RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 021052
(318 letters)
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 226 bits (577), Expect = 7e-71
Identities = 103/276 (37%), Positives = 150/276 (54%), Gaps = 22/276 (7%)
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 TSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLM 264
+ S +KL+QRA HVYSEA RV FK + E+ ++ LG+LM
Sbjct: 329 EELRTQILSPNTQD--VLIFKLYQRAKHVYSEAARVLQFKKICEE--APENMVQLLGELM 384
Query: 265 NDSHHSCSVLYECSITSSARVHEILISMVTIARKPG 300
N SH SC +YECS L +V I RK G
Sbjct: 385 NQSHMSCRDMYECS-------CPELDQLVDICRKFG 413
>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 = 185 bits (470), Expect = 1e-54
Identities = 76/301 (25%), Positives = 127/301 (42%), Gaps = 32/301 (10%)
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--PQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKE----------FL 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 AFKDTVSSN--LSEEDKLKKLGDLMNDSHHSCSVLYECSITSSARVHEILISMVTIARKP 299
++S ++ED G LMN+S SC LYECS + +IA
Sbjct: 398 KALKMMTSATFHTDEDFFTDFGRLMNESQASCDKLYECS-------CIETNQICSIALAN 450
Query: 300 G 300
G
Sbjct: 451 G 451
>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 = 127 bits (320), Expect = 3e-34
Identities = 42/277 (15%), Positives = 86/277 (31%), Gaps = 81/277 (29%)
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 LTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDL 263
+ ++ E RV +D +E ++++G +
Sbjct: 232 ----------------------HRKFFGYIVRENARVLEVRD-----ALKEGNVEEVGKI 264
Query: 264 MNDSHHSCSVLYECSITSSARVHEILISMVTIARKPG 300
+ +H + YE S + L V A K G
Sbjct: 265 LTTAHWDLAKNYEVS-------CKELDFFVERALKLG 294
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA;
2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Length = 419
Score = 126 bits (318), Expect = 2e-33
Identities = 55/261 (21%), Positives = 86/261 (32%), Gaps = 76/261 (29%)
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 E S YN R E R
Sbjct: 212 VKKAIELDCNTLKYEMVPVELRDYDIVIMNTNKPRALTE--------SKYNERFAETREA 263
Query: 138 AIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIE 197
+ +L +++L ++ S++ A + + E
Sbjct: 264 LKRMQTRLD---------IQSLGEL------------SNEEFDANTDLIGDET------- 295
Query: 198 KITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKL 257
L +RA H E R + + L
Sbjct: 296 ----------------------------LIKRARHAVYENNRTKIAQK----AFVAGN-L 322
Query: 258 KKLGDLMNDSHHSCSVLYECS 278
K G+L+N SH S YE +
Sbjct: 323 TKFGELLNASHASLKDDYEVT 343
>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 = 117 bits (294), Expect = 3e-30
Identities = 59/261 (22%), Positives = 84/261 (32%), Gaps = 81/261 (31%)
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 KGHALLIDCRSLETSLVPLSDPKLAVLITNSNVRHSLAS--------SEYPVRRRQCEEV 253
Query: 138 AIVLAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDPVFAVKEFLRKEPYTALDIE 197
A ++L +V
Sbjct: 254 A-------------RALGKESLREV----------------------------------- 265
Query: 198 KITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKL 257
E+L + D+++ + +RA HV E +R L D
Sbjct: 266 --QLEELEAA-------RDLVSK----EGFRRARHVVGEIRRTAQAAA----ALRRGD-Y 307
Query: 258 KKLGDLMNDSHHSCSVLYECS 278
+ G LM +SH S YE S
Sbjct: 308 RAFGRLMVESHRSLRDDYEVS 328
>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 = 77.2 bits (189), Expect = 8e-16
Identities = 56/370 (15%), Positives = 108/370 (29%), Gaps = 106/370 (28%)
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 ALDIEKITEEKLTSIFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVS---S 249
+ + + +KLT+I SSL+VL A+ K+ R + V+ + H +S
Sbjct: 344 WDNWKHVNCDKLTTII---ESSLNVLEPAEYRKMFDRLS-VFPPS--AHIPTILLSLIWF 397
Query: 250 NLSEED------KLKKLGDLMNDSH------HSCSVLYECSITSSARVHEILISMVTIAR 297
++ + D KL K + S + + + + +H ++ I +
Sbjct: 398 DVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPK 457
Query: 298 K--PGHTPPP 305
PP
Sbjct: 458 TFDSDDLIPP 467
Score = 36.0 bits (82), Expect = 0.015
Identities = 23/99 (23%), Positives = 41/99 (41%), Gaps = 15/99 (15%)
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 SSNL--SEEDKLKKLGDLMNDSHHSCSVLYECSITSSAR 284
NL S+ L ++ LM + ++E + R
Sbjct: 556 EENLICSKYTDLLRIA-LMAED----EAIFEEAHKQVQR 589
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite,
transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Length = 332
Score = 65.5 bits (160), Expect = 3e-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
Score = 35.1 bits (81), Expect = 0.021
Identities = 20/82 (24%), Positives = 33/82 (40%), Gaps = 19/82 (23%)
Query: 219 NAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECS 278
+ +L+ H+ S+A+ L + D L++LG LMN +H C + + S
Sbjct: 215 QPVQFKRLYDNYTHIVSQAREA----------LQKGD-LQRLGQLMNANHDLCRQI-DVS 262
Query: 279 ITSSARVHEILISMVTIARKPG 300
L S+V R G
Sbjct: 263 -------CRELESIVQTCRTYG 277
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 61.7 bits (150), Expect = 4e-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
Score = 40.5 bits (95), Expect = 4e-04
Identities = 17/84 (20%), Positives = 30/84 (35%), Gaps = 13/84 (15%)
Query: 217 VLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYE 276
V + K + Q +HV K V D + + L D+ N+ H L
Sbjct: 191 VHDVHKLCEDPQYMSHVKHIGKLVLRASD----VIEHHK-FEALADIFNECHADLKAL-T 244
Query: 277 CSITSSARVHEILISMVTIARKPG 300
S H+ + ++ I ++ G
Sbjct: 245 VS-------HDKIEQLMKIGKENG 261
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET: DP6;
2.50A {Streptococcus pneumoniae}
Length = 292
Score = 60.9 bits (148), Expect = 8e-11
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
Score = 35.8 bits (83), Expect = 0.011
Identities = 13/84 (15%), Positives = 25/84 (29%), Gaps = 15/84 (17%)
Query: 217 VLNAAKQYKLHQRAAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYE 276
+ + K H E + +S++D + LG +++ +H
Sbjct: 179 IQVVQNKGKDALPFLHALGE--LTQQAEI----AISQKD-AEGLGQILSQAHLHLKE-IG 230
Query: 277 CSITSSARVHEILISMVTIARKPG 300
S S+V A G
Sbjct: 231 VS-------SLEADSLVETALSHG 247
>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 = 58.1 bits (141), Expect = 7e-10
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
Score = 38.4 bits (90), Expect = 0.002
Identities = 15/118 (12%), Positives = 31/118 (26%), Gaps = 17/118 (14%)
Query: 185 FLRKEPYTALDIEKITEEKLTS--IFANSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHA 242
++ + + E K I + + ++ E +V
Sbjct: 171 EIKNNKFRKIKGEFEEFLKNCKFLIVYAEKRKKKTAELVNEVAKIENKDEIFKEIDKV-- 228
Query: 243 FKDTVSSNLSEEDKLKKLGDLMNDSHHSCSVLYECSITSSARVHEILISMVTIARKPG 300
+ L ++ + G LM +H S L +V I + G
Sbjct: 229 ----IDEALKIKN-KEDFGKLMTKNHELLKK-LNIS-------TPKLDRIVDIGNRFG 273
>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 = 53.5 bits (128), Expect = 6e-08
Identities = 58/329 (17%), Positives = 109/329 (33%), Gaps = 100/329 (30%)
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 AAHVYSEAKRVHAFKDTVSSNLSEEDKLKKLGDLMN-DSHHSCSVLYECSITSSARVHEI 288
+H+ K+V +S L+N + V ++ +
Sbjct: 357 NSHL-PAGKQVE-----IS--------------LVNGAKNL---V-----VSGPPQS--- 385
Query: 289 LISMVTIARKPGHTPPPTTPPPIQSKTKF 317
L + RK P QS+ F
Sbjct: 386 LYGLNLTLRK-AKAPSGLD----QSRIPF 409
Score = 45.4 bits (107), Expect = 2e-05
Identities = 46/286 (16%), Positives = 85/286 (29%), Gaps = 122/286 (42%)
Query: 65 QFIGTQSGGM---------------DQA-ISIMAKSGF--AELIDFNPIRTTDVQLPAGG 106
Q G+Q GM ++A GF +++ NP+ T G
Sbjct: 1624 Q--GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKG 1681
Query: 107 TFVVAHSLAESLKAITAASNYNNRVV----------------------ECRLT-----AI 139
+ E+ A+ + + ++ T A+
Sbjct: 1682 -----KRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL 1736
Query: 140 VL---AI-----KLGMKPQ----------E-----AISKVKTLSD-VE-----GLCVAFA 170
L A G+ P E +++ V ++ VE G+ + A
Sbjct: 1737 TLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVA 1796
Query: 171 CKNGSS----------DPVFAVKEFLRKEPYTALD--IEKITEE--KLTSIFANSSSSLD 216
+P V +E AL +E++ + L I N
Sbjct: 1797 VPRDELGRSNYGMIAINPG-RVAASFSQE---ALQYVVERVGKRTGWLVEI-VN------ 1845
Query: 217 VLNAA-KQYKLHQRAAHVYS-EAKRVHAFKDTVSSNLSEEDKLKKL 260
N +QY V + + + + DTV++ L+ KL+K+
Sbjct: 1846 -YNVENQQY--------VAAGDLRAL----DTVTNVLN-FIKLQKI 1877
>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 = 52.2 bits (125), Expect = 7e-08
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
Score = 31.4 bits (71), Expect = 0.35
Identities = 9/94 (9%), Positives = 30/94 (31%), Gaps = 14/94 (14%)
Query: 210 NSSSSLDVLNAAKQYKLHQRAAHVYSEAKRVHAFKDTV--SSNLSEEDKLKKLGDLMNDS 267
S SS ++N K+ + + +H K + + + + + ++ +
Sbjct: 206 RSRSSAAIINEQKKNTSEGNQTAI----EAMHKIKQSAIDTKLALLKGDVGEFARILGEG 261
Query: 268 HHS-CSVLYECSITSSARVHEILISMVTIARKPG 300
+ + + + ++ +A G
Sbjct: 262 WENKKKMAGAIT-------NPMIQEAFDVATGAG 288
>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 = 49.2 bits (117), Expect = 7e-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
>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 = 38.3 bits (88), Expect = 0.002
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
>3u1k_A Polyribonucleotide nucleotidyltransferase 1, MITO; RNAse PH, KH
domain, exoribonuclease; HET: CIT; 2.13A {Homo sapiens}
Length = 630
Score = 33.6 bits (78), Expect = 0.079
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 = 33.6 bits (78), Expect = 0.081
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 = 33.6 bits (78), Expect = 0.090
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 = 33.3 bits (77), Expect = 0.098
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 = 33.2 bits (77), Expect = 0.10
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 = 31.8 bits (73), 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
>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 = 31.5 bits (72), Expect = 0.25
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 = 31.1 bits (71), Expect = 0.35
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
>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
>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 = 1.9
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 30 SSSTAFVCSSTVALMAA 46
+ A + +++VAL A
Sbjct: 135 GTRCAGITAASVALADA 151
>3hkm_A OS03G0854200 protein; RNAse PH domain, phosphorylase, hydrolase;
1.98A {Oryza sativa japonica group}
Length = 246
Score = 29.0 bits (65), Expect = 2.0
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
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 29.3 bits (65), Expect = 2.0
Identities = 4/24 (16%), Positives = 6/24 (25%)
Query: 295 IARKPGHTPPPTTPPPIQSKTKFP 318
+ H + P S P
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHMVIP 24
>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 = 2.3
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 30 SSSTAFVCSSTVALMAAFGVEVPKKEIAQ 58
+ 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 = 28.4 bits (64), 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
>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 = 4.3
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
>1uw4_B UPF2, regulator of nonsense transcripts 2; nonsense mediated mRNA
decay protein, RNA-binding protein, N domain, MIF4G
domain; 1.95A {Homo sapiens} SCOP: a.118.1.14
Length = 248
Score = 27.6 bits (61), Expect = 4.5
Identities = 10/36 (27%), Positives = 14/36 (38%)
Query: 274 LYECSITSSARVHEILISMVTIARKPGHTPPPTTPP 309
LY + SA + L S + P +P PP
Sbjct: 111 LYNYRMVESAVIFRTLYSFTSFGVNPDGSPSSLDPP 146
>1uxo_A YDEN protein; hydrolase, A/B hydrolase, esterase, PSI, protein
structure initiative, MCSG, midwest center for
structural genomics; 1.8A {Bacillus subtilis} SCOP:
c.69.1.31
Length = 192
Score = 27.4 bits (60), Expect = 4.6
Identities = 13/98 (13%), Positives = 23/98 (23%)
Query: 81 MAKSGFAELIDFNPIRTTDVQLPAGGTFVVAHSLAESLKAITAASNYNNRVVECRLTAIV 140
M L D+ + T++VAHSL + +
Sbjct: 41 MPNPLQPRLEDWLDTLSLYQHTLHENTYLVAHSLGCPAILRFLEHLQLRAALGGIILVSG 100
Query: 141 LAIKLGMKPQEAISKVKTLSDVEGLCVAFACKNGSSDP 178
A L + + + A +S
Sbjct: 101 FAKSLPTLQMLDEFTQGSFDHQKIIESAKHRAVIASKD 138
>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 = 4.7
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 = 27.7 bits (61), Expect = 5.4
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 = 6.0
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
>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 = 27.2 bits (61), Expect = 6.6
Identities = 10/40 (25%), Positives = 17/40 (42%)
Query: 25 LGSGLSSSTAFVCSSTVALMAAFGVEVPKKEIAQLTCECE 64
GL SS+A V + + + K+E ++ E E
Sbjct: 82 PARGLGSSSAAVVAGIELANTLAELNLSKEEKVRIAAEIE 121
>2buj_A Serine/threonine-protein kinase 16; transferase, ATP-binding,
lipoprotein, myristate, PA phosphorylation; HET: STU;
2.6A {Homo sapiens}
Length = 317
Score = 26.9 bits (60), Expect = 8.6
Identities = 9/68 (13%), Positives = 25/68 (36%), Gaps = 7/68 (10%)
Query: 231 AHVYSEAKRVH-----AFKDTVSSNLSEEDKLKKLGDLMNDSHHSCSV-LYECSITSSAR 284
++V + +H A K + + ++ ++ D+ +H + L +
Sbjct: 43 SYVD-LVEGLHDGHFYALKRILCHEQQDREEAQREADMHRLFNHPNILRLVAYCLRERGA 101
Query: 285 VHEILISM 292
HE + +
Sbjct: 102 KHEAWLLL 109
>1php_A 3-phosphoglycerate kinase; HET: ADP; 1.65A {Geobacillus
stearothermophilus} SCOP: c.86.1.1 PDB: 3b2b_A* 3uwd_A*
Length = 394
Score = 27.1 bits (61), Expect = 8.8
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 104 AGGTFVVAHSLAESLKAIT 122
A GT +A +LAE+L +
Sbjct: 328 AHGTKAIAEALAEALDTYS 346
>2wv0_A YVOA, HTH-type transcriptional repressor YVOA; DNA-binding,
transcription regulation, transcriptional regulator,
GNTR/HUTC family; 2.40A {Bacillus subtilis}
Length = 243
Score = 26.8 bits (60), Expect = 9.0
Identities = 14/64 (21%), Positives = 29/64 (45%), Gaps = 10/64 (15%)
Query: 106 GTFVVAHSLAESLKAITAAS--------NYNNRVVECRLTA--IVLAIKLGMKPQEAISK 155
GTFV + ++L+ +T+ + +R+++ +L LA LG +I K
Sbjct: 71 GTFVSKPKMEQALQGLTSFTEDMKSRGMTPGSRLIDYQLIDSTEELAAILGCGHPSSIHK 130
Query: 156 VKTL 159
+ +
Sbjct: 131 ITRV 134
>3dd6_A Ribonuclease PH; exoribonuclease, tRNA maturation, RNAse PH.,
transferase; 1.70A {Bacillus anthracis}
Length = 255
Score = 26.5 bits (59), Expect = 9.6
Identities = 6/29 (20%), Positives = 17/29 (58%)
Query: 30 SSSTAFVCSSTVALMAAFGVEVPKKEIAQ 58
+ TA + + VA++ AF + +++++
Sbjct: 134 GTRTASITGAYVAMVLAFEKLLQAEKVSK 162
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
0.317 0.130 0.364
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: 4,653,726
Number of extensions: 270036
Number of successful extensions: 665
Number of sequences better than 10.0: 1
Number of HSP's gapped: 640
Number of HSP's successfully gapped: 55
Length of query: 318
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 224
Effective length of database: 4,077,219
Effective search space: 913297056
Effective search space used: 913297056
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: 57 (25.5 bits)