RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14859
(1097 letters)
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse
transcriptase, transferase, replication; 3.00A {Moloney
murine leukemia virus} SCOP: e.8.1.2
Length = 455
Score = 85.8 bits (213), Expect = 2e-17
Identities = 83/476 (17%), Positives = 154/476 (32%), Gaps = 96/476 (20%)
Query: 426 LRRFVDAWIRLGAPAPLVRIVSGYAIPFS--AKPPLVPLCSLQHLATPVSSAMSLHIQEM 483
L F AW G VR IP + P + ++ + HIQ +
Sbjct: 7 LSDFPQAWAETGGMGLAVRQAP-LIIPLKATSTPVSIKQY---PMSQEARLGIKPHIQRL 62
Query: 484 LETGVLKRLDSTTGFLSRLFLVPK-GNGGTRPVLNLKGLNQFLSPKKFSLINHFRIP--- 539
L+ G+L + + + L V K G RPV +L+ +N K H +P
Sbjct: 63 LDQGILVP--CQSPWNTPLLPVKKPGTNDYRPVQDLREVN------KRVEDIHPTVPNPY 114
Query: 540 ---SFLQKGDYMIS-IDLSQAYFHVPIKTTHQRFLALSYNGDVLAM------TCLPFGLA 589
S L + +DL A+F + + T Q A + + + T LP G
Sbjct: 115 NLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFK 174
Query: 590 TAPQAFASLSNWVAS--LLRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWI 647
+P F + + ++ + ++ Y+DD LL + + + LG+LG+
Sbjct: 175 NSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYR 234
Query: 648 VNLQKSSLSPAPVLQFLGIMWDPHL---DRMWLPEDKQLTLGNILRTLLASKTW----NL 700
+ +K+ + V ++LG +L + WL E +
Sbjct: 235 ASAKKAQICQKQV-KYLG-----YLLKEGQRWLTEAR----------KETVMGQPTPKTP 278
Query: 701 DSARSLLGYLSFASFVIPMGRLHSRR-IQRQASLLRLGAPHLTPINPAVLPKLEW-W--- 755
R LG A F R I A + P+ P + W
Sbjct: 279 RQLREFLG---TAGFC--------RLWIPGFAEMAA-------PLYPLTKTGTLFNWGPD 320
Query: 756 -------LNALPLSSPI--FPRQVQHF-ISTDASDLGWG---SQVDS------SFLSGLW 796
+ L++P P + F + D +Q ++LS
Sbjct: 321 QQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKKL 380
Query: 797 SREQQNWHINKKEMFAVHQALSLNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLS 852
W + + A+ L +++++ + V + +++ +
Sbjct: 381 DPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPHA-VEALVKQPPDRWLSN 435
>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 = 79.7 bits (196), Expect = 4e-15
Identities = 100/539 (18%), Positives = 167/539 (30%), Gaps = 163/539 (30%)
Query: 208 PPALFSFAPSTKER-EPSIPDPDSELASQGVVCQKLGSPA--WNR-VRYTESQRALQAGG 263
P A F A +E+ +P+P A+ + +PA + + Y S G
Sbjct: 23 PTASFFIASQLQEQFNKILPEPTEGFAAD----DEPTTPAELVGKFLGYVSSLVEPSKVG 78
Query: 264 VFQPL--AIPSEFPHSNSSTGENLVRQELFLG-----TLTHGLLLQRRAFSSTMNTLVEK 316
F + +EF + +L L LL + L++
Sbjct: 79 QFDQVLNLCLTEF-------------ENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN 125
Query: 317 YPEVREELGSLFSDES---VFKNVSDHLLQ-YVC----GKRAECLESRRRLVEPRDPHLA 368
Y R F +S +F+ V + Q G + E R L + +
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG 185
Query: 369 SLLLRARR--GKKSSSPQNLEPPGRVSLKVQT-LQKPQR-------CSSPVNPPADSRIG 418
L+ + + + + E L + L+ P S P++ P IG
Sbjct: 186 DLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL---IG 242
Query: 419 ----------AELVG---GRLRRFV-------------------DAW---IRLGAPAPLV 443
A+L+G G LR ++ D+W A +
Sbjct: 243 VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKA--I 300
Query: 444 RIV--SGY----AIPFSAKPPLVPLCSLQH-LATPVSSAMSLHIQEMLETGVLKRLDSTT 496
++ G A P ++ PP + SL++ P S M L I + + V ++ T
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP--SPM-LSISNLTQEQVQDYVNKTN 357
Query: 497 GFL---SRLF--LVPKGNGGTR-----PVLNLKGLNQFL----------------SPKKF 530
L ++ LV NG P +L GLN L S +K
Sbjct: 358 SHLPAGKQVEISLV---NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
Query: 531 SLINHF-RI--P---SFLQKGDYMISIDL-------SQAYFHVPIKTTH----QRFLALS 573
N F + P L +I+ DL + +P+ T R L+ S
Sbjct: 415 KFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGS 474
Query: 574 YNGDVL-AMTCLP----------------FGLATAPQAFASLSNWVASLLRSRGMRVVV 615
+ ++ + LP FG P + L G+RV+V
Sbjct: 475 ISERIVDCIIRLPVKWETTTQFKATHILDFG----PGGASGLGVLTHRNKDGTGVRVIV 529
Score = 70.5 bits (172), Expect = 3e-12
Identities = 111/596 (18%), Positives = 188/596 (31%), Gaps = 188/596 (31%)
Query: 294 TLTHG-----LLL---------Q-RRAFSSTMNTLVEKY-----PEVREELGSLFSDESV 333
TL+HG LL+ Q + F+ + E + P EL F
Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG--- 66
Query: 334 FKNVSDHLLQYVCGKRAECLES-----RRRLVEPRDPH-LASLLLRARRGKKSSSPQNLE 387
+ VS + G+ + L +E D H LA+ LL +N
Sbjct: 67 Y--VSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLL----------QENDT 114
Query: 388 PPGRVSLKVQT-LQKPQRCSSPVNPPADSRIGAELVGGRLRRFVDAWIRLGAPAPLVRIV 446
+ ++ + P + ++S A R ++
Sbjct: 115 TLVKTKELIKNYITARIMAKRPFDKKSNS----------------ALFR-AVGEGNAQL- 156
Query: 447 SGYAIPFSAK-PPLVPLCSLQHL-ATPVSSAMSLHIQEMLETGVLKRLDSTTGFLSRLFL 504
AI F + L+ L T L I+ ET L L TT ++F
Sbjct: 157 --VAI-FGGQGNTDDYFEELRDLYQTYHVLVGDL-IKFSAET--LSELIRTTLDAEKVF- 209
Query: 505 VPKGNGGTRPVLNLKGLNQFLS-PKKFSLINHFRIPSFLQKGDYMIS-------IDLSQ- 555
+G LN+ ++L P P DY++S I + Q
Sbjct: 210 -TQG-------LNIL---EWLENPS--------NTPD----KDYLLSIPISCPLIGVIQL 246
Query: 556 AYFHVPIKT---THQRFL-----ALSYNGDVLAMTCLPFGLATAP--QAFASLSNWVASL 605
A++ V K T A ++ ++ + A ++F ++
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAI----AETDSWESFFVSVRKAITV 302
Query: 606 LRSRGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSLSPAPVLQFLG 665
L G+R + + + P ILE S+ + G P+P+L
Sbjct: 303 LFFIGVRC---YEAYPNTSLPPSILED------SLENNEG----------VPSPMLSISN 343
Query: 666 IMWD---PHLDRM--WLPEDKQL--TLGNILRTL-LASKTWNLDSARSLLGY-LSFASFV 716
+ + ++++ LP KQ+ +L N + L ++ +SL G L+
Sbjct: 344 LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG------PPQSLYGLNLTLRKAK 397
Query: 717 IPMGRLHSRRI---QRQASL----LRLGAP-H---LTPINPAV---LPKLEWWLNALPLS 762
P G L RI +R+ L + +P H L P + + L K NA +
Sbjct: 398 APSG-LDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQ 456
Query: 763 SPIFPRQVQHFIST-DASDLGWGSQVDSSFLSGLWS---REQQNW---------HI 805
P++ T D SDL + S + R W HI
Sbjct: 457 IPVY--------DTFDGSDL---RVLSGSISERIVDCIIRLPVKWETTTQFKATHI 501
Score = 64.3 bits (156), Expect = 2e-10
Identities = 55/285 (19%), Positives = 92/285 (32%), Gaps = 81/285 (28%)
Query: 36 LVQAITARKSSTLDQ---SPAVSDPGMASGVSD-----QSPPLSSAPANPVQASAPV--- 84
LV + + TL + + ++ G+ + ++P S+ P S P+
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGL-NILEWLENP--SNTPDKDYLLSIPISCP 239
Query: 85 -----QAAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPP 139
Q AH G + L + L ++G S +A +A+ S S
Sbjct: 240 LIGVIQLAHY--VVTAKLLGFTPGELRSYLKGATG---HSQGLVTAVAIAETDSWESFFV 294
Query: 140 SAAHHLYPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPIPLSPVSSDQEDFSE 199
S + L FF G R A P T +P S + ED E
Sbjct: 295 SVRKAITVL-FFI-----G---------VRCYEAYP------NTSLPPSIL----EDSLE 329
Query: 200 EDE--------VVDCNPPALFSFAPSTKEREP-----SI-----PD------PDSELASQ 235
+E + + + + T P I P L
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL 389
Query: 236 GVVCQKLGSPAW---NRVRYTESQRALQAGGVFQPLAIPSEFPHS 277
+ +K +P+ +R+ + S+R L+ F P+A P F HS
Sbjct: 390 NLTLRKAKAPSGLDQSRIPF--SERKLKFSNRFLPVASP--F-HS 429
Score = 48.9 bits (116), Expect = 1e-05
Identities = 61/368 (16%), Positives = 110/368 (29%), Gaps = 116/368 (31%)
Query: 770 VQHFISTDASDLGWGSQVDSSFLSGLWSREQQNWHINKKEMFAVHQALSLNLPLLQS--S 827
++H + + SQ+ F L E FA + L+
Sbjct: 16 LEHVLLVPTASFFIASQLQEQFNKILPEPT---------EGFAADDEPTTPAELVGKFLG 66
Query: 828 VVMVQSDNQTVVSY---LRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPGAYNSVA 884
V + V + L L+E E +L D IH LA +
Sbjct: 67 YVSSLVEPSKVGQFDQVLN--------LCLTEFENCYLEGND--IHALAAKLLQ---END 113
Query: 885 DSLSRSKSLPDWHLSRSATEQIFLKWGVPCIDLFASRVSAVVPNHFQVSRHVAILL-LLS 943
+L ++K L ++ +R+ A P + + L +
Sbjct: 114 TTLVKTKE-----LIKNY---------------ITARIMAKRPFD---KKSNSALFRAVG 150
Query: 944 SGRRVHDLTLLSL------DPDHFQEL-----------DDFV-----VFWPVFGSKTDSS 981
G + L+++ D+F+EL D + + + D+
Sbjct: 151 EG----NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAE 206
Query: 982 SHLQSGWKIKENSSDPLFCIPTWIRHLSTL-SQRRMGSRPLTSL-FITTRGIVQPASRSV 1039
G I E W+ + S + + S P+ S I G++Q A V
Sbjct: 207 KVFTQGLNILE-----------WLENPSNTPDKDYLLSIPI-SCPLI---GVIQLAHYVV 251
Query: 1040 IA---GW----VKTALRG----------ANIIASPGSMRSAVATFRYNSDLPLDSILRQG 1082
A G+ +++ L+G A IA S S F + + + G
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWES----FFVSVRKAITVLFFIG 307
Query: 1083 NWRGGQNF 1090
R + +
Sbjct: 308 -VRCYEAY 314
Score = 31.6 bits (71), Expect = 1.8
Identities = 23/110 (20%), Positives = 33/110 (30%), Gaps = 41/110 (37%)
Query: 129 AQPASTASLPPSAA-------HHLYPLP-FFCDPSYYGH----Y-----------LQSAM 165
QPA T A L P F GH Y ++S +
Sbjct: 1732 TQPALTLM---EKAAFEDLKSKGLIPADATFA-----GHSLGEYAALASLADVMSIESLV 1783
Query: 166 K--ASRGQVAQPPPPSESVTP-----IPLSPVSSDQEDFSEE--DEVVDC 206
+ RG Q P + + I ++P FS+E VV+
Sbjct: 1784 EVVFYRGMTMQVAVPRDELGRSNYGMIAINP-GRVAASFSQEALQYVVER 1832
Score = 31.2 bits (70), Expect = 2.4
Identities = 31/177 (17%), Positives = 46/177 (25%), Gaps = 78/177 (44%)
Query: 209 PALF--SFAPSTKEREPSIPDPDSELA--SQGVVCQKLGSPAWNRVRYTESQRALQA-GG 263
PAL A + + D+ A S LG Y AL +
Sbjct: 1734 PALTLMEKAAFEDLKSKGLIPADATFAGHS-------LG-------EYA----ALASLAD 1775
Query: 264 VFQPLAIPSEFPHSNSSTGENLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREE 323
V + E+LV ++ R TM V + R
Sbjct: 1776 VM-SI--------------ESLVE------------VVFYRG--MTMQVAVPRDELGRSN 1806
Query: 324 LG----------SLFSDESVFKNV------SDHLL----------QYVCGKRAECLE 354
G + FS E++ V + L+ QYV L+
Sbjct: 1807 YGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALD 1863
Score = 29.2 bits (65), Expect = 9.6
Identities = 51/246 (20%), Positives = 78/246 (31%), Gaps = 81/246 (32%)
Query: 488 VLKRLD----STTGFLSRLFLV---PKG----NGGTRPVLNLKGLNQFLSPKKFSLINHF 536
V R D T GF S L +V P GG + K + + S F I
Sbjct: 1645 VWNRADNHFKDTYGF-SILDIVINNPVNLTIHFGGEK----GKRIRENYSAMIFETIVDG 1699
Query: 537 RIPSFLQKGDYMISIDLSQAYFHVP---IKTTH--QRFLALSYNGDVLAMTCLPF----- 586
++ + +K I+ + F + T Q AL M F
Sbjct: 1700 KLKT--EKIFKEINEHSTSYTFRSEKGLLSATQFTQP--AL------TLMEKAAFEDLKS 1749
Query: 587 -GLATAPQAFA--SL---SNWVA-----------SLLRSRG--MRVVVYLD-----DFLL 622
GL A FA SL + + ++ RG M+V V D ++ +
Sbjct: 1750 KGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGM 1809
Query: 623 VNQDP-RI-----LEIQGKLAVSILGSLGW---IVNL-----Q------KSSLSPA-PVL 661
+ +P R+ E + + GW IVN Q +L VL
Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL 1869
Query: 662 QFLGIM 667
F+ +
Sbjct: 1870 NFIKLQ 1875
>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 = 71.0 bits (173), Expect = 2e-12
Identities = 59/420 (14%), Positives = 127/420 (30%), Gaps = 122/420 (29%)
Query: 613 VVVYLDDFLLVNQDPRILEIQG--KLAVS------ILGS---------LGWIVNLQKSSL 655
+ V+ D F+ + ++Q K +S I+ S L W + ++ +
Sbjct: 22 LSVFEDAFV---DNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 656 SPAPVLQFLGIMWDPHLDRMWL-----PEDKQLTLGNILRTLLASKTWNLDSARSLLGYL 710
V +F+ + + +L E +Q ++ + + +N D+
Sbjct: 79 ----VQKFVEEVLRINYK--FLMSPIKTEQRQPSMMTRMYIEQRDRLYN-DNQV------ 125
Query: 711 SFASFVIPMGRLHSRRIQRQASLLRLGAPHLTPINPAVLP------KLEWWLNALPLSS- 763
FA + + + + ++ + +LL L P ++ K W+ S
Sbjct: 126 -FAKYNVSRLQPY---LKLRQALLEL-----RPAKNVLIDGVLGSGK--TWVALDVCLSY 174
Query: 764 ---PIFPRQVQHFISTDASDLGWGSQVDSSF--LSGLWSREQQNWHINKKEMFAVHQALS 818
++ +++ L + ++ L L + NW
Sbjct: 175 KVQCKMDFKI-FWLN-----LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSS------- 221
Query: 819 LNLPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQDWRIHILAQFIPG 878
N+ L S+ + L+ + L +L V F
Sbjct: 222 -NIKLRIHSI------QAELRRLLKSKPYENCLLVLLNV---------QNAKAWNAFNLS 265
Query: 879 A-------YNSVADSLS------RSKSLPDWHLSRSATEQIFLKW-GVPCIDL------- 917
+ V D LS S L+ + + LK+ DL
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Query: 918 --FA-SRVSAVV---PNHFQVSRHVAILLLLSSGRRVHDLTLLSLDPDHFQEL-DDFVVF 970
S ++ + + +HV L + + +L L+P ++++ D VF
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKL----TTIIESSLNVLEPAEYRKMFDRLSVF 381
Score = 66.4 bits (161), Expect = 5e-11
Identities = 91/540 (16%), Positives = 170/540 (31%), Gaps = 138/540 (25%)
Query: 177 PPSESVTPIPLSPVSSDQEDFSEE--DEVVDCNPPALFSFAPSTKEREPSIP-----DPD 229
+ S T + S QE+ ++ +EV+ N L S T++R+PS+ +
Sbjct: 58 KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMS-PIKTEQRQPSMMTRMYIEQR 116
Query: 230 SELASQGVVCQKLGSPAWNRVR---YTESQRALQ---------------------AGGVF 265
L + V K N R Y + ++AL A V
Sbjct: 117 DRLYNDNQVFAKY-----NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVC 171
Query: 266 QPLAIPSEFPH-------SNSSTGENLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYP 318
+ + N ++ E ++ L L + + + S + + +
Sbjct: 172 LSYKVQCKMDFKIFWLNLKNCNSPETVLEM---LQKLLYQIDPNWTSRSDHSSNIKLRIH 228
Query: 319 EVREELGSLFSDESVFKN---VSDHLLQYVCGKRA------ECLESRRRLVEPRDPHLAS 369
++ EL L + ++N V + V +A C + L+ R +
Sbjct: 229 SIQAELRRLLKSKP-YENCLLVLLN----VQNAKAWNAFNLSC----KILLTTRFKQVTD 279
Query: 370 LLLRARRGKKSSSPQN--LEPPGRVSL-------KVQTLQKPQRCSSPVNPPADSRIGAE 420
L A S + L P SL + Q L + + NP S I
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL-PREVLT--TNPRRLSIIAES 336
Query: 421 LVGGRLRRFVDAWIRLGAPAPLVRIVSG-------------Y---AI-PFSAKPPLVPLC 463
+ G D W + L I+ + ++ P SA P + L
Sbjct: 337 IRDGLATW--DNWKHVNCDK-LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLS 393
Query: 464 SL-QHLATPVSSAM--SLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKG 520
+ + + LH ++E K+ +T + ++L K L+
Sbjct: 394 LIWFDVIKSDVMVVVNKLHKYSLVE----KQPKESTISIPSIYLELKVKLENEYALHRSI 449
Query: 521 LNQFLSPKKFSLINHFRIP-------SFLQKGDYMISIDLSQAYFHVPIKTTHQRFLA-- 571
++ + PK F + P S + G ++ +I+ + + RFL
Sbjct: 450 VDHYNIPKTFDS-DDLIPPYLDQYFYSHI--GHHLKNIEHPERMTLFRMVFLDFRFLEQK 506
Query: 572 LSYNGDVLAMTCLPFGLATAPQAFASLSNWVASLLRSRGM---------RVVVYLDDFLL 622
+ ++ TA A S+ N + L + R+V + DFL
Sbjct: 507 IRHDS-------------TAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLP 553
Score = 59.5 bits (143), Expect = 6e-09
Identities = 94/583 (16%), Positives = 175/583 (30%), Gaps = 177/583 (30%)
Query: 280 STGENLVRQELFLGTL---THGLL---LQRRAFSSTMNTLVEKYPEVREELGSLFSDESV 333
S E +V++ F+ + + L ++ +M T Y E R+ L ++D V
Sbjct: 73 SKQEEMVQK--FVEEVLRINYKFLMSPIKTEQRQPSMMT--RMYIEQRDRL---YNDNQV 125
Query: 334 FK--NVSDHLLQYVCGKRAECLESRRRLVEPRDPH---------------LASLLLRARR 376
F NVS R + R+ + P +A + + +
Sbjct: 126 FAKYNVS----------RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK 175
Query: 377 --------------GKKSSSPQNLEPPGRVSLKVQTLQKPQRCSSPVNPPADSRIGAELV 422
+S LE ++ ++ R N + +
Sbjct: 176 VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI-DPNWTSRSDHSSNIK----LRIHSI 230
Query: 423 GGRLRRFVDAWIRLGAPAPLVRIVSGYAIPFSAKPPLVPLCSLQHLATP-VSSAMSLHIQ 481
LRR + + P + LV L ++ +A +L +
Sbjct: 231 QAELRRLLKSK-------PYENCL------------LV----LLNVQNAKAWNAFNLSCK 267
Query: 482 EMLET---GVLKRLDSTTGFLSRLFLVPKGNGGTRP-VLNLKGLNQFLSPKKFSL----- 532
+L T V L + T + + L T V +L L ++L + L
Sbjct: 268 ILLTTRFKQVTDFLSAATT--THISLDHHSMTLTPDEVKSL--LLKYLDCRPQDLPREVL 323
Query: 533 -INHFR---IPSFLQKGDYMISIDLSQAYFHVPIKTTHQRFL-ALS-------YNGDVLA 580
N R I ++ D + + D + + T + L L + D L+
Sbjct: 324 TTNPRRLSIIAESIR--DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF--DRLS 379
Query: 581 MTCLPFGLATAPQAFASLSNWVASLLRSRGMRVVVYLDDFLLVNQDP-----RILEIQGK 635
+ P + + W +++S M VV L + LV + P I I +
Sbjct: 380 V--FPPSAHIPTILLSLI--W-FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLE 434
Query: 636 LAV----------SILGSLGWIVNLQKSSLSPAPV----LQFLGIMWDPHLDRMWLPEDK 681
L V SI+ L P + +G HL + PE
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH----HLKNIEHPERM 490
Query: 682 QLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRLHSRRIQRQASLLRLGAPHL 741
L R + +L F F+ ++I+ ++ L
Sbjct: 491 TL-----FRMV----------------FLDF-RFL-------EQKIRHDSTAWNASGSIL 521
Query: 742 TPINPAVLPKLEWWLNALPLSSPIFPRQVQ---HFISTDASDL 781
L +L+++ + + P + R V F+ +L
Sbjct: 522 -----NTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL 559
Score = 57.6 bits (138), Expect = 2e-08
Identities = 101/609 (16%), Positives = 193/609 (31%), Gaps = 160/609 (26%)
Query: 479 HIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKGLNQFLSPKKFSLINHFRI 538
+Q+M + +L + + + + + GT + L K+ ++ F +
Sbjct: 37 DVQDMPK-SILSKEE-----IDHIIMSKDAVSGTLRLFWT------LLSKQEEMVQKF-V 83
Query: 539 PSFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALSYNGDVLAMTCLPF--GLATAPQAFA 596
L+ +Y L + + + + D L F + Q +
Sbjct: 84 EEVLRI-NYKF---LMSPIKTEQRQPSMMTRMYIEQR-DRLYNDNQVFAKYNVSRLQPYL 138
Query: 597 SLSNWVASLLRSRGMRVVVY-LDDF---LLVNQDPRILEIQGKLAVSILGSLGWIVNLQK 652
L + L ++ V++ + + ++Q K+ I W+ NL+
Sbjct: 139 KLRQALLELRPAKN--VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF----WL-NLKN 191
Query: 653 SSLSPAPVLQFLGIMW---DPHL----DRMWLPEDKQLTLGNILRTLLASKTWN-----L 700
+ SP VL+ L + DP+ D + + ++ LR LL SK + L
Sbjct: 192 CN-SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 701 D-------------SARSLL--GYLSFASFVIPMGRLHSRRIQRQASL-----LRLGAPH 740
S + LL + F+ H +L L +
Sbjct: 251 LNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY 310
Query: 741 LTPINPAVLPKLEWWLNALPLSSPIFPRQVQHFIST-------DASDLGWGSQVDSSFLS 793
L P LP+ L P I ++ ++T + L + + S L+
Sbjct: 311 LD-CRPQDLPREV--LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKL---TTIIESSLN 364
Query: 794 GLWSREQQNWHINKKEMFAVHQALSLNLP--LLQSSVV---MVQSDNQTVVSYLRRQGGT 848
L E + + +V S ++P LL S++ +++SD VV+ L +
Sbjct: 365 VLEPAEYRKMF----DRLSVFPP-SAHIPTILL--SLIWFDVIKSDVMVVVNKLHK---- 413
Query: 849 KSLSLLSEVEK--------IFLLSQDWRIHILAQF-----IPGAYNSVADSLSRSKSLP- 894
SL VEK I + + ++ + ++ I YN S P
Sbjct: 414 YSL-----VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 895 -D----WHLSR--SATEQ---------IFLKWGVPCIDLFASRVSAVVPNHF--QVSRHV 936
D H+ E +FL D F Q RH
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRMVFL-------DF-----------RFLEQKIRHD 510
Query: 937 AILLLLSSGRRVHDLTLLSL--------DPDHFQELDDFVVFWPVFGSKTDSSSH---LQ 985
+ +SG ++ L L DP + + ++ + F P S + L+
Sbjct: 511 S-TAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLR 569
Query: 986 SGWKIKENS 994
++ +
Sbjct: 570 IALMAEDEA 578
Score = 54.5 bits (130), Expect = 2e-07
Identities = 55/357 (15%), Positives = 109/357 (30%), Gaps = 115/357 (32%)
Query: 821 LPLLQSSVVMVQSDNQTVVSYLRRQGGTKSLSLLS--EVEKIFLLSQD--------WRI- 869
L + + + V D + V + S+LS E++ I + W +
Sbjct: 22 LSVFEDAFVD-NFDCKDVQDMPK--------SILSKEEIDHIIMSKDAVSGTLRLFWTLL 72
Query: 870 ----HILAQFIPGA----YNSVADSLS---RSKSLP-----DWHLSRSATEQIFLKWGVP 913
++ +F+ Y + + R S+ + Q+F K+ V
Sbjct: 73 SKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVS 132
Query: 914 CIDLFASRVSAVVPNHFQVSRHVAILL--LLSSGRRVHDLTLLSLDPDHFQELDDFVVFW 971
+ + A+ ++ +L+ +L SG+ + L Q DF +FW
Sbjct: 133 RLQPYLKLRQAL----LELRPAKNVLIDGVLGSGKTW--VALDVCLSYKVQCKMDFKIFW 186
Query: 972 PVFGSKTDSSSHLQSGWKI-----------KENSSDPLFCIPTWIRHLSTLSQRRMGSRP 1020
+ + L+ K+ ++SS+ I + L L + +
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246
Query: 1021 LTSL-----------F-------ITTR-----------------------GIVQPASRSV 1039
L L F +TTR + +S+
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306
Query: 1040 IAGWVKT--------ALRGA----NIIASPGSMRSAVATF----RYNSDLPLDSILR 1080
+ ++ L +IIA S+R +AT+ N D L +I+
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAE--SIRDGLATWDNWKHVNCD-KLTTIIE 360
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 40.9 bits (95), Expect = 0.002
Identities = 18/143 (12%), Positives = 29/143 (20%), Gaps = 18/143 (12%)
Query: 62 GVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPP 121
G S SS A+ +A+ A + P P P P
Sbjct: 2 GSSHHHHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNP 61
Query: 122 AQSAAFLAQPASTAS----LPPSAAHHLYPLPFFCDPSYYGHYLQSAMKASRGQVAQPPP 177
+ + ++ + PP
Sbjct: 62 PDTVTGDSVLQRILRGPTGPGTTSLAPAVRYG--------------RQPGPEAPASAPPA 107
Query: 178 PSESVTPIPLSPVSSDQEDFSEE 200
+V + PV EE
Sbjct: 108 AGRAVPGLYHHPVPEPDPVRVEE 130
Score = 34.0 bits (77), Expect = 0.33
Identities = 16/127 (12%), Positives = 34/127 (26%), Gaps = 5/127 (3%)
Query: 39 AITARKSSTLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAP 98
+ + S + A + ++ PP++ P AP +
Sbjct: 12 SGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDT---VTGD 68
Query: 99 GSSASVLAAP--LPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSY 156
+L P ++S P + Q A A+ + +P+P
Sbjct: 69 SVLQRILRGPTGPGTTSLAPAVRYGRQPGPEAPASAPPAAGRAVPGLYHHPVPEPDPVRV 128
Query: 157 YGHYLQS 163
+
Sbjct: 129 EEVSRRI 135
Score = 33.6 bits (76), Expect = 0.37
Identities = 14/119 (11%), Positives = 25/119 (21%), Gaps = 12/119 (10%)
Query: 46 STLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPV-----QAAHQPSATVQAAPGS 100
S+ S S P +S + A + P A G+
Sbjct: 3 SSHHHHHHSSGL--VPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGN 60
Query: 101 SASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAH-----HLYPLPFFCDP 154
+ + P ++ A P + A + P
Sbjct: 61 PPDTVTGDSVLQRILRGPTGPGTTSLAPAVRYGRQPGPEAPASAPPAAGRAVPGLYHHP 119
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 40.1 bits (93), Expect = 0.005
Identities = 27/141 (19%), Positives = 44/141 (31%), Gaps = 2/141 (1%)
Query: 51 SPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAPGSSASVLAAPLP 110
+P ++ G+ + D L +P ++ + +S P
Sbjct: 1471 TPYSNESGLVNADLDVKDELMFSPLVDSGSNDAMAGGFTAYGGADYGEATSPFGAYGEAP 1530
Query: 111 SSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSYYGHYLQSAMKASRG 170
+S G SP + P S A P S ++ P P+ + S +
Sbjct: 1531 TSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSY--SPTSPSYSPTSPSYSPTSPSYSPTS 1588
Query: 171 QVAQPPPPSESVTPIPLSPVS 191
P PS S T SP S
Sbjct: 1589 PSYSPTSPSYSPTSPSYSPTS 1609
Score = 29.7 bits (66), Expect = 7.1
Identities = 27/153 (17%), Positives = 43/153 (28%), Gaps = 14/153 (9%)
Query: 49 DQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAPGSSASVLAAP 108
SP S + P S + ++P + PS + + S S +P
Sbjct: 1583 SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1642
Query: 109 L-----PSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSYYGHYLQS 163
P+S SP + P S + P S ++ + Y
Sbjct: 1643 TSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPNY------ 1696
Query: 164 AMKASRGQVAQPPPPSESVTPIPLSPVSSDQED 196
S P P S SP +Q+
Sbjct: 1697 -SPTSPSY--SPTSPGYSPGSPAYSPKQDEQKH 1726
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 39.0 bits (90), Expect = 0.011
Identities = 13/101 (12%), Positives = 21/101 (20%)
Query: 86 AAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHL 145
Q A P + P ++ A L
Sbjct: 10 PQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQL 69
Query: 146 YPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPIP 186
+ S +L + QP P + TP+
Sbjct: 70 HQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQ 110
Score = 34.4 bits (78), Expect = 0.25
Identities = 14/102 (13%), Positives = 24/102 (23%), Gaps = 3/102 (2%)
Query: 85 QAAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHH 144
+ Q G +A+ L P Q P A ++ PS
Sbjct: 3 HHKKRVYPQAQLQYGQNATPLQQPAQFMPPQD---PAAAGMSYGQMGMPPQGAVPSMGQQ 59
Query: 145 LYPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPIP 186
+ P ++M P+ + P
Sbjct: 60 QFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQV 101
Score = 33.3 bits (75), Expect = 0.51
Identities = 22/135 (16%), Positives = 39/135 (28%), Gaps = 8/135 (5%)
Query: 34 AQLVQAITARKSSTLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSAT 93
Q + + +DQ+ + V P P PVQ P+Q QP
Sbjct: 59 QQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQP--- 115
Query: 94 VQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCD 153
+ +A + + P L P + +LPP
Sbjct: 116 ---MAAPAYGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLV-- 170
Query: 154 PSYYGHYLQSAMKAS 168
PS + ++++
Sbjct: 171 PSELSNASPDYIRST 185
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 33.4 bits (76), Expect = 0.44
Identities = 20/91 (21%), Positives = 28/91 (30%), Gaps = 9/91 (9%)
Query: 74 PANPVQASAPVQAAHQPSATVQAA----PGSSASVLAAPLPSSSGQPFISPPAQSAAFLA 129
PA P P AA +A A P A+ P P + +P P + A A
Sbjct: 2 PAAPTSPGTPGVAAATQAANGGPATPAPPALGAAPTGDPKPKKNKKPKNPTPPRPAGDNA 61
Query: 130 QPASTAS----LPPSAAHHLYPLPFF-CDPS 155
A+ + F+ C P
Sbjct: 62 TVAAGHATLREHLRDIKAENTDANFYVCPPP 92
>2icr_A RED fluorescent protein ZOANRFP; ZRFP574, chromophore structure,
Cys-Phe LINK; HET: XYG; 1.51A {Zoanthus SP} PDB: 2fl1_A*
2ojk_A* 2pxs_A* 2pxw_A* 1xa9_A* 2ogr_A* 1xae_A*
Length = 237
Score = 33.0 bits (75), Expect = 0.44
Identities = 7/35 (20%), Positives = 19/35 (54%)
Query: 659 PVLQFLGIMWDPHLDRMWLPEDKQLTLGNILRTLL 693
PV++ + W+P +++ +++ G++ LL
Sbjct: 142 PVMKKMTTNWEPSCEKIIPINSQKILKGDVSMYLL 176
>2kwb_A TCTP, translationally-controlled tumor protein homolog; structural
genomics, northeast structural genomics consortiu PSI-2;
NMR {Caenorhabditis elegans} PDB: 2loy_A
Length = 189
Score = 31.5 bits (71), Expect = 0.82
Identities = 8/44 (18%), Positives = 15/44 (34%)
Query: 142 AHHLYPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPI 185
H L + + D S + Y++ MK + + V
Sbjct: 73 NHKLVEMNCYEDASMFKAYIKKFMKNVIDHMEKNNRDKADVDAF 116
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 32.7 bits (74), Expect = 0.83
Identities = 13/98 (13%), Positives = 22/98 (22%)
Query: 46 STLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAPGSSASVL 105
+ + +P S + +P AA P +
Sbjct: 1463 TAVPTLAGSGMGTSQLPEGAGTPYERSPMVDSGFVGSPDAAAFSPLVQGGSEGREGFGDY 1522
Query: 106 AAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAH 143
+S + SP S A PS +
Sbjct: 1523 GLLGAASPYKGVQSPGYTSPFSSAMSPGYGLTSPSYSP 1560
Score = 31.2 bits (70), Expect = 2.8
Identities = 32/152 (21%), Positives = 50/152 (32%), Gaps = 14/152 (9%)
Query: 50 QSPAVSDPGMASGVSDQSPPLSSA--PANPVQASAPVQAAHQPSATVQAAPGSSASVLA- 106
SP S S P S + P +P + P ++ P++ +A S S +
Sbjct: 1561 SSPGYSTSPAYMPSSPSYSPTSPSYSPTSPSYS--PTSPSYSPTSPSYSATSPSYSPTSP 1618
Query: 107 APLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSYYGHYLQSAMK 166
+ P+S SP + P S + P S ++ P+ + S
Sbjct: 1619 SYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY---------SPTSPSYSPTSPSY 1669
Query: 167 ASRGQVAQPPPPSESVTPIPLSPVSSDQEDFS 198
+ P PS S T SP S S
Sbjct: 1670 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1701
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.1 bits (69), Expect = 0.90
Identities = 8/29 (27%), Positives = 14/29 (48%), Gaps = 9/29 (31%)
Query: 348 KRAECLESRRRLVEPRD--PHLASLLLRA 374
K+ L++ +L D P LA ++A
Sbjct: 23 KK---LQASLKLYAD-DSAPALA---IKA 44
Score = 29.1 bits (64), Expect = 4.5
Identities = 5/27 (18%), Positives = 12/27 (44%), Gaps = 3/27 (11%)
Query: 725 RRIQRQASLLRLGAPHLTP---INPAV 748
+ +++ + L+L A P I +
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKATM 46
Score = 28.8 bits (63), Expect = 5.6
Identities = 9/36 (25%), Positives = 16/36 (44%), Gaps = 9/36 (25%)
Query: 485 ETGVLKRLDSTTGFLSRLFLVPKGNGGTRPVLNLKG 520
E LK+L ++ L +L+ + P L +K
Sbjct: 18 EKQALKKLQAS---L-KLY-AD----DSAPALAIKA 44
Score = 28.8 bits (63), Expect = 5.6
Identities = 12/55 (21%), Positives = 18/55 (32%), Gaps = 27/55 (49%)
Query: 27 EKIERCLAQLVQAITARKSSTLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQAS 81
EK QA+ +K L S + SAPA ++A+
Sbjct: 18 EK---------QAL--KK---LQASLKLYADD-------------SAPALAIKAT 45
>1pzs_A Superoxide dismutase [CU-ZN]; Cu-protein, beta core, antioxidant,
metal binding, greek KEY barrel, oxidoreductase; 1.63A
{Mycobacterium tuberculosis} SCOP: b.1.8.1
Length = 208
Score = 31.4 bits (71), Expect = 1.2
Identities = 11/51 (21%), Positives = 18/51 (35%), Gaps = 1/51 (1%)
Query: 55 SDPGMASGVSDQSPPL-SSAPANPVQASAPVQAAHQPSATVQAAPGSSASV 104
S P AS V +P + + +PA + ++ S T V
Sbjct: 2 SSPQHASTVPGTTPSIWTGSPAPSGLSGHDEESPGAQSLTSTLTAPDGTKV 52
>1vav_A Alginate lyase PA1167; beta-sandwich, structural genomics; 2.00A
{Pseudomonas aeruginosa} SCOP: b.29.1.18
Length = 222
Score = 31.5 bits (71), Expect = 1.3
Identities = 15/42 (35%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 957 DPDHFQELDDFVVFW-PVFGSKTDSSSHLQSGWKIKENSSDP 997
D+FQ D + FW PV GS T +S +S + +S P
Sbjct: 29 RSDYFQRTADGIRFWVPVNGSHTRNSEFPRSELRETLSSGRP 70
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.9 bits (69), Expect = 1.5
Identities = 9/49 (18%), Positives = 18/49 (36%), Gaps = 12/49 (24%)
Query: 3 SNPKRDTSDPQP-------EAKRLCHLEEKTEKIERCLAQLVQAITARK 44
+ R T +P+ + KRL +E + + + A+K
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRL---QELDAASKVMEQEWRE--KAKK 118
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 31.5 bits (72), Expect = 1.8
Identities = 18/41 (43%), Positives = 27/41 (65%), Gaps = 3/41 (7%)
Query: 1053 IIASPGSMRSAVATF--RYNSDLPLDSILRQGNWRGGQNFF 1091
IIA+P + R AV TF Y+S + ++ILR+ RGGQ ++
Sbjct: 778 IIATPPARRLAVKTFVREYDSMVVREAILREIL-RGGQVYY 817
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 31.1 bits (70), Expect = 1.9
Identities = 26/160 (16%), Positives = 53/160 (33%), Gaps = 8/160 (5%)
Query: 84 VQAAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAH 143
++A Q + + S+++ +S G P + P T+ + +
Sbjct: 4 LEAMSQVIQAMPSDLTISSAIQNIH-SASKGLPLNHAALPPTDYDRSPFVTSPISMTMPP 62
Query: 144 HLYPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPIPLSPVSSDQEDFSEE-DE 202
H YGH+ A+K+ P S S +S E
Sbjct: 63 HGSLQG----YQTYGHFPSRAIKSEYPDPYTSSPESIMGYSYMDSYQTSSPASIPHLILE 118
Query: 203 VVDCNPPALFSFAPSTK--EREPSIPDPDSELASQGVVCQ 240
++ C P A ++E + +L++ G++C+
Sbjct: 119 LLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCK 158
>2j91_A Adenylosuccinate lyase; disease mutation, adenylosuccinase, succino
AMP-lyase, purin biosynthesis, adenylosuccinase DEFI
AMP, ADSL, saicar, purine; HET: AMP; 1.8A {Homo sapiens}
PDB: 2vd6_A*
Length = 503
Score = 31.1 bits (71), Expect = 2.2
Identities = 14/60 (23%), Positives = 27/60 (45%), Gaps = 4/60 (6%)
Query: 276 HSNSSTGENLVRQELFLGTLTHGLLLQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFK 335
H + S+G +L + L+ ++ G + S + L +Y E+ +FSD F+
Sbjct: 4 HHHHSSGVDLGTENLYFQSMAAGG--DHGSPDSYRSPLASRYA--SPEMCFVFSDRYKFR 59
>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition,
kinase-INH complex, rubredoxin fold, TPR domain,
transferase; HET: AXX; 2.40A {Mycobacterium
tuberculosis}
Length = 681
Score = 31.0 bits (70), Expect = 2.9
Identities = 20/118 (16%), Positives = 34/118 (28%), Gaps = 8/118 (6%)
Query: 86 AAHQPSATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHL 145
+ A P S + +P S+ G + A +
Sbjct: 326 VLREVVAQDTGVPRPGLSTIFSPSRSTFGVDLLVAHTDVYLDGQVHAEKLTANEIVTALS 385
Query: 146 YPLPFFCDPSYYGHYLQSAMKASRGQVAQPPPPSESVTPIPLSPVSSDQEDFSEEDEV 203
PL D +A ++QP +S+ + +D DFSE E+
Sbjct: 386 VPLVDPTDV--------AASVLQATVLSQPVQTLDSLRAARHGALDADGVDFSESVEL 435
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 3cw1_A
Length = 231
Score = 30.0 bits (67), Expect = 3.8
Identities = 26/139 (18%), Positives = 37/139 (26%), Gaps = 6/139 (4%)
Query: 44 KSSTLDQSPAVSDPGMASGVSDQSPPLSSAPANPVQASAPVQAAHQPSATVQAAPGSSAS 103
+ + + A PG+ P P P + PV+ PS V G
Sbjct: 91 GIARVPLAGAAGGPGIGRAAGRGIPAGVPMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTV 150
Query: 104 VLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDPSYYGHYLQS 163
AA ++S P Q P + P P P +
Sbjct: 151 AAAAAAATASIAG---APTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPP 207
Query: 164 AMKASRGQVA---QPPPPS 179
G +PPPP
Sbjct: 208 GRGTPMGMPPPGMRPPPPG 226
>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT,
protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A
{Moloney murine leukemia virus} PDB: 1d1u_A 1n4l_A*
1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A
2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A
1qaj_A* 1d0e_A* 1nnd_A 1mml_A ...
Length = 255
Score = 29.9 bits (67), Expect = 4.2
Identities = 36/165 (21%), Positives = 68/165 (41%), Gaps = 13/165 (7%)
Query: 475 AMSLHIQEMLETGVLKRLDSTTGFLSRLFLVPKGNGGT-RPVLNLKGLNQFLSPKKFSLI 533
+ HIQ +L+ G + + + + L V K RPV +L+ +N+ + ++
Sbjct: 50 GIKPHIQRLLDQG--ILVPCQSPWNTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVP 107
Query: 534 NHFRIPSFLQKGDYMISI-DLSQAYFHVPIKTTHQRFLAL---SYNGDV---LAMTCLPF 586
N + + S L ++ DL A+F + + T Q A + L T LP
Sbjct: 108 NPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQ 167
Query: 587 GLATAPQAFASLSNWVASLLRSRGMRVVV--YLDDFLLVNQDPRI 629
G +P F + + R + +++ Y+DD LL+ +
Sbjct: 168 GFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDD-LLLAATSEL 211
>3bg1_B Nucleoporin NUP145; NPC, transport, WD repeat, autocatalytic
cleavage, mRNA transport, nuclear pore complex, nucleus,
phosphoprotein; 3.00A {Saccharomyces cerevisiae} PDB:
3bg0_B 3iko_B
Length = 442
Score = 29.3 bits (65), Expect = 7.1
Identities = 9/72 (12%), Positives = 30/72 (41%), Gaps = 11/72 (15%)
Query: 300 LLQRRAFSSTMNTLVEKYPEVREELGSLFSDESVFKNVSDHLLQYVCGKRAECLESRRRL 359
+ +S + + + PE+ E++ + ++ + + Y+ + +
Sbjct: 152 KERHCRLTSWIVSQIG--PEIEEKIRNSSNEI-------EQIFLYLLLNDVV--RASKLA 200
Query: 360 VEPRDPHLASLL 371
+E ++ HL+ L+
Sbjct: 201 IESKNGHLSVLI 212
>1sr8_A Cobalamin biosynthesis protein (CBID); structural genomics, PSI,
protein structure initiative, center for structural
genomics, MCSG; 1.90A {Archaeoglobus fulgidus} SCOP:
e.54.1.1
Length = 298
Score = 29.1 bits (65), Expect = 7.2
Identities = 11/61 (18%), Positives = 20/61 (32%), Gaps = 4/61 (6%)
Query: 1026 ITTRGIVQPASRSVIAGWVKTALRGANIIASPGSMRSAVATFRYNSDLPLDSILRQGNWR 1085
+ T G V+P + ++ +K A++ I + G A P G
Sbjct: 184 LGTTGFVEPWCKKLVETKLKIAMQYHRIAITTGRKAWLYAR----KKFPEYQPFVFGVHI 239
Query: 1086 G 1086
Sbjct: 240 D 240
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain,
fusion protein, maltose binding protein, HYDR; HET: MLR
TAR; 2.25A {Mycobacterium tuberculosis}
Length = 141
Score = 28.4 bits (64), Expect = 7.2
Identities = 14/64 (21%), Positives = 24/64 (37%), Gaps = 7/64 (10%)
Query: 829 VMVQSDNQTVVSYLRRQGGTKSLSLLSEVEKIFLLSQ---DWRIHILAQFIPGAYNSVAD 885
V D++ VV + + K LL + L+ ++P A N+ AD
Sbjct: 69 AAVLMDSKLVVEQMSGRWKVKHPDLLKLYVQAQALASQFRRINYE----WVPRARNTYAD 124
Query: 886 SLSR 889
L+
Sbjct: 125 RLAN 128
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 29.3 bits (66), Expect = 7.7
Identities = 32/169 (18%), Positives = 63/169 (37%), Gaps = 29/169 (17%)
Query: 481 QEMLETGVLKRLDSTTGFLSRLFLVPKGNGGT-RPVLNLKGLNQFLSPKKFSLINHFRIP 539
++M + G L+ T + + F + K + R +++ + LN+ ++ + P
Sbjct: 39 EKMEKEGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNK-VTQDFTEIQLGIPHP 97
Query: 540 SFLQKGDYMISIDLSQAYFHVPIKTTHQRFLALS--------------YNGDVLAMTCLP 585
+ L K + +D+ AYF +P+ + + A + Y LP
Sbjct: 98 AGLAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLPSVNNAEPGKRYIYK-------VLP 150
Query: 586 FGLATAPQAFASLSNWVASLLRSRGMRVVV--YLDDFLLVNQDPRILEI 632
G +P F V R V++ Y+DD +L+ D
Sbjct: 151 QGWKGSPAIFQHTMRQVLEPFRKANKDVIIIQYMDD-ILIASD---RTD 195
>3guu_A Lipase A; protein structure, hydrolase; HET: 1PE; 2.10A {Candida
antarctica} PDB: 2veo_A*
Length = 462
Score = 29.5 bits (65), Expect = 7.9
Identities = 14/58 (24%), Positives = 21/58 (36%), Gaps = 6/58 (10%)
Query: 91 SATVQAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLA------QPASTASLPPSAA 142
+A V AAP + A LP+ PF + P+ F + T + A
Sbjct: 16 TAAVLAAPAAETLDRRAALPNPYDDPFYTTPSNIGTFAKGQVIQSRKVPTDIGNANNA 73
>2wsc_4 Chlorophyll A-B binding protein P4, chloroplastic; photosynthesis,
electron transfer, membrane proteins, large complexes;
HET: CL1 PQN BCR LMU LMG SUC UNL; 3.30A {Pisum sativum}
PDB: 2wse_4* 2wsf_4* 3lw5_4* 2o01_4*
Length = 251
Score = 28.9 bits (63), Expect = 8.2
Identities = 12/63 (19%), Positives = 16/63 (25%)
Query: 95 QAAPGSSASVLAAPLPSSSGQPFISPPAQSAAFLAQPASTASLPPSAAHHLYPLPFFCDP 154
S+A L S + AF S ++ A LP P
Sbjct: 4 VTTQASAAIFGPCGLKSRFLGGSSGKLNRGVAFRPVGCSPSASFKVEAKKGEWLPGLASP 63
Query: 155 SYY 157
Y
Sbjct: 64 GYL 66
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A
{Tribolium castaneum} PDB: 3du5_A 3du6_A
Length = 596
Score = 29.1 bits (64), Expect = 8.7
Identities = 14/134 (10%), Positives = 34/134 (25%), Gaps = 30/134 (22%)
Query: 609 RGMRVVVYLDDFLLVNQDPRILEIQGKLAVSILGSLGWIVNLQKSSL------SPAPVLQ 662
+ + +DD+ + P + L + VN K+ P +
Sbjct: 334 KDAFIHRTVDDYFFCSPHPHKVYDFELLIKGVYQ-----VNPTKTRTNLPTHRHPQDEIP 388
Query: 663 FLGIMWDPHLDRMWLPEDKQLTLGNILRTLLASKTWNLDSARSLLGYLSFASFVIPMGRL 722
+ G +++ T + L + +F +
Sbjct: 389 YCGKIFNL-------------------TTRQVRTLYKLPPNYEIRHKFKLWNFNNQISDD 429
Query: 723 HSRRIQRQASLLRL 736
+ R ++A
Sbjct: 430 NPARFLQKAMDFPF 443
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
0.319 0.133 0.399
Gapped
Lambda K H
0.267 0.0507 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 16,202,123
Number of extensions: 962555
Number of successful extensions: 1929
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1878
Number of HSP's successfully gapped: 62
Length of query: 1097
Length of database: 6,701,793
Length adjustment: 104
Effective length of query: 993
Effective length of database: 3,798,009
Effective search space: 3771422937
Effective search space used: 3771422937
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 62 (28.2 bits)