RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17194
(871 letters)
>2cfq_A Lactose permease; transport, transport mechanism, lactose/H+
symport, sugar transport, transmembrane, formylation;
2.95A {Escherichia coli} SCOP: f.38.1.2 PDB: 1pv7_A*
1pv6_A 2cfp_A 2v8n_A 2y5y_A*
Length = 417
Score = 77.7 bits (191), Expect = 4e-15
Identities = 49/361 (13%), Positives = 115/361 (31%), Gaps = 16/361 (4%)
Query: 105 SATGVLFASKAIVQLMVNPFSGALIDRIGYDLPMMI---GLCIMFLSTALFACGRSYGVL 161
S TG++FA+ ++ L+ P G L D++G ++ G+ +MF +F G
Sbjct: 43 SDTGIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMFAPFFIFIFGPLLQYN 102
Query: 162 FFARSLQGVGSAFADTSGLAMIADRFTEENERSQAL--GIALAFISFGCLVAPPFGGALY 219
S+ G + A + F E+ R G A F G + G ++
Sbjct: 103 ILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSNFEFGRARMFGCVGWALGASIVGIMF 162
Query: 220 QFAGKEIPFLILAFVSLLDGFMLLLVMKPVKEQLNQKKPESHSTVP----IWKLFMDPYI 275
+ + +L +L + ++ + +LF P +
Sbjct: 163 TINNQFVFWLGSGCALILAVLLFFAKTDAPSSATVANAVGANHSAFSLKLALELFRQPKL 222
Query: 276 AVCSGALLMANVALAFLE---PTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVKL 332
S ++ + + G + + + +
Sbjct: 223 WFLSLYVIGVSCTYDVFDQQFANFFTSFFATGEQGTRVFGYVTTMGELLNASIMFFAPLI 282
Query: 333 AKLYPTYQWLMVAVGLVLEGLCCFIIPFSTSYQMLMLPICGICFGMALVDTALLPTLGYL 392
L++A + + F+TS +++ F + + +
Sbjct: 283 INRIGGKNALLLA--GTIMSVRIIGSSFATSALEVVILKTLHMFEVPFLLVGCFKYITSQ 340
Query: 393 VDVRYVSVYGSIYAIADISYSLAYAIGPIVAGGIVDAIGFTALNFLIAFMNILYAPVLIY 452
+VR+ + + LA ++AG + ++IGF ++ + + + + ++
Sbjct: 341 FEVRFSATIYLVCFC--FFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGFTLISVF 398
Query: 453 L 453
Sbjct: 399 T 399
Score = 61.1 bits (148), Expect = 7e-10
Identities = 21/161 (13%), Positives = 50/161 (31%), Gaps = 2/161 (1%)
Query: 98 EHAEGEDSATGVLFASKAIVQLMVNPFSGALIDRIGYDLPMMIGLCIMFLSTALFACGRS 157
E G + ++ + F+ +I+RIG +++ IM + + S
Sbjct: 252 ATGEQGTRVFGYVTTMGELLNASIMFFAPLIINRIGGKNALLLAGTIMSVRIIGSSFATS 311
Query: 158 YGVLFFARSLQGVGSAFADTSGLAMIADRFTEENE-RSQALGIALAFISFGCLVAPPFGG 216
+ ++L F I +F + + G
Sbjct: 312 ALEVVILKTLHMFEVPFLLVGCFKYITSQFEVRFSATIYLVCFCFFK-QLAMIFMSVLAG 370
Query: 217 ALYQFAGKEIPFLILAFVSLLDGFMLLLVMKPVKEQLNQKK 257
+Y+ G + +L+L V+L + + + ++
Sbjct: 371 NMYESIGFQGAYLVLGLVALGFTLISVFTLSGPGPLSLLRR 411
Score = 46.8 bits (111), Expect = 2e-05
Identities = 23/247 (9%), Positives = 71/247 (28%), Gaps = 11/247 (4%)
Query: 540 FGGALYQFAGKEIPFLILAFVSLLDGFMLLLVMKPVKEQLNQKKPESHSTVP----IWKL 595
G ++ + + +L +L + ++ + +L
Sbjct: 157 IVGIMFTINNQFVFWLGSGCALILAVLLFFAKTDAPSSATVANAVGANHSAFSLKLALEL 216
Query: 596 FMDPYIAVCSGALLMANVALAFLE---PTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGV 652
F P + S ++ + + G + + +
Sbjct: 217 FRQPKLWFLSLYVIGVSCTYDVFDQQFANFFTSFFATGEQGTRVFGYVTTMGELLNASIM 276
Query: 653 VITVKLAKLYPTYQWLMVAVGLVLEGLCCFIIPFSTSYQMLMLPICGICFGMALVDTALL 712
+ L++A + + F+TS +++ F + +
Sbjct: 277 FFAPLIINRIGGKNALLLA--GTIMSVRIIGSSFATSALEVVILKTLHMFEVPFLLVGCF 334
Query: 713 PTLGYLVDVRYVSVYGSIYAIADISYSLAYAIGPIVAGGIVDAIGFTALNFLIAFMNILY 772
+ +VR+ + + LA ++AG + ++IGF ++ + + +
Sbjct: 335 KYITSQFEVRFSATIYLVCFC--FFKQLAMIFMSVLAGNMYESIGFQGAYLVLGLVALGF 392
Query: 773 APVLIYL 779
+ ++
Sbjct: 393 TLISVFT 399
Score = 32.6 bits (74), Expect = 0.65
Identities = 19/186 (10%), Positives = 47/186 (25%), Gaps = 3/186 (1%)
Query: 294 PTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVKLAKLYPTYQWLMVAVGLVLEGL 353
P +W+ D G+I+ + + L+ ++L+ + +L +
Sbjct: 28 PFFPIWLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGML-VM 86
Query: 354 CCFIIPFSTSYQMLMLPICGICFGMALVDTALLPTLGYLVDV--RYVSVYGSIYAIADIS 411
F + + G G + + + + A +
Sbjct: 87 FAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSNFEFGRARMF 146
Query: 412 YSLAYAIGPIVAGGIVDAIGFTALNFLIAFMNILYAPVLIYLKNIYDFKPFENEANILMA 471
+ +A+G + G + IL + + N +
Sbjct: 147 GCVGWALGASIVGIMFTINNQFVFWLGSGCALILAVLLFFAKTDAPSSATVANAVGANHS 206
Query: 472 DPPKKE 477
K
Sbjct: 207 AFSLKL 212
Score = 32.6 bits (74), Expect = 0.65
Identities = 19/186 (10%), Positives = 47/186 (25%), Gaps = 3/186 (1%)
Query: 620 PTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVKLAKLYPTYQWLMVAVGLVLEGL 679
P +W+ D G+I+ + + L+ ++L+ + +L +
Sbjct: 28 PFFPIWLHDINHISKSDTGIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGML-VM 86
Query: 680 CCFIIPFSTSYQMLMLPICGICFGMALVDTALLPTLGYLVDV--RYVSVYGSIYAIADIS 737
F + + G G + + + + A +
Sbjct: 87 FAPFFIFIFGPLLQYNILVGSIVGGIYLGFCFNAGAPAVEAFIEKVSRRSNFEFGRARMF 146
Query: 738 YSLAYAIGPIVAGGIVDAIGFTALNFLIAFMNILYAPVLIYLKNIYDFKPFENEANILMA 797
+ +A+G + G + IL + + N +
Sbjct: 147 GCVGWALGASIVGIMFTINNQFVFWLGSGCALILAVLLFFAKTDAPSSATVANAVGANHS 206
Query: 798 DPPKKE 803
K
Sbjct: 207 AFSLKL 212
>2gfp_A EMRD, multidrug resistance protein D; membrane protein, multidrug
transporter; 3.50A {Escherichia coli}
Length = 375
Score = 68.8 bits (169), Expect = 2e-12
Identities = 36/176 (20%), Positives = 65/176 (36%), Gaps = 12/176 (6%)
Query: 111 FASKAIVQLMVNPFSGALIDRIGYDLPMMIGLCIMFLSTALFACGRSYGVLFFARSLQGV 170
+ + QL F G + DR+G +++G+ I L+T + S VL A ++QG+
Sbjct: 45 LLTYGVSQL----FYGPISDRVGRRPVILVGMSIFMLATLVAVTTSSLTVLIAASAMQGM 100
Query: 171 GSAFADTSGLAMIADRFTEENERSQALGIALAFISFGCLVAPPFGGALYQFAGKEIPFLI 230
G+ + D + + A + I L+AP GG L +L
Sbjct: 101 GTGVGGVMARTLPRDLYERT-QLRHANSLLNMGILVSPLLAPLIGGLLDTMWNWRACYLF 159
Query: 231 LAFVSLLDGFMLLLVMKPVKEQLNQKKPESHSTVPIWKLFMDP----YIAVCSGAL 282
L + + + + + E P + LF + Y+ + G L
Sbjct: 160 LLVLCAG---VTFSMARWMPETRPVDAPRTRLLTSYKTLFGNSGFNCYLLMLIGGL 212
>1pw4_A Glycerol-3-phosphate transporter; transmembrane, inner membrane,
major facilitator superfamily, secondary active membrane
transporter; 3.30A {Escherichia coli} SCOP: f.38.1.1
Length = 451
Score = 65.5 bits (160), Expect = 4e-11
Identities = 38/357 (10%), Positives = 102/357 (28%), Gaps = 31/357 (8%)
Query: 124 FSGALIDRIGYDLPMMIGLCIMFLSTALFACGR----SYGVLFFARSLQGVGSAFADTSG 179
G++ DR + + GL + S V+F L G
Sbjct: 81 IMGSVSDRSNPRVFLPAGLILAAAVMLFMGFVPWATSSIAVMFVLLFLCGWFQGMGWPPC 140
Query: 180 LAMIADRFTEENERSQALGIALAFISFGCLVAPP-FGGALYQFAGKEIPFLILAFVSLLD 238
+ +++ ER + + + G + P F + F + AF ++L
Sbjct: 141 GRTMVHWWSQ-KERGGIVSVWNCAHNVGGGIPPLLFLLGMAWFNDWHAALYMPAFCAILV 199
Query: 239 GFMLLLVMK------------------PVKEQLNQKKPESHSTVPIWKLFMDPYIAVCSG 280
+M+ P ++ + + + + + + +
Sbjct: 200 ALFAFAMMRDTPQSCGLPPIEEYKNDYPDDYNEKAEQELTAKQIFMQYVLPNKLLWYIAI 259
Query: 281 ALLMANVALAFLEPTISLWIED----NLTTDNWKIGMIWLPAFFPHVFGVVITVKLAKLY 336
A + + + ++++ L +W + + ++ K+ +
Sbjct: 260 ANVFVYLLRYGILDWSPTYLKEVKHFALDKSSWAYFLYEYAGIPGTLLCGWMSDKVFRGN 319
Query: 337 PTYQWLMVAVGLVLEGLCCFIIPFSTSYQMLMLPICGICFGMALVDTALLPTLGYLVDVR 396
+ + + + + + + + M+ + I F + + L +
Sbjct: 320 RGATGVFFMTLVTI-ATIVYWMNPAGNPTVDMICMIVIGFLIYGPVMLIGLHALELAPKK 378
Query: 397 YVSVYGSIYAIADISYSLAYAIGPIVAGGIVDAIGFTALNFLIAFMNILYAPVLIYL 453
+ Y + G VD G+ ++ +IL +LI +
Sbjct: 379 AAGTAAGFTGLF--GYLGGSVAASAIVGYTVDFFGWDGGFMVMIGGSILAVILLIVV 433
Score = 36.2 bits (84), Expect = 0.044
Identities = 23/147 (15%), Positives = 48/147 (32%), Gaps = 15/147 (10%)
Query: 124 FSGALIDRI---GYDLPMMIGLCIMFLSTALFACGR--SYGVLFFARSLQGVGSAFADTS 178
G + D++ + + ++ ++T ++ + V + G
Sbjct: 307 LCGWMSDKVFRGNRGATGVFFMTLVTIATIVYWMNPAGNPTVDMICMIVIGFLIYGPVML 366
Query: 179 GLAMIADRFTEENERSQALGIALAFISF-----GCLVAPPFGGALYQFAGKEIPFLILAF 233
+ +A G A F G + A G F G + F+++
Sbjct: 367 IGLHALELAP-----KKAAGTAAGFTGLFGYLGGSVAASAIVGYTVDFFGWDGGFMVMIG 421
Query: 234 VSLLDGFMLLLVMKPVKEQLNQKKPES 260
S+L +L++VM K + Q E
Sbjct: 422 GSILAVILLIVVMIGEKRRHEQLLQEL 448
Score = 33.5 bits (77), Expect = 0.28
Identities = 24/265 (9%), Positives = 74/265 (27%), Gaps = 25/265 (9%)
Query: 537 TPPFGGALYQFAGKEIPFLILAFVSLLDGFMLLLVMK------------------PVKEQ 578
F + F + AF ++L +M+ P
Sbjct: 172 PLLFLLGMAWFNDWHAALYMPAFCAILVALFAFAMMRDTPQSCGLPPIEEYKNDYPDDYN 231
Query: 579 LNQKKPESHSTVPIWKLFMDPYIAVCSGALLMANVALAFLEPTISLWIED----NLTTDN 634
++ + + + + + + + A + + + ++++ L +
Sbjct: 232 EKAEQELTAKQIFMQYVLPNKLLWYIAIANVFVYLLRYGILDWSPTYLKEVKHFALDKSS 291
Query: 635 WKIGMIWLPAFFPHVFGVVITVKLAKLYPTYQWLMVAVGLVLEGLCCFIIPFSTSYQMLM 694
W + + ++ K+ + + + + + + + + + M
Sbjct: 292 WAYFLYEYAGIPGTLLCGWMSDKVFRGNRGATGVFFMTLVTI-ATIVYWMNPAGNPTVDM 350
Query: 695 LPICGICFGMALVDTALLPTLGYLVDVRYVSVYGSIYAIADISYSLAYAIGPIVAGGIVD 754
+ + I F + + L + + Y + G VD
Sbjct: 351 ICMIVIGFLIYGPVMLIGLHALELAPKKAAGTAAGFTGLF--GYLGGSVAASAIVGYTVD 408
Query: 755 AIGFTALNFLIAFMNILYAPVLIYL 779
G+ ++ +IL +LI +
Sbjct: 409 FFGWDGGFMVMIGGSILAVILLIVV 433
>3o7q_A L-fucose-proton symporter; transporter, multi-PASS membrane protei
transport protein; HET: BNG; 3.14A {Escherichia coli}
PDB: 3o7p_A*
Length = 438
Score = 63.8 bits (155), Expect = 1e-10
Identities = 55/363 (15%), Positives = 110/363 (30%), Gaps = 46/363 (12%)
Query: 123 PFSGALIDRIGYDLPMMIGLCIMFLSTALF---ACGRSYGVLFFARSLQGVGSAFADTSG 179
+G L+ ++ Y ++ GL + L ALF A +Y + + G +T+
Sbjct: 79 IPAGILMKKLSYKAGIITGLFLYALGAALFWPAAEIMNYTLFLVGLFIIAAGLGCLETAA 138
Query: 180 LAMIADRFTEENERSQALGIALAFISFGCLVAPPFGGALYQFAGKE-------------- 225
+ E + L +A F SFG ++A FG +L
Sbjct: 139 NPFVTVLGPESS-GHFRLNLAQTFNSFGAIIAVVFGQSLILSNVPHQSQDVLDKMSPEQL 197
Query: 226 ------------IPFLILAFVSLLDGFMLLLVMKP-VKEQLNQKKPESHSTVPIWKLFMD 272
P++I+ + LL +++L P ++ + + + + +L
Sbjct: 198 SAYKHSLVLSVQTPYMIIVAIVLLVALLIMLTKFPALQSDNHSDAKQGSFSASLSRLARI 257
Query: 273 PYIAVCSGAL-LMANVALAFLEPTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVK 331
+ A A I +E+ G
Sbjct: 258 RHWRWAVLAQFCYVGAQTACWSYLIRYAVEEIPGMTAGFAANYLTGTMVCFFIGRFTGTW 317
Query: 332 LAKLYPTYQWLMVAVGLVLEGLCCFIIPFSTSYQMLMLPICGICFGM--ALVDTALLPTL 389
L + ++ L + + LC ++ L +C + + + + L
Sbjct: 318 LISRFAPHKVLAAYALIAM-ALCLISAFAGGHVGLIALTLCSAFMSIQYPTIFSLGIKNL 376
Query: 390 GYLVDVRYVSVYGSIYAIADISYSLAYAIGPIVAGGIVDAIGFTALNFLIAFMNILYAPV 449
G + S + + I V G + DA G LI + +A +
Sbjct: 377 G-----QDTKYGSSFIVMT----IIGGGIVTPVMGFVSDAAGNIPTAELIPA--LCFAVI 425
Query: 450 LIY 452
I+
Sbjct: 426 FIF 428
Score = 33.8 bits (77), Expect = 0.27
Identities = 31/231 (13%), Positives = 68/231 (29%), Gaps = 16/231 (6%)
Query: 552 IPFLILAFVSLLDGFMLLLVMKP-VKEQLNQKKPESHSTVPIWKLFMDPYIAVCSGAL-L 609
P++I+ + LL +++L P ++ + + + + +L + A
Sbjct: 210 TPYMIIVAIVLLVALLIMLTKFPALQSDNHSDAKQGSFSASLSRLARIRHWRWAVLAQFC 269
Query: 610 MANVALAFLEPTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVKLAKLYPTYQWLM 669
A I +E+ G L + ++ L
Sbjct: 270 YVGAQTACWSYLIRYAVEEIPGMTAGFAANYLTGTMVCFFIGRFTGTWLISRFAPHKVLA 329
Query: 670 VAVGLVLEGLCCFIIPFSTSYQMLMLPICGICFGM--ALVDTALLPTLGYLVDVRYVSVY 727
+ + LC ++ L +C + + + + LG +
Sbjct: 330 AYALIAM-ALCLISAFAGGHVGLIALTLCSAFMSIQYPTIFSLGIKNLG-----QDTKYG 383
Query: 728 GSIYAIADISYSLAYAIGPIVAGGIVDAIGFTALNFLIAFMNILYAPVLIY 778
S + + I V G + DA G LI + +A + I+
Sbjct: 384 SSFIVMT----IIGGGIVTPVMGFVSDAAGNIPTAELIPA--LCFAVIFIF 428
>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 = 50.2 bits (119), Expect = 3e-06
Identities = 63/415 (15%), Positives = 121/415 (29%), Gaps = 131/415 (31%)
Query: 1 MEAFKA---CWTVVGTLKVPVLNLEVNEVKDIVWEKLQEPKSQRKLILVIVSTALLLD-- 55
+AF C V K +L+ E E+ I+ K + S + LL
Sbjct: 26 EDAFVDNFDCKDVQDMPK-SILSKE--EIDHIIMSK--DAVSGTLRLFWT-----LLSKQ 75
Query: 56 -NMLYMVIVPII-PDYLRFIGAWGEEDQLQALNESRYHTK------------PHH--REH 99
M+ + ++ +Y + E + ++ Y + ++ R
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQ 135
Query: 100 AEGEDSATGVLFASKAIVQLMVNPFSGALIDRIGYDLPMMIG-----LCIMFLSTALFAC 154
L +A+++L P LID G ++G + + + C
Sbjct: 136 P--------YLKLRQALLEL--RPAKNVLID--G-----VLGSGKTWVALDVCLSYKVQC 178
Query: 155 GRSYGVLFFARSLQGVGSAFADTSGLAM-------IADRFTEENERSQALGIALAFISFG 207
+ + F+ + + + + L M I +T ++ S + + + I
Sbjct: 179 KMDFKI-FWLN----LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233
Query: 208 C---LVAPPFGGALYQFAGKEIPFLILAFV---SLLDGFML---LLVM---KPVKEQLNQ 255
L + P+ L L+L V + F L +L+ K V + L+
Sbjct: 234 LRRLLKSKPYENCL----------LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSA 283
Query: 256 KKPESHSTVPIWKLFMDP--------YI---------AVCSGALLMANVALAFLEPTISL 298
S Y+ V + ++ + ++
Sbjct: 284 ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLAT 343
Query: 299 WIEDNLTTDNWKIGMIWLPAFFPHV----FGVVITVKLAKLYPT-----YQWLMV 344
W DNWK HV +I L L P + L V
Sbjct: 344 W-------DNWK-----------HVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Score = 47.9 bits (113), Expect = 2e-05
Identities = 67/469 (14%), Positives = 128/469 (27%), Gaps = 144/469 (30%)
Query: 220 QFAGKEI-PFLILAFVSLLDGFMLLLVMKPV------KEQLNQKKPESHSTVPIWKLFMD 272
Q+ K+I AFV D + + K + + K S + W L
Sbjct: 15 QYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74
Query: 273 P---YIAVCSGAL------LMANVALAFLEPTI--SLWIE--DNLTTDNWKIGMIWLPAF 319
L LM+ + +P++ ++IE D L DN F
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN--------QVF 126
Query: 320 FPHVFGV-------VITVKLAKLYPTYQWL----MVAVG---LVLEGL------CCFIIP 359
+ V + L +L P + + ++ G + L+ C
Sbjct: 127 AKY--NVSRLQPYLKLRQALLELRPA-KNVLIDGVLGSGKTWVALDVCLSYKVQCKM--D 181
Query: 360 FSTSYQMLMLPICGICFGMALVDTALLPTLGYLVDVRYVSVYGSIYAIADISYSLAYAIG 419
F + + +L L L + + + +D S ++ I
Sbjct: 182 FKIFW---------LNLKNCNSPETVLEMLQKL----LYQIDPNWTSRSDHSSNIKLRIH 228
Query: 420 PIVAGGIVDAIGFTALNFLIAFMNILYAPVLIYLKNIYD---FKPFENEANILMADPPKK 476
I A L L + Y L+ L N+ + + F IL+
Sbjct: 229 SIQA----------ELRRL--LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILL------ 270
Query: 477 EYQTYTMQDRQPVANDYKNHL--EYSMQETSI----DENKQPAANVGTNGVSNPFKASAP 530
T + +Q V + S+ S+ DE K + +
Sbjct: 271 -----TTRFKQ-VTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY----LDCRPQDL-- 318
Query: 531 STGPPETPPFGGALYQFAGKEIPFLILAFVSLLDGFMLLL----------VMKPVKEQLN 580
P E P + + + + ++ LN
Sbjct: 319 ---PRE-----------VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Query: 581 QKKPESHSTVPIWKLFMDPYIAVCSGALLMANVALAFLEPTIS-LWIED 628
+P + K+F ++V + + +S +W +
Sbjct: 365 VLEPAEYR-----KMFDR--LSV-----FPPSAHIP--TILLSLIWFDV 399
Score = 45.6 bits (107), Expect = 7e-05
Identities = 53/336 (15%), Positives = 97/336 (28%), Gaps = 96/336 (28%)
Query: 546 QFAGKEI-PFLILAFVSLLDGFMLLLVMKPV------KEQLNQKKPESHSTVPIWKLFMD 598
Q+ K+I AFV D + + K + + K S + W L
Sbjct: 15 QYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74
Query: 599 P---YIAVCSGAL------LMANVALAFLEPTI--SLWIE--DNLTTDNWKIGMIWLPAF 645
L LM+ + +P++ ++IE D L DN F
Sbjct: 75 QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN--------QVF 126
Query: 646 FPHVFGV-------VITVKLAKLYPTYQWL----MVAVG---LVLEGL------CCFIIP 685
+ V + L +L P + + ++ G + L+ C
Sbjct: 127 AKY--NVSRLQPYLKLRQALLELRPA-KNVLIDGVLGSGKTWVALDVCLSYKVQCKM--D 181
Query: 686 FSTSYQMLMLPICGICFGMALVDTALLPTLGYLVDVRYVSVYGSIYAIADISYSLAYAIG 745
F + + +L L L + + + +D S ++ I
Sbjct: 182 FKIFW---------LNLKNCNSPETVLEMLQKL----LYQIDPNWTSRSDHSSNIKLRIH 228
Query: 746 PIVAGGIVDAIGFTALNFLIAFMNILYAPVLIYLKNIYD---FKPFENEANILMADPPKK 802
I A L L + Y L+ L N+ + + F IL+
Sbjct: 229 SIQA----------ELRRL--LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILL------ 270
Query: 803 EYQTYTMQDRQPVANDYKNHLEYSMQETSIDENKQP 838
T + +Q V + + S+D +
Sbjct: 271 -----TTRFKQ-VTDFLSA---ATTTHISLDHHSMT 297
>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 = 48.1 bits (114), Expect = 1e-05
Identities = 98/658 (14%), Positives = 173/658 (26%), Gaps = 263/658 (39%)
Query: 147 LSTALFACGRSYGVLFFARSLQGVGSAFADTSGLAMIADRFTEENERSQALGIALAFISF 206
+ TA F F A LQ F L + F ++E + + F+ +
Sbjct: 22 VPTASF---------FIASQLQ---EQFNKI--LPEPTEGFAADDEPTTPAELVGKFLGY 67
Query: 207 -GCLVAPPFGG--------ALYQFAGKEIPFL----ILAFVSLLDGFMLLLVMKPVKEQL 253
LV P G L +F E +L I A + L
Sbjct: 68 VSSLVEPSKVGQFDQVLNLCLTEF---ENCYLEGNDIHALAAKLL--------------- 109
Query: 254 NQKKPESHSTVPIWKLFMDPYIAVCSGALLMANVALAFLEPTISLWIEDNLTTDNWKIGM 313
E+ +T+ K + YI A +MA + + S + N ++
Sbjct: 110 ----QENDTTLVKTKELIKNYIT----ARIMAKRPFD--KKSNSALFR-AVGEGNAQLVA 158
Query: 314 IWLPAFFPHVFG----VVITVK-LAKLYPTYQW----LMVAVGLVLEGLCCFIIPFSTSY 364
I FG + L LY TY L+ L L + +
Sbjct: 159 I---------FGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVF 209
Query: 365 QMLMLPICGICFGMALVDTALLPTLGYLVDVRYVSVYGSIYAIADISYSLAYAIGPIVAG 424
G+ L + + P YL IS P+
Sbjct: 210 TQ------GLNILEWLENPSNTPDKDYL-------------LSIPISC-------PL--- 240
Query: 425 GIVDAIGFTAL-NFLIAFMNILYAP---------VLIYLKNIY------------DFKPF 462
IG L ++++ + + P + + + F F
Sbjct: 241 -----IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESF--F 293
Query: 463 ENEANIL----------------MADPPKKEYQTYTMQDRQP-----VANDYKNHLEYSM 501
+ + + PP + + P ++N + ++ +
Sbjct: 294 VSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYV 353
Query: 502 QET--SIDENKQPAANVGTNGVSNPFKASAPS----TGPPETPPFGGALYQF-------- 547
+T + KQ ++ NG +GPP+ +LY
Sbjct: 354 NKTNSHLPAGKQVEISL-VNG---------AKNLVVSGPPQ------SLYGLNLTLRKAK 397
Query: 548 --AGKE---IPFLILAFVSLLDGFMLLLVMKPVKEQLNQKKPESHS-----TVPIWKLF- 596
+G + IPF +++K + + P F
Sbjct: 398 APSGLDQSRIPF-------------------------SERKLKFSNRFLPVASP----FH 428
Query: 597 ---MDPYIAVCSGALLMANVA-----LAF-------------LEPTISLWIEDNLTTD-- 633
+ P + + L+ NV+ + L +IS I D +
Sbjct: 429 SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPV 488
Query: 634 NWKIGMIWLPAFFP-HV--FGVVITVKLAKLYPTYQWLMVAVGLVLEGLCCFIIPFST 688
W+ F H+ FG L L +G +I T
Sbjct: 489 KWET----TTQFKATHILDFGPGGASGLGVL----------THRNKDGTGVRVIVAGT 532
Score = 32.3 bits (73), Expect = 0.81
Identities = 18/78 (23%), Positives = 30/78 (38%), Gaps = 22/78 (28%)
Query: 143 CIMFLSTALFACGRSYGVL----FFA-RSLQGVG--SAFADTSGLAMIADRFTEEN---- 191
+ + A F +S G++ FA SL G +A LA +AD + E+
Sbjct: 1735 ALTLMEKAAFEDLKSKGLIPADATFAGHSL---GEYAA------LASLADVMSIESLVEV 1785
Query: 192 --ERSQALGIALAFISFG 207
R + +A+ G
Sbjct: 1786 VFYRGMTMQVAVPRDELG 1803
Score = 31.6 bits (71), Expect = 1.7
Identities = 35/259 (13%), Positives = 68/259 (26%), Gaps = 99/259 (38%)
Query: 658 LAKLYPTYQW----LMVAVGLVLEGLCCFIIPFSTSYQMLMLPICGICFGMALVDTALLP 713
L LY TY L+ L L + + G+ L + + P
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ------GLNILEWLENPSNTP 226
Query: 714 TLGYLVDVRYVSVYGSIYAIADISYSLAYAIGPIVAGGIVDAIGFTAL-NFLIAFMNILY 772
YL IS P+ IG L ++++ + +
Sbjct: 227 DKDYL-------------LSIPISC-------PL--------IGVIQLAHYVVTAKLLGF 258
Query: 773 AP---------VLIYLKNIY------------DFKPFENEANIL---------------- 795
P + + + F F + +
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAVAIAETDSWESF--FVSVRKAITVLFFIGVRCYEAYPN 316
Query: 796 MADPPKKEYQTYTMQDRQP-----VANDYKNHLEYSMQET--SIDENKQPAANVGTNGVS 848
+ PP + + P ++N + ++ + +T + KQ ++ NG
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISL-VNG-- 373
Query: 849 NPFKASAPS----TGPPES 863
+GPP+S
Sbjct: 374 -------AKNLVVSGPPQS 385
Score = 29.6 bits (66), Expect = 6.6
Identities = 35/172 (20%), Positives = 61/172 (35%), Gaps = 55/172 (31%)
Query: 19 LNLEVNEVK-DIVWEKLQEPKSQRKLI-----LVIVS---TALLLDNMLYMVIVPIIPDY 69
LNL + + K ++ + P S+RKL L + S + LL+ I D
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVP-----ASDLINKDL 443
Query: 70 LRFIGAWGEEDQLQALNESRYHTKPHHREHAEGEDSATGVLFASKAIVQLMVNPFSGALI 129
++ ++ +D + Y T +G D + SG++
Sbjct: 444 VKNNVSFNAKD----IQIPVYDTF-------DGSD----------------LRVLSGSIS 476
Query: 130 DRIGYDLPMMIGLCI------MFLSTALFACGRS----YGVLFFARSLQGVG 171
+RI + +I L + F +T + G GVL R+ G G
Sbjct: 477 ERI---VDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVL-THRNKDGTG 524
>4aps_A DI-OR tripeptide H+ symporter; transport protein, peptide
transport, major facilitator SUPE transporter, MFS;
3.30A {Streptococcus thermophilus}
Length = 491
Score = 32.8 bits (75), Expect = 0.59
Identities = 31/169 (18%), Positives = 62/169 (36%), Gaps = 2/169 (1%)
Query: 126 GALIDRI-GYDLPMMIGLCIMFLSTALFACGRSYGVLFFARSLQGVGSAFADTSGLAMIA 184
G + DRI G + G ++ L + A LF + L +G+ F + ++
Sbjct: 75 GFVADRIIGARPAVFWGGVLIMLGHIVLALPFGASALFGSIILIIIGTGFLKPNVSTLVG 134
Query: 185 DRFTEENERSQ-ALGIALAFISFGCLVAPPFGGALYQFAGKEIPFLILAFVSLLDGFMLL 243
+ E + R I + I+ G +AP GA + AG + F + A + +
Sbjct: 135 TLYDEHDRRRDAGFSIFVFGINLGAFIAPLIVGAAQEAAGYHVAFSLAAIGMFIGLLVYY 194
Query: 244 LVMKPVKEQLNQKKPESHSTVPIWKLFMDPYIAVCSGALLMANVALAFL 292
K + + + + + L + +AV ++ + L
Sbjct: 195 FGGKKTLDPHYLRPTDPLAPEEVKPLLVKVSLAVAGFIAIIVVMNLVGW 243
>3pjz_A Potassium uptake protein TRKH; structural genomics, PSI-2, protein
structure initiative, NE consortium on membrane protein
structure; 3.51A {Vibrio parahaemolyticus}
Length = 494
Score = 30.7 bits (70), Expect = 2.3
Identities = 17/60 (28%), Positives = 25/60 (41%), Gaps = 2/60 (3%)
Query: 197 LGIALAFISFGCLVAPPFGGALYQFAGKEIPFLILAFVSLLDGFMLLLVMKPVKEQLNQK 256
+G+ LA F + P AL G +PF+ FV L G M + K +L +
Sbjct: 10 VGLLLAL--FSVTMLAPALVALLYRDGAGVPFVTTFFVLLFCGAMCWFPNRRHKHELKSR 67
>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA
helicase, acetyltransferase, GCN5 acetyltransferase;
HET: ACO ADP; 2.35A {Escherichia coli K12}
Length = 671
Score = 30.4 bits (68), Expect = 2.8
Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 193 RSQALGIALAFISFGCLVAPPFGGA---LYQFAGKEIPFL 229
+S G ++ I+ +V P + L QFAG++ F+
Sbjct: 205 KSALAGQLISRIAGRAIVTAPAKASTDVLAQFAGEKFRFI 244
>3kd4_A Putative protease; structural genomics, joint center for STR
genomics, JCSG, protein structure initiative, PSI-2,
hydrol; HET: MSE; 2.00A {Parabacteroides distasonis atcc
8503}
Length = 506
Score = 29.4 bits (65), Expect = 5.3
Identities = 20/171 (11%), Positives = 47/171 (27%), Gaps = 19/171 (11%)
Query: 373 GICFGMALVDTALLPTLGYLVDVRYVSVY-GSIYAIADISYSLAYAIGPIVAGGIVDAIG 431
G +A + +L G + ++VY G + A ++ G +
Sbjct: 285 GTPLEIAQLLNVMLNAAG--IPSEVLAVYPGHLDTDACGLAAIQTLAVKATVDGKDQYLS 342
Query: 432 FTALNFLIAFMNILYAPVLIYLKNIYDFKPFENEANILMADPPKKEYQTYTMQDRQPVAN 491
+ L ++ + E+ + + AD K + + +
Sbjct: 343 ASPLTNRGGLDKVVSLSGTSIEIETTPIQIKESRSVAISADQAKDGFAICVLPAISAGID 402
Query: 492 DYKNH-----------LEYSMQET-----SIDENKQPAANVGTNGVSNPFK 526
+ L ++E + E + + +S PF
Sbjct: 403 SWGMSALNSKRSNLFELPSLIREEVTYTVTPAEGMKLQTSTQEQVISKPFG 453
Score = 29.4 bits (65), Expect = 5.3
Identities = 20/171 (11%), Positives = 47/171 (27%), Gaps = 19/171 (11%)
Query: 699 GICFGMALVDTALLPTLGYLVDVRYVSVY-GSIYAIADISYSLAYAIGPIVAGGIVDAIG 757
G +A + +L G + ++VY G + A ++ G +
Sbjct: 285 GTPLEIAQLLNVMLNAAG--IPSEVLAVYPGHLDTDACGLAAIQTLAVKATVDGKDQYLS 342
Query: 758 FTALNFLIAFMNILYAPVLIYLKNIYDFKPFENEANILMADPPKKEYQTYTMQDRQPVAN 817
+ L ++ + E+ + + AD K + + +
Sbjct: 343 ASPLTNRGGLDKVVSLSGTSIEIETTPIQIKESRSVAISADQAKDGFAICVLPAISAGID 402
Query: 818 DYKNH-----------LEYSMQET-----SIDENKQPAANVGTNGVSNPFK 852
+ L ++E + E + + +S PF
Sbjct: 403 SWGMSALNSKRSNLFELPSLIREEVTYTVTPAEGMKLQTSTQEQVISKPFG 453
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
0.324 0.140 0.430
Gapped
Lambda K H
0.267 0.0675 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 13,464,780
Number of extensions: 839471
Number of successful extensions: 1815
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1785
Number of HSP's successfully gapped: 42
Length of query: 871
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 769
Effective length of database: 3,853,851
Effective search space: 2963611419
Effective search space used: 2963611419
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: 62 (27.8 bits)