RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6404
(361 letters)
>1n4q_B Geranyltransferase type-I beta subunit; protein
geranylgeranyltransferase type-I, ggtase; HET: MGM GER;
2.40A {Rattus norvegicus} SCOP: a.102.4.3 PDB: 1n4p_B*
1n4r_B* 1n4s_B* 1s64_B* 1tnb_B* 1tno_B* 1tnu_B* 1tny_B*
1tnz_B*
Length = 377
Score = 178 bits (452), Expect = 7e-53
Identities = 83/203 (40%), Positives = 116/203 (57%), Gaps = 17/203 (8%)
Query: 24 LALVYRLQISTSLRSFTTPCFSFKCTLADGDCDMRFVFCACSICYILDDWSGMDRARCLE 83
L+ V + LR+ SF + DMRFV+CA ICY+L++WSGMD + +
Sbjct: 139 LSRVDKEACLAGLRALQLEDGSFCAVPEGSENDMRFVYCASCICYMLNNWSGMDMKKAIS 198
Query: 84 FIFRSLSYDGAFGQGPCLESHGGSTYCALASLALMNKLDTLRPTQASLYLDLVKSFLFYS 143
+I RS+SYD QG LESHGGST+C +ASL LM KL+ +
Sbjct: 199 YIRRSMSYDNGLAQGAGLESHGGSTFCGIASLCLMGKLEEVFS----------------E 242
Query: 144 PQIESLKRWLIFRQRSGFQGRPNKPVDTCYTFWIGASLSILNAATWIDEERLLLSVLDT- 202
++ +KRW I RQ++G+ GRPNKPVDTCY+FW+GA+L +L + + E+ +L T
Sbjct: 243 KELNRIKRWCIMRQQNGYHGRPNKPVDTCYSFWVGATLKLLKIFQYTNFEKNRNYILSTQ 302
Query: 203 QHMTGGLSKWSDTQADILHTYLG 225
+ GG +KW D+ D LH Y G
Sbjct: 303 DRLVGGFAKWPDSHPDALHAYFG 325
Score = 127 bits (320), Expect = 9e-34
Identities = 63/293 (21%), Positives = 118/293 (40%), Gaps = 21/293 (7%)
Query: 57 MRFVFCACSICYILDDWSGMDRARCLEFIFRSLSYDGAFGQGPCLESHGGSTYCALASLA 116
+ F A S +LD +++ +E+I+ GS+Y +
Sbjct: 48 LTIAFFALSGLDMLDSLDVVNKDDIIEWIYSLQVLPTEDRSNLDRCGFRGSSYLGIPFNP 107
Query: 117 LMNKLD-------TLRPT-QASLYLDLVKSFLFYSPQIESLKRWLIFRQRS--GFQGRPN 166
N + T L ++ E+ L Q F P
Sbjct: 108 SKNPGTAHPYDSGHIAMTYTGLSCLIILGDD-LSRVDKEACLAGLRALQLEDGSFCAVPE 166
Query: 167 -KPVDTCYTFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQADILHTYLG 225
D + + +LN + +D ++ + + + GL++ + ++ T+ G
Sbjct: 167 GSENDMRFVYCASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCG 226
Query: 226 ----EFFVRPRIIKTQ--IESLKRWLIFRQRSGFQGRPNKPVDTCYTFWIGASLSILNSA 279
+ + ++ + +KRW I RQ++G+ GRPNKPVDTCY+FW+GA+L +L
Sbjct: 227 IASLCLMGKLEEVFSEKELNRIKRWCIMRQQNGYHGRPNKPVDTCYSFWVGATLKLLKIF 286
Query: 280 TWIDEERLLLSVLDT-QHMTGGLSKWSDTQADILHTY--LEAMSHASRNKLKE 329
+ + E+ +L T + GG +KW D+ D LH Y + +S + + +
Sbjct: 287 QYTNFEKNRNYILSTQDRLVGGFAKWPDSHPDALHAYFGICGLSLMEESGICK 339
Score = 41.3 bits (96), Expect = 3e-04
Identities = 28/197 (14%), Positives = 64/197 (32%), Gaps = 32/197 (16%)
Query: 174 TFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQADILHTYLGEFFVR--- 230
F+ + L +L++ ++++ ++ + Q + D +YLG F
Sbjct: 51 AFFALSGLDMLDSLDVVNKDDIIEWIYSLQVLPTEDRSNLDRCGFRGSSYLGIPFNPSKN 110
Query: 231 ---------PRIIKT-----------------QIESLKRWLIFRQRS--GFQGRPN-KPV 261
I T E+ L Q F P
Sbjct: 111 PGTAHPYDSGHIAMTYTGLSCLIILGDDLSRVDKEACLAGLRALQLEDGSFCAVPEGSEN 170
Query: 262 DTCYTFWIGASLSILNSATWIDEERLLLSVLDTQHMTGGLSKWSDTQADILHTYLEAMSH 321
D + + +LN+ + +D ++ + + + GL++ + ++ T+ S
Sbjct: 171 DMRFVYCASCICYMLNNWSGMDMKKAISYIRRSMSYDNGLAQGAGLESHGGSTFCGIASL 230
Query: 322 ASRNKLKERNFQLPLDK 338
KL+E + L++
Sbjct: 231 CLMGKLEEVFSEKELNR 247
>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein
prenylation, metal-binding, prenyltransferase, zinc,
phosphoprotein; 1.80A {Rattus norvegicus} SCOP:
a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B*
3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B*
3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B*
Length = 331
Score = 158 bits (401), Expect = 7e-46
Identities = 62/221 (28%), Positives = 93/221 (42%), Gaps = 24/221 (10%)
Query: 8 VLETAVEVLEAVPPGVLALVYRLQISTSLRSFTTPCFSFKCTLADGDCDMRFVFCACSIC 67
+L T V + ++ ++ ++S SF G+ D RF FCA +
Sbjct: 95 LLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQKEDGSFAGD-IWGEIDTRFSFCAVATL 153
Query: 68 YILDDWSGMDRARCLEFIFRSLSYDGAFGQGPCLESHGGSTYCALASLALMNKLDTLRPT 127
+L ++ + +EF+ +++DG FG P ESH G YC LA+ ++L +
Sbjct: 154 ALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQV--- 210
Query: 128 QASLYLDLVKSFLFYSPQIESLKRWLIFRQR--SGFQGRPNKPVDTCYTFWIGASLSILN 185
+ L WL RQ G GRP K D CY++W+ ASL I+
Sbjct: 211 -----------------NSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIG 253
Query: 186 AATWIDEERLLLSVLDTQ-HMTGGLSKWSDTQADILHTYLG 225
WID E+L +L Q TGG + D HT G
Sbjct: 254 RLHWIDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFG 294
Score = 155 bits (392), Expect = 2e-44
Identities = 61/283 (21%), Positives = 109/283 (38%), Gaps = 29/283 (10%)
Query: 56 DMRFVFCACSICYILDDWSGMDRARCLEFIFRSLSYDGAFGQGPCLESHGGSTYCALASL 115
M V+ ++ ++ M++ L FI G + H T A+ L
Sbjct: 46 RMSGVYWGLTVMDLMGQLHRMNKEEILVFIKSCQHECGGVSASIGHDPHLLYTLSAVQIL 105
Query: 116 ALMNKLDTLRPTQASLYLDLVKSFLFYSPQIESLKRWLIFRQRS--GFQGRPNKPVDTCY 173
L + + ++ + ++ Q+ F G +DT +
Sbjct: 106 TLYDS--------------------IHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRF 145
Query: 174 TFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQADI--LHTYLGEFFVRP 231
+F A+L++L I+ E+ + VL + GG +++ ++ G +
Sbjct: 146 SFCAVATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITS 205
Query: 232 RIIKTQIESLKRWLIFRQR--SGFQGRPNKPVDTCYTFWIGASLSILNSATWIDEERLLL 289
++ + + L WL RQ G GRP K D CY++W+ ASL I+ WID E+L
Sbjct: 206 QLHQVNSDLLGWWLCERQLPSGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRS 265
Query: 290 SVLDTQ-HMTGGLSKWSDTQADILHTY--LEAMSHASRNKLKE 329
+L Q TGG + D HT + +S ++K
Sbjct: 266 FILACQDEETGGFADRPGDMVDPFHTLFGIAGLSLLGEEQIKP 308
Score = 57.0 bits (137), Expect = 2e-09
Identities = 31/165 (18%), Positives = 67/165 (40%), Gaps = 4/165 (2%)
Query: 174 TFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQADILHTYLGEFFVRP-- 231
+W + ++ +++E +L+ + QH GG+S +L+T +
Sbjct: 50 VYWGLTVMDLMGQLHRMNKEEILVFIKSCQHECGGVSASIGHDPHLLYTLSAVQILTLYD 109
Query: 232 RIIKTQIESLKRWLIFRQRS--GFQGRPNKPVDTCYTFWIGASLSILNSATWIDEERLLL 289
I ++ + ++ Q+ F G +DT ++F A+L++L I+ E+ +
Sbjct: 110 SIHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAVATLALLGKLDAINVEKAIE 169
Query: 290 SVLDTQHMTGGLSKWSDTQADILHTYLEAMSHASRNKLKERNFQL 334
VL + GG +++ Y A ++L + N L
Sbjct: 170 FVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVNSDL 214
>2h6f_B Protein farnesyltransferase beta subunit; ftase,
farnesyltransferase, farnesyl transferase,
prenyltransferase, CAAX, RAS, lipid modification,
prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP:
a.102.4.3 PDB: 1jcq_B* 1ld7_B* 1mzc_B* 1s63_B* 1sa4_B*
1tn6_B* 2f0y_B* 1ld8_B* 2iej_B* 3e37_B* 2h6h_B* 2h6g_B*
2h6i_B* 1o1t_B* 1o1s_B* 1o1r_B* 3eu5_B* 3pz4_B* 3e33_B*
1d8e_B* ...
Length = 437
Score = 155 bits (393), Expect = 1e-43
Identities = 58/219 (26%), Positives = 92/219 (42%), Gaps = 38/219 (17%)
Query: 24 LALVYRLQISTSLRSFTTPCFSFKCTLADGDCDMRFVFCACSICYILDDWSGMDRARCLE 83
++ R ++ L S P SF + G+ D+R +CA S+ + + + E
Sbjct: 169 YDIINREKLLQYLYSLKQPDGSFLMHV-GGEVDVRSAYCAASVASLTNIITPDLFEGTAE 227
Query: 84 FIFRSLSYDGAFGQGPCLESHGGSTYCALASLALMNKLDTLRPTQASLYLDLVKSFLFYS 143
+I R +++G G P +E+HGG T+C LA+L ++ + +L
Sbjct: 228 WIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRERSL------------------- 268
Query: 144 PQIESLKRWLIFRQRS---GFQGRPNKPVDTCYTFWIGASLSILNAATW----------- 189
++SL +W+ RQ GFQGR NK VD CY+FW L +L+ A
Sbjct: 269 -NLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALHAQGDPALSMSH 327
Query: 190 --IDEERLLLSVLD-TQHMTGGLSKWSDTQADILHTYLG 225
++ L +L Q GGL D HT
Sbjct: 328 WMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYC 366
Score = 137 bits (345), Expect = 7e-37
Identities = 66/314 (21%), Positives = 107/314 (34%), Gaps = 44/314 (14%)
Query: 61 FCACSICYILDDWSGMDRARCLEFIFRSLSYDGAFGQGPCLESHGGSTYCALASLALMNK 120
+ S+ + + + +F+ S +G FG GP H TY A+ +L ++
Sbjct: 106 WILHSLELLDEPIPQIVATDVCQFLELCQSPEGGFGGGPGQYPHLAPTYAAVNALCIIGT 165
Query: 121 LDTLRPTQASLYLDLVKSFLFYSPQIESLKRWLIFRQRS--GFQGRPNKPVDTCYTFWIG 178
+ E L ++L ++ F VD +
Sbjct: 166 EEAYDI-----------------INREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAA 208
Query: 179 ASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQADILHTY--LGEFFVRPRIIKT 236
+ S+ N T E + Q+ GG+ +A +T+ L + R
Sbjct: 209 SVASLTNIITPDLFEGTAEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKRERSL 268
Query: 237 QIESLKRWLIFRQRS---GFQGRPNKPVDTCYTFWIGASLSILNSATW------------ 281
++SL +W+ RQ GFQGR NK VD CY+FW L +L+ A
Sbjct: 269 NLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCYSFWQAGLLPLLHRALHAQGDPALSMSHW 328
Query: 282 -IDEERLLLSVLD-TQHMTGGLSKWSDTQADILHTY--LEAMSHASRNKLKERNFQLPLD 337
++ L +L Q GGL D HT L +S A + D
Sbjct: 329 MFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQHFGSGA----MLHD 384
Query: 338 KKDIAPLDELERID 351
P + L+
Sbjct: 385 VVLGVPENALQPTH 398
>3dra_B Geranylgeranyltransferase type I beta subunit;
geranylgeranyltrasferase, ggtase, ggtase-I, PGGT,
prenyltransferase, farnesyltransferase; HET: B3P GRG;
1.80A {Candida albicans}
Length = 390
Score = 143 bits (362), Expect = 1e-39
Identities = 51/221 (23%), Positives = 82/221 (37%), Gaps = 68/221 (30%)
Query: 52 DGDCDMRFVFCACSICYILD-------------DWSGMDRARCLEFIFRSLSYDGAFGQG 98
G+ D+R + A I +++ + + +D +FI ++ +G F
Sbjct: 154 YGEPDLRVCYMALLIRHLMKYDDNNNNNNREDSNETDIDLISLQQFILDRININGGFSST 213
Query: 99 PCLESHGGSTYCALASLALMNKLDTLRPTQASLYLDLVKSFLFYSPQIESLKRWLIFRQR 158
ESH G T+CA+ASL L+N +++S K WLI RQ
Sbjct: 214 IMDESHLGFTFCAIASLKLLNYPL---------------------EKLKSTKEWLIHRQV 252
Query: 159 S------------------------------GFQGRPNKPVDTCYTFWIGASLSILNAA- 187
GF GR NK DTCY++W SL ++
Sbjct: 253 DYPENLYPKDGNGDGNGNGDNYEYYRNIDIGGFNGRENKLSDTCYSWWCTGSLYNIDVNF 312
Query: 188 -TWIDEERLLLSVLDTQHMT--GGLSKWSDTQADILHTYLG 225
+D + +L+ GG + D+ D +H+YL
Sbjct: 313 IKLVDLNKAEDYLLNKTQNQLFGGFGRDPDSTPDPMHSYLA 353
Score = 104 bits (259), Expect = 4e-25
Identities = 53/281 (18%), Positives = 89/281 (31%), Gaps = 51/281 (18%)
Query: 61 FCACSICYILDD--WSGMDRARCLEFIFRSLSYDGAFGQG-----------PCLESHGGS 107
A IL + ++R + + F+ + DG G + +G
Sbjct: 98 LFALYNLLILKSPYHTIINRKKIMNFLCKCQVKDGINKGGFVPTLYYNEENGDYKQYGEP 157
Query: 108 ----TYCALASLALMNKLDTLRPTQASLYLDLVKSFLFYSPQIESLKRWLIFRQRS--GF 161
Y AL LM D + + SL+++++ R GF
Sbjct: 158 DLRVCYMALLIRHLMKYDDNNNNNNREDSNET-------DIDLISLQQFILDRININGGF 210
Query: 162 QGRPNKPVDTCYTFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQADILH 221
+TF ASL +LN + ++ Q D D
Sbjct: 211 SSTIMDESHLGFTFCAIASLKLLNY-PLEKLKSTKEWLIHRQVDYPENLYPKDGNGD--- 266
Query: 222 TYLGEFFVRPRIIKTQIESLKRWLIFRQRS--GFQGRPNKPVDTCYTFWIGASLSILNSA 279
+ + +R GF GR NK DTCY++W SL ++
Sbjct: 267 ---------------GNGNGDNYEYYRNIDIGGFNGRENKLSDTCYSWWCTGSLYNIDVN 311
Query: 280 --TWIDEERLLLSVLDTQHMT--GGLSKWSDTQADILHTYL 316
+D + +L+ GG + D+ D +H+YL
Sbjct: 312 FIKLVDLNKAEDYLLNKTQNQLFGGFGRDPDSTPDPMHSYL 352
Score = 27.9 bits (61), Expect = 6.7
Identities = 17/193 (8%), Positives = 47/193 (24%), Gaps = 56/193 (29%)
Query: 175 FWIGASLSILNAATWIDEERLLL--SVLDTQH------------MTGGLSKWSDTQADIL 220
++ L ++ + ++E + +++ + ++
Sbjct: 36 YFCLHGLQLIQKFQFTNQELIYYRNFIINQFMIENNQIISFRSTHYFQKTNQKYDCPNLS 95
Query: 221 HTY--------LGEFFVRPRIIKTQIESLKRWLIFRQRS--GFQGRPNKPVDTCYTFWIG 270
T L + + + +L Q +G +
Sbjct: 96 STLFALYNLLILKSPYHT----IINRKKIMNFLCKCQVKDGINKGGFVPTLYYNEENGDY 151
Query: 271 ---------------ASLSILN-------------SATWIDEERLLLSVLDTQHMTGGLS 302
++ + T ID L +LD ++ GG S
Sbjct: 152 KQYGEPDLRVCYMALLIRHLMKYDDNNNNNNREDSNETDIDLISLQQFILDRININGGFS 211
Query: 303 KWSDTQADILHTY 315
++ + T+
Sbjct: 212 STIMDESHLGFTF 224
>3q7a_B Farnesyltransferase beta subunit; protein prenyltransferase,
transferase-transferase inhibitor; HET: SUC 3CX FPP 778;
2.00A {Cryptococcus neoformans} PDB: 3q73_B* 3q78_B*
3q79_B* 3q75_B* 3q7f_B* 3sfx_B* 3sfy_B*
Length = 520
Score = 143 bits (362), Expect = 8e-39
Identities = 53/292 (18%), Positives = 89/292 (30%), Gaps = 55/292 (18%)
Query: 16 LEAVPPGVLALVYRLQISTSLRSFTTPCFSFKCTLADGDCDMRFVFCACSICYILDDWSG 75
+ R I P F G+ D+R +C + +LD +
Sbjct: 156 DSSTGGWKDLAAARQSIYEFFMRCKRPDGGFVVCE-GGEVDVRGTYCLLVVATLLDIITP 214
Query: 76 MDRARCLEFIFRSLSYDGAFGQ-----------------------GPCLESHGGSTYCAL 112
+F+ +Y+G F E+HGG T C+L
Sbjct: 215 ELLHNVDKFVSACQTYEGGFACASFPFPSVVPSTSAFPTSEPSCRVSMAEAHGGYTSCSL 274
Query: 113 ASLALMNKLDTLRPTQASLYLDLVKSFLFYSPQIESLKRWLIFRQRS-----GFQGRPNK 167
S L+ + +D + RW + +Q GF+GR NK
Sbjct: 275 NSHFLLTSVPLPSFPL---SIDA-----------NAALRWTVLQQGEPIEGGGFRGRTNK 320
Query: 168 PVDTCYTFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQA--DILHTYLG 225
VD CY++W+G + ++ R + W D I +
Sbjct: 321 LVDGCYSWWVGGGAPVAEELVRREKSRKVKKSRIEVFEEEKEGDWEDVPPIPPIFNRVAL 380
Query: 226 EFFVRPRIIKTQIESLKRWLIFRQRSGFQGRPNKPVDTCYTFWIGASLSILN 277
+ F ++ Q + G + +P K D +T + LSI
Sbjct: 381 QEFT---LVAAQQDPGS-------TGGLRDKPGKRPDQYHTCNNLSGLSIAQ 422
Score = 117 bits (294), Expect = 2e-29
Identities = 55/337 (16%), Positives = 93/337 (27%), Gaps = 89/337 (26%)
Query: 57 MRFVFCACSICYILD-DWSGMDRARCLEFIFRSLSYDGAFGQGP--CLESHGGSTYCALA 113
VF +L + R + + LS G FG GP H TY ++
Sbjct: 89 PWLVFWTVHSLDLLGVALDQGTKDRVVSTLLHFLSPKGGFGGGPANSQIPHLLPTYASVC 148
Query: 114 SLALMNKLDTLRPTQASLYLDLVKSFLFYSPQIESLKRWLIFRQRS--GFQGRPNKPVDT 171
SLA+ + + +S+ + + +R GF VD
Sbjct: 149 SLAIAGNDSSTGGWKDLAA------------ARQSIYEFFMRCKRPDGGFVVCEGGEVDV 196
Query: 172 CYTFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQADILHTY-------- 223
T+ + ++L+ T + V Q GG + S ++ +
Sbjct: 197 RGTYCLLVVATLLDIITPELLHNVDKFVSACQTYEGGFACASFPFPSVVPSTSAFPTSEP 256
Query: 224 -----------------------LGEFFVRPRIIKTQIESLKRWLIFRQRS-----GFQG 255
L + + + RW + +Q GF+G
Sbjct: 257 SCRVSMAEAHGGYTSCSLNSHFLLTSVPLPSFPLSIDANAALRWTVLQQGEPIEGGGFRG 316
Query: 256 RPNKPVDTCYTFWIGASLSILNSAT--------------------------------WID 283
R NK VD CY++W+G + +
Sbjct: 317 RTNKLVDGCYSWWVGGGAPVAEELVRREKSRKVKKSRIEVFEEEKEGDWEDVPPIPPIFN 376
Query: 284 EER----LLLSVLDTQHMTGGLSKWSDTQADILHTYL 316
L++ TGGL + D HT
Sbjct: 377 RVALQEFTLVAAQQDPGSTGGLRDKPGKRPDQYHTCN 413
Score = 29.5 bits (65), Expect = 2.0
Identities = 21/126 (16%), Positives = 37/126 (29%), Gaps = 19/126 (15%)
Query: 200 LDTQHMTGGLSKWSDTQADILHTYLGEFFVRPRIIKTQIESLKRWLIFRQRSGFQGRPNK 259
LD W+ D+L L + + R++ T + GF G P
Sbjct: 84 LDASRPWLVF--WTVHSLDLLGVALDQGT-KDRVVST------LLHFLSPKGGFGGGPAN 134
Query: 260 PVDTC--YTFWIGASLSILNS--------ATWIDEERLLLSVLDTQHMTGGLSKWSDTQA 309
T+ SL+I + + + + + GG +
Sbjct: 135 SQIPHLLPTYASVCSLAIAGNDSSTGGWKDLAAARQSIYEFFMRCKRPDGGFVVCEGGEV 194
Query: 310 DILHTY 315
D+ TY
Sbjct: 195 DVRGTY 200
>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 = 49.7 bits (118), Expect = 1e-06
Identities = 61/422 (14%), Positives = 127/422 (30%), Gaps = 138/422 (32%)
Query: 33 STSLRSFT-------------TPCF--------SFKCTLAD------GDCD--------M 57
+ S R T T F F L + D +
Sbjct: 3 AYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVG 62
Query: 58 RFV-FCACSICYILDDWSGMDRARCLEFIFRSLSYDGAFGQGPCLESHGGSTYCALASLA 116
+F+ + + +++ + L ++ + +G + H ALA+
Sbjct: 63 KFLGYVS----SLVEPSKVGQFDQVLNLCLT--EFENCYLEGN--DIH------ALAA-- 106
Query: 117 LMNKLDTLRPTQASLYLDLVKSF------------------LFYSPQIESLKRWLIFRQR 158
KL T +L+K++ LF + + + IF
Sbjct: 107 ---KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF--- 160
Query: 159 SGFQGRPNKPVD------TCYT----FWIGASLSILN--AATWIDEERLLLSVLDTQHMT 206
G QG + + Y I S L+ T +D E++ L+
Sbjct: 161 -GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN----- 214
Query: 207 GGLSKW---SDTQADILHTYLGEFFVR-PRIIKTQIESLKRWLIFRQRSGFQGRPNKPVD 262
+ +W D YL + P I Q L +++ + GF P +
Sbjct: 215 --ILEWLENPSNTPD--KDYLLSIPISCPLIGVIQ---LAHYVVTAKLLGF--TPGELRS 265
Query: 263 -----TCYTFWIGASLSILNSATWIDEERLLLSVLD--------TQHMTGGLSKWSDTQA 309
T ++ + +++I + +W + + S
Sbjct: 266 YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE 325
Query: 310 DILH------TYLEAMSHASRNKLKER----NFQLPLDKK-DIAPLDELERIDTNMAFVE 358
D L + + ++S+ ++ ++++ N LP K+ +I+ L ++ V
Sbjct: 326 DSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEIS-L-----VNGAKNLV- 378
Query: 359 VA 360
V+
Sbjct: 379 VS 380
Score = 42.7 bits (100), Expect = 1e-04
Identities = 64/420 (15%), Positives = 114/420 (27%), Gaps = 154/420 (36%)
Query: 9 LETAVEVLEAVPPG--VLALVYRLQISTSLRSFTTPCFSFKCTLADGDCD-------MRF 59
LE + V P +A + Q + L T A D +F
Sbjct: 16 LEHVLLV----PTASFFIASQLQEQFNKILPEPTE-------GFAADDEPTTPAELVGKF 64
Query: 60 V-FCACSICYILDDWSGMDRARCLEFIFRSLSYDGAFGQGPCLESHGGSTYCALASLALM 118
+ + + +++ + L ++ + +G + H ALA+
Sbjct: 65 LGYVS----SLVEPSKVGQFDQVLNLCLTE--FENCYLEGN--DIH------ALAA---- 106
Query: 119 NKLDTLRPTQASLYLDLVKSF------------------LFYSPQIESLKRWLIFRQRSG 160
KL T +L+K++ LF + + + IF G
Sbjct: 107 -KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF----G 161
Query: 161 FQGRPNKPVD------TCYT----FWIGASLSILN--AATWIDEERLLLSVLDTQHMTGG 208
QG + + Y I S L+ T +D E++ L+
Sbjct: 162 GQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLN------- 214
Query: 209 LSKW---SDTQADILHTYLGEFFVR-PRIIKTQIESLKRWLIFRQRSGFQGRPNKPVD-- 262
+ +W D YL + P I Q L +++ + GF P +
Sbjct: 215 ILEWLENPSNTPD--KDYLLSIPISCPLIGVIQ---LAHYVVTAKLLGF--TPGELRSYL 267
Query: 263 ----TC----------------------------YTFWIGA-----------SLSILNSA 279
F+IG SIL +
Sbjct: 268 KGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDS 327
Query: 280 TWIDEER--LLLSVLDTQHMTGGLSKWSDTQADILHT--YLEAMSHAS---RNKLKERNF 332
+E +LS+ L++ Q + T +L A N +N
Sbjct: 328 LENNEGVPSPMLSIS-------NLTQ-EQVQDYVNKTNSHLPAGKQVEISLVN--GAKNL 377
Score = 28.9 bits (64), Expect = 3.2
Identities = 24/138 (17%), Positives = 41/138 (29%), Gaps = 40/138 (28%)
Query: 21 PGVLALVYRLQISTSLRS-FTTPCFSFKCTLADGDCDMRFVF-----CACSICYILDDWS 74
P L + + + +R ++ F T+ DG +F + S +
Sbjct: 1669 PVNLTIHFGGEKGKRIRENYSAMIFE---TIVDGKLKTEKIFKEINEHSTSYT-----FR 1720
Query: 75 GMDRARCL--EF-----------IFRSLSYDGAFGQGPCLESHGGST--YCALASLALMN 119
++ +F F L G H S Y ALASLA
Sbjct: 1721 S-EKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGH--SLGEYAALASLA--- 1774
Query: 120 KLDTLRPTQASLYLDLVK 137
D + +++V
Sbjct: 1775 --DVMSIESL---VEVVF 1787
>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 = 41.8 bits (97), Expect = 4e-04
Identities = 47/302 (15%), Positives = 86/302 (28%), Gaps = 89/302 (29%)
Query: 114 SLALMNKLDTLRPTQASLYLDLVKSFLFYSPQIESLKR---WLIFRQRSGFQGRPNKPVD 170
+L N +T+ L + ++ S ++K + R + +P +
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE--- 244
Query: 171 TCYTFWIGASLSIL----NAATW--IDEE-RLLL-----SVLDT-----------QHMTG 207
L +L NA W + ++LL V D H +
Sbjct: 245 --------NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM 296
Query: 208 GLSKWSDTQADILHTYLGEFF---------VRPRIIKTQIESLK----RWLIFRQRSGFQ 254
L+ D +L YL PR + ES++ W ++ +
Sbjct: 297 TLTP--DEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN--C 352
Query: 255 GRPNKPVDTCYT----------FWIGASLSILNSATWIDEERLLLSVL-------DTQHM 297
+ +++ F LS+ + I LLS++ D +
Sbjct: 353 DKLTTIIESSLNVLEPAEYRKMFD---RLSVFPPSAHIPTI--LLSLIWFDVIKSDVMVV 407
Query: 298 TGGLSKWSDTQAD-------ILHTYLEAMSHASR-----NKLKER-NFQLPLDKKDIAPL 344
L K+S + I YLE + + N D D+ P
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP 467
Query: 345 DE 346
Sbjct: 468 YL 469
Score = 35.6 bits (81), Expect = 0.026
Identities = 41/271 (15%), Positives = 76/271 (28%), Gaps = 97/271 (35%)
Query: 115 LALMNKLDTLRPTQASLYLDLV------KSFLFYSPQIESLKRWLIFRQRSGFQGRPNKP 168
L L L LRP + + + K+++ ++ Q + +
Sbjct: 138 LKLRQALLELRPAK---NVLIDGVLGSGKTWV----ALDVC-------LSYKVQCKMDFK 183
Query: 169 VDTCYTFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQADILHTYLGEFF 228
+ FW+ N E +L + + Q D T +
Sbjct: 184 I-----FWL-------NLKNCNSPETVLEMLQKLLY-----------QIDPNWTSRSDHS 220
Query: 229 VRPRIIKTQIESLKRWLIFRQRSGFQGRPNKPVDTCYTFWIGASLSIL----NSATW--I 282
++ +I S++ L R + +P + L +L N+ W
Sbjct: 221 SNIKL---RIHSIQAEL----RRLLKSKPYE-----------NCLLVLLNVQNAKAWNAF 262
Query: 283 DEE-RLLL-----SVLD------TQHMTGGLSKWSDTQADILHTYLEAMSHASRNKLKER 330
+ ++LL V D T H++ + T ++ L L R
Sbjct: 263 NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL--------KYLDCR 314
Query: 331 NFQLPLDKKDIAPL----------DELERID 351
LP + P D L D
Sbjct: 315 PQDLPREVLTTNPRRLSIIAESIRDGLATWD 345
Score = 28.3 bits (62), Expect = 5.3
Identities = 23/150 (15%), Positives = 48/150 (32%), Gaps = 16/150 (10%)
Query: 203 QHMTGGLSKWSDTQADILHTYLGEFFVRPRIIKTQIESLKRWLIFRQRSGFQGRPNKPVD 262
HM + DIL + + FV K + K L + +
Sbjct: 5 HHMDFETGEHQYQYKDILSVFE-DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 263 TCYTFWIGASLSILNSATWIDEERLLLSVLDTQH--MTGGLSKWSDTQADILHTYLEAMS 320
T FW +L+ + ++ + VL + + + + + Y+E
Sbjct: 64 TLRLFWT-----LLSKQEEM-VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ-- 115
Query: 321 HASRNKLKERNFQLPLDKKDIAPLDELERI 350
R++L N K +++ L ++
Sbjct: 116 ---RDRL--YNDNQVFAKYNVSRLQPYLKL 140
Score = 27.9 bits (61), Expect = 7.5
Identities = 12/67 (17%), Positives = 19/67 (28%), Gaps = 15/67 (22%)
Query: 295 QHMTGGLSKWSDTQADILHTYLEAMSHASRNKLKERNFQLPLDKKDIAPLDELERIDTNM 354
HM + DIL + +A F D KD+ D + I +
Sbjct: 5 HHMDFETGEHQYQYKDILSVFEDA-------------FVDNFDCKDV--QDMPKSILSKE 49
Query: 355 AFVEVAQ 361
+
Sbjct: 50 EIDHIIM 56
>1y8c_A S-adenosylmethionine-dependent methyltransferase; structural
genomics, protein structure initiative, PSI; 2.50A
{Clostridium acetobutylicum} SCOP: c.66.1.43
Length = 246
Score = 28.5 bits (64), Expect = 3.0
Identities = 10/51 (19%), Positives = 16/51 (31%), Gaps = 13/51 (25%)
Query: 55 CDMR---------FVFCAC-SICYILDDWSGMDRARCLEFIFRSLSYDGAF 95
D+ + C S YI+D D + + + L G F
Sbjct: 91 QDISNLNINRKFDLITCCLDSTNYIIDS---DDLKKYFKAVSNHLKEGGVF 138
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 28.3 bits (63), Expect = 3.9
Identities = 19/94 (20%), Positives = 30/94 (31%), Gaps = 8/94 (8%)
Query: 157 QRSGFQGRPNKPVDTCYTFWIGASLSILNAATWIDEERLLLSVLDTQHMTGGLSKWSDTQ 216
QR G GR Y + S + + W++ LL ++ M L +
Sbjct: 277 QRRGRIGRNPNRDGDSYYYSEPTSENNAHHVCWLEASMLLDNMEVRGGMVAPL---YGVE 333
Query: 217 ADILHTYLGEFFVRPRIIKTQIESLKR-----WL 245
GE +R K E ++ WL
Sbjct: 334 GTKTPVSPGEMRLRDDQRKVFRELVRNCDLPVWL 367
>3d2l_A SAM-dependent methyltransferase; ZP_00538691.1, structural G joint
center for structural genomics, JCSG; HET: MSE; 1.90A
{Exiguobacterium sibiricum 255-15}
Length = 243
Score = 28.2 bits (63), Expect = 4.2
Identities = 10/51 (19%), Positives = 17/51 (33%), Gaps = 13/51 (25%)
Query: 55 CDMR---------FVFCAC-SICYILDDWSGMDRARCLEFIFRSLSYDGAF 95
DMR + C S+ Y+ + D + + R L+ G
Sbjct: 86 QDMRELELPEPVDAITILCDSLNYLQTE---ADVKQTFDSAARLLTDGGKL 133
>2vr5_A Glycogen operon protein GLGX; hydrolase, glycosidase, glycosyl
hydrolase, glycogen debraching; HET: GLC A16; 2.8A
{Sulfolobus solfataricus} PDB: 2vnc_A* 2vuy_A
Length = 718
Score = 27.6 bits (62), Expect = 7.2
Identities = 16/94 (17%), Positives = 30/94 (31%), Gaps = 7/94 (7%)
Query: 242 KRWLIFRQRSGFQGRPNKPVDTCYTFWIGASLSILNSATWIDEERLLLSVLDTQHMTGGL 301
+ FR+ FQG+ + + ++ TW +L++ VL+ M
Sbjct: 589 RAHPAFRRERYFQGKKLFGMPLKDVTFYTLEGREVDEKTWSSPTQLVIFVLEGSVMDEIN 648
Query: 302 SKWSDTQADILHTYLEAMSHASRNKLKERNFQLP 335
D L +A+ N + P
Sbjct: 649 MYGERIADDSFLIIL----NANPN---NVKVKFP 675
>2wwb_A Protein transport protein SEC61 subunit alpha ISO; ribosome,
protein EXIT tunnel, cotranslational protein
translocation, protein conducting channel; 6.48A {Canis
lupus familiaris}
Length = 476
Score = 27.6 bits (61), Expect = 8.2
Identities = 7/30 (23%), Positives = 19/30 (63%)
Query: 132 YLDLVKSFLFYSPQIESLKRWLIFRQRSGF 161
+L+++K F P+I+ +R + F+++ +
Sbjct: 5 FLEVIKPFCVILPEIQKPERKIQFKEKVLW 34
>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A
resolution, N-formylmethionine, alpha subunit; HET: FME;
2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1
c.10.2.2 PDB: 1ltx_A*
Length = 567
Score = 27.4 bits (60), Expect = 9.9
Identities = 30/222 (13%), Positives = 65/222 (29%), Gaps = 21/222 (9%)
Query: 133 LDLVKSFLFYSPQIESL---KRWLIFRQRSGFQGRPNKPVDTCYTFWIGASLSILNAATW 189
L+LV++ F P +S RWL+ R V C + + +
Sbjct: 212 LELVQNAFFTDPNDQSAWFYHRWLLGRAE-------PHDVLCCVHVSREEACLSVCFSRP 264
Query: 190 IDEERLLLSVLDTQHMTGGLSKWSDTQADILHTYLGEFFVRPRIIKTQIESLKRWLIFRQ 249
+ + ++L +W +++ + + Q+ +I+
Sbjct: 265 LTVGSRMGTLLLMVDEAPLSVEWRTPDGRNRPSHVWLCDLPAASLNDQLPQHTFRVIWTG 324
Query: 250 RSGFQGRPNKPVDTCYTFWIGASLSILNSATWIDEERLLLSVLDTQHMTGGLSKWSDTQA 309
+ C +SAT R LSV + + L + Q
Sbjct: 325 --------SDSQKECVLLKDRPECWCRDSATDEQLFRCELSVEKSTVLQSELESCKELQE 376
Query: 310 DILHTYLEAMSHASRNKLKERNFQLPLDKKDIAPLDELERID 351
++ + + L +K+ + L+ +D
Sbjct: 377 LEPENKWCLLTIILLMRALD---PLLYEKETLQYFSTLKAVD 415
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
0.323 0.136 0.425
Gapped
Lambda K H
0.267 0.0453 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,525,348
Number of extensions: 315340
Number of successful extensions: 690
Number of sequences better than 10.0: 1
Number of HSP's gapped: 625
Number of HSP's successfully gapped: 42
Length of query: 361
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 266
Effective length of database: 4,049,298
Effective search space: 1077113268
Effective search space used: 1077113268
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 58 (26.8 bits)