RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 016879
(381 letters)
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 325 bits (834), Expect = e-108
Identities = 138/365 (37%), Positives = 203/365 (55%), Gaps = 25/365 (6%)
Query: 21 YVKA------KGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKK 74
Y + + G++ LVDG +P SGLSSS+A VC + + + G + K
Sbjct: 130 YFLCGLKGIQEHFGLSNLTGMNCLVDGNIPPSSGLSSSSALVCCAGLVTLTVLGRNLSKV 189
Query: 75 EIAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHSL 134
E+A++ + E++IGT+ GGMDQ+IS +A+ G A+LI+F+P+R TDV+LP+G FV+A+S
Sbjct: 190 ELAEICAKSERYIGTEGGGMDQSISFLAEEGTAKLIEFSPLRATDVKLPSGAVFVIANSC 249
Query: 135 AESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNG 194
E KA A S++N RV+ECRL A +LA ++ KV L +V+
Sbjct: 250 VEMNKA--ATSHFNIRVMECRLAAKLLAKYKSLQWD----KVLRLEEVQAK-----LGIS 298
Query: 195 SSDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVY 254
+ + ++ L EPY +I + L + S +KL+QRA HVY
Sbjct: 299 LEEMLLVTEDALHPEPYNPEEICRCLGISLEELRTQILSPNTQD--VLIFKLYQRAKHVY 356
Query: 255 SEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGA 314
SEA RV FK + E+ ++ LG+LMN SH SC +YECSCPEL++LV++CR GA
Sbjct: 357 SEAARVLQFKKICEE--APENMVQLLGELMNQSHMSCRDMYECSCPELDQLVDICRKFGA 414
Query: 315 LGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRIDRGVINNNDLGLYVFASKPSS 374
G+RLTGAGWGGC V++V F+ N+ + +YQ R + +FA+KP
Sbjct: 415 QGSRLTGAGWGGCTVSMVPADKLPSFLANVHKAYYQ----RSDGSLAPEKQSLFATKPGG 470
Query: 375 GAAKF 379
GA
Sbjct: 471 GALVL 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 = 291 bits (746), Expect = 9e-95
Identities = 109/397 (27%), Positives = 178/397 (44%), Gaps = 33/397 (8%)
Query: 15 YKAFYEYVK---AKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALM-AAFGVE 70
+ Y+K + + P VG I +PTG GLSS+ + +
Sbjct: 125 LHVAHSYLKKIAPERFNNTPLVGAQIFCQSDIPTGGGLSSAFTCAAALATIRANMGKNFD 184
Query: 71 VPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNP-IRTTDVQLP----AG 125
+ KK++ ++T E ++G +GGMDQA S+ + A ++F P ++ T + P
Sbjct: 185 ISKKDLTRITAVAEHYVGVNNGGMDQATSVYGEEDHALYVEFRPKLKATPFKFPQLKNHE 244
Query: 126 GTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMK--PQEAISKVKTLSDVE 183
+FV+A++L +S K TA +NYN RV+E + A LA + + + S + + +
Sbjct: 245 ISFVIANTLVKSNKFETAPTNYNLRVIEVTVAANALATRYSVALPSHKDNSNSERGNLRD 304
Query: 184 GLCVAFACKNGSSDPVFAVKEF----------LRKEPYTALDIEKITEEKLTSIFANSSS 233
+ +A + P L +E ++ E T++ +
Sbjct: 305 FMDAYYARYENQAQPWNGDIGTGIERLLKMLQLVEESFSRKKSGFTVHEASTALNCSREE 364
Query: 234 SL-----DVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSN--LSEEDKLKKLGDLMND 286
+ KL+QRA HVYSE+ RV ++S ++ED G LMN+
Sbjct: 365 FTRDYLTTFPVRFQVLKLYQRAKHVYSESLRVLKALKMMTSATFHTDEDFFTDFGRLMNE 424
Query: 287 SHHSCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDS---QFILN 343
S SC LYECSC E ++ ++ NG+ G+RLTGAGWGGC + LV + Q
Sbjct: 425 SQASCDKLYECSCIETNQICSIALANGSFGSRLTGAGWGGCTIHLVPSGANGNVEQVRKA 484
Query: 344 LKEQFYQSRIDRGVINNNDLGLYVFASKPSSGAAKFK 380
L E+FY R + +L + SKP+ G ++
Sbjct: 485 LIEKFYNVRYPDLT--DEELKDAIIVSKPALGTCLYE 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 = 205 bits (525), Expect = 1e-63
Identities = 68/362 (18%), Positives = 125/362 (34%), Gaps = 86/362 (23%)
Query: 16 KAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKE 75
K + +K +VG G+ V G +P G+GLSSS +F L + +++
Sbjct: 72 KGIFWVLKESDYEVG---GIKGRVSGNLPLGAGLSSSASFEVGILETLDKLYNLKLDSLS 128
Query: 76 IAQLTCECE-QFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHSL 134
L + E +F+G G +DQ + + G +D + + + P + +V ++
Sbjct: 129 KVLLAKKAENEFVGVPCGILDQFAVVFGREGNVIFLDTHTLDYEYIPFPKDVSILVFYT- 187
Query: 135 AESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNG 194
++ A+S Y R + +L + +V
Sbjct: 188 --GVRRELASSEYAERKHIAEESLKIL-------------GKGSSKEV------------ 220
Query: 195 SSDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVY 254
++ K+ + ++
Sbjct: 221 -----------------REGELSKLPPL-----------------------HRKFFGYIV 240
Query: 255 SEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGA 314
E RV +D +E ++++G ++ +H + YE SC EL+ V GA
Sbjct: 241 RENARVLEVRD-----ALKEGNVEEVGKILTTAHWDLAKNYEVSCKELDFFVERALKLGA 295
Query: 315 LGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRIDRGVINNNDLGLYVFASKPSS 374
GARLTGAG+GG +ALV + + ++ + R F +PS
Sbjct: 296 YGARLTGAGFGGSAIALVDKEDAETIGEEILREYLK----RFPWKAR-----HFIVEPSD 346
Query: 375 GA 376
G
Sbjct: 347 GV 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 = 207 bits (529), Expect = 2e-63
Identities = 85/369 (23%), Positives = 136/369 (36%), Gaps = 88/369 (23%)
Query: 16 KAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKE 75
K +K G ++ G ++L+ G +PT SGLSSS + V L F + VP+ E
Sbjct: 125 KGMIVMLKGAGYEIDK--GFELLIKGEIPTASGLSSSASLELLVGVVLDDLFNLNVPRLE 182
Query: 76 IAQLTCECE-QFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVA--- 131
+ QL + E +IG SG +DQ + A +D N ++ V + +V
Sbjct: 183 LVQLGQKTENDYIGVNSGILDQFAIGFGEVKKAIELDCNTLKYEMVPVELRDYDIVIMNT 242
Query: 132 ---HSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVA 188
+L ES YN R E R + +L +++L ++
Sbjct: 243 NKPRALTES--------KYNERFAETREALKRMQTRLD---------IQSLGEL------ 279
Query: 189 FACKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQ 248
S++ A + + E L +
Sbjct: 280 ------SNEEFDANTDLIGDET-----------------------------------LIK 298
Query: 249 RAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNV 308
RA H E R + + L K G+L+N SH S YE + EL+ L
Sbjct: 299 RARHAVYENNRTKIAQK----AFVAGN-LTKFGELLNASHASLKDDYEVTGLELDTLAET 353
Query: 309 CRN-NGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRIDRGVINNNDLGLYV 367
+ G LGAR+TGAG+GGC +ALV S F + + + +
Sbjct: 354 AQKQAGVLGARMTGAGFGGCAIALVAHDNVSAFRKAVGQVYEE---------VVGYPASF 404
Query: 368 FASKPSSGA 376
+ ++ SG+
Sbjct: 405 YVAQIGSGS 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 = 196 bits (500), Expect = 2e-59
Identities = 88/366 (24%), Positives = 131/366 (35%), Gaps = 97/366 (26%)
Query: 21 YVK--AKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQ 78
YVK + P G +V +VP G GLSSS + ++ L AQ
Sbjct: 116 YVKGVIQYYPAAPLPGFSAVVVSSVPLGGGLSSSASLEVATYTFLQQLCPDSGTIAARAQ 175
Query: 79 LTCECE-QFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGG-TFVVA----- 131
+ + E F G G MDQ IS+M + G A LID + T+ V L ++
Sbjct: 176 VCQQAEHSFAGMPCGIMDQFISLMGQKGHALLIDCRSLETSLVPLSDPKLAVLITNSNVR 235
Query: 132 HSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFAC 191
HSLA S Y R +C A ++L +V
Sbjct: 236 HSLASS--------EYPVRRRQCEEVA-------------RALGKESLREV--------- 265
Query: 192 KNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAA 251
E+L + D+++ + +RA
Sbjct: 266 ----------------------------QLEELEAA-------RDLVSK----EGFRRAR 286
Query: 252 HVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRN 311
HV E +R L D + G LM +SH S YE SCPEL++LV
Sbjct: 287 HVVGEIRRTAQAAA----ALRRGD-YRAFGRLMVESHRSLRDDYEVSCPELDQLVEAALA 341
Query: 312 -NGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRIDRGVINNNDLGLYVFAS 370
G G+R+TG G+GGC V L++ S + +++E + + S
Sbjct: 342 VPGVYGSRMTGGGFGGCTVTLLEASAAPHAMRHIQEHYG-------------GTATFYLS 388
Query: 371 KPSSGA 376
+ + GA
Sbjct: 389 QAADGA 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 = 104 bits (262), Expect = 1e-25
Identities = 30/148 (20%), Positives = 57/148 (38%), Gaps = 11/148 (7%)
Query: 205 FLRKEPYTALDIEKITEEKLTS--IFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHA 262
++ + + E K I + + ++ E +V
Sbjct: 171 EIKNNKFRKIKGEFEEFLKNCKFLIVYAEKRKKKTAELVNEVAKIENKDEIFKEIDKV-- 228
Query: 263 FKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNGALGARLTGA 322
+ L ++ + G LM +H S P+L+ +V++ G GA+LTGA
Sbjct: 229 ----IDEALKIKN-KEDFGKLMTKNHELLKK-LNISTPKLDRIVDIGNRFG-FGAKLTGA 281
Query: 323 GWGGCVVALVKESIDSQFILNLKEQFYQ 350
G GGCV+ LV E + + + L ++ +
Sbjct: 282 GGGGCVIILVNEEKEKELLKELNKEDVR 309
Score = 75.0 bits (185), Expect = 3e-15
Identities = 21/117 (17%), Positives = 42/117 (35%), Gaps = 2/117 (1%)
Query: 16 KAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKE 75
A + ++ P G I + +P GL SS + + A+ + E+ E
Sbjct: 83 CAIKNTLDYLNIE--PKTGFKINISSKIPISCGLGSSASITIGTIKAVSGFYNKELKDDE 140
Query: 76 IAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAH 132
IA+L E+ I ++ D + + F I+ + F++ +
Sbjct: 141 IAKLGYMVEKEIQGKASITDTSTITYKGILEIKNNKFRKIKGEFEEFLKNCKFLIVY 197
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 102 bits (256), Expect = 6e-25
Identities = 30/111 (27%), Positives = 52/111 (46%), Gaps = 6/111 (5%)
Query: 237 VLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYE 296
V + K + Q +HV K V D + + L D+ N+ H L
Sbjct: 191 VHDVHKLCEDPQYMSHVKHIGKLVLRASD----VIEHHK-FEALADIFNECHADLKAL-T 244
Query: 297 CSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQ 347
S ++E+L+ + + NGA+ +LTGAG GG ++ L K+ ++ I+ E+
Sbjct: 245 VSHDKIEQLMKIGKENGAIAGKLTGAGRGGSMLLLAKDLPTAKNIVKAVEK 295
Score = 77.1 bits (190), Expect = 5e-16
Identities = 22/105 (20%), Positives = 33/105 (31%), Gaps = 6/105 (5%)
Query: 30 GPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIG 88
L + + +P GL SS A + A G + K+E+ + EQ G
Sbjct: 82 NITEPLAVTIQTNLPPSRGLGSSAAVAVAFVRASYDFLGKSLTKEELIEKANWAEQIAHG 141
Query: 89 TQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHS 133
SG Q I + + L G VV +
Sbjct: 142 KPSGIDTQTIVSG---KPVWFQKGHAETLKTLSLD--GYMVVIDT 181
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite,
transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Length = 332
Score = 99.8 bits (249), Expect = 8e-24
Identities = 41/139 (29%), Positives = 67/139 (48%), Gaps = 24/139 (17%)
Query: 239 NAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECS 298
+ +L+ H+ S+A+ L + D L++LG LMN +H C + + S
Sbjct: 215 QPVQFKRLYDNYTHIVSQAREA----------LQKGD-LQRLGQLMNANHDLCRQI-DVS 262
Query: 299 CPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILN-LKEQFYQSRIDRGV 357
C ELE +V CR GALGA+L+G G GG VAL S I+ LK + +++
Sbjct: 263 CRELESIVQTCRTYGALGAKLSGTGRGGIAVALAASSDQRDAIVKGLKAKCPEAK----- 317
Query: 358 INNNDLGLYVFASKPSSGA 376
++ + +PS+ +
Sbjct: 318 ------FIWRYTVQPSAAS 330
Score = 80.9 bits (200), Expect = 3e-17
Identities = 24/152 (15%), Positives = 51/152 (33%), Gaps = 10/152 (6%)
Query: 15 YKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKK 74
++ V GL + + G + SG+ +S + V + + AL + + + +
Sbjct: 78 QIKAHQLVLDHLKVDLSGDGLKMFIGGPLVPSSGIGASASDVVAFSRALSELYQLNLTDE 137
Query: 75 EIAQLTCECEQ-FIGTQSGGMDQAISIMAKSGFAELIDFNPIRT--TDVQLPAGGTFVVA 131
E+ E + GT SG + A + G L ++ + VV
Sbjct: 138 EVNLSAFVGEGGYHGTPSGADNTAAT----YGGLILYRRQNGKSVFKPIAFQQRLYLVVV 193
Query: 132 HSLAESLKAITAASNYNNRVVECRLTAIVLAI 163
+ A TA + ++ + +
Sbjct: 194 GTGI---NASTAKVVNDVHKMKQQQPVQFKRL 222
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET: DP6;
2.50A {Streptococcus pneumoniae}
Length = 292
Score = 97.5 bits (243), Expect = 3e-23
Identities = 27/116 (23%), Positives = 50/116 (43%), Gaps = 8/116 (6%)
Query: 237 VLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYE 296
+ + K H E + +S++D + LG +++ +H
Sbjct: 179 IQVVQNKGKDALPFLHALGE--LTQQAEI----AISQKD-AEGLGQILSQAHLHLKE-IG 230
Query: 297 CSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSR 352
S E + LV ++GALGA+++G G GGC++ALV +Q + E+ +
Sbjct: 231 VSSLEADSLVETALSHGALGAKMSGGGLGGCIIALVTNLTHAQELAERLEEKGAVQ 286
Score = 76.7 bits (189), Expect = 5e-16
Identities = 15/104 (14%), Positives = 35/104 (33%), Gaps = 6/104 (5%)
Query: 31 PPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIGT 89
+ +D +P G+ SS A ++ A+ + ++P + L E
Sbjct: 71 TEACIRCEIDSAIPEKRGMGSSAAISIAAIRAVFDYYQADLPHDVLEILVNRAEMIAHMN 130
Query: 90 QSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHS 133
SG + + + T++++ V+A +
Sbjct: 131 PSGLDAKTCLSDQP-----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 = 19/121 (15%), Positives = 50/121 (41%), Gaps = 7/121 (5%)
Query: 230 NSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTV--SSNLSEEDKLKKLGDLMNDS 287
S SS ++N K+ + + +H K + + + + + ++ +
Sbjct: 206 RSRSSAAIINEQKKNTSEGNQTAI----EAMHKIKQSAIDTKLALLKGDVGEFARILGEG 261
Query: 288 HHS-CSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKE 346
+ + + P ++E +V GA+ +++GAG GG ++ +V+ + + + L
Sbjct: 262 WENKKKMAGAITNPMIQEAFDVATGAGAMAGKVSGAGGGGFIMFVVEPTRKEEVVRALNN 321
Query: 347 Q 347
Sbjct: 322 L 322
Score = 66.1 bits (161), Expect = 3e-12
Identities = 19/95 (20%), Positives = 36/95 (37%), Gaps = 1/95 (1%)
Query: 30 GPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQ-FIG 88
P I P GSGL +S+ V A + + + E ++L E E+ +G
Sbjct: 94 LEPKSFKITTYNDAPAGSGLGTSSTMVVCILKAFIEWLSLPLGDYETSRLAYEIERKDLG 153
Query: 89 TQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLP 123
G DQ + + E + + + +++
Sbjct: 154 LSGGKQDQYAAAFGGFNYMEFLQNDLVIVNPLKMK 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 = 82.2 bits (202), Expect = 2e-17
Identities = 54/335 (16%), Positives = 94/335 (28%), Gaps = 84/335 (25%)
Query: 15 YKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKK 74
AF A LDI+V +P G+GL SS A+ AL+ A
Sbjct: 109 LLAFLYLYLAICRKQRTLPSLDIMVWSELPPGAGLGSSAAYSVCVAAALLTAC------- 161
Query: 75 EIAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHSL 134
++T + S + SI + E + D
Sbjct: 162 --EEVTNPLKDRGSIGSWPEEDLKSINKWAYEGERVIHGNPSGVD--------------- 204
Query: 135 AESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNG 194
+ S + + + L ++ + +
Sbjct: 205 -------NSVSTWGGALRYQQGKMSSLKRLPALQ----------------ILLTNTKVPR 241
Query: 195 S-SDPVFAVKEFLRKEPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHV 253
S V V+ L K P + + + V
Sbjct: 242 STKALVAGVRSRLIKFPEIMAPLLTSIDA-----------------------ISLECERV 278
Query: 254 YSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSCPELEELVNVCRNNG 313
E ++ L +LM+ + H + L L++L V +G
Sbjct: 279 LGEMA-----------AAPVPEQYLVLEELMDMNQHHLNAL-GVGHASLDQLCQVTAAHG 326
Query: 314 ALGARLTGAGWGGCVVALVKESIDSQFILNLKEQF 348
L ++LTGAG GGC + L+K ++ + K+
Sbjct: 327 -LHSKLTGAGGGGCGITLLKPGLERAKVEAAKQAL 360
>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 = 68.3 bits (166), Expect = 1e-12
Identities = 68/445 (15%), Positives = 127/445 (28%), Gaps = 139/445 (31%)
Query: 14 RYKAFYEYVKA-KGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSS-TVALMAAFGV-- 69
R + + + +A L ++L+DG GSG + VC S V F +
Sbjct: 133 RLQPYLKLRQALLELRPAK----NVLIDG--VLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 70 ------EVPKKEIAQLTCECEQFIGTQSGGMDQAISIMAKSGFAELIDFNPIRTTDVQLP 123
P+ + L Q + D + +I +R
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI-------------KLRI------ 227
Query: 124 AGGTFVVAHSLAESLKAITAASNYNN-----------RVVE-----CR---------LTA 158
HS+ L+ + + Y N + C+ +T
Sbjct: 228 --------HSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTD 279
Query: 159 IVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVK----------EFLRK 208
+ A + S T +V+ L + + P + E +R
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339
Query: 209 EPYTALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVS 268
T + + + +KLT+I SSL+VL A+ K+ R + V+ + H +S
Sbjct: 340 GLATWDNWKHVNCDKLTTII---ESSLNVLEPAEYRKMFDRLS-VFPPS--AHIPTILLS 393
Query: 269 ---SNLSEED------KLKKLGDLMNDSH------HSCSVLYECSCPELEEL----VN-- 307
++ + D KL K + S + + L V+
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHY 453
Query: 308 -----VCRNNGA-----------LGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQS 351
++ +G L + ++ L+ + F +
Sbjct: 454 NIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPE------RMTLFRMVFLDFR--FLEQ 505
Query: 352 RI--------DRGVINN--NDLGLY 366
+I G I N L Y
Sbjct: 506 KIRHDSTAWNASGSILNTLQQLKFY 530
Score = 34.4 bits (78), Expect = 0.066
Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 15/91 (16%)
Query: 214 LDIEKITEEKL---TSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKD---TV 267
LD + E+K+ ++ + S S L+ L K YK + E + V+A D +
Sbjct: 498 LDFRFL-EQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYE-RLVNAILDFLPKI 555
Query: 268 SSNL--SEEDKLKKLGDLMNDSHHSCSVLYE 296
NL S+ L ++ LM + ++E
Sbjct: 556 EENLICSKYTDLLRIA-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 = 13/76 (17%), Positives = 27/76 (35%), Gaps = 6/76 (7%)
Query: 273 EEDKLKKLGDLMNDSHH-----SCSVLYECSCPELEELVNVCRNNGALGARLTGAGWGGC 327
+ L + ++ L+EL + N G + +G+G G C
Sbjct: 263 HTKDEELLYSSIKENRRILQELGTKAGVNIETSLLKELADSAENMGG-AGKSSGSGGGDC 321
Query: 328 VVALVKESIDSQFILN 343
+A K ++ ++N
Sbjct: 322 GIAFSKTKELAEKLVN 337
Score = 58.1 bits (140), Expect = 1e-09
Identities = 19/103 (18%), Positives = 38/103 (36%), Gaps = 7/103 (6%)
Query: 1 MGPLFHLWCFVFFRYKAFYEYVKAKGLDVGPPVGLDILVDGTVPT----GSGLSSSTAFV 56
+ P W F ++K++G+++ P + ++++ + GL SS A
Sbjct: 68 LKPDGEHWTFTAEAINIATTFLKSEGIELTP---VKMVIETELIDQSGAKYGLGSSAAAT 124
Query: 57 CSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAIS 99
+ ALM F E+ + +L + D A
Sbjct: 125 VAVINALMTKFYPEISMLKKFKLAALSHLVVQGNGSCGDIASC 167
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 59.6 bits (144), Expect = 4e-10
Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 7/89 (7%)
Query: 273 EEDKLKKLGDLMNDSHHSCSVLY-ECSCPELEELVNVCRNNGALGARLTGAGWGGCVVAL 331
E+ K +K+ + + + L + P L +L ++ A A+ +GAG G C +AL
Sbjct: 246 EQGKSEKIIEQVEVASKLLEGLSTDIYTPLLRQLKEASQDLQA-VAKSSGAGGGDCGIAL 304
Query: 332 VKESIDSQFILN-LK----EQFYQSRIDR 355
++ ++ + 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 = 53.9 bits (129), Expect = 5e-08
Identities = 50/278 (17%), Positives = 97/278 (34%), Gaps = 73/278 (26%)
Query: 21 YVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFG----VEVPKKEI 76
Y+ A+ + P + S L + V L+A FG + +E+
Sbjct: 126 YITARIM-AKRPF--------DKKSNSALFRA---VGEGNAQLVAIFGGQGNTDDYFEEL 173
Query: 77 AQL----TCECEQFIGTQSGGMDQ--AISIMAKSGFAELIDF-----NPIRTTDVQLPAG 125
L I + + + ++ A+ F + ++ NP T D
Sbjct: 174 RDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD---- 229
Query: 126 GTFVVAHSLAESLKAI--TAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDV- 182
+++ S+ S I ++Y VV +L LG P E S +K +
Sbjct: 230 --YLL--SIPISCPLIGVIQLAHY---VVTAKL--------LGFTPGELRSYLKGATGHS 274
Query: 183 EGLCVAFACKNGSSDPVF--AVKEFLR---------KE--PYTAL------DIEKITEEK 223
+GL A A S F +V++ + E P T+L D + E
Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV 334
Query: 224 LTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVH 261
+ + + S+ + + + Q +++ +H+ K+V
Sbjct: 335 PSPMLSISNLTQEQV----QDYVNKTNSHL-PAGKQVE 367
Score = 45.4 bits (107), Expect = 2e-05
Identities = 53/329 (16%), Positives = 98/329 (29%), Gaps = 133/329 (40%)
Query: 85 QFIGTQSGGM---------------DQA-ISIMAKSGF--AELIDFNPIRTTDVQLPAGG 126
Q G+Q GM ++A GF +++ NP+ T
Sbjct: 1624 Q--GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLT-------- 1673
Query: 127 TFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLC 186
H E K I NY+ + E + + K+ + E + T +GL
Sbjct: 1674 ----IHFGGEKGKRIRE--NYSAMIFETIVDGKLKTEKIFKEINEHSTSY-TFRSEKGLL 1726
Query: 187 ------------VAFAC-----KNG--SSDPVFA---VKEFLRKEPYTALDIEKITEEKL 224
+ A G +D FA + E Y AL
Sbjct: 1727 SATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE------YAAL---------- 1770
Query: 225 TSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKD----------TVSSNLSEE 274
A+ + + + + + + R + R + V+++ S+E
Sbjct: 1771 ----ASLADVMSIESLVEV--VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQE 1824
Query: 275 DKLKKLGDLMNDSHHSCSVLYECSCPELEELVN--------VCRNNGALGARLTGAGWGG 326
L+ + + + + L E+VN V G
Sbjct: 1825 A-LQYV----------VERVGKRT-GWLVEIVNYNVENQQYVA---------------AG 1857
Query: 327 CVVALVKESIDSQFILN-LKEQFYQSRID 354
+ AL +++ + +LN +K Q +ID
Sbjct: 1858 DLRAL--DTVTN--VLNFIKLQ----KID 1878
Score = 40.0 bits (93), Expect = 0.001
Identities = 41/203 (20%), Positives = 67/203 (33%), Gaps = 84/203 (41%)
Query: 16 KAFYEYVKAKGLDVGPPVGLDILVDGTVPTGS---GLS----SSTAFVC-------SSTV 61
KA +E +K+KGL +P + G S + A S V
Sbjct: 1741 KAAFEDLKSKGL---------------IPADATFAGHSLGEYA--ALASLADVMSIESLV 1783
Query: 62 ALMA----AFGVEVPKKEIAQLTCECEQFIGTQSGGMDQAI--SIMAKSGFAELIDFNPI 115
++ V VP+ E +G + GM AI +A S E +
Sbjct: 1784 EVVFYRGMTMQVAVPRDE-----------LGRSNYGM-IAINPGRVAASFSQEALQ---- 1827
Query: 116 RTTDVQLPAGGTFVVAHSLAESLKAITAASNYN-----------NRVVECRLTAIVLAIK 164
+VV + + NYN R ++ +T ++ IK
Sbjct: 1828 ------------YVVERVGKRTGWLVEIV-NYNVENQQYVAAGDLRALDT-VTNVLNFIK 1873
Query: 165 LGMKPQEAISKVK---TLSDVEG 184
L K I +++ +L +VEG
Sbjct: 1874 L-QKID--IIELQKSLSLEEVEG 1893
>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 = 38.8 bits (91), Expect = 0.002
Identities = 13/54 (24%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 300 PELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQFYQSRI 353
P L ++ +V +N GA A L+GA G V+ ++ ++ +L+ + +
Sbjct: 225 PHLAQIRDVAKNQGAYAACLSGA--GPTVLVFAPRNLANKLQTSLQTLEIDADV 276
Score = 34.1 bits (79), Expect = 0.061
Identities = 11/55 (20%), Positives = 22/55 (40%)
Query: 30 GPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 84
+++ +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 = 35.7 bits (83), Expect = 0.016
Identities = 10/61 (16%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 300 PELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLKEQF---YQSRIDRG 356
P ++ ++ G ++G+ G ++A KE + L++ + ++ + +G
Sbjct: 236 PNYFKIKEEVKD-KVYGITISGS--GPSIIAFPKEEFIDEVENILRDYYENTIRTEVGKG 292
Query: 357 V 357
V
Sbjct: 293 V 293
Score = 33.4 bits (77), Expect = 0.098
Identities = 15/57 (26%), Positives = 23/57 (40%)
Query: 28 DVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 84
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 = 35.1 bits (80), Expect = 0.029
Identities = 14/66 (21%), Positives = 34/66 (51%)
Query: 14 RYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPK 73
R ++ ++++ + ++I+ + PT +G++SS + C+ + AL+ AF
Sbjct: 77 RVQSMLLHLRSTCPEELKNKKVNIVSENNFPTAAGMASSASGYCAMSAALIRAFKSTTNV 136
Query: 74 KEIAQL 79
+A+L
Sbjct: 137 SMLARL 142
>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 = 34.5 bits (78), Expect = 0.049
Identities = 16/72 (22%), Positives = 27/72 (37%)
Query: 9 CFVFFRYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFG 68
C R K L L I+ + PT +GL+SS A + A+ +
Sbjct: 98 CLRDLRQLRKEMESKDASLPTLSQWKLHIVSENNFPTAAGLASSAAGFAALVSAIAKLYQ 157
Query: 69 VEVPKKEIAQLT 80
+ EI+++
Sbjct: 158 LPQSTSEISRIA 169
>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 = 0.077
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 50 SSSTAFVCSSTVALMAAFGV 69
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 = 0.088
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 50 SSSTAFVCSSTVALMAAFGV 69
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 = 0.10
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 45 TGSGLSSSTAFVCSSTVALMAAFGV 69
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 = 0.11
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 50 SSSTAFVCSSTVALMAAFGV 69
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 = 33.7 bits (78), Expect = 0.11
Identities = 12/25 (48%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 45 TGSGLSSSTAFVCSSTVALMAAFGV 69
GS S+S VC+ST++L+ A GV
Sbjct: 473 LGSNGSTSMGSVCASTMSLLNA-GV 496
>3f0n_A Mevalonate pyrophosphate decarboxylase; cholesterol biosynthesis,
lipid synthesis, lyase, steroid biosynthesis, sterol
biosynthesis; 1.90A {Mus musculus} PDB: 3d4j_A
Length = 414
Score = 32.9 bits (74), Expect = 0.18
Identities = 17/73 (23%), Positives = 25/73 (34%), Gaps = 2/73 (2%)
Query: 9 CFVFFRYKA--FYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAA 66
C R A L + + + PT +GL+SS A L
Sbjct: 96 CLREIRRLARKRRSTEDGDTLPLSLSYKVHVASVNNFPTAAGLASSAAGYACLAYTLAQV 155
Query: 67 FGVEVPKKEIAQL 79
+GVE E+A+
Sbjct: 156 YGVEGDLSEVARR 168
>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 = 0.23
Identities = 5/20 (25%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 50 SSSTAFVCSSTVALMAAFGV 69
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 = 0.25
Identities = 9/20 (45%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 50 SSSTAFVCSSTVALMAAFGV 69
S TA + +++VAL+ A GV
Sbjct: 135 GSRTACLNAASVALVDA-GV 153
>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 = 31.8 bits (73), Expect = 0.29
Identities = 8/34 (23%), Positives = 12/34 (35%), Gaps = 2/34 (5%)
Query: 299 CPELEELVNVCRNNGALGARLTGAGWGGCVVALV 332
P L + GAL ++G+ G L
Sbjct: 234 DPALARALRAGVEAGALAGIVSGS--GPTCAFLC 265
>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 = 0.34
Identities = 5/20 (25%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 50 SSSTAFVCSSTVALMAAFGV 69
+ A + ++++AL A G+
Sbjct: 135 GTRVAGITAASLALADA-GI 153
>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 = 30.7 bits (68), Expect = 0.47
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 22/49 (44%)
Query: 273 EEDKLKKLGDLMNDSHHSCSV-LYEC-SCPELEELVNVCRNNGALGARL 319
E+ LKKL + S+ LY S P L A+ A +
Sbjct: 18 EKQALKKL-----QA----SLKLYADDSAPAL-----------AIKATM 46
>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 = 30.6 bits (70), Expect = 0.72
Identities = 10/34 (29%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 299 CPELEELVNVCRNNGALGARLTGAGWGGCVVALV 332
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 = 0.74
Identities = 6/20 (30%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 50 SSSTAFVCSSTVALMAAFGV 69
+ 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 = 1.7
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 50 SSSTAFVCSSTVALMAAFGVEVPKKEIAQLTC 81
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 = 2.2
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 50 SSSTAFVCSSTVALMAA 66
+ A + +++VAL A
Sbjct: 135 GTRCAGITAASVALADA 151
>3lto_A Mevalonate diphosphate decarboxylase; protein structure initiative
II(PSI II), NYSGXRC, structural genomics; 2.27A
{Legionella pneumophila}
Length = 323
Score = 29.0 bits (64), Expect = 2.6
Identities = 16/78 (20%), Positives = 25/78 (32%)
Query: 14 RYKAFYEYVKAKGLDVGPPVGLDILVDGTVPTGSGLSSSTAFVCSSTVALMAAFGVEVPK 73
K F +++ G G I P SGL+SS + + T A K
Sbjct: 72 AQKRFIDHLVRLKEYFGYVGGFLIQSSNNFPHSSGLASSASSFAALTKCASIALSELTQK 131
Query: 74 KEIAQLTCECEQFIGTQS 91
+ +G+ S
Sbjct: 132 PLPSIDEQAQLSRLGSGS 149
>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 = 2.7
Identities = 7/47 (14%), Positives = 16/47 (34%), Gaps = 3/47 (6%)
Query: 299 CPELEELVNVCRNNGALGARLTGAGWGGCVVALVKESIDSQFILNLK 345
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 = 2.8
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 50 SSSTAFVCSSTVALMAAFGVEVPKKEIAQ 78
+ 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 = 28.8 bits (65), Expect = 2.9
Identities = 11/62 (17%), Positives = 22/62 (35%), Gaps = 8/62 (12%)
Query: 126 GTFVVAHSLAESLKAIT------AASNYNNRVVECRLTAI--VLAIKLGMKPQEAISKVK 177
G +V A+++ +T N + + + A GMK E + +K
Sbjct: 70 GLYVQPKLTAQNILEMTGVMKNDTNENLKKDIKDFYIRKAGKFYAEIFGMKENELVYSIK 129
Query: 178 TL 179
+
Sbjct: 130 FV 131
>2ek5_A Predicted transcriptional regulators; helix-turn-helix, interwined
alpha helices; 2.20A {Corynebacterium glutamicum atcc
13032} PDB: 2du9_A
Length = 129
Score = 27.9 bits (62), Expect = 3.1
Identities = 10/61 (16%), Positives = 22/61 (36%), Gaps = 7/61 (11%)
Query: 126 GTFVVAHSLAESLKAITAASNYNNRVVECRLTAIV-LAIKLGMKPQEAISKVKTLSDVEG 184
G FV A + A + + + ++ +I LG + + +++ G
Sbjct: 65 GMFVSAQAPALIRE------RRDAAFAATYVAPLIDESIHLGFTRARIHALLDQVAESRG 118
Query: 185 L 185
L
Sbjct: 119 L 119
>3q60_A ROP5B; pseudokinase, transferase; HET: ATP; 1.72A {Toxoplasma
gondii} PDB: 3q5z_A*
Length = 371
Score = 28.5 bits (63), Expect = 4.2
Identities = 28/213 (13%), Positives = 59/213 (27%), Gaps = 36/213 (16%)
Query: 121 QLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLS 180
+ AG +F + + LK Y A+V A+ + PQ A + V +L
Sbjct: 3 HMEAGDSF-----MRDLLKREEELIGYCREEALKEPAAMVEAVTATVWPQNAETTVDSLL 57
Query: 181 DVEGLCV---------AFA----CKNGSSDPVFAVKEFLRKEPYTALDIEKITEEKLTSI 227
+ + ++ FA+K F + ++E++ E
Sbjct: 58 SQGERKLKLVEPLRVGDRSVVFLVRDVERLEDFALKVFTMGAENSRSELERLHEATF--- 114
Query: 228 FANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDS 287
A L + + + + +L D +
Sbjct: 115 -------------AAARLLGESPEEARDRRRLLLPSDAVAVQSQPPFAQLSPGQDDYAVA 161
Query: 288 HHSCSVLYECSCPELEELVNVCRNNGALGARLT 320
++ ++ S +LE L +
Sbjct: 162 NY-LLLMPAASV-DLELLFSTLDFVYVFRGDEG 192
>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 = 4.3
Identities = 8/24 (33%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 50 SSSTAFVCSSTVALMAAFGVEVPK 73
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 = 28.1 bits (62), Expect = 6.2
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 6/63 (9%)
Query: 147 YNNRVVECRLTAIVLAIKLGMKPQEAISKVKTLSDVEGLC-VAFACKNGSSDPVFAVKEF 205
Y N + CR IVL L E + +S EG+ VAF+ K+ S F + +
Sbjct: 340 YRNVMENCRENMIVLREGL-----EKTERFNIVSKDEGVPLVAFSLKDSSCHTEFEISDM 394
Query: 206 LRK 208
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 = 27.7 bits (62), Expect = 6.8
Identities = 5/24 (20%), Positives = 11/24 (45%), Gaps = 1/24 (4%)
Query: 50 SSSTAFVCSSTVALMAAFGVEVPK 73
+ + T+AL+ A G+ +
Sbjct: 134 GIMGSLINGITLALIDA-GISMFD 156
>3bbo_V Ribosomal protein L23; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea} SCOP:
i.1.1.1
Length = 198
Score = 26.9 bits (59), Expect = 9.2
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 42 TVPTGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECEQFIGTQSGG 93
T P LSSS AF S+ +F ++P K+ AQ++C + + TQ
Sbjct: 4 TAPNLHSLSSSFAFSNPSSNVSATSFTFQIPNKK-AQISCISSKKLHTQKSF 54
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 0.133 0.388
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: 5,727,070
Number of extensions: 341786
Number of successful extensions: 830
Number of sequences better than 10.0: 1
Number of HSP's gapped: 791
Number of HSP's successfully gapped: 67
Length of query: 381
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 286
Effective length of database: 4,049,298
Effective search space: 1158099228
Effective search space used: 1158099228
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)