEFEEFLKNCKFLIVYAEKRKKKTAELVNEVAKIENKDEIFKEIDKV-- 228
Query: 243 FKDTVSSNLRLLCSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGAR 302
+ L + + G LM +H S P+L+ +V++ G GA+
Sbjct: 229 ----IDEAL-----KIKNKEDFGKLMTKNHELLKK-LNISTPKLDRIVDIGNRFG-FGAK 277
Query: 303 LTGAGWGGCVVALVKESIDSQFILNLKEQFYQ 334
LTGAG GGCV+ LV E + + + L ++ +
Sbjct: 278 LTGAGGGGCVIILVNEEKEKELLKELNKEDVR 309
Score = 57.7 bits (140), Expect = 1e-09
Identities = 19/114 (16%), Positives = 36/114 (31%), Gaps = 8/114 (7%)
Query: 7 VIITKFQLFNHINSLFFNL--------GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQ 58
I N F + GL SS + + A+ + E+ EIA+
Sbjct: 84 AIKNTLDYLNIEPKTGFKINISSKIPISCGLGSSASITIGTIKAVSGFYNKELKDDEIAK 143
Query: 59 LTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAH 112
L E+ I ++ D + + F I+ + F++ +
Sbjct: 144 LGYMVEKEIQGKASITDTSTITYKGILEIKNNKFRKIKGEFEEFLKNCKFLIVY 197
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 100 bits (250), Expect = 3e-24
Identities = 31/115 (26%), Positives = 54/115 (46%), Gaps = 10/115 (8%)
Query: 217 VLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLRLLCSEEDKLKKLGDLMNDSHHSCS 276
V + K + Q +HV K V D + + K + L D+ N+ H
Sbjct: 191 VHDVHKLCEDPQYMSHVKHIGKLVLRASDVIEHH---------KFEALADIFNECHADLK 241
Query: 277 VLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQ 331
L S ++E+L+ + + NGA+ +LTGAG GG ++ L K+ ++ I+ E+
Sbjct: 242 AL-TVSHDKIEQLMKIGKENGAIAGKLTGAGRGGSMLLLAKDLPTAKNIVKAVEK 295
Score = 61.3 bits (149), Expect = 9e-11
Identities = 20/90 (22%), Positives = 28/90 (31%), Gaps = 6/90 (6%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGTQSGGMDQAISIMAK 83
GL SS A + A G + K+E+ + EQ G SG Q I
Sbjct: 97 PSRGLGSSAAVAVAFVRASYDFLGKSLTKEELIEKANWAEQIAHGKPSGIDTQTIVSG-- 154
Query: 84 SGFAELIDFNPIRTTDVQLPAGGTFVVAHS 113
+ + L G VV +
Sbjct: 155 -KPVWFQKGHAETLKTLSLD--GYMVVIDT 181
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite,
transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Length = 332
Score = 97.1 bits (242), Expect = 5e-23
Identities = 41/139 (29%), Positives = 67/139 (48%), Gaps = 16/139 (11%)
Query: 224 YKLHQRAAHVYSEAKRV-HAFKDTVSSNLRLLCSEEDKLKKLGDLMNDSHHSCSVLYECS 282
+H+ + KR+ + VS L ++ L++LG LMN +H C + + S
Sbjct: 206 NDVHKMKQQQPVQFKRLYDNYTHIVSQAREAL--QKGDLQRLGQLMNANHDLCRQI-DVS 262
Query: 283 CPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILN-LKEQFYQSRIDRGV 341
C ELE +V CR GALGA+L+G G GG VAL S I+ LK + +++
Sbjct: 263 CRELESIVQTCRTYGALGAKLSGTGRGGIAVALAASSDQRDAIVKGLKAKCPEAK----- 317
Query: 342 INNNDLGLYVFASKPSSGA 360
++ + +PS+ +
Sbjct: 318 ------FIWRYTVQPSAAS 330
Score = 65.2 bits (159), Expect = 5e-12
Identities = 20/122 (16%), Positives = 42/122 (34%), Gaps = 10/122 (8%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGTQSGGMDQAISIMAK 83
SG+ +S + V + + AL + + + +E+ E + GT SG + A +
Sbjct: 108 PSSGIGASASDVVAFSRALSELYQLNLTDEEVNLSAFVGEGGYHGTPSGADNTAAT---- 163
Query: 84 SGFAELIDFNPIRT--TDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVL 141
G L ++ + VV + A TA + ++ +
Sbjct: 164 YGGLILYRRQNGKSVFKPIAFQQRLYLVVVGTGI---NASTAKVVNDVHKMKQQQPVQFK 220
Query: 142 AI 143
+
Sbjct: 221 RL 222
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET: DP6;
2.50A {Streptococcus pneumoniae}
Length = 292
Score = 96.3 bits (240), Expect = 6e-23
Identities = 22/80 (27%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 257 EEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALV 316
+ + LG +++ +H S E + LV ++GALGA+++G G GGC++ALV
Sbjct: 208 SQKDAEGLGQILSQAHLHLKE-IGVSSLEADSLVETALSHGALGAKMSGGGLGGCIIALV 266
Query: 317 KESIDSQFILNLKEQFYQSR 336
+Q + E+ +
Sbjct: 267 TNLTHAQELAERLEEKGAVQ 286
Score = 60.1 bits (146), Expect = 2e-10
Identities = 13/90 (14%), Positives = 30/90 (33%), Gaps = 6/90 (6%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGTQSGGMDQAISIMAK 83
G+ SS A ++ A+ + ++P + L E SG +
Sbjct: 85 EKRGMGSSAAISIAAIRAVFDYYQADLPHDVLEILVNRAEMIAHMNPSGLDAKTCLSDQP 144
Query: 84 SGFAELIDFNPIRTTDVQLPAGGTFVVAHS 113
+ + T++++ V+A +
Sbjct: 145 -----IRFIKNVGFTELEMDLSAYLVIADT 169
>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 = 86.9 bits (215), Expect = 3e-19
Identities = 20/123 (16%), Positives = 50/123 (40%), Gaps = 7/123 (5%)
Query: 210 NSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLRLLCSEEDKLKKLGDLMN 269
S SS ++N K+ + + +H K + L + + + ++
Sbjct: 206 RSRSSAAIINEQKKNTSEGNQTAI----EAMHKIKQSAIDTKLAL--LKGDVGEFARILG 259
Query: 270 DSHHS-CSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNL 328
+ + + + P ++E +V GA+ +++GAG GG ++ +V+ + + + L
Sbjct: 260 EGWENKKKMAGAITNPMIQEAFDVATGAGAMAGKVSGAGGGGFIMFVVEPTRKEEVVRAL 319
Query: 329 KEQ 331
Sbjct: 320 NNL 322
Score = 51.8 bits (124), Expect = 1e-07
Identities = 16/79 (20%), Positives = 33/79 (41%), Gaps = 1/79 (1%)
Query: 26 GSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGTQSGGMDQAISIMAKS 84
GSGL +S+ V A + + + E ++L E E+ +G G DQ +
Sbjct: 110 GSGLGTSSTMVVCILKAFIEWLSLPLGDYETSRLAYEIERKDLGLSGGKQDQYAAAFGGF 169
Query: 85 GFAELIDFNPIRTTDVQLP 103
+ E + + + +++
Sbjct: 170 NYMEFLQNDLVIVNPLKMK 188
>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 = 74.9 bits (183), Expect = 5e-15
Identities = 21/76 (27%), Positives = 38/76 (50%), Gaps = 2/76 (2%)
Query: 257 EEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALV 316
++ L +LM+ + H + L L++L V +G L ++LTGAG GGC + L+
Sbjct: 287 VPEQYLVLEELMDMNQHHLNAL-GVGHASLDQLCQVTAAHG-LHSKLTGAGGGGCGITLL 344
Query: 317 KESIDSQFILNLKEQF 332
K ++ + K+
Sbjct: 345 KPGLERAKVEAAKQAL 360
Score = 38.3 bits (88), Expect = 0.003
Identities = 18/104 (17%), Positives = 36/104 (34%), Gaps = 20/104 (19%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAF---------------GVEVPKKEIAQLTCECEQFIGT 69
G+GL SS A+ AL+ A E K I + E E+ I
Sbjct: 139 PGAGLGSSAAYSVCVAAALLTACEEVTNPLKDRGSIGSWPEEDLKSINKWAYEGERVIHG 198
Query: 70 QSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHS 113
G+D ++S + + + + ++ ++ ++
Sbjct: 199 NPSGVDNSVSTW-----GGALRYQQGKMSSLKRLPALQILLTNT 237
>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 = 66.8 bits (162), Expect = 4e-12
Identities = 64/448 (14%), Positives = 117/448 (26%), Gaps = 154/448 (34%)
Query: 9 ITKFQLFNHINSLFFNL------------GSGLSSSTAFVCSS-TVALMAAFGV------ 49
+++ Q + + L GSG + VC S V F +
Sbjct: 131 VSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 50 --EVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGT 107
P+ + L Q + D + +I +R
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI-------------KLRI---------- 227
Query: 108 FVVAHSLAESLKAITAASNYNN-----------RVVE-----CR---------LTAIVLA 142
HS+ L+ + + Y N + C+ +T + A
Sbjct: 228 ----HSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283
Query: 143 IKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVK----------EFLRKEPYT 192
+ S T +V+ L + + P + E +R T
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT 343
Query: 193 ALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLR 252
+ + + +KLT+I SSL+VL A+ K+ R + F +
Sbjct: 344 WDNWKHVNCDKLTTII---ESSLNVLEPAEYRKMFDRLS----------VFPPSAHIPTI 390
Query: 253 LLC------SEED------KLKKLGDLMNDSH------HSCSVLYECSCPELEEL----V 290
LL + D KL K + S + + L V
Sbjct: 391 LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV 450
Query: 291 N-------VCRNNGA-----------LGARLTGAGWGGCVVALVKESIDSQFILNLKEQF 332
+ ++ +G L + ++ L+ + F
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE------RMTLFRMVFLDFR--F 502
Query: 333 YQSRI--------DRGVINN--NDLGLY 350
+ +I G I N L Y
Sbjct: 503 LEQKIRHDSTAWNASGSILNTLQQLKFY 530
Score = 37.1 bits (85), Expect = 0.010
Identities = 23/93 (24%), Positives = 41/93 (44%), Gaps = 15/93 (16%)
Query: 194 LDIEKITEEKL---TSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKD---TV 247
LD + E+K+ ++ + S S L+ L K YK + E + V+A D +
Sbjct: 498 LDFRFL-EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE-RLVNAILDFLPKI 555
Query: 248 SSNLRLLCSEEDKLKKLGDLMNDSHHSCSVLYE 280
N L+CS+ L ++ LM + ++E
Sbjct: 556 EEN--LICSKYTDLLRIA-LMAED----EAIFE 581
>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 = 64.3 bits (156), Expect = 1e-11
Identities = 24/152 (15%), Positives = 53/152 (34%), Gaps = 15/152 (9%)
Query: 184 EFLRKEPYTALDIEKITEEKLTSIFANS---SSSLDVLNAAKQYKLHQRAAHVYSEAKRV 240
E+ KEP+ L IE + E T + S+ +++ +K + +
Sbjct: 193 EWFMKEPWPMLQIETLEEPVPTFSVGWTGTPVSTGKLVSQIHAFKQEDSKNY----QHFL 248
Query: 241 HAFKDTVSSNLRLLCSEEDKLKKLGDLMNDSHH-----SCSVLYECSCPELEELVNVCRN 295
+ + ++ + L + ++ L+EL + N
Sbjct: 249 TRNNEIMKQIIQAF--HTKDEELLYSSIKENRRILQELGTKAGVNIETSLLKELADSAEN 306
Query: 296 NGALGARLTGAGWGGCVVALVKESIDSQFILN 327
G + +G+G G C +A K ++ ++N
Sbjct: 307 MGG-AGKSSGSGGGDCGIAFSKTKELAEKLVN 337
Score = 49.2 bits (117), Expect = 8e-07
Identities = 13/55 (23%), Positives = 18/55 (32%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAIS 79
GL SS A + ALM F E+ + +L + D A
Sbjct: 113 AKYGLGSSAAATVAVINALMTKFYPEISMLKKFKLAALSHLVVQGNGSCGDIASC 167
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 59.2 bits (143), Expect = 4e-10
Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 7/89 (7%)
Query: 257 EEDKLKKLGDLMNDSHHSCSVLY-ECSCPELEELVNVCRNNGALGARLTGAGWGGCVVAL 315
E+ K +K+ + + + L + P L +L ++ A A+ +GAG G C +AL
Sbjct: 246 EQGKSEKIIEQVEVASKLLEGLSTDIYTPLLRQLKEASQDLQA-VAKSSGAGGGDCGIAL 304
Query: 316 VKESIDSQFILN-LK----EQFYQSRIDR 339
++ ++ + 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 = 52.0 bits (124), Expect = 2e-07
Identities = 53/284 (18%), Positives = 97/284 (34%), Gaps = 77/284 (27%)
Query: 27 SGLSSSTAFVCSSTVALMAAFG----VEVPKKEIAQL----TCECEQFIGTQSGGMDQ-- 76
S L + V L+A FG + +E+ L I + + +
Sbjct: 143 SALFRA---VGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELI 199
Query: 77 AISIMAKSGFAELIDF-----NPIRTTDVQLPAGGTFVVAHSLAESLKAI--TAASNYNN 129
++ A+ F + ++ NP T D +++ S+ S I ++Y
Sbjct: 200 RTTLDAEKVFTQGLNILEWLENPSNTPDKD------YLL--SIPISCPLIGVIQLAHY-- 249
Query: 130 RVVECRLTAIVLAIKLGMKPQEAISKVKTLSDV-EGLCVAFACKNGSSDPVF--AVKEFL 186
VV +L LG P E S +K + +GL A A S F +V++ +
Sbjct: 250 -VVTAKL--------LGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAI 300
Query: 187 R---------KE--PYTAL------DIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQR 229
E P T+L D + E + + + S+ + + + Q +++
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQV----QDYVNKT 356
Query: 230 AAHVYSEAKRVH--------AFKDTVS---SNLRLLCSEEDKLK 262
+H+ K+V VS +L L K K
Sbjct: 357 NSHL-PAGKQVEISLVNGAKNL--VVSGPPQSLYGLNLTLRKAK 397
Score = 47.4 bits (112), Expect = 7e-06
Identities = 52/329 (15%), Positives = 95/329 (28%), Gaps = 129/329 (39%)
Query: 65 QFIGTQSGGM---------------DQA-ISIMAKSGF--AELIDFNPIRTTDVQLPAGG 106
Q G+Q GM ++A GF +++ NP+ T
Sbjct: 1624 Q--GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLT-------- 1673
Query: 107 TFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLC 166
H E K I NY+ + E + + K+ + E + T +GL
Sbjct: 1674 ----IHFGGEKGKRIRE--NYSAMIFETIVDGKLKTEKIFKEINEHSTSY-TFRSEKGLL 1726
Query: 167 ------------VAFAC-----KNG--SSDPVFA---VKEFLRKEPYTALDIEKITEEKL 204
+ A G +D FA + E Y AL
Sbjct: 1727 SATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE------YAAL---------- 1770
Query: 205 TSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVS------SNLRLLCSEE 258
A+ + + + + + + R + R + + S+E
Sbjct: 1771 ----ASLADVMSIESLVEV--VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE 1824
Query: 259 DKLKKLGDLMNDSHHSCSVLYECSCPELEELVN--------VCRNNGALGARLTGAGWGG 310
L+ + + + + L E+VN V G
Sbjct: 1825 A-LQYV----------VERVGKRT-GWLVEIVNYNVENQQYVA---------------AG 1857
Query: 311 CVVALVKESIDSQFILN-LKEQFYQSRID 338
+ AL +++ + +LN +K Q +ID
Sbjct: 1858 DLRAL--DTVTN--VLNFIKLQ----KID 1878
Score = 29.6 bits (66), Expect = 2.1
Identities = 38/259 (14%), Positives = 69/259 (26%), Gaps = 99/259 (38%)
Query: 169 FACKNGSSDPVFAV------------KEFLRKEPY----TALDIEKITEEKLTSIF---- 208
+GS + V V ++F + P A D E T +L F
Sbjct: 9 LTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 209 ------ANSSSSLDVLNAA-----KQY----KLHQRAAHV-----------------YSE 236
+ VLN Y +H AA + Y
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT 128
Query: 237 AKRVHAFKDTVSSNLRLLCSEEDKLKKL-----G---------DLMNDSHHSCSVLYECS 282
A+ + SN L + + +L G +L + LY+
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD--------LYQTY 180
Query: 283 CPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRID-RGV 341
+ +L+ L+ L++ ++D+ E+ + ++
Sbjct: 181 HVLVGDLIKFS------AETLSE---------LIRTTLDA-------EKVFTQGLNILEW 218
Query: 342 INNNDL--GLYVFASKPSS 358
+ N S P S
Sbjct: 219 LENPSNTPDKDYLLSIPIS 237
>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 = 0.001
Identities = 13/54 (24%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 284 PELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRI 337
P L ++ +V +N GA A L+GA G V+ ++ ++ +L+ + +
Sbjct: 225 PHLAQIRDVAKNQGAYAACLSGA--GPTVLVFAPRNLANKLQTSLQTLEIDADV 276
Score = 27.2 bits (61), Expect = 7.5
Identities = 10/40 (25%), Positives = 17/40 (42%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 64
GL SS+A V + + + K+E ++ E E
Sbjct: 82 PARGLGSSSAAVVAGIELANTLAELNLSKEEKVRIAAEIE 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 = 0.013
Identities = 10/61 (16%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 284 PELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQF---YQSRIDRG 340
P ++ ++ G ++G+ G ++A KE + L++ + ++ + +G
Sbjct: 236 PNYFKIKEEVKD-KVYGITISGS--GPSIIAFPKEEFIDEVENILRDYYENTIRTEVGKG 292
Query: 341 V 341
V
Sbjct: 293 V 293
>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 = 0.072
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 30 SSSTAFVCSSTVALMAAFGV 49
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 = 34.0 bits (79), Expect = 0.080
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 30 SSSTAFVCSSTVALMAAFGV 49
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 = 34.0 bits (79), Expect = 0.085
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGV 49
S SSS A VC +++ALM A GV
Sbjct: 438 TESNGSSSMASVCGASLALMDA-GV 461
>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 = 33.7 bits (78), Expect = 0.092
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 1/25 (4%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGV 49
LGS S+S VC+ST++L+ A GV
Sbjct: 473 LGSNGSTSMGSVCASTMSLLNA-GV 496
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 33.6 bits (78), Expect = 0.096
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 30 SSSTAFVCSSTVALMAAFGV 49
SSS A VC S++A+M A GV
Sbjct: 453 SSSMATVCGSSLAMMDA-GV 471
>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 = 32.2 bits (74), Expect = 0.21
Identities = 5/20 (25%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 30 SSSTAFVCSSTVALMAAFGV 49
S + ++++AL A G+
Sbjct: 139 GSRLVSLMAASLALADA-GI 157
>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 = 31.5 bits (70), Expect = 0.21
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 22/49 (44%)
Query: 257 EEDKLKKLGDLMNDSHHSCSV-LYEC-SCPELEELVNVCRNNGALGARL 303
E+ LKKL + S+ LY S P L A+ A +
Sbjct: 18 EKQALKKL-----QA----SLKLYADDSAPAL-----------AIKATM 46
>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 = 0.22
Identities = 8/34 (23%), Positives = 12/34 (35%), Gaps = 2/34 (5%)
Query: 283 CPELEELVNVCRNNGALGARLTGAGWGGCVVALV 316
P L + GAL ++G+ G L
Sbjct: 234 DPALARALRAGVEAGALAGIVSGS--GPTCAFLC 265
>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 = 0.23
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 30 SSSTAFVCSSTVALMAAFGV 49
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 = 31.5 bits (72), Expect = 0.32
Identities = 5/20 (25%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 30 SSSTAFVCSSTVALMAAFGV 49
+ A + ++++AL A G+
Sbjct: 135 GTRVAGITAASLALADA-GI 153
>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 = 0.55
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 283 CPELEELVNVCRNNGALGARLTGAGWGGCVVALV 316
PEL+E+ R G G ++G+ G L
Sbjct: 210 FPELKEVRGRMRALGLRGVLMSGS--GSAFFGLA 241
>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 = 0.72
Identities = 6/20 (30%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 30 SSSTAFVCSSTVALMAAFGV 49
+ A V ++T+A++ A G+
Sbjct: 137 GTYAACVNAATLAVLDA-GI 155
>3hkm_A OS03G0854200 protein; RNAse PH domain, phosphorylase, hydrolase;
1.98A {Oryza sativa japonica group}
Length = 246
Score = 29.3 bits (66), Expect = 1.8
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 30 SSSTAFVCSSTVALMAAFGVEVPKKEIAQLTC 61
S + + AL+ A G+ + K + C
Sbjct: 114 SLLPCAINACCAALVFA-GIPL-KHLAVAIGC 143
>2wnr_B Probable exosome complex exonuclease 1; phosphate binding, 3'-5'
exoribonuclease, hydrolase; 2.65A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 240
Score = 29.1 bits (66), Expect = 2.1
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 30 SSSTAFVCSSTVALMAA 46
+ A + +++VAL A
Sbjct: 135 GTRCAGITAASVALADA 151
>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 = 28.8 bits (65), Expect = 2.6
Identities = 11/62 (17%), Positives = 22/62 (35%), Gaps = 8/62 (12%)
Query: 106 GTFVVAHSLAESLKAIT------AASNYNNRVVECRLTAI--VLAIKLGMKPQEAISKVK 157
G +V A+++ +T N + + + A GMK E + +K
Sbjct: 70 GLYVQPKLTAQNILEMTGVMKNDTNENLKKDIKDFYIRKAGKFYAEIFGMKENELVYSIK 129
Query: 158 TL 159
+
Sbjct: 130 FV 131
>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 = 28.7 bits (65), Expect = 2.6
Identities = 7/47 (14%), Positives = 16/47 (34%), Gaps = 3/47 (6%)
Query: 283 CPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLK 329
PE+ E+ ++G+ G V S + + ++
Sbjct: 219 YPEINEVYRFVEY-LGFKPFVSGS--GSTVYFFGGASEELKKAAKMR 262
>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 = 28.8 bits (65), Expect = 2.6
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 30 SSSTAFVCSSTVALMAAFGVEVPKKEIAQ 58
+ TA + + +A+ A G + I
Sbjct: 124 GTRTASITGAFLAMAIAIGKLIKAGTIKT 152
>2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined
alpha helices; 2.20A {Corynebacterium glutamicum atcc
13032} PDB: 2du9_A
Length = 129
Score = 27.5 bits (61), Expect = 4.0
Identities = 10/61 (16%), Positives = 22/61 (36%), Gaps = 7/61 (11%)
Query: 106 GTFVVAHSLAESLKAITAASNYNNRVVECRLTAIV-LAIKLGMKPQEAISKVKTLSDVEG 164
G FV A + A + + + ++ +I LG + + +++ G
Sbjct: 65 GMFVSAQAPALIRE------RRDAAFAATYVAPLIDESIHLGFTRARIHALLDQVAESRG 118
Query: 165 L 165
L
Sbjct: 119 L 119
>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 = 28.3 bits (63), Expect = 4.1
Identities = 8/24 (33%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 30 SSSTAFVCSSTVALMAAFGVEVPK 53
S+ A + ++ +AL A GVE+
Sbjct: 156 SALAAALTAAALALADA-GVEMYD 178
>3hbx_A GAD 1, glutamate decarboxylase 1; calmodulin-binding, lyase,
pyridoxal phosphate; HET: LLP; 2.67A {Arabidopsis
thaliana}
Length = 502
Score = 28.5 bits (63), Expect = 4.5
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 6/63 (9%)
Query: 127 YNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLC-VAFACKNGSSDPVFAVKEF 185
Y N + CR IVL L E + +S EG+ VAF+ K+ S F + +
Sbjct: 340 YRNVMENCRENMIVLREGL-----EKTERFNIVSKDEGVPLVAFSLKDSSCHTEFEISDM 394
Query: 186 LRK 188
LR+
Sbjct: 395 LRR 397
>2wp8_B Exosome complex component SKI6; nucleus, hydrolase, RNA-binding,
exonucle binding, mitochondrion, rRNA processing; 3.00A
{Saccharomyces cerevisiae}
Length = 246
Score = 27.3 bits (61), Expect = 6.8
Identities = 5/24 (20%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 30 SSSTAFVCSSTVALMAAFGVEVPK 53
+ + T+AL+ A G+ +
Sbjct: 134 GIMGSLINGITLALIDA-GISMFD 156
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
0.319 0.132 0.375
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: 5,373,571
Number of extensions: 318137
Number of successful extensions: 786
Number of sequences better than 10.0: 1
Number of HSP's gapped: 746
Number of HSP's successfully gapped: 60
Length of query: 365
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 270
Effective length of database: 4,049,298
Effective search space: 1093310460
Effective search space used: 1093310460
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 (21.8 bits)
S2: 58 (25.9 bits)