RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017756
(366 letters)
>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 = 275 bits (706), Expect = 1e-91
Identities = 101/291 (34%), Positives = 150/291 (51%), Gaps = 11/291 (3%)
Query: 48 SVKTFAPATVANLGPCFDFLGCAVDGLGDYVSLKVDPSVHPGEVSISEVIGPSKLSKNPL 107
V+ AP T ANLG FD G + D + ++ E+ I EV + +P
Sbjct: 2 KVRVKAPCTSANLGVGFDVFGLCLKEPYDVIEVEAIDD---KEIII-EVDD-KNIPTDPD 56
Query: 108 WNCAGIAAISAMKMLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLP 167
N AGI A + G+ ++++KG+ GSGLGSSAAS+A A A+NE+F L
Sbjct: 57 KNVAGIVAKKMIDDFN-IGKGVKITIKKGVKAGSGLGSSAASSAGTAYAINELFKLNLDK 115
Query: 168 DELVIAGLESEAKVSG-YHADNIAPAIMGGFVLIRSYEPLDLMRLNFPEKKQLLFVLVTP 226
+LV E SG HADN+APAI GGF ++ +YEPL+++ + K L ++ P
Sbjct: 116 LKLVDYASYGELASSGAKHADNVAPAIFGGFTMVTNYEPLEVLHIPIDFK--LDILIAIP 173
Query: 227 EFEAPTKKMRAALPAEVGMPHHIWNCSQAGALVAAVLNGDPVGLGKALSSDKIVEPKRAP 286
TK+ R LP VG+ + N +A +V A+ N D G+ + SDK++EP R
Sbjct: 174 NISINTKEAREILPKAVGLKDLVNNVGKACGMVYALYNKDKSLFGRYMMSDKVIEPVRGK 233
Query: 287 LIPGMEAVKKVAVEAGAYGCTISGAGPTAVAVVDNEEKGKVIGEKMVEAFW 337
LIP +K+ V+ YG TISG+GP+ +A EE + + + +
Sbjct: 234 LIPNYFKIKE-EVKDKVYGITISGSGPSIIAFPK-EEFIDEVENILRDYYE 282
>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 = 264 bits (676), Expect = 4e-87
Identities = 76/312 (24%), Positives = 123/312 (39%), Gaps = 24/312 (7%)
Query: 48 SVKTFAPATVANLGPCFDFLGCAVDGLGDYVSLKVDPSVHPGEVSISEVIGPSKLSKNPL 107
S++ PAT ANLGP FD G A+ L + + + I E + +
Sbjct: 2 SLRIRVPATTANLGPGFDSCGLALT-LYLTLDIGAEAD----SWYI-EHNIGGGIPHDET 55
Query: 108 WNCAGIAAISAMKMLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLP 167
N I L L + +P GLGSS+A+ A N + L
Sbjct: 56 -N----VIIETALNLAPNLTPHHLVMTCDIPPARGLGSSSAAVVAGIELANTLAELNLSK 110
Query: 168 DELVIAGLESEAKVSGYHADNIAPAIMGGFVLIRSYEPLDLMRLNFPEKKQLLFVLVTPE 227
+E V E E H DN+APA++G +V+ + D + + P+
Sbjct: 111 EEKVRIAAEIEG-----HPDNVAPAVLGNWVVGAKLDGEDFYVRHLF--PDCALIAFIPK 163
Query: 228 FEAPTKKMRAALPAEVGMPHHIWNCSQAGALVAAVLNGDPVGLGKALSSDKIVEPKRAPL 287
E T + R LP + + S A ++AA+L D G+ + D E R+ L
Sbjct: 164 AELLTSESRGVLPDTLPFKEAVQASSIANVMIAAILRNDMTLAGEMMERDLWHEKYRSQL 223
Query: 288 IPGMEAVKKVAVEAGAYGCTISGAGPTAVAVVDNEEKGKVIGEKMVEAFWKEGNLKAVSM 347
+P + ++ VA GAY +SGAGPT + + K+ + + A +
Sbjct: 224 VPHLAQIRDVAKNQGAYAACLSGAGPTVLVFAPRN-----LANKLQTSLQTLE-IDADVL 277
Query: 348 VKRLDRVGARLV 359
+ ++ GA +
Sbjct: 278 LLDVEGSGAEVF 289
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite,
transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Length = 332
Score = 87.1 bits (216), Expect = 2e-19
Identities = 55/311 (17%), Positives = 111/311 (35%), Gaps = 48/311 (15%)
Query: 56 TVANLGPCFDFLGCAVDGLGDYVSLKVDPSVHPGEVSISEVIGPSKLSKNPLWNCAGIAA 115
V + + + L+++P V +V P +++
Sbjct: 29 FVVHGAEA---IVAGIS-EYTECRLEINPGVPGLQVDDQRPAIPGYIAQKRDEQIKAHQL 84
Query: 116 ISAMKMLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGL 175
+ + + GL + + L SG+G+SA+ A + A++E++ L +E+ ++
Sbjct: 85 VLDHLKVDLSGDGLKMFIGGPLVPSSGIGASASDVVAFSRALSELYQLNLTDEEVNLSAF 144
Query: 176 ESEAKV----SGYHADNIAPAIMGGFVLIRSYEPLDLMRLNFPEKKQLLFVLVTPEFEAP 231
E SG ADN A A GG +L R + + +++L V+V A
Sbjct: 145 VGEGGYHGTPSG--ADNTA-ATYGGLILYRRQNGKSVFK-PIAFQQRLYLVVVGTGINAS 200
Query: 232 TKKM----RAALPAEVGMPHHIWNCSQAGALV----AAVLNGDPVGLGKAL--------- 274
T K+ + +++ +V A+ GD LG+ +
Sbjct: 201 TAKVVNDVHKMKQQQPVQFKRLYD--NYTHIVSQAREALQKGDLQRLGQLMNANHDLCRQ 258
Query: 275 ---SSDKIVEPKRAPLIPGMEAVKKVAVEAGAYGCTISGAGP--TAVAVVDNEEKGKVIG 329
S ++ E++ + GA G +SG G AVA+ + ++ I
Sbjct: 259 IDVSCREL------------ESIVQTCRTYGALGAKLSGTGRGGIAVALAASSDQRDAIV 306
Query: 330 EKMVEAFWKEG 340
+ + +
Sbjct: 307 KGLKAKCPEAK 317
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 78.6 bits (194), Expect = 1e-16
Identities = 52/295 (17%), Positives = 98/295 (33%), Gaps = 46/295 (15%)
Query: 67 LGCAVDGLGDYVSLKVDPSVHPGEVSISEVIGPSKLSKNPLWNCAGIAAISAMKMLGVRS 126
+ + V ++ S + + G + + L + ++ L +
Sbjct: 30 IAVPFNAGKIKVLIEALESGNYSSIKSDVYDGMLYDAPDHL-----KSLVNRFVELNNIT 84
Query: 127 VGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKV----S 182
L+++++ LP GLGSSAA A A A + G L +EL+ +E S
Sbjct: 85 EPLAVTIQTNLPPSRGLGSSAAVAVAFVRASYDFLGKSLTKEELIEKANWAEQIAHGKPS 144
Query: 183 GYHADNIAPAIMGGFVLIRSYEPLDLMRLNFPEKKQLLFVLVTPEFEAPTKKMRAALPAE 242
G D + G V + L L+ V++ + T++ +
Sbjct: 145 G--IDTQT-IVSGKPVWFQKGHAETLKTLSLD----GYMVVIDTGVKGSTRQAVHDVHKL 197
Query: 243 VGMPHHIWNCSQAGALV----AAVLNGDPVGLGKAL------------SSDKIVEPKRAP 286
P ++ + G LV + + L S DKI
Sbjct: 198 CEDPQYMSHVKHIGKLVLRASDVIEHHKFEALADIFNECHADLKALTVSHDKI------- 250
Query: 287 LIPGMEAVKKVAVEAGAYGCTISGAGP--TAVAVVDNEEKGKVIGEKMVEAFWKE 339
E + K+ E GA ++GAG + + + + K I + + +A
Sbjct: 251 -----EQLMKIGKENGAIAGKLTGAGRGGSMLLLAKDLPTAKNIVKAVEKAGAAH 300
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET: DP6;
2.50A {Streptococcus pneumoniae}
Length = 292
Score = 70.5 bits (173), Expect = 7e-14
Identities = 46/245 (18%), Positives = 88/245 (35%), Gaps = 43/245 (17%)
Query: 114 AAISAMKMLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIA 173
A ++++ L + + ++ +P G+GSSAA + AA AV + + L D L I
Sbjct: 60 AVYASLEYLNITEACIRCEIDSAIPEKRGMGSSAAISIAAIRAVFDYYQADLPHDVLEIL 119
Query: 174 GLESEAKV----SGYHADNIAPAIMGGFVLIRSYEPLDLMRLNFPEKKQLLFVLVTPEFE 229
+E SG D + + + ++ V+
Sbjct: 120 VNRAEMIAHMNPSG--LDAKT-CLSDQPIRFIKNVGFTELEMDLS----AYLVIADTGVY 172
Query: 230 APTKKMRAALPA--EVGMP--HHIWNCSQAGALVAAVLNGDPVGLGKAL----------- 274
T++ + + +P H + +Q A+ D GLG+ L
Sbjct: 173 GHTREAIQVVQNKGKDALPFLHALGELTQQA--EIAISQKDAEGLGQILSQAHLHLKEIG 230
Query: 275 -SSDKIVEPKRAPLIPGMEAVKKVAVEAGAYGCTISGAGP--TAVAVVDNEEKGKVIGEK 331
SS + +++ + A+ GA G +SG G +A+V N + + E+
Sbjct: 231 VSSLEA------------DSLVETALSHGALGAKMSGGGLGGCIIALVTNLTHAQELAER 278
Query: 332 MVEAF 336
+ E
Sbjct: 279 LEEKG 283
>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 = 68.4 bits (168), Expect = 4e-13
Identities = 52/254 (20%), Positives = 91/254 (35%), Gaps = 33/254 (12%)
Query: 115 AISAMKMLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAG 174
A M R+ +S+ ++K +P+ G+ +A AAA VA+N ++ + +L +
Sbjct: 75 AAELMAEHVGRAPDVSIMIDKSIPVAGGMAGGSADAAAVLVAMNSLWELNVPRRDLRMLA 134
Query: 175 LESEAKVSGYHADNIAP-AIMGGFVLIR----SYEPLDLMRLNFPEKKQLLFVLVTPEFE 229
+ V P A+ GG L + +VL +
Sbjct: 135 ARLGSDV---------PFALHGGTALGTGRGEELATVLSR-------NTFHWVLAFADSG 178
Query: 230 APTKKMRAALPAEVGMPHHIWNCSQAGALVAAVLNGDPVGLGKALSSD--KIVEPKRAPL 287
T + L + + G ++AA+ GDP L L ++
Sbjct: 179 LLTSAVYNEL-DRLREVGDPPRLGEPGPVLAALAAGDPDQLAPLLGNEMQAAAVSLD--- 234
Query: 288 IPGMEAVKKVAVEAGAYGCTISGAGPTAVAVVDNEEKGKVIGEKMVEAFWKEGNLKAVSM 347
P + + VEAGA +SG+GPT + + +G ++ A A
Sbjct: 235 -PALARALRAGVEAGALAGIVSGSGPTCAFLCTSASSAIDVGAQLSGAGVCRTVRVATGP 293
Query: 348 VKRLDRVGARLVGS 361
V GAR+V +
Sbjct: 294 VP-----GARVVSA 302
>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 = 66.1 bits (161), Expect = 3e-12
Identities = 53/295 (17%), Positives = 92/295 (31%), Gaps = 44/295 (14%)
Query: 67 LGCAVDGLGDYVSLKV--DPSVHPGEVSISEVIGPSKLSKNPLWNCAGI---AAISAMKM 121
L ++ L Y +++ + +S+ + A + ++
Sbjct: 33 LNATIN-LYAYCTIEETNSGRIEINAYDAQCCKSYLSMSQLEIDGEASLIKGVYNRIIRD 91
Query: 122 LGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKV 181
+ ++ P GSGLG+S+ A E L E E E K
Sbjct: 92 YRLEPKSFKITTYNDAPAGSGLGTSSTMVVCILKAFIEWLSLPLGDYETSRLAYEIERKD 151
Query: 182 SGYHA---DNIAPAIMGGFVLIRSYEPLDLMRLNFPEKKQLLFVLVTPEFEAPTKKMRAA 238
G D A A GGF + + ++ K+ ++ L + T + R++
Sbjct: 152 LGLSGGKQDQYAAA-FGGFNYMEFLQNDLVIVNPLKMKRWIVDELESSMVLYFTGRSRSS 210
Query: 239 L--------------PAEVGMPHHIWNCSQAGALVAAVLNGDPVGLGKAL---------S 275
+ H I A A+L GD + L
Sbjct: 211 AAIINEQKKNTSEGNQTAIEAMHKI--KQSAIDTKLALLKGDVGEFARILGEGWENKKKM 268
Query: 276 SDKIVEPKRAPLIPGMEAVKKVAVEAGAYGCTISGAGP--TAVAVVDNEEKGKVI 328
+ I P ++ VA AGA +SGAG + VV+ K +V+
Sbjct: 269 AGAITNPM-------IQEAFDVATGAGAMAGKVSGAGGGGFIMFVVEPTRKEEVV 316
>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 = 61.5 bits (150), Expect = 7e-11
Identities = 40/263 (15%), Positives = 94/263 (35%), Gaps = 47/263 (17%)
Query: 90 EVSISEVIGPSKLSKNPLWNCAGIAAISAMKMLGVRSVGLSLSLEKGLPLGSGLGSSAAS 149
++++E+ + + C + + G +++ +P+ GLGSSA+
Sbjct: 61 GLNLNEIKNINPNNFGDFKYCLCAIKNTLDYLNIEPKTGFKINISSKIPISCGLGSSASI 120
Query: 150 AAAAAVAVNEMFGNKLLPDELVIAGLESEAKV----SGYHADNIAPAIMGGFVLIRS--Y 203
AV+ + +L DE+ G E ++ S D G + I++ +
Sbjct: 121 TIGTIKAVSGFYNKELKDDEIAKLGYMVEKEIQGKASI--TDTST-ITYKGILEIKNNKF 177
Query: 204 EPLDLMRLNFPEKKQLLFVLVTPEFEAPTKKMRAALPAEVGMPHHIWNCSQAGALV-AAV 262
+ F + + L V T ++ + A++ I+ + ++ A+
Sbjct: 178 RKIKGEFEEFLKNCKFLIVYAEKRK-KKTAELVNEV-AKIENKDEIFK--EIDKVIDEAL 233
Query: 263 LNGDPVGLGKAL------------SS---DKIVEPKRAPLIPGMEAVKKVAVEAGAYGCT 307
+ GK + S+ D+IV+ +G
Sbjct: 234 KIKNKEDFGKLMTKNHELLKKLNISTPKLDRIVD----------------IGNRFGFGAK 277
Query: 308 ISGAGP--TAVAVVDNEEKGKVI 328
++GAG + +V+ E++ +++
Sbjct: 278 LTGAGGGGCVIILVNEEKEKELL 300
>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 = 57.7 bits (140), Expect = 1e-09
Identities = 64/336 (19%), Positives = 114/336 (33%), Gaps = 81/336 (24%)
Query: 67 LGCAVDGLGDYVSLKVDPSVH------PGEVSISEVIGPSKLSKNPLWNCAGIAAISAMK 120
+ A++ L + + V E S + L K W +K
Sbjct: 25 MPMAIN-LYTKIEAEKHGEVILYSEHFGEERKFS----LNDLRKENSWIDYVKGIFWVLK 79
Query: 121 MLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAK 180
G+ + LPLG+GL SSA+ +++++ KL V+ ++E +
Sbjct: 80 ESDYEVGGIKGRVSGNLPLGAGLSSSASFEVGILETLDKLYNLKLDSLSKVLLAKKAENE 139
Query: 181 VSGYH---ADNIAPAIMG--GFVLIRSYEPLDLMRLNFPEKKQLLFV-------LVTPEF 228
G D A + G G V+ LD + FP+ +L L + E+
Sbjct: 140 FVGVPCGILDQFA-VVFGREGNVIFLDTHTLDYEYIPFPKDVSILVFYTGVRRELASSEY 198
Query: 229 EAPTKKMRAALPAEVGMPH---------------------HIWNCSQ-AGALVAAVLNGD 266
+L +G +I + + A+ G+
Sbjct: 199 AERKHIAEESL-KILGKGSSKEVREGELSKLPPLHRKFFGYIVRENARVLEVRDALKEGN 257
Query: 267 PVGLGKALSS----------------DKIVEPKRAPLIPGMEAVKKVAVEAGAYGCTISG 310
+GK L++ D VE A++ GAYG ++G
Sbjct: 258 VEEVGKILTTAHWDLAKNYEVSCKELDFFVE---------------RALKLGAYGARLTG 302
Query: 311 AG--PTAVAVVDNEEKGKVIGEKMVEAFWKEGNLKA 344
AG +A+A+VD E+ + E+++ + K KA
Sbjct: 303 AGFGGSAIALVDKEDAETIG-EEILREYLKRFPWKA 337
>2ww4_A 4-diphosphocytidyl-2C-methyl-D-erythritol kinase; non-mevalonate
pathway, isoprenoid biosynthesis, transferase; HET: ADP;
2.00A {Escherichia coli} PDB: 1oj4_A*
Length = 283
Score = 56.5 bits (137), Expect = 3e-09
Identities = 47/221 (21%), Positives = 77/221 (34%), Gaps = 45/221 (20%)
Query: 128 GLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKVSGYHAD 187
G ++S++K LP+G GLG +++AA VA+N ++ L DEL GL A V
Sbjct: 89 GANISIDKRLPMGGGLGGGSSNAATVLVALNHLWQCGLSMDELAEMGLTLGADV------ 142
Query: 188 NIAPA-IMGGFVLIR----SYEPLDLMRLNFPEKKQLLFVLVTPEFEAPTKKMRAALPAE 242
P + G P+D PEK +++ P PT +
Sbjct: 143 ---PVFVRGHAAFAEGVGEILTPVDP-----PEKW---YLVAHPGVSIPTPVIFKDPELP 191
Query: 243 VGMPHHIWNCSQAGALVAAVLNGDPVGLGKALSSDKIVEPKRAPLIPGMEAVKKVAVEAG 302
P L+ + D E ++AV +E
Sbjct: 192 RNTPKRSIE-----TLLKCEFSND-------------CEVIARKRFREVDAVLSWLLEYA 233
Query: 303 AYGCTISGAGPTAVAVVDNEEKGKVIGEKM---VEAFWKEG 340
++G G A D E + + + E+ + F +G
Sbjct: 234 P--SRLTGTGACVFAEFDTESEARQVLEQAPEWLNGFVAKG 272
>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 = 54.9 bits (133), Expect = 9e-09
Identities = 43/217 (19%), Positives = 73/217 (33%), Gaps = 40/217 (18%)
Query: 128 GLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKV-----S 182
G+ + LEK +P G+GLG ++ AA +A+ ++ +L A V
Sbjct: 76 GVRILLEKRIPEGAGLGGGSSDAAQVLLALQALYP---AEVDLFALARTLGADVPFFLLG 132
Query: 183 GYHADNIAPAIMGGF--VLIRSYEPLDLMRLNFPEKKQLLFVLVTPEFEAPTKKMRAALP 240
A G L +PL L P V+ P PT + A+
Sbjct: 133 R-------GAEARGVGERL----KPLAL-----PPVP---AVVFFPGLRVPTPLVYRAVR 173
Query: 241 AEVGMPHHIWNCSQAGALVAAVLNGDPVGLGKALSSDKIVEPKRAPLIPGMEAVKKVAVE 300
E P A++ A+ G+ +L E L P ++ V+
Sbjct: 174 PEDFGPDLP-----VEAILEALARGEEPPYWNSL------EGPAFRLFPELKEVRGRMRA 222
Query: 301 AGAYGCTISGAGPTAVAVVDNEEKGKVIGEKMVEAFW 337
G G +SG+G + + + + E +
Sbjct: 223 LGLRGVLMSGSGSAFFGLAEGPDHARRAAEALRAWGR 259
>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 = 54.5 bits (132), Expect = 1e-08
Identities = 42/208 (20%), Positives = 78/208 (37%), Gaps = 31/208 (14%)
Query: 128 GLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKVSGYHAD 187
S+ ++K +P G+GLG +++ A VNE+ G+ L +EL AD
Sbjct: 81 NYSIFIQKNIPPGAGLGGGSSNLAVVLKKVNELLGSPLSEEELRELVGS-----IS--AD 133
Query: 188 NIAPAIMGGFVLIR----SYEPLDLMRLNFPEKKQLLFVLVTPEFEAPTKKMRAALPAEV 243
++G + R EP++ K LV P+ + T ++ ++L E
Sbjct: 134 -APFFLLGKSAIGRGKGEVLEPVETE----ISGK---ITLVIPQVSSSTGRVYSSLREEH 185
Query: 244 GMPHHIWNCSQAGALVAAVLNGDPVGLGKALSSDKIVEPKRAPLIPGMEAVKKVAVEAGA 303
+ A + +++G+ + L L P + V + VE
Sbjct: 186 FVTPEY-----AEEKIQRIISGEVEEIENVL------GDIARELYPEINEVYR-FVEYLG 233
Query: 304 YGCTISGAGPTAVAVVDNEEKGKVIGEK 331
+ +SG+G T E+ K +
Sbjct: 234 FKPFVSGSGSTVYFFGGASEELKKAAKM 261
>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 = 53.1 bits (127), Expect = 9e-08
Identities = 51/279 (18%), Positives = 92/279 (32%), Gaps = 89/279 (31%)
Query: 140 GS---GLGSS--AASAAAAAV---A---VNEMFGNKLL------PDELVI--AGLESEAK 180
GS G+G S AA V A + +G +L P L I G + +
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRI 1684
Query: 181 VSGYHADNIAPAIMGGFVLIRSYEPLD--LMRLNFPEKKQLLFV-------LVTPEFEAP 231
Y A + G + ++ ++ F +K LL L E A
Sbjct: 1685 RENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEK-AA 1743
Query: 232 TKKMRAA--LPAEVGMPHHIWNCSQAG-------ALVAAVLNGDPVGLGKALS-SD--KI 279
+ +++ +PA+ AG AL + L +S ++
Sbjct: 1744 FEDLKSKGLIPADATF---------AGHSLGEYAALAS---------LADVMSIESLVEV 1785
Query: 280 VEPKRAPLIPGMEAVKKVAVEAGAYGCTISGAGPTAVAVVDNEEKGKVIGEKM------- 332
V R + AV + + YG + P VA ++E + + E++
Sbjct: 1786 VF-YRGMTM--QVAVPRDELGRSNYG--MIAINPGRVAASFSQEALQYVVERVGKRTGWL 1840
Query: 333 VE-------------AFWKEGNLKAV-SMVKRLDRVGAR 357
VE A G+L+A+ ++ L+ + +
Sbjct: 1841 VEIVNYNVENQQYVAA----GDLRALDTVTNVLNFIKLQ 1875
Score = 44.3 bits (104), Expect = 6e-05
Identities = 66/383 (17%), Positives = 116/383 (30%), Gaps = 120/383 (31%)
Query: 65 DFLGCAVDGLGDYVSLKVD-PSVHPGEVSISEVI-GPSK------LSKNPLWNCAGIAAI 116
D + + + L + + +D V ++I E + PS L P+ +C I I
Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI-SCPLIGVI 244
Query: 117 S------AMKMLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVN---EMFGNKLLP 167
K+LG + G S KG G S A A+A E F +
Sbjct: 245 QLAHYVVTAKLLGF-TPGELRSYLKGA-----TGHSQGLVTAVAIAETDSWESF-FVSVR 297
Query: 168 DELVIA---GLES-EAKVSGYHADNIAPAIMGGFVLIRSYEP---LDLMRLNFPEKKQLL 220
+ + G+ EA Y ++ P+I+ + P L + L ++Q+
Sbjct: 298 KAITVLFFIGVRCYEA----YPNTSLPPSILEDSLENNEGVPSPMLSISNLT---QEQV- 349
Query: 221 FVLVTPEFEAPTKKMRAALPAEVGMPH-HIWNCSQAGALV----AAVLNGDP---VGLGK 272
+ K + LPA I +LV V++G P GL
Sbjct: 350 --------QDYVNKTNSHLPAG---KQVEI-------SLVNGAKNLVVSGPPQSLYGLNL 391
Query: 273 AL-------SSD--KIVEPKRAPLI-------------PGME-AVKKVAVEAGAYGCTIS 309
L D +I +R + A + + + +
Sbjct: 392 TLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN 451
Query: 310 GAGPTAVAVVDNE------EKGKVIGEKMVEA------FWKE--------------GNLK 343
+ V D I E++V+ W+ G
Sbjct: 452 AK-DIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGAS 510
Query: 344 AVS-MVKR-LDRVGARLV--GSV 362
+ + R D G R++ G++
Sbjct: 511 GLGVLTHRNKDGTGVRVIVAGTL 533
>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 = 49.6 bits (118), Expect = 7e-07
Identities = 32/253 (12%), Positives = 69/253 (27%), Gaps = 53/253 (20%)
Query: 126 SVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKVSGYH 185
+ + L GLGSSAA+ A A+ F ++ + S V G
Sbjct: 100 KMVIETELIDQSGAKYGLGSSAAATVAVINALMTKFYPEISMLKKFKLAALSHLVVQGNG 159
Query: 186 --ADNIAPAIMGGFVLIRSYEP----------------------LDLMRLNFPEKKQLLF 221
D + + GG++ +++ L + L P +
Sbjct: 160 SCGDIAS-CMYGGWIAYTTFDQEWVKHRLAYKSLEWFMKEPWPMLQIETLEEPVPTFSVG 218
Query: 222 ----VLVTPEFEAPTKKMRAALPAEVGMP-HHIWNCSQAGALVAAVLNGDPVGLGKAL-- 274
+ T + + + + ++ A D L ++
Sbjct: 219 WTGTPVSTGKLVSQIHAFKQEDSKNYQHFLTRNNEIMK--QIIQAFHTKDEELLYSSIKE 276
Query: 275 ----------SSDKIVEPKRAPLIPGMEAVKKVAVEAGAYGCTISGAGP--TAVAVVDNE 322
+ +E ++ + A G SG+G +A +
Sbjct: 277 NRRILQELGTKAGVNIET------SLLKELADSAENMGG-AGKSSGSGGGDCGIAFSKTK 329
Query: 323 EKGKVIGEKMVEA 335
E + + + +
Sbjct: 330 ELAEKLVNEWEKL 342
>2gs8_A Mevalonate pyrophosphate decarboxylase; streptococcus pyogen
structural genomics, PSI, protein structure initiative;
HET: MSE; 1.50A {Streptococcus pyogenes m1 gas}
Length = 317
Score = 49.2 bits (116), Expect = 9e-07
Identities = 27/283 (9%), Positives = 84/283 (29%), Gaps = 30/283 (10%)
Query: 62 PCFDFLGCAVDGLGDYVSLKVDPSVHPGEVSISEVIGPSKLSKNPLWNCAGIAAISAMKM 121
P + ++ + S+ P + I + +
Sbjct: 33 PSTSSISLTLENMFTTTSVSFLPDTATSDQFYINGILQNDEEHTKISAIIDQFRQPGQAF 92
Query: 122 LGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKV 181
+ + + + +P +GL SS++ +A A +++F +L L A+
Sbjct: 93 VKMET-------QNNMPTAAGLSSSSSGLSALVKACDQLFDTQLDQKAL--------AQK 137
Query: 182 SGYHADNIAPAIMGGFVLIRSYEPLDLMRLNFPEKKQLLFVLVTPEFEAPTKKMRAALPA 241
+ + + + + + G + + ++ K ++ +++ + + + L
Sbjct: 138 AKFASGSSSRSFFGPVAAW-DKDSGAIYKVETDLKMAMIMLVLNAAKKPISSREGMKLCR 196
Query: 242 EVGMPHHIWNCS---QAGALVAAVLNGDPVGLGKALSSDKIVE--------PKRAPLIPG 290
+ W ++ + + +G+ ++ + P + L
Sbjct: 197 DTSTTFDQWVEQSAIDYQHMLTYLKTNNFEKVGQLTEANALAMHATTKTANPPFSYLTKE 256
Query: 291 MEAVKKVAVEAGAYG---CTISGAGPTAVAVVDNEEKGKVIGE 330
+ E G AGP + ++ ++
Sbjct: 257 SYQAMEAVKELRQEGFACYFTMDAGPNVKVLCLEKDLAQLAER 299
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA;
2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Length = 419
Score = 47.8 bits (114), Expect = 3e-06
Identities = 21/85 (24%), Positives = 34/85 (40%), Gaps = 3/85 (3%)
Query: 115 AISAMKMLGVR-SVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIA 173
I +K G G L ++ +P SGL SSA+ V ++++F + ELV
Sbjct: 127 MIVMLKGAGYEIDKGFELLIKGEIPTASGLSSSASLELLVGVVLDDLFNLNVPRLELVQL 186
Query: 174 GLESEAKVSGY--HADNIAPAIMGG 196
G ++E G + G
Sbjct: 187 GQKTENDYIGVNSGILDQFAIGFGE 211
Score = 30.5 bits (69), Expect = 1.0
Identities = 10/54 (18%), Positives = 23/54 (42%), Gaps = 3/54 (5%)
Query: 293 AVKKVAVEAGAYGCTISGAG--PTAVAVVDNEEKGKVIGEKMVEAFWKEGNLKA 344
+ +AG G ++GAG A+A+V ++ + + + + + A
Sbjct: 350 LAETAQKQAGVLGARMTGAGFGGCAIALVAHDNVSAFR-KAVGQVYEEVVGYPA 402
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 47.7 bits (113), Expect = 3e-06
Identities = 40/292 (13%), Positives = 90/292 (30%), Gaps = 38/292 (13%)
Query: 77 YVSLKVDPSVHPGEVSISEVIGPSKLSKNPLWNCAGIAAISAM----KMLGVRSVGLSLS 132
Y+ ++ S + L NP ++ I+ M + G SL+
Sbjct: 35 YMRAEIAFSDS-YRIYSDMFDFAVDLRPNPDYSLI-QETIALMGDFLAVRGQNLRPFSLA 92
Query: 133 LEKGLPLGS---GLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKVSG-YHADN 188
+ + GLGSS + A+ ++ + + L K +
Sbjct: 93 IYGKMEREGKKFGLGSSGSVVVLVVKALLALYNLSVDQNLLFKLTSAVLLKRGDNGSMGD 152
Query: 189 IAPAIMGGFVLIRSYE-------------------PLDLMRLNFPEKKQLLFVLVTPEFE 229
+A VL +S++ + F++ +
Sbjct: 153 LACIAAEDLVLYQSFDRQKVAAWLEEENLATVLERDWGFSISQVKPTLECDFLVGWTKEV 212
Query: 230 APTKKMRAALPAEVGMPHHIWNCSQ--AGALVAAVLNGDPVGLGKAL--SSDKIVEPKRA 285
A + M + + + S+ +LV A+ G + + + +S +
Sbjct: 213 AVSSHMVQQIKQNI--NQNFLTSSKETVVSLVEALEQGKSEKIIEQVEVASKLLEGLSTD 270
Query: 286 PLIPGMEAVKKVAVEAGAYGCTISGAG--PTAVAVVDNEEKGKVIGEKMVEA 335
P + +K+ + + A SGAG +A+ + + K + + +
Sbjct: 271 IYTPLLRQLKEASQDLQAVAK-SSGAGGGDCGIALSFDAQSTKTLKNRWADL 321
>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 = 47.0 bits (112), Expect = 5e-06
Identities = 18/103 (17%), Positives = 32/103 (31%), Gaps = 3/103 (2%)
Query: 83 DPSVHPGEVSIS-EVIGPSKLSKNPLWNCAGIAAISAMKMLGVRSVGLSLSLEKGLPLGS 141
+ + P + S P W I + G S + +PLG
Sbjct: 87 EGADEPQRLQFPLPTAQRSLEPGTPRWANYVKGVIQYYPAAPLP--GFSAVVVSSVPLGG 144
Query: 142 GLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKVSGY 184
GL SSA+ A + ++ + ++E +G
Sbjct: 145 GLSSSASLEVATYTFLQQLCPDSGTIAARAQVCQQAEHSFAGM 187
>3qt5_A Mevalonate diphosphate decarboxylase; GHMP kinase family, lyase;
1.85A {Staphylococcus epidermidis} PDB: 3qt6_A* 3qt7_A*
3qt8_A* 2hk2_A 2hk3_A
Length = 332
Score = 46.1 bits (108), Expect = 8e-06
Identities = 47/318 (14%), Positives = 100/318 (31%), Gaps = 40/318 (12%)
Query: 62 PCFDFLGCAVDGLGDYVSLKVDPSVHPGEVSISEVIGPSKLSKNPLWNCAGIAAISAMKM 121
P + L +D + DP + ++ +K + + ++ ++
Sbjct: 34 PMNNSLSVTLDRFYTETKVTFDPDFTEDCLILNGNEVNAKEKEKIQNYMNIVRDLAGNRL 93
Query: 122 LGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKV 181
+ E +P +GL SSA++ AA A A NE L +L +
Sbjct: 94 ------HARIESENYVPTAAGLASSASAYAALAAACNEALSLNLSDTDL----SRLARRG 143
Query: 182 SGYHADNIAPAIMGGFVL-------IRSY-EPLDLMRLNFPEKKQLLFVLVTPEFEAPTK 233
SG + + +I GGF + SY ++ + + + +
Sbjct: 144 SG----SASRSIFGGFAEWEKGHDDLTSYAHGINSNGWEKDLSMIFVVINNQSKKVSSRS 199
Query: 234 KMRAALPAEVGMPHHIWNCS-QAGALVAAVLNGDPVGLGKALSSD--------KIVEPKR 284
M + + + AV N D LG+ + ++ +P
Sbjct: 200 GMSLTRDTSRFYQYWLDHVDEDLNEAKEAVKNQDFQRLGEVIEANGLRMHATNLGAQPPF 259
Query: 285 APLIPGMEAVKKVAVEAGAYG---CTISGAGPTAVAVVDNEEKGKVIGEKMVEAFWKEGN 341
L+ + + AGP +V+ + K V+ E+ ++ F +
Sbjct: 260 TYLVQESYDAMAIVEQCRKANLPCYFTMDAGPNVKVLVEKKNKQAVM-EQFLKVFDESKI 318
Query: 342 LKAVSMVKRLDRVGARLV 359
+ + G ++
Sbjct: 319 I-----ASDIISSGVEII 331
>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 = 45.3 bits (106), Expect = 2e-05
Identities = 33/246 (13%), Positives = 66/246 (26%), Gaps = 33/246 (13%)
Query: 110 CAGIAAISAMKMLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDE 169
+ + L + E P +GL SSAA AA A+ +++ E
Sbjct: 105 LRKEMESKDASLPTLSQWKLHIVSENNFPTAAGLASSAAGFAALVSAIAKLYQLPQSTSE 164
Query: 170 LVIAGLESEAKVSGYHADNIAPAIMGGFVLIRSYEP---LDLMRLNFPEKK-----QLLF 221
+ + + ++ GG+V + D M + + +
Sbjct: 165 ISRIARKGSG--------SACRSLFGGYVAWEMGKAEDGHDSMAVQIADSSDWPQMKACV 216
Query: 222 VLVTPEFEAPTKKMRAALPAEVGMPHHIWNCSQA----GALVAAVLNGDPVGLGKA--LS 275
++V+ + + L + A++ D K +
Sbjct: 217 LVVSDIKKDVSSTQGMQLTVATSELFKERIEHVVPKRFEVMRKAIVEKDFATFAKETMMD 276
Query: 276 SDKIVEPKRAPLIP----------GMEAVKKVAVEAGAYGCTIS-GAGPTAVAVVDNEEK 324
S+ P + + G + AGP AV E +
Sbjct: 277 SNSFHATCLDSFPPIFYMNDTSKRIISWCHTINQFYGETIVAYTFDAGPNAVLYYLAENE 336
Query: 325 GKVIGE 330
K+
Sbjct: 337 SKLFAF 342
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 42.6 bits (100), Expect = 2e-04
Identities = 14/42 (33%), Positives = 19/42 (45%)
Query: 137 LPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESE 178
+P SGL SS+A A + + G L EL +SE
Sbjct: 158 IPPSSGLSSSSALVCCAGLVTLTVLGRNLSKVELAEICAKSE 199
>3lto_A Mevalonate diphosphate decarboxylase; protein structure initiative
II(PSI II), NYSGXRC, structural genomics; 2.27A
{Legionella pneumophila}
Length = 323
Score = 41.4 bits (96), Expect = 3e-04
Identities = 31/212 (14%), Positives = 66/212 (31%), Gaps = 17/212 (8%)
Query: 129 LSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKVSGYHADN 188
+ P SGL SSA+S AA + I A++S + +
Sbjct: 93 FLIQSSNNFPHSSGLASSASSFAALTKCASIALSELTQKPLPSIDEQ---AQLSRLGSGS 149
Query: 189 IAPAIMGGFVLIRSYEPLDLMRLNFPEKKQLLFVLVTPEFEAPTK-KMRAALPAEVGMPH 247
+ + L + + + L + + + V+ + E E P++ + +
Sbjct: 150 SCRSFYAPWALWTG-DKVSAIDLPYKDLLHQVIVISSQEKEIPSRVAHKLVKTSPFYETR 208
Query: 248 HIWNCSQAGALVAAVLNGDPVGLGK-----ALSSDKIVEPKRAPLI-------PGMEAVK 295
+ L+ A N D + + L ++ + P + ++
Sbjct: 209 SERAEANLKLLLNAFENKDWTSIYQICWHEFLDMHQLFKTCEKPFSYITDNTLHILSVIE 268
Query: 296 KVAVEAGAYGCTISGAGPTAVAVVDNEEKGKV 327
K E G AGP + +++
Sbjct: 269 KFWNEKGDGPVVTMDAGPNVHLLYRSDQTDLA 300
>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 = 39.4 bits (91), Expect = 0.002
Identities = 17/119 (14%), Positives = 34/119 (28%), Gaps = 12/119 (10%)
Query: 72 DGLGDYVSLKVDPSVHPGEVSISEVIGPSKL-SKNPLWNC---AGIAAI-------SAMK 120
+ DP + + + W+ G+ + +
Sbjct: 80 EKNPSITLTNADPKFAQRKFDLPLDGSYMAIDPSVSEWSNYFKCGLHVAHSYLKKIAPER 139
Query: 121 MLGVRSVGLSLSLEKGLPLGSGLGSSAA-SAAAAAVAVNEMFGNKLLPDELVIAGLESE 178
VG + + +P G GL S+ +AA A + N + +L +E
Sbjct: 140 FNNTPLVGAQIFCQSDIPTGGGLSSAFTCAAALATIRANMGKNFDISKKDLTRITAVAE 198
>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 = 36.0 bits (82), Expect = 0.018
Identities = 15/50 (30%), Positives = 21/50 (42%)
Query: 118 AMKMLGVRSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNEMFGNKLLP 167
A+ L + + LP G+GLGSSAA + A A+ P
Sbjct: 118 AICRKQRTLPSLDIMVWSELPPGAGLGSSAAYSVCVAAALLTACEEVTNP 167
>3f0n_A Mevalonate pyrophosphate decarboxylase; cholesterol biosynthesis,
lipid synthesis, lyase, steroid biosynthesis, sterol
biosynthesis; 1.90A {Mus musculus} PDB: 3d4j_A
Length = 414
Score = 34.8 bits (79), Expect = 0.039
Identities = 33/218 (15%), Positives = 64/218 (29%), Gaps = 36/218 (16%)
Query: 138 PLGSGLGSSAASAAAAAVAVNEMFGNKLLPDELVIAGLESEAKVSGYHADNIAPAIMGGF 197
P +GL SSAA A A + +++G + E+ G + + ++ GGF
Sbjct: 133 PTAAGLASSAAGYACLAYTLAQVYGVEGDLSEVARRG-----------SGSACRSLYGGF 181
Query: 198 VLIRSYEPLDLMRLNF----PEKKQLLFVLVTPEFEAPTKKMRAALPAEVGMPHHI---- 249
V + E D PE ++ A K+ + + + +
Sbjct: 182 VEWQMGEQADGKDSIARQIAPEWHWPQLRILILVVSADKKQTGSTVGMQTSVETSTLLKF 241
Query: 250 WNCSQAG----ALVAAVLNGDPVGLGK------------ALSSDKIVEPKRAPLIPGMEA 293
S + + D G + L + + ++
Sbjct: 242 RAESVVPERMKEMTRCIQEQDFQGFAQLTMKDSNQFHATCLDTFPPISYLNDTSRRIIQL 301
Query: 294 VKKVAVEAGAYGCTIS-GAGPTAVAVVDNEEKGKVIGE 330
V + G + AGP AV + + +
Sbjct: 302 VHRFNTHHGQTKVAYTFDAGPNAVIFTLEDTVAEFVAA 339
>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 = 32.6 bits (73), Expect = 0.097
Identities = 7/22 (31%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 172 IAGLESEAKVSGYHADNIAPAI 193
+ L++ K+ Y D+ APA+
Sbjct: 22 LKKLQASLKL--YADDS-APAL 40
Score = 31.5 bits (70), Expect = 0.22
Identities = 9/30 (30%), Positives = 14/30 (46%), Gaps = 6/30 (20%)
Query: 272 KAL-SSDKIVEPKRAPLIPGMEAVKKVAVE 300
K L +S K+ AP + A+ K +E
Sbjct: 23 KKLQASLKLYADDSAPAL----AI-KATME 47
>1vq8_Q 50S ribosomal protein L21E; ribosome 50S, protein-protein
complex, RNA-RNA complex, PROT complex, peptidyl
transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS;
2.20A {Haloarcula marismortui} SCOP: b.34.5.1 PDB:
1vq4_Q* 1vq5_Q* 1vq6_Q* 1vq7_Q* 1s72_Q* 1vq9_Q* 1vqk_Q*
1vql_Q* 1vqm_Q* 1vqn_Q* 1vqo_Q* 1vqp_Q* 1yhq_Q* 1yi2_Q*
1yij_Q* 1yit_Q* 1yj9_Q* 1yjn_Q* 1yjw_Q* 2otj_Q* ...
Length = 96
Score = 29.2 bits (66), Expect = 0.67
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 75 GDYVSLKVDPSVHPG 89
G+ V LK+DPSV G
Sbjct: 37 GEKVHLKIDPSVPNG 51
>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 = 29.8 bits (66), Expect = 1.8
Identities = 11/36 (30%), Positives = 14/36 (38%), Gaps = 8/36 (22%)
Query: 183 GYHADNIAPAIMGGFVLIRS-YEPLDLMRLNFPEKK 217
G+H NI L R + LD F E+K
Sbjct: 478 GHHLKNIEHP--ERMTLFRMVF--LD---FRFLEQK 506
>3ijl_A Muconate cycloisomerase; enolase superfamily, dipeptide epimerase,
L-Pro-D-Glu, nonpr binding; HET: DGL; 1.50A {Bacteroides
thetaiotaomicron} PDB: 3iji_A* 3ijq_A*
Length = 338
Score = 27.9 bits (63), Expect = 4.8
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 10/72 (13%)
Query: 101 KLSKNPLWNCAGIAAISAMKMLGV-RSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNE 159
KL K C G+ A KM+ + ++G+ + + G + SAAS + AV +
Sbjct: 253 KLMK-----CTGMRE--AWKMVTLAHALGMRVMV--GCMTETSCAISAASQFSPAVDFAD 303
Query: 160 MFGNKLLPDELV 171
+ GN L+ ++
Sbjct: 304 LDGNLLISNDRF 315
>1jpd_X L-Ala-D/L-Glu epimerase; enolase superfamily, muconate lactonizing
enzyme subgroup, alpha/beta barrel, structural genomics,
isomerase; 2.60A {Escherichia coli} SCOP: c.1.11.2
d.54.1.1
Length = 324
Score = 28.0 bits (63), Expect = 5.0
Identities = 18/72 (25%), Positives = 28/72 (38%), Gaps = 10/72 (13%)
Query: 101 KLSKNPLWNCAGIAAISAMKMLGV-RSVGLSLSLEKGLPLGSGLGSSAASAAAAAVAVNE 159
KL K G+ A+ + R+ G SL L G L + SAA V+ +
Sbjct: 250 KLDK-----TGGLTE--ALALATEARAQGFSLML--GCMLCTSRAISAALPLVPQVSFAD 300
Query: 160 MFGNKLLPDELV 171
+ G L ++
Sbjct: 301 LDGPTWLAVDVE 312
>2vve_A Spike protein P1; viral stem-receptor binding domain, viral
protein; 1.77A {Pseudoalteromonas phage PM2} PDB: 2vvd_A
Length = 254
Score = 27.8 bits (61), Expect = 5.2
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 70 AVDGLGDYVSLKVDPSVHPGE 90
VDGLGDY S+ V P+ + E
Sbjct: 141 GVDGLGDYTSISVKPAFYITE 161
>2w0c_L Protein 2; virus, member of PRD1-adeno viral lineage,
membrane-containing bacteriophage, virus virion,
membrane; 7.00A {Pseudoalteromonas phage PM2}
Length = 335
Score = 27.8 bits (61), Expect = 5.8
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 70 AVDGLGDYVSLKVDPSVHPGE 90
VDGLGDY S+ V P+ + E
Sbjct: 222 GVDGLGDYTSISVKPAFYITE 242
>3uow_A GMP synthetase; structural genomics consortium, SGC, purine
nucleotide biosy process, ligase; HET: XMP; 2.72A
{Plasmodium falciparum}
Length = 556
Score = 27.9 bits (63), Expect = 6.6
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 318 VVDNEEKGKVIGEKMVEAFWKE 339
V D E+K K+IG+ +E F K
Sbjct: 330 VTDPEQKRKIIGKLFIEEFEKA 351
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces
cerevisiae}
Length = 1219
Score = 27.5 bits (61), Expect = 8.4
Identities = 12/44 (27%), Positives = 16/44 (36%), Gaps = 2/44 (4%)
Query: 285 APLIPGMEAVKKVAVEAGAYGCTISGAGPTAVAVVDNEEKGKVI 328
AP IP + K + + G GA V+ KG I
Sbjct: 504 APFIPNVRDPKIPKILSLTCGQGRFGADAIIAVYVN--RKGDFI 545
>3r0u_A Enzyme of enolase superfamily; structural genomics, putative
epimerase, PSI-biolog YORK structural genomics research
consortium; HET: MSE TAR; 1.90A {Francisella
philomiragia subsp} PDB: 3px5_A* 3r0k_A* 3r10_A 3r11_A
3r1z_A*
Length = 379
Score = 27.3 bits (61), Expect = 8.5
Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 12/79 (15%)
Query: 101 KLSKNPLWNCAGIAAISAMKMLGV-RSVGLSLSLEKGLPLGSGLGSSAASAAAAA--VAV 157
KL+K GI A K+ + S G+S + G + S G A ++ A A + V
Sbjct: 269 KLAK-----TGGILE--AQKIKKLADSAGISCMV--GCMMESPAGILATASFALAEDITV 319
Query: 158 NEMFGNKLLPDELVIAGLE 176
++ + +L +
Sbjct: 320 ADLDPLDWVAKDLYSDYIT 338
>3jva_A Dipeptide epimerase; enolase superfamily, isomerase; 1.70A
{Enterococcus faecalis V583} PDB: 3jw7_A* 3jzu_A*
3k1g_A* 3kum_A*
Length = 354
Score = 27.2 bits (61), Expect = 9.3
Identities = 21/84 (25%), Positives = 36/84 (42%), Gaps = 12/84 (14%)
Query: 101 KLSKNPLWNCAGIAAISAMKMLGV-RSVGLSLSLEKGLPLGSGLGSSAASAAAAA---VA 156
KL K C GI A+K+ + + G+ + + + +G +AA+ AAA +
Sbjct: 264 KLMK-----CGGIHE--ALKINQICETAGIECMIG-CMAEETTIGITAAAHLAAAQKNIT 315
Query: 157 VNEMFGNKLLPDELVIAGLESEAK 180
++ L V G+ EAK
Sbjct: 316 RADLDATFGLETAPVTGGVSLEAK 339
>3d02_A Putative LACI-type transcriptional regulator; periplasmic
sugar-binding protein, structura genomics; HET: MSE GOL;
1.30A {Klebsiella pneumoniae subsp}
Length = 303
Score = 27.0 bits (60), Expect = 9.9
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 290 GMEAVKKVAVEAG----AYGCTISGAGPTAVAVVDNEEKGKVIGEKMVEAFWKEGN 341
+E V K A +AG + V ++DNE+ E M + +G
Sbjct: 74 VLEPVFKKARDAGIVVLTNESPGQPSANWDVEIIDNEKFAAEYVEHMAKRMGGKGG 129
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 0.134 0.395
Gapped
Lambda K H
0.267 0.0502 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,616,577
Number of extensions: 360439
Number of successful extensions: 925
Number of sequences better than 10.0: 1
Number of HSP's gapped: 890
Number of HSP's successfully gapped: 79
Length of query: 366
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 271
Effective length of database: 4,049,298
Effective search space: 1097359758
Effective search space used: 1097359758
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: 58 (26.7 bits)