RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5830
(503 letters)
>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 = 475 bits (1224), Expect = e-165
Identities = 401/520 (77%), Positives = 432/520 (83%), Gaps = 61/520 (11%)
Query: 1 MGIKFLEVIKPFCSILPEIAKPEGRKIQFREKVLWTAITLFIFLVCCQIPLFGIMSSDSA 60
M IKFLEVIKPFC ILPEI KPE RKIQF+EKVLWTAITLFIFLVCCQIPLFGIMSSDSA
Sbjct: 1 MAIKFLEVIKPFCVILPEIQKPE-RKIQFKEKVLWTAITLFIFLVCCQIPLFGIMSSDSA 59
Query: 61 DPFYWIRVILASNRGTLMELGISPIVTSGLIMQLLAGAKLIEVGDTPKDRALFNGAQKLF 120
DPFYW+RVILASNRGTLMELGISPIVTSGLIMQLLAGAK+IEVGDTPKDRALFNGAQKLF
Sbjct: 60 DPFYWMRVILASNRGTLMELGISPIVTSGLIMQLLAGAKIIEVGDTPKDRALFNGAQKLF 119
Query: 121 GMVITVGQAIVYVMTGMYGDPSEIGAAGV-----------------PDDEQKGYGLGSGI 163
GM+IT+GQ+IVYVMTGMYGDPSE+GA + QKGYGLGSGI
Sbjct: 120 GMIITIGQSIVYVMTGMYGDPSEMGAGICLLITIQLFVAGLIVLLLDELLQKGYGLGSGI 179
Query: 164 SLFIATNICETIVWKAFSPATVNTGRGTEFEGAVIALFHLLATRQDKVRALREAFYRQNL 223
SLFIATNICETIVWKAFSP TVNTGRG EFEGA+IALFHLLATR DKVRALREAFYRQNL
Sbjct: 180 SLFIATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYRQNL 239
Query: 224 PNLMNLLATVLVFAIVIYFQGFRVDLPIKSARYRGQYSSYPIKLFYTSNIPIILQSALVS 283
PNLMNL+AT+ VFA+VIYFQGFRVDLPIKSARYRGQY++YPIKLFYTSNIPIILQSALVS
Sbjct: 240 PNLMNLIATIFVFAVVIYFQGFRVDLPIKSARYRGQYNTYPIKLFYTSNIPIILQSALVS 299
Query: 284 NLCLLSSSMGTSLSTYLENGLMLVVVAQHVLILLVVSATICPHPRTWLQLMLAVKFHGNI 343
NL ++S ML+ +F GN+
Sbjct: 300 NLYVISQ-------------------------------------------MLSARFSGNL 316
Query: 344 FVNLLGEWADVGGGGPARAYPIGGLCYYLSPPENLGHILEDPIHAILYIVFMLGSCAFFS 403
V+LLG W+D GGPARAYP+GGLC+YLSPPE+ G +LEDP+HA++YIVFMLGSCAFFS
Sbjct: 317 LVSLLGTWSDTSSGGPARAYPVGGLCHYLSPPESFGSVLEDPVHAVVYIVFMLGSCAFFS 376
Query: 404 KTWIEVSGSSAKDVAKQLKEQQMVMRGHREQSMIHELNRYIPTAAAFGGLCIGALSVLAD 463
KTWIEVSGSSAKDVAKQLKEQQMVMRGHRE SM+HELNRYIPTAAAFGGLCIGALSVLAD
Sbjct: 377 KTWIEVSGSSAKDVAKQLKEQQMVMRGHRETSMVHELNRYIPTAAAFGGLCIGALSVLAD 436
Query: 464 FMGAIGSGTGILLAVTIIYQYFEIFVKEQSEMGGMGTLLF 503
F+GAIGSGTGILLAVTIIYQYFEIFVKEQSE+G MG LLF
Sbjct: 437 FLGAIGSGTGILLAVTIIYQYFEIFVKEQSEVGSMGALLF 476
>1rh5_A Preprotein translocase SECY subunit; protein translocation, SECY,
membrane protein, protein channels, protein transport;
3.20A {Methanocaldococcus jannaschii} SCOP: f.41.1.1
PDB: 1rhz_A 2yxq_A 3dkn_A 2yxr_A 3bo0_A 3bo1_A 3kcr_A
Length = 436
Score = 463 bits (1193), Expect = e-161
Identities = 147/503 (29%), Positives = 242/503 (48%), Gaps = 97/503 (19%)
Query: 6 LEVIKPFCSILPEIAKPEGRKIQFREKVLWTAITLFIFLVCCQIPLFGIMSSDSADPFYW 65
++ + P +PE+ P ++I F+EK+ WT I L ++ + I ++ + F +
Sbjct: 1 MKKLIPILEKIPEVELPV-KEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIP-AIFEF 58
Query: 66 IRVILASNRGTLMELGISPIVTSGLIMQLLAGAKLIEVG-DTPKDRALFNGAQKLFGMVI 124
+ I AS GTL+ LGI PIVT+G+IMQLL G+ +I++ P++RALF G QKL +++
Sbjct: 59 WQTITASRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIM 118
Query: 125 TVGQAIVYVMTGMYGDPSEIGAAGVPD------------DEQ-KGYGLGSGISLFIATNI 171
+A+++V G +G + + A V DE YG+GSGI LFIA +
Sbjct: 119 CFVEAVLFVGAGAFGILTPLLAFLVIIQIAFGSIILIYLDEIVSKYGIGSGIGLFIAAGV 178
Query: 172 CETIVWKAFSPATVNTGRGTEFEGAVIALFHLLATRQDKVRALREAFYRQNLPNLMNLLA 231
+TI A P EG + + L N+ + ++
Sbjct: 179 SQTIFVGALGP-----------EGYLWKFLNSLIQG------------VPNIEYIAPIIG 215
Query: 232 TVLVFAIVIYFQGFRVDLPIKSARYRGQYSSYPIKLFYTSNIPIILQSALVSNLCLLSSS 291
T++VF +V+Y + RV++P+ R +G YPIK Y SNIP+IL +AL +N+ L
Sbjct: 216 TIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL- 274
Query: 292 MGTSLSTYLENGLMLVVVAQHVLILLVVSATICPHPRTWLQLMLAVKFHGNIFVNLLGEW 351
+ + +LG +
Sbjct: 275 -----------------------------------------------ALYRMGIPILGHY 287
Query: 352 ADVGGGGPARAYPIGGLCYYLSPPENLGHILEDPIHAILYIVFMLGSCAFFSKTWIEVSG 411
+ G+ YYLS P L ++ DPIHAI+Y++ M+ +C F W+E +G
Sbjct: 288 EG--------GRAVDGIAYYLSTPYGLSSVISDPIHAIVYMIAMIITCVMFGIFWVETTG 339
Query: 412 SSAKDVAKQLKEQQMVMRGHR--EQSMIHELNRYIPTAAAFGGLCIGALSVLADFMGAIG 469
K +AK++ M ++G R E+++ H L RYIP +G L+ +A+F+GA+G
Sbjct: 340 LDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSSAFVGFLATIANFIGALG 399
Query: 470 SGTGILLAVTIIYQYFEIFVKEQ 492
GTG+LL V+I+Y+ +E ++E+
Sbjct: 400 GGTGVLLTVSIVYRMYEQLLRER 422
>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane
protein complex, preprotein TRAN membrane insertion,;
2.90A {Pyrococcus furiosus}
Length = 482
Score = 457 bits (1177), Expect = e-158
Identities = 145/513 (28%), Positives = 253/513 (49%), Gaps = 80/513 (15%)
Query: 1 MGIKFLEVIKPFCSILPEIAKPEGRKIQFREKVLWTAITLFIFLVCCQIPLFGIMSSDSA 60
MG ++I PE+ +P+ R++ RE+ +WT + L ++ V +IP++GI
Sbjct: 1 MG--ARDIIYALERWFPEVERPK-RRVPLRERFMWTGVALILYYVLAEIPVYGI-PERIQ 56
Query: 61 DPFYWIRVILASNRGTLMELGISPIVTSGLIMQLLAGAKLIEVG-DTPKDRALFNGAQKL 119
D F ++RV+LA G+++ LGI PIVT+G+I+QLL G+++I++ P+DR + Q++
Sbjct: 57 DYFQFLRVVLAGRNGSILTLGIGPIVTAGIILQLLVGSEIIKLDLANPEDRRFYQALQRV 116
Query: 120 FGMVITVGQAIVYVMTGMYGDPSEIGAAGVPD----------------DEQ-KGYGLGSG 162
F + + +A V+++ G +G + DE +G+GSG
Sbjct: 117 FSVFMCFFEAAVWILGGAFGRVGVDVTYAIAVLMILQLAMGGIVLIILDELVSKWGIGSG 176
Query: 163 ISLFIATNICETIVWKAFSPAT-VNTGRGTEFEGAVIALFHLLATRQDKVRALREAFYRQ 221
ISLFIA + +TI+ ++ +P T N + A++ K +
Sbjct: 177 ISLFIAAGVSQTILTRSLNPLTDPNIIDPLTGQPAIVGAIPYFIQHILKGDLWGAIYRGG 236
Query: 222 NLPNLMNLLATVLVFAIVIYFQGFRVDLPIKSARYRGQYSSYPIKLFYTSNIPIILQSAL 281
+ P++++++AT++VF IV+YF+ RV++P+ SYPI+ Y SNIPIIL AL
Sbjct: 237 SAPDMLSVVATIVVFFIVVYFESMRVEIPLGYRG-VTVRGSYPIRFLYVSNIPIILTFAL 295
Query: 282 VSNLCLLSSSMGTSLSTYLENGLMLVVVAQHVLILLVVSATICPHPRTWLQLMLAVKFHG 341
+N+ L +
Sbjct: 296 YANIQLWAR------------------------------------------------VLD 307
Query: 342 NIFVNLLGEWADVGGGGPARAYPIGGLCYYLSPPENLGHILEDPIHAILYIVFMLGSCAF 401
+ LG + P PI G Y+ PP N+ ++++P+ AI+Y++ +
Sbjct: 308 RLGHPWLGRF------DPTTGSPISGFVLYVIPPRNIFSVIDNPVRAIVYLILTVIFSLL 361
Query: 402 FSKTWIEVSGSSAKDVAKQLKEQQMVMRGHR--EQSMIHELNRYIPTAAAFGGLCIGALS 459
F W+E++G A+ +A+QL+ + + G R +++ L RYIP +G L + ++
Sbjct: 362 FGYLWVELTGLDARSIARQLQRAGLQIPGFRRDPRTLEKVLQRYIPYVTFWGSLTVALIA 421
Query: 460 VLADFMGAIGSGTGILLAVTIIYQYFEIFVKEQ 492
VLADF+GA+G+GTGILL V I+Y+++E +EQ
Sbjct: 422 VLADFLGALGTGTGILLTVGILYRFYEEIAREQ 454
>2ww9_A SEC sixty-one protein homolog; ribonucleoprotein, transmembrane,
phospho signal sequence, membrane, ribosome, transport;
8.60A {Saccharomyces cerevisiae} PDB: 2wwa_A
Length = 490
Score = 404 bits (1038), Expect = e-137
Identities = 141/522 (27%), Positives = 234/522 (44%), Gaps = 66/522 (12%)
Query: 2 GIKFLEVIKPFCSILPEIAKPEGRKIQFREKVLWTAITLFIFLVCCQIPLFGI---MSSD 58
G + ++++KP ILPE+ P K+ F +K+++T I+L Q PL G+ + +
Sbjct: 3 GFRLIDIVKPILPILPEVELPF-EKLPFDDKIVYTIFAGLIYLFA-QFPLVGLPKATTPN 60
Query: 59 SADPFYWIRVILASNRGTLMELGISPIVTSGLIMQLLAGAKLIEVG-DTPKDRALFNGAQ 117
DP Y++R + TL+E G+ P ++SGLI+QLLAG K+I+V DR LF
Sbjct: 61 VNDPIYFLRGVFGCEPRTLLEFGLFPNISSGLILQLLAGLKVIKVNFKIQSDRELFQSLT 120
Query: 118 KLFGMVITVGQAIVYVMTGMYGDPSEIGAAGVP---------------DDEQKGYGLGSG 162
K+F +V V +++ G +GD + G+ + KG+G SG
Sbjct: 121 KVFAIVQYVILTNIFIFAGYFGDDLSVVQIGLINFQLVGAGIFTTLLAEVIDKGFGFSSG 180
Query: 163 ISLFIATNICETIVWKAFSPATVNTGRG--TEFEGAVIALFHLLATRQDK-VRALREAFY 219
+ I +V F + + G TE +GA+I L L ++ + + AF
Sbjct: 181 AMIINTVVIATNLVADTFGVSQIKVGEDDQTEAQGALINLIQGLRSKHKTFIGGIISAFN 240
Query: 220 RQNLPNLMNLLATVLVFAIVIYFQGFRVDLPIKSARYRGQYSSYPIKLFYTSNIPIILQS 279
R LPNL + + + IV Y Q RV+LPI+S R RG + YPIKL YT + ++
Sbjct: 241 RDYLPNLTTTIIVLAIAIIVCYLQSVRVELPIRSTRARGTNNVYPIKLLYTGCLSVLFSY 300
Query: 280 ALVSNLCLLSSSMGTSLSTYLENGLMLVVVAQHVLILLVVSATICPHPRTWLQLMLAVKF 339
++ + + + L ++A
Sbjct: 301 TILFYIHIFAF---------------------------------------VLIQLVAKNE 321
Query: 340 HGNIFVNLLGEWADVGGGGPARAYPIGGLCYYLSPPENLGHILEDPIHAILYIVFMLGSC 399
+I ++G + A P L P + + P+ I Y F+L +
Sbjct: 322 PTHIICKIMGHYE---NANNLLAVPTFPLSLLAPPTSFFKGVTQQPLTFITYSAFILVTG 378
Query: 400 AFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHREQSMIHELNRYIPTAAAFGGLCIGALS 459
+F+ W +SGSSA+DVA + K+Q + + G REQ++ ELN+ IP AA G + ++
Sbjct: 379 IWFADKWQAISGSSARDVALEFKDQGITLMGRREQNVAKELNKVIPIAAVTGASVLSLIT 438
Query: 460 VLADFMGAIGSGTGILLAVTIIYQYFEIFVKEQSEMGGMGTL 501
V+ + +G G GI++ + + E+ E + GG L
Sbjct: 439 VIGESLGLKGKAAGIVVGIAGGFSLLEVITIEYQQSGGQSAL 480
>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 = 49.1 bits (116), Expect = 3e-06
Identities = 57/435 (13%), Positives = 120/435 (27%), Gaps = 149/435 (34%)
Query: 102 EVGDTPKDRALFNGAQKLFGMVITVGQAIVYVMTGMYGDPSEIGAAGVPDDEQKGYGLGS 161
E+ + +G +LF +++ + +V V + + Y
Sbjct: 50 EIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKF--------------VEEVLRINYK--- 92
Query: 162 GISLFIATNICETIVWKAFSPATVNTGRGTEF-EGAVIALFHLLATRQDKVRALREAFYR 220
F+ + I + R + + V A +++ +R LR+A
Sbjct: 93 ----FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNV--SRLQPYLKLRQALLE 146
Query: 221 -QNLPNL----MN------LLATVLVFAIVIYFQGFRV---DLPIKSARYRGQYSSYPIK 266
+ N+ + + V + V F++ +L +S
Sbjct: 147 LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNL--------KNCNS---- 194
Query: 267 LFYTSNIPIILQSALVSNLCLLSSSMGTSLSTYLENG-----------LMLVVVAQHVLI 315
+ +LQ L TS S + N L+ +
Sbjct: 195 ---PETVLEMLQ-----KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC 246
Query: 316 LLV---VSATICPHPRTW----LQ---LM----------LAVKFHGNIFVN--------- 346
LLV V + + W L L+ L+ +I ++
Sbjct: 247 LLVLLNVQ-----NAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301
Query: 347 ----LLGEWADVGGGG-PARA---YP-----IGGLC--------YYLSPP-ENLGHILED 384
LL ++ D P P I + + L I+E
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES 361
Query: 385 PIHAI-------LYIVFMLGSCAFF-------SKT----WIEVSGSSAKDVAKQLKEQQM 426
++ + ++ + F + W +V S V +L + +
Sbjct: 362 SLNVLEPAEYRKMFD-----RLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
Query: 427 VMRGHREQSM-IHEL 440
V + +E ++ I +
Sbjct: 417 VEKQPKESTISIPSI 431
Score = 43.7 bits (102), Expect = 1e-04
Identities = 77/472 (16%), Positives = 149/472 (31%), Gaps = 151/472 (31%)
Query: 74 RGTLMELGISPIVT------SG---LIMQLLAGAKL----------IEVGDTPKDRALFN 114
R L+EL + V SG + + + K+ + + + +
Sbjct: 141 RQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE 200
Query: 115 GAQKLFGMVITVGQAIVYVMTGMYGDPSEIGAAGVPDD------------EQKGYGLGSG 162
QKL Y + + S+ ++ + + K Y
Sbjct: 201 MLQKLL-----------YQIDPNWTSRSD-HSSNIKLRIHSIQAELRRLLKSKPYE---- 244
Query: 163 ISLFIATNICETIVWKAFSPA--TVNTGRG---TEFEGA----VIALFHLLAT-RQDKVR 212
L + N+ W AF+ + + T R T+F A I+L H T D+V+
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVK 304
Query: 213 AL-------------REAFYRQNLPNLMNLLATVL-VFAIVI----YFQGFRVDLPIKS- 253
+L RE P ++++A + + ++ I+S
Sbjct: 305 SLLLKYLDCRPQDLPREV--LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 254 ------ARYRGQYSSYPIKLF-YTSNIPIILQSALVSNLCLLSSSMGTSLSTYLENGLML 306
A YR + + F +++IP IL L L+ + +++ +M+
Sbjct: 363 LNVLEPAEYRKMFDRLSV--FPPSAHIPTIL-------LSLIWFDV-------IKSDVMV 406
Query: 307 VVVAQHVLILLVVSATICPHPRTW----LQLMLAVKF------HGNIFVNLLGEWADVGG 356
VV H L+ P T + L L VK H +I V
Sbjct: 407 VVNKLHKYSLVEKQ----PKESTISIPSIYLELKVKLENEYALHRSI----------VDH 452
Query: 357 GGPARAYPIGGLCYYLSPPEN-------LGHILEDPIHAILYIVFMLGSCAFFSKTWIEV 409
+ + L PP +GH L++ H +F F ++E
Sbjct: 453 YNIPKTFD----SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF---RMVFLDFRFLEQ 505
Query: 410 ----------SGSSAKDVAKQLK--EQQMVMRGHREQSMIHELNRYIPTAAA 449
+ S + +QLK + + + + +++ + ++P
Sbjct: 506 KIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEE 557
>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 = 47.4 bits (112), Expect = 1e-05
Identities = 93/568 (16%), Positives = 169/568 (29%), Gaps = 188/568 (33%)
Query: 4 KFLEVIKPFCSILPEIAKPEGRKIQFREKVLWTAITLF--IFL-------VCCQIPLFGI 54
KFL + S L E + QF + VL +T F +L + ++
Sbjct: 63 KFLG----YVSSLVE----PSKVGQFDQ-VLNLCLTEFENCYLEGNDIHALAAKLL--QE 111
Query: 55 MSSDSADPFYWIRVILASNRGTLMELGISPIVTSGLIMQLLAG-AKLIEVGDTPKDRALF 113
+ I+ + + + + S L + G A+L+ A+F
Sbjct: 112 NDTTLVKTKELIKNYITAR--IMAKRPFDKKSNSALFRAVGEGNAQLV---------AIF 160
Query: 114 NG-----------------------------AQKLFGMVITVGQAIVYVMTGMYGDPSE- 143
G A+ L ++ T A G+ + E
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGL--NILEW 218
Query: 144 -IGAAGVPDDEQKGYGLGSGISL----------FIATNICETIVWKAFSPATVN------ 186
+ PD + Y L IS ++ T + + F+P +
Sbjct: 219 LENPSNTPDKD---YLLSIPISCPLIGVIQLAHYVVT--AKLL---GFTPGELRSYLKGA 270
Query: 187 TGRGTEFEGAVIALFHLLATRQDKVRALREAFYRQNLPNLMNLLATVLVFAIVIYFQGFR 246
TG +G V A+ +A E+F+ ++ + +L F I G
Sbjct: 271 TGHS---QGLVTAVA--IAETDS-----WESFF-VSVRKAITVL-----FFI-----G-- 307
Query: 247 VDLPIKSARYRGQYSSYPIKLFYTSNIPIILQSALVSNLCLLSSSMGTSLSTYLENGLML 306
R +YP TS P IL+ + + N + S M LS + L
Sbjct: 308 ---------VRCY-EAYPN----TSLPPSILEDS-LENNEGVPSPM---LSI---SNLTQ 346
Query: 307 VVV-------------AQHVLILLVVSAT---ICPHPRTWLQLMLAVKFHGNIFVNLLGE 350
V + V I LV A + P++ L L L
Sbjct: 347 EQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLT----------LRKA 396
Query: 351 WADVGGG-----GPARAYPIGGLCY----------YLSPPENLGHILED-PIHAILYIVF 394
A G R + L P +L I +D + + +
Sbjct: 397 KAPSGLDQSRIPFSERK-LKFSNRFLPVASPFHSHLLVPASDL--INKDLVKNNVSFNAK 453
Query: 395 MLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHREQSMIHELNRYIPTAAAFGGLC 454
+ + + ++ S +++++ + + + E + + + FG
Sbjct: 454 DIQIPVYDTFDGSDLRVLSG-SISERIVDCIIRLPVKWETTTQFKATHIL----DFGP-- 506
Query: 455 IGALSVLADFMGAIGSGTG--ILLAVTI 480
G S L GTG +++A T+
Sbjct: 507 -GGASGLGVLTHRNKDGTGVRVIVAGTL 533
Score = 37.7 bits (87), Expect = 0.009
Identities = 29/133 (21%), Positives = 43/133 (32%), Gaps = 41/133 (30%)
Query: 5 FLEVIKPFCSILPEIAKPEGRKIQFREKVLWTAITLFIFLVCCQIPLFGIMSSDSAD--- 61
FL V PF S L A K + V + A + QIP++ + D +D
Sbjct: 420 FLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI-------QIPVYD--TFDGSDLRV 470
Query: 62 ----------------PFYWIRVILASNRGT-LMELGISPIVTSG---LIMQLL--AGAK 99
P W + T +++ G P SG L + G +
Sbjct: 471 LSGSISERIVDCIIRLPVKWET--TTQFKATHILDFG--PGGASGLGVLTHRNKDGTGVR 526
Query: 100 LIEVGD---TPKD 109
+I G P D
Sbjct: 527 VIVAGTLDINPDD 539
Score = 32.7 bits (74), Expect = 0.31
Identities = 18/81 (22%), Positives = 26/81 (32%), Gaps = 25/81 (30%)
Query: 14 SILPEIAKPEGRKIQFREKVLWTAITLFI---FLVCCQIPLFG--------IMSSDSADP 62
SI I I R V W T F L FG +++ + D
Sbjct: 474 SISERIV----DCI-IRLPVKWETTTQFKATHILD------FGPGGASGLGVLTHRNKDG 522
Query: 63 FYWIRVILAS--NRGTLMELG 81
+RVI+A + + G
Sbjct: 523 -TGVRVIVAGTLDINPDDDYG 542
Score = 32.7 bits (74), Expect = 0.36
Identities = 59/344 (17%), Positives = 107/344 (31%), Gaps = 105/344 (30%)
Query: 179 AFS--PATVNTGRGTEFEGAVIALFHLLATRQDKVRALREAFYRQNLPNLMNLLATVLVF 236
A+S P T++ G E V +A++ L+E F + LP T
Sbjct: 3 AYSTRPLTLSHGS-LEHVLLVPTASFFIASQ------LQEQFN-KILPE-----PT---- 45
Query: 237 AIVIYFQGFRVDLPIKS-----ARYRGQYSSYPIKLFYTSNIPIILQSALVSNLCLLSSS 291
+GF D + ++ L Y S++ + S + +L+
Sbjct: 46 ------EGFAADDEPTTPAELVGKF----------LGYVSSL--VEPSKVGQFDQVLNLC 87
Query: 292 MGTSLSTYL-ENGLMLVVVAQHVLI--LLVVSATICPHPRTWLQLMLAVKFHGNIFVN-- 346
+ + YL N + H L LL + T + ++ + + +
Sbjct: 88 LTEFENCYLEGNDI-------HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140
Query: 347 ----LLGEWADVGGGGPARAYPI-GG----LCY-------YLSPPENLGHILEDPIHAIL 390
L + G A+ I GG Y Y + ++ D I
Sbjct: 141 SNSALFRAVGE----GNAQLVAIFGGQGNTDDYFEELRDLYQTYH----VLVGDLIKFSA 192
Query: 391 YIVFMLGSCA-----FFSK-----TWIEVSGSSAKDVAKQLKEQQMVMRGHREQSM---- 436
+ L F++ W+E + + + ++ S
Sbjct: 193 ETLSELIRTTLDAEKVFTQGLNILEWLE-------NPSNTPDKDYLL---SIPISCPLIG 242
Query: 437 IHELNRYIPTAAAFGGLCIGALSVLADFMGAIGSGTGILLAVTI 480
+ +L Y+ TA G G L + GA G G++ AV I
Sbjct: 243 VIQLAHYVVTAKLLG-FTPGEL--RSYLKGATGHSQGLVTAVAI 283
Score = 29.2 bits (65), Expect = 4.2
Identities = 12/25 (48%), Positives = 14/25 (56%), Gaps = 3/25 (12%)
Query: 444 IPTAAAFGGLCIG---ALSVLADFM 465
IP A F G +G AL+ LAD M
Sbjct: 1753 IPADATFAGHSLGEYAALASLADVM 1777
Score = 28.1 bits (62), Expect = 8.8
Identities = 28/177 (15%), Positives = 51/177 (28%), Gaps = 55/177 (31%)
Query: 97 GAKLIE-VGDTPKDRALFNGAQKLFGMVITVGQAIV--YVMTGMYGDPSEIGAAGVPDDE 153
G +++ V + P + + G +K G+ I Y ++ E G E
Sbjct: 1658 GFSILDIVINNPVNLTIHFGGEK--------GKRIRENY-SAMIF----ETIVDGKLKTE 1704
Query: 154 QKGYGLGSGISLFIATNICET-IVWKAFSPATV-NTGRGTEFEGAVIALFHLLATRQDKV 211
+ +F N T ++ S + + T+F AL +
Sbjct: 1705 K----------IFKEINEHSTSYTFR--SEKGLLSA---TQF--TQPALT---LMEKAAF 1744
Query: 212 RALREAFYRQNLPNLMNLLA-------TVLV-FAIVIYFQGFRVDLPIKSARYRGQY 260
L+ A L A V+ + L ++ YRG
Sbjct: 1745 EDLKSKGLIP----ADATFAGHSLGEYAALASLADVMSIE----SL-VEVVFYRGMT 1792
>3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane
protein translocation protein- protein complex,
ATP-binding, cell membrane; 7.50A {Aquifex aeolicus}
Length = 429
Score = 38.7 bits (91), Expect = 0.004
Identities = 60/351 (17%), Positives = 108/351 (30%), Gaps = 109/351 (31%)
Query: 30 REKVLWTAITLFIFLVCCQIPLFGIMSSDSADPFYWIRVILASNRGTLME---------- 79
R+K ++T + I+ + IP+ GI +P +R L + G++
Sbjct: 15 RQKFIFTLLMFVIYRLGSHIPIPGI------NPEA-LRDFLKAFEGSVFALYDIFSGGNL 67
Query: 80 -------LGISPIVTSGLIMQLLAGAKLIEVGDTPKDRALF-----NGAQKL------FG 121
LG+ P +++ ++MQLL A P + L G K+
Sbjct: 68 GRLTVFALGVMPYISASIMMQLLTVA-------IPSLQRLAKEEGDYGRYKINEYTKYLT 120
Query: 122 MVITVGQAIVYVMTGMYGDPSEIGAAGVPDDEQKGY------------------------ 157
+ + Q++ + G S G V +
Sbjct: 121 LFVATVQSLGIAF-WIRGQVSPKGIPVVENPGISFILITVLTLVAGTMFLVWIADRITEK 179
Query: 158 GLGSGISLFIATNICETIVWKAFSPATVNTGRGTEFEGAVIALFHLLATRQDKVRALREA 217
G+G+G SL I I P V G + L LL
Sbjct: 180 GIGNGASLIIFAGIVANF------PNAVIQFYEKVKTGDIGPLTLLLI------------ 221
Query: 218 FYRQNLPNLMNLLATVLVFAIVIYF-QGFRVDLPIKSAR-------YRGQYSSYPIKLFY 269
+ + + ++Y + R +PI+ Y G+ + PIK+
Sbjct: 222 -----------IALIIAIIVGIVYVQEAER-RIPIQYPGRQVGRQLYAGRKTYLPIKINP 269
Query: 270 TSNIPIILQSALVSNLCLLSSSMGTS----LSTYLENGLMLVVVAQHVLIL 316
IPII AL+ L + + ++ + G + I+
Sbjct: 270 AGVIPIIFAQALLLIPSTLLNFVQNPFIKVIADMFQPGAIFYNFLYVTFIV 320
>3din_C Preprotein translocase subunit SECY; protein translocation,
membrane protein, ATPase, ATP-binding membrane,
nucleotide-binding, protein transport; HET: ADP; 4.50A
{Thermotoga maritima MSB8}
Length = 431
Score = 37.9 bits (89), Expect = 0.006
Identities = 59/344 (17%), Positives = 110/344 (31%), Gaps = 100/344 (29%)
Query: 30 REKVLWTAITLFIFLVCCQIPLFGIMSSDSADPFYWIRVILASN---------------R 74
R+++++T + L +F + IP+ G+ + F I R
Sbjct: 15 RDRIIFTFLALIVFRMGIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFYDVFTGGALSR 74
Query: 75 GTLMELGISPIVTSGLIMQLLAGA-----KLIEVGDTPKDRALFNGAQKL------FGMV 123
++ + ++P +T+ +I+QLLA +++ G+ G +K ++
Sbjct: 75 FSVFTMSVTPYITASIILQLLASVMPSLKEMLREGEE--------GRKKFAKYTRRLTLL 126
Query: 124 ITVGQAIVYVMTGMYGDPSEIGAAGVPDD---------------------EQ-KGYGLGS 161
I QA + ++ A GV E+ G+G+
Sbjct: 127 IGGFQAFFVSF-SLARSNPDMVAPGVNVLQFTVLSTMSMLAGTMFLLWLGERITEKGIGN 185
Query: 162 GISLFIATNICETIVWKAFSPATVNTGRGTEFEGAVIALFHLLATRQDKVRALREAFYRQ 221
GIS+ I I P+ +
Sbjct: 186 GISILIFAGIVARY------PSYIRQAYLGGLNLLEWIFL-------------------- 219
Query: 222 NLPNLMNLLATVLVFAIVIYF-QGFRVDLPIKSAR-------YRGQYSSYPIKLFYTSNI 273
+ ++ +I Q R + I+ AR Y G + PIK+ I
Sbjct: 220 -------IAVALITIFGIILVQQAER-RITIQYARRVTGRRVYGGASTYLPIKVNQGGVI 271
Query: 274 PIILQSALVSNLCLLSSSMGTS-LSTYLENGLMLVVVAQHVLIL 316
PII SA+VS ++S L G L ++ +L+
Sbjct: 272 PIIFASAIVSIPSAIASITNNETLKNLFRAGGFLYLLIYGLLVF 315
>2zjs_Y Preprotein translocase SECY subunit; translocon, SEC,
protein-conducting-channel, membrane, prote transport,
translocation, transmembrane, transport; 3.20A {Thermus
thermophilus} PDB: 2zqp_Y
Length = 434
Score = 36.0 bits (84), Expect = 0.024
Identities = 60/356 (16%), Positives = 109/356 (30%), Gaps = 119/356 (33%)
Query: 30 REKVLWTAITLFIFLVCCQIPLFGIMSSDSADPFYWIRVILASNRGTLME---------- 79
R++VL+T + L + + IP G+ D I+ L + +G +
Sbjct: 15 RQRVLFTLLVLAAYRLGAFIPTPGV------DLDK-IQEFLRTAQGGVFGIINLFSGGNF 67
Query: 80 -------LGISPIVTSGLIMQLLAGA-----KLIEVGDTPKDRALFNGAQKL------FG 121
LGI P +T+ +IMQ+L KL + G+ G + + G
Sbjct: 68 ERFSIFALGIMPYITAAIIMQILVTVVPALEKLSKEGEE--------GRRIINQYTRIGG 119
Query: 122 MVITVGQAIVYVMTGMYGDPSEIGAAGVPDDEQKGY------------------------ 157
+ + Q G +
Sbjct: 120 IALGAFQGFFLAT-AFLGAEGGRFLLPGWSPGPFFWFVVVVTQVAGIALLLWMAERITEY 178
Query: 158 GLGSGISLFIATNICETIVWKAFSPATVNTGRGTEFEGAVIALFHLLATRQDKVRALREA 217
G+G+G SL I I E+ ++ L+
Sbjct: 179 GIGNGTSLIIFAGIV------------------VEWLPQILRTIGLI------------- 207
Query: 218 FYRQNLPNLMNLLATVLVFAIVIYF-----QGFRVDLPIKSAR-------YRGQYSSYPI 265
R NL+ L + + Q R +P++ AR Y GQ + PI
Sbjct: 208 --RTGEVNLVAFLFFLAFIVLAFAGMAAVQQAER-RIPVQYARKVVGGRVYGGQATYIPI 264
Query: 266 KLFYTSNIPIILQSALVSNLCLLSSSMGTS-----LSTYLENGLMLVVVAQHVLIL 316
KL IPII +A++ L++ + ++ + + + +L++
Sbjct: 265 KLNAAGVIPIIFAAAILQIPIFLAAPFQDNPVLQGIANFFNPTRPSGLFIEVLLVI 320
>3j01_A Preprotein translocase SECY subunit; ribonucleoprotein,
nucleotide-binding, PR biosynthesis, translation,
zinc-finger, 70S ribosome, ribos translocon; 7.10A
{Escherichia coli 536} PDB: 2akh_Y 2aki_Y
Length = 435
Score = 34.0 bits (79), Expect = 0.093
Identities = 58/310 (18%), Positives = 105/310 (33%), Gaps = 104/310 (33%)
Query: 30 REKVLWTAITLFIFLVCCQIPLFGIMSSDSADPFYWIRVILASNRGTLME---------- 79
+ ++L+ L +F + IP+ GI D + +L RGT++E
Sbjct: 13 KRRLLFVIGALIVFRIGSFIPIPGI------DAAV-LAKLLEQQRGTIIEMFNMFSGGAL 65
Query: 80 -------LGISPIVTSGLIMQLLAGA-----KLIEVGDTPKDRALFNGAQKL------FG 121
LGI P +++ +I+QLL ++ + G++ G +K+
Sbjct: 66 SRASIFALGIMPYISASIIIQLLTVVHPTLAEIKKEGES--------GRRKISQYTRYGT 117
Query: 122 MVITVGQAIVYVMTGMYGDPSEIGAAGVPDD---------------------EQ-KGYGL 159
+V+ + Q+I G+ P G P EQ G+
Sbjct: 118 LVLAIFQSIGIAT-GLPNMPGMQGLVINPGFAFYFTAVVSLVTGTMFLMWLGEQITERGI 176
Query: 160 GSGISLFIATNICETIVWKAFSPATVNTGRGTEFEGAVIALFHLLATRQDKVRALREAFY 219
G+GIS+ I I + P + +G + L LL
Sbjct: 177 GNGISIIIFAGIVAGL------PPAIAHTIEQARQGDLHFLVLLLV-------------- 216
Query: 220 RQNLPNLMNLLATVLVFAIVIYF-QGFRVDLPIKSAR-------YRGQYSSYPIKLFYTS 271
+ V V++ +G R + + A+ Y Q + P+K+
Sbjct: 217 ---------AVLVFAVTFFVVFVERGQR-RIVVNYAKRQQGRRVYAAQSTHLPLKVNMAG 266
Query: 272 NIPIILQSAL 281
IP I S++
Sbjct: 267 VIPAIFASSI 276
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus
amylolyticus}
Length = 363
Score = 31.8 bits (72), Expect = 0.53
Identities = 14/92 (15%), Positives = 33/92 (35%), Gaps = 17/92 (18%)
Query: 1 MGIKFLEVIKPFC-SILPEIAKPEGRKIQFREKVLWTAITLFI----FLVCCQIPLFGIM 55
MG+ ++I +++ ++ G+ I I + FL + P +
Sbjct: 11 MGVDLKDIIPGEAKTVIEDLRILHGKII---------VIDGYNALYQFLAAIRQPDGTPL 61
Query: 56 SSDSADPFYWIRVILASNR-GTLMELGISPIV 86
++ + + R ++E GI P+
Sbjct: 62 MDNNGRITSHLSGLF--YRTINIVEAGIKPVY 91
>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 = 29.9 bits (66), Expect = 1.0
Identities = 9/35 (25%), Positives = 14/35 (40%), Gaps = 8/35 (22%)
Query: 423 EQQMVMRGHREQSMIHELNRYIPTAAAFGGLCIGA 457
E+Q + + + S L Y +A L I A
Sbjct: 18 EKQALKK--LQAS----LKLYADDSAP--ALAIKA 44
>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 = 30.6 bits (68), Expect = 1.2
Identities = 27/150 (18%), Positives = 52/150 (34%), Gaps = 6/150 (4%)
Query: 334 MLAVKFHGNIFVNLLGEWADVGGGGPARAYPIGGLCYYLSPPENLGHI---LEDPIHAIL 390
+L V G V L GE A V G A A + + + P++ G + L + +
Sbjct: 5 VLLVSAPGK--VILHGEHAVV-HGKVALAVALNLRTFLVLRPQSNGKVSLNLPNVGIKQV 61
Query: 391 YIVFMLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHREQSMIHELNRYIPTAAAF 450
+ V L +V + + + K K + + + Y+ A
Sbjct: 62 WDVATLQLLDTGFLEQGDVPAPTLEQLEKLKKVAGLPRDCVGNEGLSLLAFLYLYLAICR 121
Query: 451 GGLCIGALSVLADFMGAIGSGTGILLAVTI 480
+ +L ++ G+G G A ++
Sbjct: 122 KQRTLPSLDIMVWSELPPGAGLGSSAAYSV 151
>2pg9_A Phosphomevalonate kinase; GHMP kinase superfamily, transferase;
HET: PMV ANP; 1.90A {Streptococcus pneumoniae} PDB:
1k47_A* 3gon_A*
Length = 337
Score = 28.8 bits (64), Expect = 4.0
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 333 LMLAVKFHGNIFVNLLGEWADVGGGGPARAYPI 365
+M+AVK G ++ GE+A + G A I
Sbjct: 2 MMIAVKTCGKLY--WAGEYAILEPGQLALIKDI 32
>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 = 28.4 bits (63), Expect = 5.3
Identities = 10/32 (31%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 334 MLAVKFHGNIFVNLLGEWADVGGGGPARAYPI 365
L VK G ++ + GE+A V G A +
Sbjct: 6 KLQVKIPGKLY--VAGEYAVVESGHTAILTAV 35
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
0.326 0.142 0.426
Gapped
Lambda K H
0.267 0.0610 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,852,212
Number of extensions: 488775
Number of successful extensions: 1100
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1061
Number of HSP's successfully gapped: 32
Length of query: 503
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 405
Effective length of database: 3,965,535
Effective search space: 1606041675
Effective search space used: 1606041675
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 (21.6 bits)
S2: 59 (26.8 bits)