RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 045151
(387 letters)
>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 = 290 bits (744), Expect = 7e-96
Identities = 147/385 (38%), Positives = 216/385 (56%), Gaps = 17/385 (4%)
Query: 3 VKARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELNFS 62
+ APGK+IL GEHAVVHG A+A ++L T++ LR + + L L ++ +
Sbjct: 6 LLVSAPGKVILHGEHAVVHGKVALAVALNLRTFLVLRPQ----SNGKVSLNLPNVGIKQV 61
Query: 63 WSVTRIK-ATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWLY 121
W V ++ L PT +E +K +A L + E AFL+LY
Sbjct: 62 WDVATLQLLDTGFLEQGDVPAPTLEQLEKLKKVAGLPRDCVGNEG-----LSLLAFLYLY 116
Query: 122 TSII----GFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWL-T 176
+I ++V S+LP GAGLGSSAA+ V + AALL + V +G + +
Sbjct: 117 LAICRKQRTLPSLDIMVWSELPPGAGLGSSAAYSVCVAAALLTACEEVTNPLKDRGSIGS 176
Query: 177 YGESDLDLLNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTCIKSNMPLKMLITN 236
+ E DL +NKWA+EGE++IHG PSG+DN+VST+G ++++ G M+ +K L++L+TN
Sbjct: 177 WPEEDLKSINKWAYEGERVIHGNPSGVDNSVSTWGGALRYQQGKMSSLKRLPALQILLTN 236
Query: 237 TKVGRNTRALVAGVSERSMRHPDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEERL 296
TKV R+T+ALVAGV R ++ P+ M+ + ++D+IS E ++ + E+ L
Sbjct: 237 TKVPRSTKALVAGVRSRLIKFPEIMAPLLTSIDAISLECERVLGEMAAAPVP--EQYLVL 294
Query: 297 EELMEMNQGLLQCMGVSHSSIETVLRTTLKFKLASKLTGAGGGGCALTLLPTLLSATVVE 356
EELM+MNQ L +GV H+S++ + + T L SKLTGAGGGGC +TLL L VE
Sbjct: 295 EELMDMNQHHLNALGVGHASLDQLCQVTAAHGLHSKLTGAGGGGCGITLLKPGLERAKVE 354
Query: 357 KVTTELETCGFQCLIAGIGGTGVEV 381
L CGF C IG GV +
Sbjct: 355 AAKQALTGCGFDCWETSIGAPGVSM 379
>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 = 238 bits (610), Expect = 1e-76
Identities = 80/375 (21%), Positives = 146/375 (38%), Gaps = 74/375 (19%)
Query: 2 EVKARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELNF 61
+ P K+IL GEHAVV+G A++ IDL + + ++ + +D + L L D+ +
Sbjct: 5 HMIIETPSKVILFGEHAVVYGYRAISMAIDLTSTIEIK-ET---QEDEIILNLNDLNKSL 60
Query: 62 SWSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWLY 121
++ IK + F + +I +D Y
Sbjct: 61 GLNLNEIKNINPNNFGDFK--------YCLCAIKNTLD---------------------Y 91
Query: 122 TSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGESD 181
+I + ++S +P+ GLGSSA+ + A+ + L
Sbjct: 92 LNIEPKTGFKINISSKIPISCGLGSSASITIGTIKAVS-GFYNKELKD------------ 138
Query: 182 LDLLNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTCIKSNMPL------KMLIT 235
D + K + EK I GK S D + TY I++ ++ IK +++
Sbjct: 139 -DEIAKLGYMVEKEIQGKASITDTSTITYKGILEIKNNKFRKIKGEFEEFLKNCKFLIVY 197
Query: 236 NTKVGRNTRALVAGVSERSMRHPDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEER 295
K + T LV V++ + I KE+ +I+ + + +E
Sbjct: 198 AEKRKKKTAELVNEVAKIENKDE------------IFKEIDKVID-----EALKIKNKED 240
Query: 296 LEELMEMNQGLLQCMGVSHSSIETVLRTTLKFKLASKLTGAGGGGCALTLLPTLLSATVV 355
+LM N LL+ + +S ++ ++ +F +KLTGAGGGGC + L+
Sbjct: 241 FGKLMTKNHELLKKLNISTPKLDRIVDIGNRFGFGAKLTGAGGGGCVIILVNE----EKE 296
Query: 356 EKVTTELETCGFQCL 370
+++ EL +
Sbjct: 297 KELLKELNKEDVRIF 311
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite,
transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Length = 332
Score = 230 bits (589), Expect = 3e-73
Identities = 83/373 (22%), Positives = 137/373 (36%), Gaps = 72/373 (19%)
Query: 1 MEVKARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELN 60
K GK+IL GEH VVHG+ A+ A I YT L + L + D
Sbjct: 12 TTGKNIGYGKVILFGEHFVVHGAEAIVAGISEYTECRLE-INPGVPG----LQVDDQRPA 66
Query: 61 FSWSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWL 120
+ + +I L +
Sbjct: 67 IPGYIA-----------------------------------QKRDEQIKAHQLVLDHLKV 91
Query: 121 YTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGES 180
S G K + + L +G+G+SA+ V+ + AL
Sbjct: 92 DLSGDGLK---MFIGGPLVPSSGIGASASDVVAFSRALSELYQL--------------NL 134
Query: 181 DLDLLNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTC----IKSNMPLKMLITN 236
+ +N AF GE HG PSG DNT +TYG +I +R N I L +++
Sbjct: 135 TDEEVNLSAFVGEGGYHGTPSGADNTAATYGGLILYRRQNGKSVFKPIAFQQRLYLVVVG 194
Query: 237 TKVGRNTRALVAGVSERSMRHPDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEERL 296
T + +T +V V + + P +++ I + ++ DL +RL
Sbjct: 195 TGINASTAKVVNDVHKMKQQQPVQFKRLYDNYTHIVSQAREALQK---GDL------QRL 245
Query: 297 EELMEMNQGLLQCMGVSHSSIETVLRTTLKF-KLASKLTGAGGGGCALTLLPTLLSA-TV 354
+LM N L + + VS +E++++T + L +KL+G G GG A+ L + +
Sbjct: 246 GQLMNANHDLCRQIDVSCRELESIVQTCRTYGALGAKLSGTGRGGIAVALAASSDQRDAI 305
Query: 355 VEKVTTELETCGF 367
V+ + + F
Sbjct: 306 VKGLKAKCPEAKF 318
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 223 bits (570), Expect = 9e-71
Identities = 89/379 (23%), Positives = 136/379 (35%), Gaps = 78/379 (20%)
Query: 1 MEVKARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELN 60
+ + GKIIL GEHAV G A+A + L +S +
Sbjct: 5 RKGYGESTGKIILIGEHAVTFGEPAIAVPFNAGKIKVLIEALESGN-------------- 50
Query: 61 FSWSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWL 120
SI V + + +A L S F+ L
Sbjct: 51 ------------------------------YSSIKSDVYDGMLYDAPDHLKSLVNRFVEL 80
Query: 121 YTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGES 180
V + ++LP GLGSSAA V+ A L K
Sbjct: 81 NNITEPLA---VTIQTNLPPSRGLGSSAAVAVAFVRASY-DFLGKSLTK----------- 125
Query: 181 DLDLLNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTCIKS-NMPLKMLITNTKV 239
+ L + A E+I HGKPSG+D G + F+ G+ +K+ ++ M++ +T V
Sbjct: 126 --EELIEKANWAEQIAHGKPSGIDTQTIVSGKPVWFQKGHAETLKTLSLDGYMVVIDTGV 183
Query: 240 GRNTRALVAGVSERSMRHPDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEERLEEL 299
+TR V V + S + + S +IE E L ++
Sbjct: 184 KGSTRQAVHDV--HKLCEDPQYMSHVKHIGKLVLRASDVIEHHKF---------EALADI 232
Query: 300 MEMNQGLLQCMGVSHSSIETVLRTTLKF-KLASKLTGAGGGGCALTLLPTLLSATVVEKV 358
L+ + VSH IE +++ + +A KLTGAG GG L L L +A + +
Sbjct: 233 FNECHADLKALTVSHDKIEQLMKIGKENGAIAGKLTGAGRGGSMLLLAKDLPTA---KNI 289
Query: 359 TTELETCG-FQCLIAGIGG 376
+E G I +GG
Sbjct: 290 VKAVEKAGAAHTWIENLGG 308
>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 = 209 bits (532), Expect = 1e-64
Identities = 77/413 (18%), Positives = 137/413 (33%), Gaps = 97/413 (23%)
Query: 3 VKARAPGKIILAGEHAVVH-GSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELNF 61
++ + PGK+ +AGE+AVV G TA+ ++ Y ++L + +L + E
Sbjct: 7 LQVKIPGKLYVAGEYAVVESGHTAILTAVNRYITLTLEDSERN------ELWIPHYENPV 60
Query: 62 SWSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWLY 121
SW I L G + ++I + +L
Sbjct: 61 SW---PIGGELKPDGEHWTF--------TAEAINIATT-------------------FLK 90
Query: 122 TSIIGFKPATVVVTSDLP----LGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTY 177
+ I P +V+ ++L GLGSSAA V++ AL+
Sbjct: 91 SEGIELTPVKMVIETELIDQSGAKYGLGSSAAATVAVINALMTKFY-------------- 136
Query: 178 GESDLDLLNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTCIKSNMP-------- 229
E + K A ++ G S D YG I + + + +K +
Sbjct: 137 PEISMLKKFKLAALSHLVVQGNGSCGDIASCMYGGWIAYTTFDQEWVKHRLAYKSLEWFM 196
Query: 230 ----------------LKMLITNTKVGRNTRALVAGVSERSMRHPDAMSSVFNAVDSISK 273
+ T +T LV+ + + I K
Sbjct: 197 KEPWPMLQIETLEEPVPTFSVGWTGTPVSTGKLVSQIHAFKQEDSKNYQHFLTRNNEIMK 256
Query: 274 ELSTIIESPTPDDLSITEKEERLEELMEMNQGLLQCMG------VSHSSIETVLRTTLKF 327
++ T+ EE L ++ N+ +LQ +G + S ++ + +
Sbjct: 257 QIIQAFH---------TKDEELLYSSIKENRRILQELGTKAGVNIETSLLKELADSAENM 307
Query: 328 KLASKLTGAGGGGCALTLLPTLLSATVVEKVTTELETCGFQCLIAGIGGTGVE 380
A K +G+GGG C + T + EK+ E E G + L G +
Sbjct: 308 GGAGKSSGSGGGDCGIAFSKT---KELAEKLVNEWEKLGIKHLPFHTGRVQIT 357
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET: DP6;
2.50A {Streptococcus pneumoniae}
Length = 292
Score = 194 bits (494), Expect = 1e-59
Identities = 70/366 (19%), Positives = 124/366 (33%), Gaps = 90/366 (24%)
Query: 5 ARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELNFSWS 64
+A KIIL GEHAVV+G A++ + P++S E S +
Sbjct: 8 GQAHSKIILIGEHAVVYGYPAISLPLLEVEVTCKVVPAESP-------WRLYEEDTLSMA 60
Query: 65 VTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWLYTSI 124
V L+ +
Sbjct: 61 VYASLEYLNITEACI--------------------------------------------- 75
Query: 125 IGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGESDLDL 184
+ S +P G+GSSAA ++ A+ + D+
Sbjct: 76 ------RCEIDSAIPEKRGMGSSAAISIAAIRAVFDYYQ--------------ADLPHDV 115
Query: 185 LNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKF-RSGNMTCIKSNMPLKMLITNTKVGRNT 243
L E I H PSGLD I+F ++ T ++ ++ ++I +T V +T
Sbjct: 116 LEILVNRAEMIAHMNPSGLDAKTCLSDQPIRFIKNVGFTELEMDLSAYLVIADTGVYGHT 175
Query: 244 RALVAGVSERSMRHPDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEERLEELMEMN 303
R + V + +A+ ++++ I D E L +++
Sbjct: 176 REAIQVVQNK----GKDALPFLHALGELTQQAEIAISQ---KDA------EGLGQILSQA 222
Query: 304 QGLLQCMGVSHSSIETVLRTTLKF-KLASKLTGAGGGGCALTLLPTLLSATVVEKVTTEL 362
L+ +GVS ++++ T L L +K++G G GGC + L+ T +++ L
Sbjct: 223 HLHLKEIGVSSLEADSLVETALSHGALGAKMSGGGLGGCIIALVTN---LTHAQELAERL 279
Query: 363 ETCGFQ 368
E G
Sbjct: 280 EEKGAV 285
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 164 bits (416), Expect = 1e-47
Identities = 59/400 (14%), Positives = 117/400 (29%), Gaps = 105/400 (26%)
Query: 1 MEVKARAPGKIILAGEHAVVH-GSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMEL 59
M + + GK+ AGE+A++ G A+ I +Y + F + D+
Sbjct: 2 MMIAVKTCGKLYWAGEYAILEPGQLALIKDIPIYMRAEIAFSDSYRIYSDMFDFAVDLRP 61
Query: 60 NFSWSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLW 119
N +S+ + E I + + +
Sbjct: 62 NPDYSLIQ---------------------ETIALMGDFLAVRGQN--------------- 85
Query: 120 LYTSIIGFKPATVVVTSDLPLGA---GLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLT 176
+P ++ + + GLGSS + V + ALL N
Sbjct: 86 -------LRPFSLAIYGKMEREGKKFGLGSSGSVVVLVVKALLALYN------------- 125
Query: 177 YGESDLDLLNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTC------------- 223
D +LL K S D +++ ++S +
Sbjct: 126 -LSVDQNLLFKLTSAVLLKRGDNGSMGDLACIAAEDLVLYQSFDRQKVAAWLEEENLATV 184
Query: 224 -----------IKSNMPLKMLITNTKVGRNTRALVAGVSERSMRHPDAMSSVFNAVDSIS 272
+K + L+ TK + +V + + ++ +
Sbjct: 185 LERDWGFSISQVKPTLECDFLVGWTKEVAVSSHMVQQIKQNINQN------FLTSSKETV 238
Query: 273 KELSTIIESPTPDDLSITEKEERLEELMEMNQGLLQCMGVS--HSSIETVLRTTLKFKLA 330
L +E K E++ E +E+ LL+ + + + + +
Sbjct: 239 VSLVEALE---------QGKSEKIIEQVEVASKLLEGLSTDIYTPLLRQLKEASQDLQAV 289
Query: 331 SKLTGAGGGGCALTLLPTLLSATVVEKVTTELETCGFQCL 370
+K +GAGGG C + L A + + G + L
Sbjct: 290 AKSSGAGGGDCGIALSF---DAQSTKTLKNRWADLGIELL 326
>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 = 112 bits (282), Expect = 3e-28
Identities = 59/400 (14%), Positives = 127/400 (31%), Gaps = 86/400 (21%)
Query: 3 VKARAPGKIILAG------EHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKD 56
V+++AP ++ LAG ++ ++G + A I+LY Y ++ + +++ D
Sbjct: 4 VRSKAPLRLGLAGGGSDVSPYSDIYGGLILNATINLYAYCTIEE----TNSGRIEINAYD 59
Query: 57 MELNFSWSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATA 116
+ S+ +IK + +
Sbjct: 60 AQCCKSYLS-------------MSQLEIDGEASLIKGVYNRIIRD--------------- 91
Query: 117 FLWLYTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLT 176
FK + +D P G+GLG+S+ V + A S+ L L
Sbjct: 92 ---YRLEPKSFK---ITTYNDAPAGSGLGTSSTMVVCILKA-FIEWLSLPLGDYETSRL- 143
Query: 177 YGESDLDLLNKWAFEGEKIIHGKPSGL-DNTVSTYG--NIIKFRSGNMTCIK----SNMP 229
A+E E+ G G D + +G N ++F ++ +
Sbjct: 144 ------------AYEIERKDLGLSGGKQDQYAAAFGGFNYMEFLQNDLVIVNPLKMKRWI 191
Query: 230 LKMLITN-----TKVGRNTRALVAGVSERSMRHPDAMSSVFNAVDSISKELSTIIESPTP 284
+ L ++ T R++ A++ + + + + + + +
Sbjct: 192 VDELESSMVLYFTGRSRSSAAIINEQKKNTSEGNQTAIEAMHKIKQSAIDTKLALLK--- 248
Query: 285 DDLSITEKEERLEELMEMNQGLLQCM--GVSHSSIETVLRTTLKF-KLASKLTGAGGGGC 341
D+ ++ + M +++ I+ +A K++GAGGGG
Sbjct: 249 GDV------GEFARILGEGWENKKKMAGAITNPMIQEAFDVATGAGAMAGKVSGAGGGGF 302
Query: 342 ALTLLPTLLSATVVEKVTTELETCGFQCLIAGIGGTGVEV 381
+ ++ T E+V L + G
Sbjct: 303 IMFVVEP----TRKEEVVRALNNLNGFVMPFQFIDDGAHG 338
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA;
2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Length = 419
Score = 78.6 bits (194), Expect = 3e-16
Identities = 69/395 (17%), Positives = 130/395 (32%), Gaps = 90/395 (22%)
Query: 5 ARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELNFSWS 64
+PG+I L GEH +G A I + T R + D +KL ++
Sbjct: 51 FFSPGRINLIGEHTDYNGGYVFPASITIGTTGLAR-LRE---DKKVKLYSENFPKLGVIE 106
Query: 65 VTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWLYTSI 124
L + +K + + A + G
Sbjct: 107 FD-----LDEVEKK----DGELWSNYVKGMI-----VMLKGAGYEIDKGFEL-------- 144
Query: 125 IGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGESDLDL 184
++ ++P +GL SSA+ + L +L L ++++ + +L
Sbjct: 145 --------LIKGEIPTASGLSSSASLEL-LVGVVLDDLFNLNVPR----------LELVQ 185
Query: 185 LNKWAFEGEKIIHGKPSGL-DNTVSTYGNIIK-----FRSGNMTCIKSNMP-LKMLITNT 237
L + E G SG+ D +G + K + + + ++I NT
Sbjct: 186 LGQKT---ENDYIGVNSGILDQFAIGFGEVKKAIELDCNTLKYEMVPVELRDYDIVIMNT 242
Query: 238 KVGRNTRALVAG-VSERSMRHPDAMSSV--FNAVDSIS----KELSTIIESPTPDDLS-- 288
R AL +ER +A+ + + S+ +E + + L
Sbjct: 243 NKPR---ALTESKYNERFAETREALKRMQTRLDIQSLGELSNEEFDANTDLIGDETLIKR 299
Query: 289 ----ITEKEERLEELME-MNQG----LLQCMGVSHSS-----------IETVLRTTLKFK 328
+ E R + + G + + SH+S ++T+ T K
Sbjct: 300 ARHAVYE-NNRTKIAQKAFVAGNLTKFGELLNASHASLKDDYEVTGLELDTLAETAQKQA 358
Query: 329 --LASKLTGAGGGGCALTLLPTLLSATVVEKVTTE 361
L +++TGAG GGCA+ L+ + + V
Sbjct: 359 GVLGARMTGAGFGGCAIALVAHDNVSAFRKAVGQV 393
>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 = 75.4 bits (186), Expect = 3e-15
Identities = 77/421 (18%), Positives = 138/421 (32%), Gaps = 116/421 (27%)
Query: 3 VKARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELNFS 62
+K ++PG++ L GEH + I+LYT + + L +
Sbjct: 2 IKVKSPGRVNLIGEHTDYTYGYVMPMAINLYTKIEAE------KHGEVILYSEHFGEERK 55
Query: 63 WSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWLYT 122
+S+ ++ ++ +K I ++ E +
Sbjct: 56 FSLNDLR-------------KENSWIDYVKGIFWVLKESDYE------------------ 84
Query: 123 SIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGESDL 182
+ G K V+ +LPLGAGL SSA+F V L L ++ LD
Sbjct: 85 -VGGIK---GRVSGNLPLGAGLSSSASFEV-GILETLDKLYNLKLDS----------LSK 129
Query: 183 DLLNKWAFEGEKIIHGKPSG-LDNTVSTYGN-----IIKFRSGNMTCIKSNMPLKMLITN 236
LL K A E G P G LD +G + + + I + +L+
Sbjct: 130 VLLAKKA---ENEFVGVPCGILDQFAVVFGREGNVIFLDTHTLDYEYIPFPKDVSILVFY 186
Query: 237 TKVGRNTRALVAGVSERSMRHPDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEERL 296
T V R SS + I++E I+ + ++ E +
Sbjct: 187 TGVRREL-----------------ASSEYAERKHIAEESLKILGKGSSKEVREGELSKLP 229
Query: 297 EEL-------MEMNQ---------------GLLQCMGVSHSS-----------IETVLRT 323
+ N + + + +H ++ +
Sbjct: 230 PLHRKFFGYIVRENARVLEVRDALKEGNVEEVGKILTTAHWDLAKNYEVSCKELDFFVER 289
Query: 324 TLKFK-LASKLTGAGGGGCALTLLPTLLSATVVEKVTTE-LETCGFQ--CLIAGIG-GTG 378
LK ++LTGAG GG A+ L+ + T+ E++ E L+ ++ I G G
Sbjct: 290 ALKLGAYGARLTGAGFGGSAIALVDKEDAETIGEEILREYLKRFPWKARHFIVEPSDGVG 349
Query: 379 V 379
+
Sbjct: 350 I 350
>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 = 68.6 bits (168), Expect = 6e-13
Identities = 66/420 (15%), Positives = 125/420 (29%), Gaps = 111/420 (26%)
Query: 2 EVKARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELNF 61
E+ APG++ L GEH + + ++L T + P D + L+
Sbjct: 36 ELAVSAPGRVNLIGEHTDYNQGLVLPMALELMTVLVGS-PRK---DGLVSLL-------- 83
Query: 62 SWSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWLY 121
+T + ++++ ++ + Y
Sbjct: 84 -------------------TTSEGADEPQRLQFPLPTAQRSLEPGTPRWANYVKGVIQYY 124
Query: 122 TSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGESD 181
+ + VV S +PLG GL SSA+ V T L L
Sbjct: 125 PAA-PLPGFSAVVVSSVPLGGGLSSSASLEV-ATYTFLQQLCPDSGT------------I 170
Query: 182 LDLLNKWAFEGEKIIHGKPSGL-DNTVSTYG---NIIKFRSGNMTCIKSNMPL---KMLI 234
+ + E G P G+ D +S G + + ++ + +LI
Sbjct: 171 AARA-QVCQQAEHSFAGMPCGIMDQFISLMGQKGHALLIDCRSLETSLVPLSDPKLAVLI 229
Query: 235 TNTKVGRNTRALVAGVSERSMRHPDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEE 294
TN+ V RH A SS + +E++ + + ++ + E E
Sbjct: 230 TNSNV----------------RHSLA-SSEYPVRRRQCEEVARALGKESLREVQLEELEA 272
Query: 295 RLEEL-----------MEMNQ---------------GLLQCMGVSHSS-----------I 317
+ + + + + M SH S +
Sbjct: 273 ARDLVSKEGFRRARHVVGEIRRTAQAAAALRRGDYRAFGRLMVESHRSLRDDYEVSCPEL 332
Query: 318 ETVLRTTLKFK--LASKLTGAGGGGCALTLLPTLLSATVVEKVTTE--LETCGFQCLIAG 373
+ ++ L S++TG G GGC +TLL + + + + A
Sbjct: 333 DQLVEAALAVPGVYGSRMTGGGFGGCTVTLLEASAAPHAMRHIQEHYGGTATFYLSQAAD 392
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 56.4 bits (136), Expect = 6e-09
Identities = 57/321 (17%), Positives = 100/321 (31%), Gaps = 97/321 (30%)
Query: 121 YTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGES 180
+++ G +V ++P +GL SS+A L ++ +L K
Sbjct: 144 LSNLTGMN---CLVDGNIPPSSGLSSSSALVCCAGLVTL-TVLGRNLSKVELA------- 192
Query: 181 DLDLLNKWAFEGEKIIHGKPSGLDNTVSTYGN-----IIKFRSGNMTCIKSNMPLKMLIT 235
+ + E+ I + G+D ++S +I+F T +K +I
Sbjct: 193 ------EICAKSERYIGTEGGGMDQSISFLAEEGTAKLIEFSPLRATDVKLPSGAVFVIA 246
Query: 236 NTKVGR--------NTR------------------------------ALVAGVSERSMRH 257
N+ V N R L + E +
Sbjct: 247 NSCVEMNKAATSHFNIRVMECRLAAKLLAKYKSLQWDKVLRLEEVQAKLGISLEEMLLVT 306
Query: 258 PDAMSSVFNAVDSISKELSTIIESPTPDDLS------------------ITEKE------ 293
DA+ + I + L +E LS +E
Sbjct: 307 EDALHPEPYNPEEICRCLGISLEELRTQILSPNTQDVLIFKLYQRAKHVYSEAARVLQFK 366
Query: 294 ERLEELMEMN-QGLLQCMGVSHSS-----------IETVLRTTLKFK-LASKLTGAGGGG 340
+ EE E Q L + M SH S ++ ++ KF S+LTGAG GG
Sbjct: 367 KICEEAPENMVQLLGELMNQSHMSCRDMYECSCPELDQLVDICRKFGAQGSRLTGAGWGG 426
Query: 341 CALTLLPTLLSATVVEKVTTE 361
C ++++P + + V
Sbjct: 427 CTVSMVPADKLPSFLANVHKA 447
>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 = 55.5 bits (133), Expect = 1e-08
Identities = 47/265 (17%), Positives = 82/265 (30%), Gaps = 56/265 (21%)
Query: 2 EVKARAPGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDTLKLVLKDMELNF 61
+ AR+PG++ L GEH + + ID+ +++ D+ + L N
Sbjct: 39 DFIARSPGRVNLIGEHIDYCDFSVLPLAIDVDMLCAVKI----LDEKNPSITL----TNA 90
Query: 62 SWSVTRIKATLSHLGSPFPSTPTTCS-----MEVIKSIAVLVDEQNIPEAKIGLSSGATA 116
+ K L GS P+ + + +
Sbjct: 91 DPKFAQRKFDLPLDGSYMAIDPSVSEWSNYFKCGLHVAHSYLKKIAPERFN--------- 141
Query: 117 FLWLYTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLT 176
T ++G + + SD+P G GL S+ +L + + K
Sbjct: 142 ----NTPLVGAQ---IFCQSDIPTGGGLSSAFTCAAALATIRANMGKNFDISK------- 187
Query: 177 YGESDLDLLNKWAFEGEKIIHGKPSG-LDNTVSTYGN-----IIKFRSGNMTCIKSNMP- 229
DL + A E + G +G +D S YG ++FR + P
Sbjct: 188 ---KDLTRITAVA---EHYV-GVNNGGMDQATSVYGEEDHALYVEFRP-KLKATPFKFPQ 239
Query: 230 -----LKMLITNTKVGRNTRALVAG 249
+ +I NT V N
Sbjct: 240 LKNHEISFVIANTLVKSNKFETAPT 264
Score = 37.1 bits (85), Expect = 0.009
Identities = 20/98 (20%), Positives = 35/98 (35%), Gaps = 3/98 (3%)
Query: 285 DDLSITEKEERLEELMEMNQGLLQCM-GVSHSSIETVLRTTLKFK-LASKLTGAGGGGCA 342
+ + LM +Q + S + L S+LTGAG GGC
Sbjct: 407 TFHTDEDFFTDFGRLMNESQASCDKLYECSCIETNQICSIALANGSFGSRLTGAGWGGCT 466
Query: 343 LTLLPTLLSATVVEKVTTELETCGFQCLIAGIGGTGVE 380
+ L+P+ + VE+V L + + ++
Sbjct: 467 IHLVPSGANGN-VEQVRKALIEKFYNVRYPDLTDEELK 503
>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 = 55.6 bits (133), Expect = 1e-08
Identities = 61/388 (15%), Positives = 127/388 (32%), Gaps = 116/388 (29%)
Query: 51 KLVLKDMELNFSWSVTRIKATLSHLGSPFPSTPTTC---SMEVIKSIAVLVDEQNIPEAK 107
K V + + +N+ + ++ IK PS T + + + + + N+ +
Sbjct: 81 KFVEEVLRINYKFLMSPIKTEQRQ-----PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 108 IGLSSGATAFLWLYTSIIGFKPAT-VVVTSDLPLG-AGLGSSAAFCVSLTAALLGSLNSV 165
+L L +++ +PA V++ G G G + + + S V
Sbjct: 136 --------PYLKLRQALLELRPAKNVLID-----GVLGSGKT-----WVALDVCLS-YKV 176
Query: 166 HLDKNHQG-WLTYG-----ESDLDLLNKWAFEGEKIIHGKPSG----------------- 202
+ + WL E+ L++L K ++ + +
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 203 -------------LDNTVSTYGNIIK-FRSGNMTCIKSNMPLKMLITNTKVGRNTRALVA 248
L N V F N++C K+L+T T+ + T L A
Sbjct: 237 LLKSKPYENCLLVLLN-VQN-AKAWNAF---NLSC-------KILLT-TRFKQVTDFLSA 283
Query: 249 G-VSERSMRH------PDAMSSVF-NAVDSISKELSTIIESPTPDDLSITEKEERLEELM 300
+ S+ H PD + S+ +D ++L + + P LSI E + + +
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSII--AESIRDGL 341
Query: 301 EMNQGLLQCMGVSHSSIETVLRTTLK----------FK-LA-----SKLTGAGGGGCALT 344
V+ + T++ ++L F L+ + + L+
Sbjct: 342 ATWDNWKH---VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI-----LLS 393
Query: 345 LLPTLLSATVVEKVTTELETCGFQCLIA 372
L+ + + V V +L L+
Sbjct: 394 LIWFDVIKSDVMVVVNKLHK---YSLVE 418
Score = 35.6 bits (81), Expect = 0.027
Identities = 28/156 (17%), Positives = 49/156 (31%), Gaps = 54/156 (34%)
Query: 258 PDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEERLEELMEMNQGLLQCMGVSHSSI 317
D S+ + +E+ II S RL + Q + +
Sbjct: 39 QDMPKSILS-----KEEIDHIIMSKDAV-----SGTLRLFWTLLSKQE-----EMVQKFV 83
Query: 318 ETVLRTTLKFKLASKLTGAGGGGCALTLLPTLLSATVVEK---------------VT--- 359
E VLR KF L S + P++++ +E+ V+
Sbjct: 84 EEVLRINYKF-LMSPIK-------TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 360 --TELETCGFQ------CLIAGIGGTG-----VEVC 382
+L + LI G+ G+G ++VC
Sbjct: 136 PYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC 171
Score = 35.2 bits (80), Expect = 0.045
Identities = 19/150 (12%), Positives = 47/150 (31%), Gaps = 37/150 (24%)
Query: 29 CID--LYTYVS--LRFPSDSDDDDTLKLVLKDMELNFSWSVTRIKATLSHLGSPFPSTPT 84
+D Y+++ L+ + ++V L+F + +I+ + + T
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVF----LDFRFLEQKIRHDSTAWNASGSILNT 523
Query: 85 TCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFLWLYTSIIGF--KPATVVVTSDLPLGA 142
++ K + D E + +I+ F K ++ S
Sbjct: 524 LQQLKFYKPY--ICDNDPKYERLVN-------------AILDFLPKIEENLICSK----- 563
Query: 143 GLGSSAAFCVSLTAALLGSLNSVHLDKNHQ 172
+ L AL+ ++ + + Q
Sbjct: 564 -------YTDLLRIALMAEDEAIFEEAHKQ 586
Score = 34.4 bits (78), Expect = 0.064
Identities = 50/301 (16%), Positives = 91/301 (30%), Gaps = 90/301 (29%)
Query: 48 DTLKLVLKDMELNFSWSVTRIKATLSHLGSPFPSTPTTCSMEVIKSIAVLVDEQNIPEAK 107
D K V D +L T I+++L+ L P ++ ++V +IP
Sbjct: 345 DNWKHVNCD-KLT-----TIIESSLNVL------EPAEYR-KMFDRLSVFPPSAHIPTIL 391
Query: 108 IGLSSGATAFLWLYTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHL 167
+ L +W V+ SD+ + SL +
Sbjct: 392 LSL-------IWFD-----------VIKSDVMV------VVNKLHKY------SL----V 417
Query: 168 DKNHQGWLTYGESDLDLLNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTC---- 223
+K + T + L K E E +H V Y F S ++
Sbjct: 418 EKQPKE-STISIPSIYLELKVKLENEYALHRS------IVDHYNIPKTFDSDDLIPPYLD 470
Query: 224 ----------IKSNMPLKMLITNTKVGRNTRALVAGVSERSMRHPD----AMSSVFNAVD 269
+K+ + + V + R L E+ +RH A S+ N +
Sbjct: 471 QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFL-----EQKIRHDSTAWNASGSILNTLQ 525
Query: 270 SISKELSTIIES-PTPDDLSITEKEERLEELMEMNQGLLQCMGVSHSSIET-VLRTTLKF 327
+ I ++ P E + +++ L + S T +LR L
Sbjct: 526 QLKFYKPYICDNDPKY--------ERLVNAILDF---LPKIEENLICSKYTDLLRIALMA 574
Query: 328 K 328
+
Sbjct: 575 E 575
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 52.0 bits (124), Expect = 2e-07
Identities = 67/419 (15%), Positives = 115/419 (27%), Gaps = 163/419 (38%)
Query: 30 IDLYTYVSLRFPSDSDDDDTLKLVLKDMELNF-----SWSVTRIKATLSH--LGSPFPST 82
+++ + L PS++ D D L + L + VT + L S
Sbjct: 213 LNILEW--LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 83 PTTCSMEVIKSIAVLVDEQNIPEAKIGLSSGATAFL--------WLYTSIIGFK------ 128
T S ++ ++A I + +F L+ IG +
Sbjct: 271 -TGHSQGLVTAVA------------IAETDSWESFFVSVRKAITVLF--FIGVRCYEAYP 315
Query: 129 ----PATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGESDLDL 184
P +++ S L G+ S +S +L + + ++
Sbjct: 316 NTSLPPSILEDS-LENNEGV-PSPMLSIS-------NLTQEQV-----------QDYVNK 355
Query: 185 LNKWAFEGEKI------------IHGKPSGLDNTVSTYGNIIKFR--SGNMTCIKSNMPL 230
N G+++ + G P L YG + R +S +P
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLVVSGPPQSL------YGLNLTLRKAKAPSGLDQSRIPF 409
Query: 231 KMLITNTKVGRNTRALVAGVSER----SMR--------HPDAMSSVFNAVDSISKELSTI 278
SER S R H + A D I+K+L
Sbjct: 410 --------------------SERKLKFSNRFLPVASPFHSHLLVP---ASDLINKDLVKN 446
Query: 279 IESPTPDDLSI----TEKEERLEELMEMNQGLLQCMGVSHSSIETVLRTTLKFKLASKLT 334
S D+ I T L L +S ++ ++R +K++ ++
Sbjct: 447 NVSFNAKDIQIPVYDTFDGSDLRVLSGS---------ISERIVDCIIRLPVKWETTTQFK 497
Query: 335 -------GAGGGGCALTLLPTLLSATVVEKVTTELETCGFQCLIAGI-GGTGVEVCFGG 385
G GG G L GTGV V G
Sbjct: 498 ATHILDFGPGG-------------------------ASGLGVLTHRNKDGTGVRVIVAG 531
Score = 50.0 bits (119), Expect = 9e-07
Identities = 54/320 (16%), Positives = 100/320 (31%), Gaps = 114/320 (35%)
Query: 8 PGKIILAGEHAVVHGSTAVAACIDLYTYVSLRFPSDSDDDDT-LKLVLKDMELNFSWSVT 66
PG++ + + G+T + + V+ +++D ++ V K + + F +
Sbjct: 260 PGEL-----RSYLKGATGHSQGL-----VTAVAIAETDSWESFFVSVRKAITVLF-FIGV 308
Query: 67 RIKATLSHLGSPFPS-----------TPTTCSMEVIKS-----IAVLVDEQN--IPEAK- 107
R + P PS P+ M I + + V++ N +P K
Sbjct: 309 RCYEAYPNTSLP-PSILEDSLENNEGVPS--PMLSISNLTQEQVQDYVNKTNSHLPAGKQ 365
Query: 108 --IGLSSGATAF--------LW-LYTSI-------------IGF---KPATVVVTSDLPL 140
I L +GA L+ L ++ I F K LP+
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL--KFSNRFLPV 423
Query: 141 GAGLGSSAAF-CVSLTAA---LLGSLNSVHLDKNHQG-----WLTYGESDLDLLNK---- 187
++ F L A + L ++ N + + T+ SDL +L+
Sbjct: 424 ------ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISE 477
Query: 188 ------------WAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTCIKSNMPLKMLIT 235
W E K + +I+ F G + + L
Sbjct: 478 RIVDCIIRLPVKW----ETTTQFKAT----------HILDFGPGGASGLGV------LTH 517
Query: 236 NTKVGRNTRALVAGVSERSM 255
K G R +VAG + +
Sbjct: 518 RNKDGTGVRVIVAGTLDINP 537
Score = 44.7 bits (105), Expect = 5e-05
Identities = 39/221 (17%), Positives = 75/221 (33%), Gaps = 69/221 (31%)
Query: 206 TVSTYG-NIIKFRSGNMTCIKSNMPLKMLITNT-KVGRNTRALVAGVSERSMRHPDAMSS 263
TYG +I+ + +N P+ + I + G+ R + + ++ D
Sbjct: 1653 FKDTYGFSILD-------IVINN-PVNLTIHFGGEKGKRIRENYSAMIFETI--VDGKLK 1702
Query: 264 VFNAVDSISKELSTII-ESPTPDDLSITEK--------EERLEELMEMNQGLLQ----CM 310
I++ ++ S LS T+ E+ E ++ ++GL+
Sbjct: 1703 TEKIFKEINEHSTSYTFRSEK-GLLSATQFTQPALTLMEKAAFEDLK-SKGLIPADATFA 1760
Query: 311 GVSHS--------------SIETVLRT------TLKFKLASKLTGAGGGG-CALTLLPTL 349
G HS SIE+++ T++ + G G A+ P
Sbjct: 1761 G--HSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAIN--PGR 1816
Query: 350 LSAT--------VVEKVTTE----LE-----TCGFQCLIAG 373
++A+ VVE+V +E Q + AG
Sbjct: 1817 VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAG 1857
Score = 40.0 bits (93), Expect = 0.001
Identities = 59/352 (16%), Positives = 99/352 (28%), Gaps = 124/352 (35%)
Query: 30 IDLYT----YVS--LRFPSDSDDDDTLKLVLKDMELNFSWSVTRIKATLSHLGSPFPSTP 83
+L YVS + D L L L + E + I A + L T
Sbjct: 58 AELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEG-NDIHALAAKLLQE-NDTT 115
Query: 84 TTCSMEVIKS--IAVLVDEQNIPE---------AKIGLSSGATAF--------------- 117
+ E+IK+ A ++ ++ + G + F
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 118 LW-LYTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKN---HQG 173
L+ Y ++G DL + +A L L LD QG
Sbjct: 176 LYQTYHVLVG----------DL-------------IKFSAETLSELIRTTLDAEKVFTQG 212
Query: 174 -----WLTYGES--DLDLLNKWAFEGEKII------H----GKPSGLDNTVSTYGNIIKF 216
WL + D D L +I H K G T G + +
Sbjct: 213 LNILEWLENPSNTPDKDYLLSIPISC-PLIGVIQLAHYVVTAKLLGF-----TPGELRSY 266
Query: 217 RSGNMTCIKSNMPLKMLITNTKVGRNTRALV--AGVSERSMRH--PDAMSSVF------- 265
G + L+T A+ S S A++ +F
Sbjct: 267 LKGATGHSQG------LVT---------AVAIAETDSWESFFVSVRKAITVLFFIGVRCY 311
Query: 266 NAVDSISKELSTIIES-------PTP----DDLSITEKEERLEELMEMNQGL 306
A + S S + +S P+P +L+ + ++ + + N L
Sbjct: 312 EAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKT---NSHL 360
Score = 32.7 bits (74), Expect = 0.27
Identities = 32/171 (18%), Positives = 60/171 (35%), Gaps = 42/171 (24%)
Query: 243 TRALVAGVSERSMRH----PDAMSSVFNAVDSISKELSTIIESPTPDDLSITEKEERLEE 298
TR L +S S+ H P ++ F + ++ + I+ PT + + ++ E
Sbjct: 6 TRPLT--LSHGSLEHVLLVP---TASFFIASQLQEQFNKILPEPT-EGFAADDEPTTPAE 59
Query: 299 LMEMNQGLLQCMG-VSH-------SSIETVLRTTLK-FK-----------LASKLTGAGG 338
L + + +G VS + VL L F+ LA+KL
Sbjct: 60 L------VGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQEND 113
Query: 339 G--GCALTLLPTLLSATVV--EKVTTELETCGFQCLIAGIGGTGVEVCFGG 385
L+ ++A ++ + + F+ G G + FGG
Sbjct: 114 TTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA--VGEGNAQLVAIFGG 162
>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 = 33.7 bits (78), Expect = 0.071
Identities = 17/69 (24%), Positives = 26/69 (37%), Gaps = 4/69 (5%)
Query: 92 KSIAVLVDEQNIPEAKIGLSSGATAFLWLYTSIIGFKPATVVVTSDLPLGAGLGSSAAFC 151
K I + VD++NIP +G + K + + + G+GLGSSAA
Sbjct: 40 KEIIIEVDDKNIPTDPDKNVAGI-VAKKMIDDFNIGKGVKITIKKGVKAGSGLGSSAASS 98
Query: 152 VSLTAALLG 160
Sbjct: 99 A---GTAYA 104
>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 = 33.7 bits (78), Expect = 0.084
Identities = 13/45 (28%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 116 AFLWLYTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLG 160
L L ++ +V+T D+P GLGSS+A ++ A +
Sbjct: 61 TALNLAPNLTPHH---LVMTCDIPPARGLGSSSA---AVVAGIEL 99
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 31.4 bits (71), Expect = 0.69
Identities = 14/30 (46%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 333 LTGAGGGGCALTLLPTLLS--ATVVEKVTT 360
+TGAG G +L LL A VV VTT
Sbjct: 481 ITGAGKGSIGAEVLQGLLQGGAKVV--VTT 508
>2gs8_A Mevalonate pyrophosphate decarboxylase; streptococcus pyogen
structural genomics, PSI, protein structure initiative;
HET: MSE; 1.50A {Streptococcus pyogenes m1 gas}
Length = 317
Score = 30.7 bits (68), Expect = 0.82
Identities = 36/264 (13%), Positives = 86/264 (32%), Gaps = 41/264 (15%)
Query: 125 IGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAALLGSLNSVHLDKNHQGWLTYGESDLDL 184
G + +++P AGL SS++ +L A + + L
Sbjct: 88 PGQAFVKMETQNNMPTAAGLSSSSSGLSALVKACDQLFD-----------TQLDQKALAQ 136
Query: 185 LNKWAFEGEKIIHGKPSGLDNTVSTYGNIIKFRSGNMTCIKSNMPLKMLITNTKVGRNTR 244
K+A ++ S +G + + + K LKM + + +
Sbjct: 137 KAKFA------------SGSSSRSFFGPVAAWDKDSGAIYKVETDLKMAMIMLVLNAAKK 184
Query: 245 ALVAGVSERSMRHPDAMSSVFNA-VDSISKELSTIIESPTPDDLSITEKEERLEELMEMN 303
+ S M+ S+ F+ V+ + + ++ ++ E++ +L E N
Sbjct: 185 PI---SSREGMKLCRDTSTTFDQWVEQSAIDYQHMLTYLKTNNF------EKVGQLTEAN 235
Query: 304 QGLLQ-CMGVSHSSIETVLRTTLKFKLASKLTGAGGGGCALTLL--PT---LLSATVVEK 357
+ ++ + + + + A K G C T+ P L + +
Sbjct: 236 ALAMHATTKTANPPFSYLTKESYQAMEAVKELRQEGFACYFTMDAGPNVKVLCLEKDLAQ 295
Query: 358 VTTELETCGFQCLIAGIGGTGVEV 381
+ L ++ +++ +V
Sbjct: 296 LAERLGKN-YRIIVSKT-KDLPDV 317
>2qgq_A Protein TM_1862; alpha-beta protein, structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium; HET: CXS; 2.00A {Thermotoga
maritima MSB8}
Length = 304
Score = 29.0 bits (66), Expect = 2.6
Identities = 4/23 (17%), Positives = 10/23 (43%)
Query: 284 PDDLSITEKEERLEELMEMNQGL 306
+ + + R EEL+ + +
Sbjct: 205 KEKVDPEMAKRRQEELLLLQAEI 227
>3vmm_A Alanine-anticapsin ligase BACD; ATP-grAsp domain, amino acid
ligase, ATP binding; HET: ADP P0D; 2.50A {Bacillus
subtilis}
Length = 474
Score = 29.1 bits (65), Expect = 3.0
Identities = 13/91 (14%), Positives = 29/91 (31%), Gaps = 13/91 (14%)
Query: 297 EELMEMNQGLLQCMGVSHSSIETVLRTTLKFKLASKLTGAGGGGCALTLLPTLLSATV-- 354
E + + +G+ + ++ K K+ AG + ++ + V
Sbjct: 111 ELFIAPMAKACERLGLRGAGVQAAENARDKNKMRDAFNKAG--------VKSIKNKRVTT 162
Query: 355 VEKVTTELETCGFQCLI---AGIGGTGVEVC 382
+E LE G ++ GV +
Sbjct: 163 LEDFRAALEEIGTPLILKPTYLASSIGVTLI 193
>3v7p_A Amidohydrolase family protein; iron binding site, enzyme functio
initiative, EFI; HET: TLA; 1.35A {Nitratiruptor SP}
Length = 427
Score = 28.8 bits (65), Expect = 3.5
Identities = 12/85 (14%), Positives = 24/85 (28%), Gaps = 12/85 (14%)
Query: 25 AVAACIDL-----YTYVSLRFPSDSDDDDTLKLVLKDMELNFSWSVTRIKATLSHLGSPF 79
+ ACID Y + + D L+ + R KA ++
Sbjct: 125 DLQACIDSALKVVYFNEVIGSN-AATADVMYASFLERFHQSKKHENERFKAAVA------ 177
Query: 80 PSTPTTCSMEVIKSIAVLVDEQNIP 104
+P + + K + +
Sbjct: 178 IHSPYSVHYILAKRALDIAKKYGSL 202
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 28.7 bits (64), Expect = 4.6
Identities = 7/48 (14%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 262 SSVFNAVDSISKELSTIIESPTPDDLSITEKEERLEELMEMNQGLLQC 309
S+ F +++S + + P L + E + + ++ L +
Sbjct: 270 STRFKSINSEFIAILKKVSG-APLILEVLAIERIQQTMERLSDLLGKV 316
>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 = 27.9 bits (61), Expect = 6.5
Identities = 11/38 (28%), Positives = 18/38 (47%)
Query: 121 YTSIIGFKPATVVVTSDLPLGAGLGSSAAFCVSLTAAL 158
+ +V ++ P AGL SSAA +L +A+
Sbjct: 115 SLPTLSQWKLHIVSENNFPTAAGLASSAAGFAALVSAI 152
>3ott_A Two-component system sensor histidine kinase; beta-propeller,
beta-sandwich, transcription; HET: TBR; 2.30A
{Bacteroides thetaiotaomicron}
Length = 758
Score = 27.3 bits (61), Expect = 9.9
Identities = 10/54 (18%), Positives = 14/54 (25%), Gaps = 5/54 (9%)
Query: 163 NSVHLDKNHQGWL-TYGESDLDLLNKWAFEGEKIIHGKPSGLDNTVSTYGNIIK 215
S+ D W L+ GE+ D T N I+
Sbjct: 327 YSLFRDSKGFYWFGGAN----GLIRFTDPAGERHDAIWYRMGDKTYPLSHNRIR 376
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
0.316 0.132 0.382
Gapped
Lambda K H
0.267 0.0798 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,672,972
Number of extensions: 336107
Number of successful extensions: 755
Number of sequences better than 10.0: 1
Number of HSP's gapped: 720
Number of HSP's successfully gapped: 47
Length of query: 387
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 292
Effective length of database: 4,049,298
Effective search space: 1182395016
Effective search space used: 1182395016
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 (21.6 bits)
S2: 58 (26.0 bits)