RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 048621
(456 letters)
>2a2c_A N-acetylgalactosamine kinase; galactokinase, , transferase; HET:
NG1 ADP; 1.65A {Homo sapiens} PDB: 2a2d_A*
Length = 478
Score = 427 bits (1098), Expect = e-147
Identities = 181/453 (39%), Positives = 256/453 (56%), Gaps = 35/453 (7%)
Query: 14 SLKEVYGEGSQLEEA----------QLRFGNLKSKFIQIFGHAPDVYARSPGRVNLIGEH 63
S + +Y +G E+ R LK F FG P Y R+PGRVN+IGEH
Sbjct: 11 SSENLYFQGHMATESPATRRVQVAEHPRLLKLKEMFNSKFGSIPKFYVRAPGRVNIIGEH 70
Query: 64 IDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPAEPDQELDLKHH 123
IDY GYSVLPMA+ QD ++A+ L++AN + Y + A + ++D
Sbjct: 71 IDYCGYSVLPMAVEQDVLIAVEPV----KTYALQLANTNPLYPDFSTSAN-NIQIDKTKP 125
Query: 124 QWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMA 183
W +YF+CG KG E+ + G++ LVDG +P SGLSSS+A VC + + +
Sbjct: 126 LWHNYFLCGLKGIQEH-----FGLSNLTGMNCLVDGNIPPSSGLSSSSALVCCAGLVTLT 180
Query: 184 AFGVEVPKKEIAQLTCECERYIGAQSGGMDQAISIMAKSGFAELIDFNPIRATDVQLPAG 243
G + K E+A++ + ERYIG + GGMDQ+IS +A+ G A+LI+F+P+RATDV+LP+G
Sbjct: 181 VLGRNLSKVELAEICAKSERYIGTEGGGMDQSISFLAEEGTAKLIEFSPLRATDVKLPSG 240
Query: 244 GTFVIAHSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGL 303
FVIA+S E KA T+ +N RV+ECRLAA +L ++ KV L +V+
Sbjct: 241 AVFVIANSCVEMNKAATSH--FNIRVMECRLAAKLLAKYKSLQWD----KVLRLEEVQAK 294
Query: 304 CVAFAGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYK 363
++ L ++ LH EPY ++I + + L + S +K
Sbjct: 295 L-----GISLEEMLLVTEDALHPEPYNPEEICRCLGISLEELRTQILSPNTQD--VLIFK 347
Query: 364 LHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEEL 423
L+QRA HVYSEA RV FK + E+ ++ LG+LMN SH SC +YECSCPEL++L
Sbjct: 348 LYQRAKHVYSEAARVLQFKKICEE--APENMVQLLGELMNQSHMSCRDMYECSCPELDQL 405
Query: 424 VTVCRDNGALGARLTGAGWGGCAVVLVKESIVP 456
V +CR GA G+RLTGAGWGGC V +V +P
Sbjct: 406 VDICRKFGAQGSRLTGAGWGGCTVSMVPADKLP 438
>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 = 383 bits (984), Expect = e-129
Identities = 147/481 (30%), Positives = 216/481 (44%), Gaps = 38/481 (7%)
Query: 6 ETPVPTLASLKEVYGEGSQLEEAQLRFGNLKSKFIQIFGHAPDVYARSPGRVNLIGEHID 65
T VP +S + + + F Q + PD ARSPGRVNLIGEHID
Sbjct: 2 NTNVPIFSSPVRDLPR-----SFEQKHLAVVDAFFQTYHVKPDFIARSPGRVNLIGEHID 56
Query: 66 YEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPAEPD---QELDLKH 122
Y +SVLP+AI D + A++ E + + N K++ + D +D
Sbjct: 57 YCDFSVLPLAIDVDMLCAVKI--LDEKNPSITLTNADPKFAQRKFDLPLDGSYMAIDPSV 114
Query: 123 HQWGHYFICGYKGFYEYVK---AKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTI 179
+W +YF CG + Y+K + + P VG I +PTG GLSS+ +
Sbjct: 115 SEWSNYFKCGLHVAHSYLKKIAPERFNNTPLVGAQIFCQSDIPTGGGLSSAFTCAAALAT 174
Query: 180 ALM-AAFGVEVPKKEIAQLTCECERYIGAQSGGMDQAISIMAKSGFAELIDFNP-IRATD 237
++ KK++ ++T E Y+G +GGMDQA S+ + A ++F P ++AT
Sbjct: 175 IRANMGKNFDISKKDLTRITAVAEHYVGVNNGGMDQATSVYGEEDHALYVEFRPKLKATP 234
Query: 238 VQLP----AGGTFVIAHSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMK----PQE 289
+ P +FVIA++L +S K TA TNYN RV+E +AA L + +
Sbjct: 235 FKFPQLKNHEISFVIANTLVKSNKFETAPTNYNLRVIEVTVAANALATRYSVALPSHKDN 294
Query: 290 AISKVKTLSDVEGLCVAFAGKNGSDDPFLAVKEF--------LHEEPYMAKDIEKIIEEK 341
+ S+ L D A L EE + K + E
Sbjct: 295 SNSERGNLRDFMDAYYARYENQAQPWNGDIGTGIERLLKMLQLVEESFSRKKSGFTVHEA 354
Query: 342 LSSIFANSSSSL-----DVLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSN--LSDEDK 394
+++ + + KL+QRA HVYSE+ RV + S +DED
Sbjct: 355 STALNCSREEFTRDYLTTFPVRFQVLKLYQRAKHVYSESLRVLKALKMMTSATFHTDEDF 414
Query: 395 LRRLGDLMNDSHHSCSVLYECSCPELEELVTVCRDNGALGARLTGAGWGGCAVVLVKESI 454
G LMN+S SC LYECSC E ++ ++ NG+ G+RLTGAGWGGC + LV
Sbjct: 415 FTDFGRLMNESQASCDKLYECSCIETNQICSIALANGSFGSRLTGAGWGGCTIHLVPSGA 474
Query: 455 V 455
Sbjct: 475 N 475
>1pie_A Galactokinase; galactose, galactosemia, transferase; HET: GLA;
2.10A {Lactococcus lactis} SCOP: d.14.1.5 d.58.26.7
Length = 419
Score = 273 bits (700), Expect = 8e-88
Identities = 121/453 (26%), Positives = 178/453 (39%), Gaps = 89/453 (19%)
Query: 13 ASLKEVYGEGSQLEEAQLRFGNLKSKFIQIFGHAPDV-YARSPGRVNLIGEHIDYEGYSV 71
+ L S + E L KF ++FG +V Y SPGR+NLIGEH DY G V
Sbjct: 12 SGLVPRGSHMSIVVENSTVLSALTEKFAEVFGDTKEVEYFFSPGRINLIGEHTDYNGGYV 71
Query: 72 LPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPAEPDQELDLKHHQWGHYFIC 131
P +I T R E +KV + K + + D+ W +Y
Sbjct: 72 FPASITIGTTGLARLR---EDKKVKLYSENFPKLGVIEFDL--DEVEKKDGELWSNYV-- 124
Query: 132 GYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPK 191
KG +K G ++ G ++L+ G +PT SGLSSSA+ + L F + VP+
Sbjct: 125 --KGMIVMLKGAGYEIDK--GFELLIKGEIPTASGLSSSASLELLVGVVLDDLFNLNVPR 180
Query: 192 KEIAQLTCECE-RYIGAQSGGMDQAISIMAKSGFAELIDFNPIRATDVQLPAGG-TFVIA 249
E+ QL + E YIG SG +DQ + A +D N ++ V + VI
Sbjct: 181 LELVQLGQKTENDYIGVNSGILDQFAIGFGEVKKAIELDCNTLKYEMVPVELRDYDIVIM 240
Query: 250 -----HSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGLC 304
+L ES YN R E R A + +L +++L ++
Sbjct: 241 NTNKPRALTES--------KYNERFAETREALKRMQTRLD---------IQSLGEL---- 279
Query: 305 VAFAGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKL 364
S++ F A + + +E L
Sbjct: 280 --------SNEEFDANTDLIGDET-----------------------------------L 296
Query: 365 HQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELV 424
+RA H E R + + L + G+L+N SH S YE + EL+ L
Sbjct: 297 IKRARHAVYENNRTKIAQK----AFVAGN-LTKFGELLNASHASLKDDYEVTGLELDTLA 351
Query: 425 TVCRD-NGALGARLTGAGWGGCAVVLVKESIVP 456
+ G LGAR+TGAG+GGCA+ LV V
Sbjct: 352 ETAQKQAGVLGARMTGAGFGGCAIALVAHDNVS 384
>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 = 269 bits (689), Expect = 2e-86
Identities = 118/464 (25%), Positives = 167/464 (35%), Gaps = 103/464 (22%)
Query: 1 MARHEETPVPTLASLKEVYGEGSQLEEAQLRFGNLKSKFIQIFGHAPDVYARSPGRVNLI 60
MA H + + + F + FG P++ +PGRVNLI
Sbjct: 1 MAHHHHHH------------AALRQPQVAELLAEARRAFREEFGAEPELAVSAPGRVNLI 48
Query: 61 GEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPAEPDQELDL 120
GEH DY VLPMA+ T++ G + + L + L+
Sbjct: 49 GEHTDYNQGLVLPMALELMTVLVGSPRKDGLVSLLTTSEGADEPQRLQFPLPTAQRSLEP 108
Query: 121 KHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIA 180
+W +Y KG +Y A L G +V VP G GLSSSA+ ++
Sbjct: 109 GTPRWANYV----KGVIQYYPAAPLP-----GFSAVVVSSVPLGGGLSSSASLEVATYTF 159
Query: 181 LMAAFGVEVPKKEIAQLTCECE-RYIGAQSGGMDQAISIMAKSGFAELIDFNPIRATDVQ 239
L AQ+ + E + G G MDQ IS+M + G A LID + + V
Sbjct: 160 LQQLCPDSGTIAARAQVCQQAEHSFAGMPCGIMDQFISLMGQKGHALLIDCRSLETSLVP 219
Query: 240 LPAGG-TFVIA-----HSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMKPQEAISK 293
L +I HSLA S Y R +C A LG
Sbjct: 220 LSDPKLAVLITNSNVRHSLASS--------EYPVRRRQCEEVARALG------------- 258
Query: 294 VKTLSDVEGLCVAFAGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSL 353
++L +V + A ++ + +E +
Sbjct: 259 KESLREV------------QLEELEAARDLVSKEGF------------------------ 282
Query: 354 DVLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLY 413
+RA HV E +R L D R G LM +SH S Y
Sbjct: 283 ------------RRARHVVGEIRRTAQAAA----ALRRGD-YRAFGRLMVESHRSLRDDY 325
Query: 414 ECSCPELEELVTVCRD-NGALGARLTGAGWGGCAVVLVKESIVP 456
E SCPEL++LV G G+R+TG G+GGC V L++ S P
Sbjct: 326 EVSCPELDQLVEAALAVPGVYGSRMTGGGFGGCTVTLLEASAAP 369
>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 = 257 bits (658), Expect = 2e-82
Identities = 90/414 (21%), Positives = 147/414 (35%), Gaps = 102/414 (24%)
Query: 49 VYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLC 108
+ +SPGRVNLIGEH DY V+PMAI T + KH E +L + ++
Sbjct: 2 IKVKSPGRVNLIGEHTDYTYGYVMPMAINLYTKIEAEKH----GEVILYSEHFGEERKFS 57
Query: 109 TYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLS 168
+ + W Y KG + +K +VG G+ V G +P G+GLS
Sbjct: 58 LNDLRKE-------NSWIDYV----KGIFWVLKESDYEVG---GIKGRVSGNLPLGAGLS 103
Query: 169 SSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECE-RYIGAQSGGMDQAISIMAKSGFAEL 227
SSA+F L + +++ L + E ++G G +DQ + + G
Sbjct: 104 SSASFEVGILETLDKLYNLKLDSLSKVLLAKKAENEFVGVPCGILDQFAVVFGREGNVIF 163
Query: 228 IDFNPIRATDVQLPAGGTFVIA-----HSLAESLKAVTAATNYNNRVVECRLAAIVLGIK 282
+D + + + P + ++ LA S Y R + +LG
Sbjct: 164 LDTHTLDYEYIPFPKDVSILVFYTGVRRELASS--------EYAERKHIAEESLKILG-- 213
Query: 283 LGMKPQEAISKVKTLSDVEGLCVAFAGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEKL 342
+ +V ++ K+
Sbjct: 214 -----------KGSSKEVR-----------------------------EGELSKLPPL-- 231
Query: 343 SSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLM 402
+ ++ E RV +D L + + + +G ++
Sbjct: 232 ---------------------HRKFFGYIVRENARVLEVRDA----LKEGN-VEEVGKIL 265
Query: 403 NDSHHSCSVLYECSCPELEELVTVCRDNGALGARLTGAGWGGCAVVLVKESIVP 456
+H + YE SC EL+ V GA GARLTGAG+GG A+ LV +
Sbjct: 266 TTAHWDLAKNYEVSCKELDFFVERALKLGAYGARLTGAGFGGSAIALVDKEDAE 319
>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 = 134 bits (339), Expect = 4e-36
Identities = 47/234 (20%), Positives = 83/234 (35%), Gaps = 16/234 (6%)
Query: 46 APDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKY 105
+ +P +V L GEH GY + MAI + + I++ E I N++D
Sbjct: 3 GSHMIIETPSKVILFGEHAVVYGYRAISMAIDLTSTIEIKETQEDEI-----ILNLNDLN 57
Query: 106 SLCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGS 165
+ ++ + Y +C K +Y+ + P G I + +P
Sbjct: 58 KSLGLNLNEIKNINPNNFGDFKYCLCAIKNTLDYLNIE-----PKTGFKINISSKIPISC 112
Query: 166 GLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYIGAQSGGMDQAISIMAKSGFA 225
GL SSA+ + A+ + E+ EIA+L E+ I ++ D +
Sbjct: 113 GLGSSASITIGTIKAVSGFYNKELKDDEIAKLGYMVEKEIQGKASITDTSTITYKGILEI 172
Query: 226 ELIDFNPIRATDVQLPAGGTFVIA------HSLAESLKAVTAATNYNNRVVECR 273
+ F I+ + F+I AE + V N + E
Sbjct: 173 KNNKFRKIKGEFEEFLKNCKFLIVYAEKRKKKTAELVNEVAKIENKDEIFKEID 226
Score = 89.3 bits (222), Expect = 7e-20
Identities = 25/94 (26%), Positives = 40/94 (42%), Gaps = 9/94 (9%)
Query: 363 KLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEE 422
+ ++ E +V + L ++ G LM +H S P+L+
Sbjct: 213 AKIENKDEIFKEIDKV------IDEALKIKN-KEDFGKLMTKNHELLKK-LNISTPKLDR 264
Query: 423 LVTVCRDNGALGARLTGAGWGGCAVVLVKESIVP 456
+V + G GA+LTGAG GGC ++LV E
Sbjct: 265 IVDIGNRFG-FGAKLTGAGGGGCVIILVNEEKEK 297
>2hfs_A Mevalonate kinase, putative; GHMP kinase, trypanosomatid parasite,
transferase; 1.75A {Leishmania major} PDB: 2hfu_A*
Length = 332
Score = 122 bits (307), Expect = 2e-31
Identities = 37/239 (15%), Positives = 69/239 (28%), Gaps = 32/239 (13%)
Query: 47 PDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYS 106
G+V L GEH G + I + T + + V D+
Sbjct: 12 TTGKNIGYGKVILFGEHFVVHGAEAIVAGISEYTECRLEINPGVPG------LQVDDQRP 65
Query: 107 LCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSG 166
+ Q I ++ +++K GL + + G + SG
Sbjct: 66 ----------AIPGYIAQKRDEQIKAHQLVLDHLKVDL----SGDGLKMFIGGPLVPSSG 111
Query: 167 LSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECER-YIGAQSGGMDQAISIMAKSGFA 225
+ +SA+ V + + AL + + + +E+ E Y G SG + A + G
Sbjct: 112 IGASASDVVAFSRALSELYQLNLTDEEVNLSAFVGEGGYHGTPSGADNTAAT----YGGL 167
Query: 226 ELIDFN--PIRATDVQLPAGGTFVIA-----HSLAESLKAVTAATNYNNRVVECRLAAI 277
L + V+ S A+ + V +
Sbjct: 168 ILYRRQNGKSVFKPIAFQQRLYLVVVGTGINASTAKVVNDVHKMKQQQPVQFKRLYDNY 226
Score = 89.8 bits (223), Expect = 5e-20
Identities = 37/97 (38%), Positives = 50/97 (51%), Gaps = 12/97 (12%)
Query: 357 NAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECS 416
+ +L+ H+ S+A+ L D L+RLG LMN +H C + + S
Sbjct: 215 QPVQFKRLYDNYTHIVSQAREA----------LQKGD-LQRLGQLMNANHDLCRQI-DVS 262
Query: 417 CPELEELVTVCRDNGALGARLTGAGWGGCAVVLVKES 453
C ELE +V CR GALGA+L+G G GG AV L S
Sbjct: 263 CRELESIVQTCRTYGALGAKLSGTGRGGIAVALAASS 299
>2x7i_A Mevalonate kinase; transferase; HET: CIT; 2.20A {Staphylococcus
aureus}
Length = 308
Score = 111 bits (279), Expect = 9e-28
Identities = 40/217 (18%), Positives = 65/217 (29%), Gaps = 35/217 (16%)
Query: 49 VYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLC 108
Y S G++ LIGEH G + + I + + + E+ I SD Y
Sbjct: 7 GYGESTGKIILIGEHAVTFGEPAIAVPFNAGKIKVLIE--ALESGNYSSIK--SDVY--- 59
Query: 109 TYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLS 168
D + + K L + + +P GL
Sbjct: 60 ----------DGMLYDAPDHL----KSLVNRFVELN---NITEPLAVTIQTNLPPSRGLG 102
Query: 169 SSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECER-YIGAQSGGMDQAISIMAKSGFAEL 227
SSAA + A G + K+E+ + E+ G SG Q I
Sbjct: 103 SSAAVAVAFVRASYDFLGKSLTKEELIEKANWAEQIAHGKPSGIDTQTIVSG---KPVWF 159
Query: 228 IDFNPIRATDVQLPAGGTFVIA-----HSLAESLKAV 259
+ + L G V+ S +++ V
Sbjct: 160 QKGHAETLKTLSLD--GYMVVIDTGVKGSTRQAVHDV 194
Score = 94.0 bits (234), Expect = 1e-21
Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 6/102 (5%)
Query: 355 VLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYE 414
V + K + Q +HV K V D + L D+ N+ H L
Sbjct: 191 VHDVHKLCEDPQYMSHVKHIGKLVLRASD----VIEHHK-FEALADIFNECHADLKAL-T 244
Query: 415 CSCPELEELVTVCRDNGALGARLTGAGWGGCAVVLVKESIVP 456
S ++E+L+ + ++NGA+ +LTGAG GG ++L K+
Sbjct: 245 VSHDKIEQLMKIGKENGAIAGKLTGAGRGGSMLLLAKDLPTA 286
>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 = 112 bits (281), Expect = 1e-27
Identities = 69/432 (15%), Positives = 127/432 (29%), Gaps = 105/432 (24%)
Query: 46 APDVYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKY 105
+ + +PG+V L GEH G L +A+ T + +R +G+ L + +
Sbjct: 3 SEVLLVSAPGKVILHGEHAVVHGKVALAVALNLRTFLVLRPQSNGKVSLNLPNVGIKQVW 62
Query: 106 SLCTYP--------------------AEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGL 145
+ T + + L G+ + Y Y+
Sbjct: 63 DVATLQLLDTGFLEQGDVPAPTLEQLEKLKKVAGLPRDCVGNEGLSLLAFLYLYLAICRK 122
Query: 146 DVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYI 205
P LDI+V +P G+GL SSAA+ AL+ A ++T +
Sbjct: 123 QRTLP-SLDIMVWSELPPGAGLGSSAAYSVCVAAALLTAC---------EEVTNPLKDRG 172
Query: 206 GAQSGGMDQAISIMAKSGFAELIDFNPIRATDVQLPAGGTFVIAHSLAESLKAVTAATNY 265
S + SI + E + D +
Sbjct: 173 SIGSWPEEDLKSINKWAYEGERVIHGNPSGVDNSV------------------------- 207
Query: 266 NNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGLCVAFAGKNGS-DDPFLAVKEFL 324
+ + M + + ++ + + S V+ L
Sbjct: 208 ------STWGGALRYQQGKMSSLKRLPALQ-------ILLTNTKVPRSTKALVAGVRSRL 254
Query: 325 HEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAKRVYAFKDT 384
+ P + + I+ + V E
Sbjct: 255 IKFPEIMAPLLTSIDA-----------------------ISLECERVLGEMA-------- 283
Query: 385 VYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELVTVCRDNGALGARLTGAGWGG 444
++ L +LM+ + H + L L++L V +G L ++LTGAG GG
Sbjct: 284 ---AAPVPEQYLVLEELMDMNQHHLNAL-GVGHASLDQLCQVTAAHG-LHSKLTGAGGGG 338
Query: 445 CAVVLVKESIVP 456
C + L+K +
Sbjct: 339 CGITLLKPGLER 350
>2oi2_A Mevalonate kinase; enzyme-inhibitor complex, transferase; HET: DP6;
2.50A {Streptococcus pneumoniae}
Length = 292
Score = 106 bits (267), Expect = 3e-26
Identities = 27/204 (13%), Positives = 53/204 (25%), Gaps = 41/204 (20%)
Query: 49 VYARSPGRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLC 108
++ ++ LIGEH GY + + + + +
Sbjct: 6 GVGQAHSKIILIGEHAVVYGYPAISLPLLEVEVTCKVVP--------------------- 44
Query: 109 TYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLS 168
W Y + +D +P G+
Sbjct: 45 ------------AESPWRLYEEDTLSMAVYASLEYL--NITEACIRCEIDSAIPEKRGMG 90
Query: 169 SSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECER-YIGAQSGGMDQAISIMAKSGFAEL 227
SSAA ++ A+ + ++P + L E SG + F +
Sbjct: 91 SSAAISIAAIRAVFDYYQADLPHDVLEILVNRAEMIAHMNPSGLDAKTCLSDQPIRFIKN 150
Query: 228 IDFNPIRATDVQLPAGGTFVIAHS 251
+ F + + VIA +
Sbjct: 151 VGFTELE-----MDLSAYLVIADT 169
Score = 89.4 bits (222), Expect = 4e-20
Identities = 24/98 (24%), Positives = 38/98 (38%), Gaps = 8/98 (8%)
Query: 355 VLNAAKHYKLHQRAAHVYSEAKRVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYE 414
+ K H E + +S +D LG +++ +H
Sbjct: 179 IQVVQNKGKDALPFLHALGE--LTQQAEI----AISQKD-AEGLGQILSQAHLHLKE-IG 230
Query: 415 CSCPELEELVTVCRDNGALGARLTGAGWGGCAVVLVKE 452
S E + LV +GALGA+++G G GGC + LV
Sbjct: 231 VSSLEADSLVETALSHGALGAKMSGGGLGGCIIALVTN 268
>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 = 98.4 bits (245), Expect = 7e-23
Identities = 36/201 (17%), Positives = 62/201 (30%), Gaps = 24/201 (11%)
Query: 49 VYARSPGRVNLIGEHID------YEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVS 102
V +++P R+ L G D G +L I I + + + +
Sbjct: 4 VRSKAPLRLGLAGGGSDVSPYSDIYGGLILNATINLYAYCTIEE--TNSGRIEINAYDAQ 61
Query: 103 DKYSLCTY-PAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIV 161
S + E D E L Y + P I
Sbjct: 62 CCKSYLSMSQLEIDGEASLIKG--------------VYNRIIRDYRLEPKSFKITTYNDA 107
Query: 162 PTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYI-GAQSGGMDQAISIMA 220
P GSGL +S+ V A + + + E ++L E ER G G DQ +
Sbjct: 108 PAGSGLGTSSTMVVCILKAFIEWLSLPLGDYETSRLAYEIERKDLGLSGGKQDQYAAAFG 167
Query: 221 KSGFAELIDFNPIRATDVQLP 241
+ E + + + +++
Sbjct: 168 GFNYMEFLQNDLVIVNPLKMK 188
Score = 84.6 bits (209), Expect = 4e-18
Identities = 21/138 (15%), Positives = 47/138 (34%), Gaps = 2/138 (1%)
Query: 317 FLAVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAK 376
FL + M + I +E + F S S + + +
Sbjct: 174 FLQNDLVIVNPLKMKRWIVDELESSMVLYFTGRSRSSAAIINEQKKNTSEGNQTAIEAMH 233
Query: 377 RVYAFKDTVYSNLSDEDKLRRLGDLMNDSHHS-CSVLYECSCPELEELVTVCRDNGALGA 435
++ L D + ++ + + + + P ++E V GA+
Sbjct: 234 KIKQSAIDTKLALLKGD-VGEFARILGEGWENKKKMAGAITNPMIQEAFDVATGAGAMAG 292
Query: 436 RLTGAGWGGCAVVLVKES 453
+++GAG GG + +V+ +
Sbjct: 293 KVSGAGGGGFIMFVVEPT 310
>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 = 82.4 bits (203), Expect = 2e-17
Identities = 28/174 (16%), Positives = 65/174 (37%), Gaps = 12/174 (6%)
Query: 46 APDVYARSPGRVNLIGEHIDYE-GYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDK 104
+ + PG++ + GE+ E G++ + A+ + + + E +
Sbjct: 4 KNKLQVKIPGKLYVAGEYAVVESGHTAILTAVNRYITLTLEDSERNEL-------WIPHY 56
Query: 105 YSLCTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGP-PVGLDILVDGIVPT 163
+ ++P + + D +H + ++K++G+++ P + ++ +
Sbjct: 57 ENPVSWPIGGELKPDGEHW---TFTAEAINIATTFLKSEGIELTPVKMVIETELIDQSGA 113
Query: 164 GSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYIGAQSGGMDQAIS 217
GL SSAA + ALM F E+ + +L + D A
Sbjct: 114 KYGLGSSAAATVAVINALMTKFYPEISMLKKFKLAALSHLVVQGNGSCGDIASC 167
Score = 57.0 bits (137), Expect = 5e-09
Identities = 11/75 (14%), Positives = 22/75 (29%), Gaps = 7/75 (9%)
Query: 383 DTVYSNLSDEDKLRRLGDLMNDSHH-----SCSVLYECSCPELEELVTVCRDNGALGARL 437
+ +D L + ++ L+EL + G +
Sbjct: 256 KQIIQAFHTKD-EELLYSSIKENRRILQELGTKAGVNIETSLLKELADSAENMGG-AGKS 313
Query: 438 TGAGWGGCAVVLVKE 452
+G+G G C + K
Sbjct: 314 SGSGGGDCGIAFSKT 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 = 81.8 bits (201), Expect = 1e-16
Identities = 65/491 (13%), Positives = 132/491 (26%), Gaps = 156/491 (31%)
Query: 5 EETPVPTLAS--LKEVYGEGSQLEEAQLRFGNLKSK---FIQIF---GHAPDVYA--RSP 54
++ P L+ + + + F L SK +Q F + Y SP
Sbjct: 39 QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN-YKFLMSP 97
Query: 55 GRVNLIGEHIDYEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSLCTYPAEP 114
+ + Y + D V + +VS + LK+ + +L
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRL-QPYLKL-----RQAL------- 144
Query: 115 DQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFV 174
L+L+ + +L+DG+ GSG + A V
Sbjct: 145 ---LELRPAKN-----------------------------VLIDGV--LGSGKTWVALDV 170
Query: 175 CSS-TIALMAAFGV--------EVPKKEIAQLTCECERYIGAQSGGMDQAISIMAKSGFA 225
C S + F + P+ + L + + D + +I
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI------- 223
Query: 226 ELIDFNPIRATDVQLPAGGTFVIAHSLAESL---KAVTAATNYNNRVVE-----CR---- 273
+R +Q + + L V N + C+
Sbjct: 224 ------KLRIHSIQ-AELRRLLKSKPYENCLLVLLNV-----QNAKAWNAFNLSCKILLT 271
Query: 274 -----LAAIVLGIKLGMKPQEAISKVKTLSDVEGLCVAFAGKNGSDDPFLAVK------- 321
+ + + S T +V+ L + + D P +
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 322 ---EFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKLHQRAAHVYSEAKRV 378
E + + + + + +KL++I SSL+VL A E +++
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKLTTII---ESSLNVLEPA--------------EYRKM 374
Query: 379 YA----FKDTV----------YSNLSDED------KLRRLGDLMNDSH------HSCSVL 412
+ F + + ++ D KL + + S +
Sbjct: 375 FDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 413 YECSCPELEEL 423
+ L
Sbjct: 435 LKVKLENEYAL 445
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 67.3 bits (164), Expect = 2e-12
Identities = 30/226 (13%), Positives = 65/226 (28%), Gaps = 43/226 (19%)
Query: 49 VYARSPGRVNLIGEHID-YEGYSVLPMAIRQDTIVAIRKHVSGETEKVLKIANVSDKYSL 107
+ ++ G++ GE+ G L I I S +
Sbjct: 4 IAVKTCGKLYWAGEYAILEPGQLALIKDIPIYMRAEIAFSDSYRIYSDM----------- 52
Query: 108 CTYPAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGS-- 165
D +DL+ + +++ +G + + G +
Sbjct: 53 ------FDFAVDLRPNPDYSLIQETIALMGDFLAVRGQ---NLRPFSLAIYGKMEREGKK 103
Query: 166 -GLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYIGAQSGGMDQAISI------ 218
GL SS + V AL+A + + V + + +LT G D A
Sbjct: 104 FGLGSSGSVVVLVVKALLALYNLSVDQNLLFKLTSAVLLKRGDNGSMGDLACIAAEDLVL 163
Query: 219 ------------MAKSGFAELIDFN-PIRATDVQLPAGGTFVIAHS 251
+ + A +++ + + V+ F++ +
Sbjct: 164 YQSFDRQKVAAWLEEENLATVLERDWGFSISQVKPTLECDFLVGWT 209
Score = 51.9 bits (124), Expect = 2e-07
Identities = 14/62 (22%), Positives = 27/62 (43%), Gaps = 2/62 (3%)
Query: 392 EDKLRRLGDLMNDSHHSCSVLY-ECSCPELEELVTVCRDNGALGARLTGAGWGGCAVVLV 450
+ K ++ + + + L + P L +L +D A A+ +GAG G C + L
Sbjct: 247 QGKSEKIIEQVEVASKLLEGLSTDIYTPLLRQLKEASQDLQA-VAKSSGAGGGDCGIALS 305
Query: 451 KE 452
+
Sbjct: 306 FD 307
>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 = 67.0 bits (163), Expect = 7e-12
Identities = 70/434 (16%), Positives = 133/434 (30%), Gaps = 156/434 (35%)
Query: 8 PVPTLASLKEVYGEGSQLEEAQLRFGNLKSKFIQIFGHAPDVYAR-----SPGRVNLIGE 62
VPT + SQL + +F +I + +A +P L+G+
Sbjct: 21 LVPT-----ASFFIASQL----------QEQFNKILPEPTEGFAADDEPTTP--AELVGK 63
Query: 63 HIDYEGYSVLPMAIRQDTIVA--IRKHVSGETEKVLKIA---------NVSDKYSL-CTY 110
+ Y V+ + G+ ++VL + +D ++L
Sbjct: 64 FLGY---------------VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKL 108
Query: 111 PAEPDQELDLKHHQWGHYFICGYKGFYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSS 170
E D L +K + Y+ A+ + P + S L +
Sbjct: 109 LQENDTTL-VKTKEL----------IKNYITARIM-AKRPFDK--------KSNSALFRA 148
Query: 171 AAFVCSSTIALMAAFG----VEVPKKEIAQLTCECERYIGAQSGGMDQAISIMAKSGFAE 226
L+A FG + +E+ L + Y + I A++ +E
Sbjct: 149 VG---EGNAQLVAIFGGQGNTDDYFEELRDLY---QTY----HVLVGDLIKFSAET-LSE 197
Query: 227 LI----DFNPI--RATDV--------QLPAGGTFVIAHSLAESLK--AVTAATNYNNRVV 270
LI D + + ++ P + S+ S V +Y VV
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL---SIPISCPLIGVIQLAHY---VV 251
Query: 271 ECRLAAIVLGIKLGMKPQEAISKVKTLSDV-EGLCVAFA-GKNGSDDPFL-AVKEFL--- 324
+L LG P E S +K + +GL A A + S + F +V++ +
Sbjct: 252 TAKL--------LGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL 303
Query: 325 -------HE---------------------EP-YMA-------KDIEKIIEEKLSSIFAN 348
+E P M + ++ + + S + A
Sbjct: 304 FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG 363
Query: 349 SSSSLDVLNAAKHY 362
+ ++N AK+
Sbjct: 364 KQVEISLVNGAKNL 377
Score = 57.0 bits (137), Expect = 1e-08
Identities = 68/375 (18%), Positives = 108/375 (28%), Gaps = 125/375 (33%)
Query: 36 KSKFIQIFGH--APDVYARSPGRVNLIGE--HIDYEGYSVLPMAIRQDTIVAIRKHVSGE 91
++ + IFG D Y E + Y+ Y VL D I + +S
Sbjct: 153 NAQLVAIFGGQGNTDDY---------FEELRDL-YQTYHVLV----GDLIKFSAETLSEL 198
Query: 92 TEKVLKIANVS----DKYSLCTYPAE-PDQELDLKH----------HQWGHYFICGYKGF 136
L V + P+ PD++ L Q HY
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSNTPDKDY-LLSIPISCPLIGVIQLAHY-------- 249
Query: 137 YEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAA---------FVCSSTIALMAAF-- 185
V AK L P L G GL ++ A F S A+ F
Sbjct: 250 --VVTAKLLGFTPGELRSYLK-GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI 306
Query: 186 GVE----VPKKEI-AQLTCECERYIGAQSGGMDQAISIM-AKSG--FAELIDFNPIRATD 237
GV P + + + S M + S ++ D+ + T+
Sbjct: 307 GVRCYEAYPNTSLPPSILEDSLE------NNEGVP-SPMLSISNLTQEQVQDY--VNKTN 357
Query: 238 VQLPAGGTFVIAHSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTL 297
LPAG I SL V A N +V G P +
Sbjct: 358 SHLPAGKQVEI------SL--VNGAKNL-----------VVSG------PPQ-------- 384
Query: 298 SDVEGLCVAF------AGKNGSDDPFLAVK-----EFL------HEEPYMAKDIEKIIEE 340
+ GL + +G + S PF K FL H + + I ++
Sbjct: 385 -SLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHS-HLLVPASDLINKD 442
Query: 341 KLSSIFANSSSSLDV 355
+ + + ++ + +
Sbjct: 443 LVKNNVSFNAKDIQI 457
Score = 35.0 bits (80), Expect = 0.055
Identities = 29/174 (16%), Positives = 48/174 (27%), Gaps = 55/174 (31%)
Query: 287 PQEAISKVKTLSDVEGLCVAF---------AGKNGSDDPFL--AVKEFLHEEPYMA-KDI 334
P E + + L F K G D L + EF E Y+ DI
Sbjct: 44 PTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF--ENCYLEGNDI 101
Query: 335 EKIIEEKLSSIFANSSSSLDVLNAAKHY------------KLHQRA--AHVYSEAKRVYA 380
+ + L + +++ K+Y K A V ++ A
Sbjct: 102 HALAAKLLQENDTTLVKTKELI---KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA 158
Query: 381 -F----KDTVYSNLSDEDKLRRLGDLMNDSHHSCSVLYECSCPELEELVTVCRD 429
F Y +E LR L Y+ + +L+ +
Sbjct: 159 IFGGQGNTDDY--F-EE--LRDL--------------YQTYHVLVGDLIKFSAE 193
Score = 35.0 bits (80), Expect = 0.062
Identities = 49/269 (18%), Positives = 78/269 (28%), Gaps = 94/269 (34%)
Query: 206 GAQSGGM---------------DQA-ISIMAKSGF--AELIDFNPIRATDVQLPAGGTFV 247
G+Q GM ++A GF +++ NP+ T G
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKG--- 1681
Query: 248 IAHSLAESLKAVTAATNYNNRVVECRLAAIVLGIKLGMKPQEAISKVKTLSDVEGLCVA- 306
+ E NY+ + E + + K+ + E + T +GL A
Sbjct: 1682 --KRIRE---------NYSAMIFETIVDGKLKTEKIFKEINEHSTSY-TFRSEKGLLSAT 1729
Query: 307 -FAGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEK----LSSIFANSS----SSLDVLN 357
F P A+ L E A + ++ K + FA S ++L
Sbjct: 1730 QFT------QP--AL--TLME---KA--AFEDLKSKGLIPADATFAGHSLGEYAAL---- 1770
Query: 358 AAKHYKLHQRAAHVYSEAKRVYAFKDTVY---------SNLSDEDKLRRLGDLM---NDS 405
A+ A V S + V D+L R M N
Sbjct: 1771 AS--------LADVMS-------IESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPG 1815
Query: 406 HHSCSVLYECSCPELEELV-TVCRDNGAL 433
V S L+ +V V + G L
Sbjct: 1816 ----RVAASFSQEALQYVVERVGKRTGWL 1840
>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 = 34.5 bits (80), Expect = 0.055
Identities = 11/55 (20%), Positives = 22/55 (40%)
Query: 148 GPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECE 202
+++ +P GL SS+A V + + + K+E ++ E E
Sbjct: 67 PNLTPHHLVMTCDIPPARGLGSSSAAVVAGIELANTLAELNLSKEEKVRIAAEIE 121
Score = 32.2 bits (74), Expect = 0.30
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 418 PELEELVTVCRDNGALGARLTGAG 441
P L ++ V ++ GA A L+GAG
Sbjct: 225 PHLAQIRDVAKNQGAYAACLSGAG 248
>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 = 34.1 bits (79), Expect = 0.079
Identities = 16/58 (27%), Positives = 24/58 (41%)
Query: 146 DVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECER 203
D G+ I + V GSGL SSAA + A+ F + + K ++ E
Sbjct: 70 DFNIGKGVKITIKKGVKAGSGLGSSAASSAGTAYAINELFKLNLDKLKLVDYASYGEL 127
>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 = 0.13
Identities = 10/20 (50%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 168 SSSAAFVCSSTIALMAAFGV 187
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 = 0.14
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 168 SSSAAFVCSSTIALMAAFGV 187
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 = 33.2 bits (77), Expect = 0.17
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 163 TGSGLSSSAAFVCSSTIALMAAFGV 187
T S SSS A VC +++ALM A GV
Sbjct: 438 TESNGSSSMASVCGASLALMDA-GV 461
>4aid_A Polyribonucleotide nucleotidyltransferase; transferase-peptide
complex; 2.60A {Caulobacter vibrioides} PDB: 4aim_A
4am3_A
Length = 726
Score = 33.2 bits (77), Expect = 0.18
Identities = 12/20 (60%), Positives = 15/20 (75%), Gaps = 1/20 (5%)
Query: 168 SSSAAFVCSSTIALMAAFGV 187
SSS A VC S++A+M A GV
Sbjct: 453 SSSMATVCGSSLAMMDA-GV 471
>1e3p_A Guanosine pentaphosphate synthetase; polyribonucleotide
transferase, ATP-GTP diphosphotransferase RNA
processing, RNA degradation; 2.5A {Streptomyces
antibioticus} SCOP: a.4.9.1 b.40.4.5 d.14.1.4 d.14.1.4
d.52.3.1 d.101.1.1 d.101.1.1 PDB: 1e3h_A
Length = 757
Score = 33.3 bits (77), Expect = 0.18
Identities = 12/25 (48%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 163 TGSGLSSSAAFVCSSTIALMAAFGV 187
GS S+S VC+ST++L+ A GV
Sbjct: 473 LGSNGSTSMGSVCASTMSLLNA-GV 496
>2hke_A Diphosphomevalonate decarboxylase, putative; mevalonate diphosphate
decarboxylase, lyase; 1.80A {Trypanosoma brucei}
Length = 380
Score = 32.4 bits (73), Expect = 0.25
Identities = 19/101 (18%), Positives = 41/101 (40%), Gaps = 3/101 (2%)
Query: 100 NVSDKYSLCTYPAEPDQELDLKHHQWGHYFICG---YKGFYEYVKAKGLDVGPPVGLDIL 156
+ S S + D E D + + ++++ + ++I+
Sbjct: 42 SASPFRSKTSVELRDDIETDTLRLNGTEVDVGKTPRVQSMLLHLRSTCPEELKNKKVNIV 101
Query: 157 VDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQL 197
+ PT +G++SSA+ C+ + AL+ AF +A+L
Sbjct: 102 SENNFPTAAGMASSASGYCAMSAALIRAFKSTTNVSMLARL 142
>3f0n_A Mevalonate pyrophosphate decarboxylase; cholesterol biosynthesis,
lipid synthesis, lyase, steroid biosynthesis, sterol
biosynthesis; 1.90A {Mus musculus} PDB: 3d4j_A
Length = 414
Score = 31.3 bits (70), Expect = 0.75
Identities = 15/62 (24%), Positives = 23/62 (37%)
Query: 136 FYEYVKAKGLDVGPPVGLDILVDGIVPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIA 195
L + + + PT +GL+SSAA L +GVE E+A
Sbjct: 107 RRSTEDGDTLPLSLSYKVHVASVNNFPTAAGLASSAAGYACLAYTLAQVYGVEGDLSEVA 166
Query: 196 QL 197
+
Sbjct: 167 RR 168
>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 = 30.6 bits (68), Expect = 1.0
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 161 VPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLT 198
PT +GL+SSAA + A+ + + EI+++
Sbjct: 132 FPTAAGLASSAAGFAALVSAIAKLYQLPQSTSEISRIA 169
>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 = 29.9 bits (68), Expect = 1.3
Identities = 5/20 (25%), Positives = 11/20 (55%), Gaps = 1/20 (5%)
Query: 168 SSSAAFVCSSTIALMAAFGV 187
S + ++++AL A G+
Sbjct: 139 GSRLVSLMAASLALADA-GI 157
>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 = 30.2 bits (69), Expect = 1.4
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 417 CPELEELVTVCRDNGALGARLTGAG 441
P L + + GAL ++G+G
Sbjct: 234 DPALARALRAGVEAGALAGIVSGSG 258
>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 = 29.9 bits (68), Expect = 1.4
Identities = 7/20 (35%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 168 SSSAAFVCSSTIALMAAFGV 187
S A + ++++AL+ A GV
Sbjct: 135 GSRTACLNAASVALVDA-GV 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 = 29.6 bits (67), Expect = 1.9
Identities = 7/20 (35%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 168 SSSAAFVCSSTIALMAAFGV 187
+ AA V ++T+A++ A G+
Sbjct: 137 GTYAACVNAATLAVLDA-GI 155
>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 = 29.5 bits (67), Expect = 1.9
Identities = 5/20 (25%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 168 SSSAAFVCSSTIALMAAFGV 187
+ A + ++++AL A G+
Sbjct: 135 GTRVAGITAASLALADA-GI 153
>3hkm_A OS03G0854200 protein; RNAse PH domain, phosphorylase, hydrolase;
1.98A {Oryza sativa japonica group}
Length = 246
Score = 29.0 bits (65), Expect = 2.7
Identities = 7/32 (21%), Positives = 13/32 (40%), Gaps = 2/32 (6%)
Query: 168 SSSAAFVCSSTIALMAAFGVEVPKKEIAQLTC 199
S + + AL+ A G+ + K + C
Sbjct: 114 SLLPCAINACCAALVFA-GIPL-KHLAVAIGC 143
>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 = 29.1 bits (66), Expect = 2.9
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 417 CPELEELVTVCRDNGALGARLTGAG 441
PEL+E+ R G G ++G+G
Sbjct: 210 FPELKEVRGRMRALGLRGVLMSGSG 234
>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 = 28.7 bits (65), Expect = 3.5
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 148 GPPVGLDILVDGIVPTGSGL---SSSAAFVCSSTIALMAAFGVEVPKKEIAQL 197
G +I +D +P G GL SS+AA V +AL + + E+A++
Sbjct: 85 PTGSGANISIDKRLPMGGGLGGGSSNAATV---LVALNHLWQCGLSMDELAEM 134
>3ks9_A Mglur1, metabotropic glutamate receptor 1; glutamate receptors,
dimerization, glutamic acid BIN structural genomics,
structural genomics consortium; HET: Z99 NAG; 1.90A
{Homo sapiens} PDB: 1ewk_A* 1ewt_A* 1ewv_A 1isr_A*
1iss_A* 3lmk_A*
Length = 496
Score = 28.7 bits (64), Expect = 5.2
Identities = 13/85 (15%), Positives = 30/85 (35%), Gaps = 16/85 (18%)
Query: 288 QEAISKVKTLSDVEGLCVAFAGKNGSDDPFLAVKEFLHEEPYMAKDIEKIIEEKLSS--- 344
+ + K L+ EGL +A + K + E+ + + + + E+L
Sbjct: 211 ESGMDAFKELAAQEGLSIAHSDK---------IYSNAGEKSF--DRLLRKLRERLPKARV 259
Query: 345 --IFANSSSSLDVLNAAKHYKLHQR 367
F + +L+A + +
Sbjct: 260 VVCFCEGMTVRGLLSAMRRLGVVGE 284
>2nn6_F MTR3, exosome component 6; RNA, exosome, PM/SCL, phosphorolytic,
hydrolase/transferase complex; 3.35A {Homo sapiens}
SCOP: d.14.1.4 d.101.1.1
Length = 272
Score = 28.3 bits (63), Expect = 5.3
Identities = 9/24 (37%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 168 SSSAAFVCSSTIALMAAFGVEVPK 191
S+ AA + ++ +AL A GVE+
Sbjct: 156 SALAAALTAAALALADA-GVEMYD 178
>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants,
DNA-repair, ATP-binding, DNA DA recombination, DNA
repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium
smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A*
1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A
2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A*
2zrp_A* 2zre_A* ...
Length = 349
Score = 28.4 bits (64), Expect = 5.4
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 319 AVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNA 358
++FL E +A +IEK I+EKL ++ + DVL A
Sbjct: 306 NARKFLLENTDVANEIEKKIKEKLGIGAVVTAEADDVLPA 345
>3cmw_A Protein RECA, recombinase A; homologous recombination,
recombination/DNA complex; HET: DNA ADP; 2.80A
{Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*
Length = 1706
Score = 28.1 bits (63), Expect = 8.0
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 319 AVKEFLHEEPYMAKDIEKIIEEKL 342
+L + P AK+IEK + E L
Sbjct: 1676 NATAWLKDNPETAKEIEKKVRELL 1699
Score = 28.1 bits (63), Expect = 9.0
Identities = 11/52 (21%), Positives = 22/52 (42%)
Query: 319 AVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAKHYKLHQRAAH 370
+L + P AK+IEK + E L S +++ S + + + +
Sbjct: 977 NATAWLKDNPETAKEIEKKVRELLLSNPNSTTGSTGSASGSSTGSMSAIDEN 1028
>3cmu_A Protein RECA, recombinase A; homologous recombination,
recombination/DNA complex; HET: DNA ADP; 4.20A
{Escherichia coli}
Length = 2050
Score = 28.1 bits (63), Expect = 8.1
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 319 AVKEFLHEEPYMAKDIEKIIEEKL 342
+L + P AK+IEK + E L
Sbjct: 2020 NATAWLKDNPETAKEIEKKVRELL 2043
>3lto_A Mevalonate diphosphate decarboxylase; protein structure initiative
II(PSI II), NYSGXRC, structural genomics; 2.27A
{Legionella pneumophila}
Length = 323
Score = 27.5 bits (60), Expect = 8.9
Identities = 12/49 (24%), Positives = 18/49 (36%)
Query: 161 VPTGSGLSSSAAFVCSSTIALMAAFGVEVPKKEIAQLTCECERYIGAQS 209
P SGL+SSA+ + T A K + +G+ S
Sbjct: 101 FPHSSGLASSASSFAALTKCASIALSELTQKPLPSIDEQAQLSRLGSGS 149
>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA
repair, DNA binding protein; 1.90A {Escherichia coli}
SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A*
1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A
Length = 356
Score = 27.7 bits (62), Expect = 9.0
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 319 AVKEFLHEEPYMAKDIEKIIEEKL 342
+L + P AK+IEK + E L
Sbjct: 308 NATAWLKDNPETAKEIEKKVRELL 331
>1xp8_A RECA protein, recombinase A; recombination, radioresistance,
DNA-repair, ATPase, DNA-BIND protein, DNA binding
protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP:
c.37.1.11 d.48.1.1
Length = 366
Score = 27.7 bits (62), Expect = 9.5
Identities = 8/42 (19%), Positives = 17/42 (40%)
Query: 319 AVKEFLHEEPYMAKDIEKIIEEKLSSIFANSSSSLDVLNAAK 360
++ E P M ++I + + + A + +L AA
Sbjct: 320 KTIAYIAERPEMEQEIRDRVMAAIRAGNAGEAPALAPAPAAP 361
>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding,
cytoplasm, damage, DNA recombination, DNA repair,
DNA-binding; 1.95A {Thermotoga maritima}
Length = 356
Score = 27.7 bits (62), Expect = 9.8
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 319 AVKEFLHEEPYMAKDIEKIIEEKL 342
+FL + P +A +IE+ I EK
Sbjct: 311 NAVQFLKDNPEIAGEIERRIREKY 334
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
0.318 0.135 0.393
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: 7,181,392
Number of extensions: 453710
Number of successful extensions: 1158
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1098
Number of HSP's successfully gapped: 73
Length of query: 456
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 359
Effective length of database: 3,993,456
Effective search space: 1433650704
Effective search space used: 1433650704
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: 59 (26.3 bits)