RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 010829
(499 letters)
>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 = 398 bits (1024), Expect = e-135
Identities = 154/422 (36%), Positives = 240/422 (56%), Gaps = 14/422 (3%)
Query: 78 FGDFFKGP-LPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNS--LLSTLDSFSG 134
F+ L KF+ L + RLG +IP+ G+N EA L + + D FSG
Sbjct: 5 LKALFELKELRQKFIFTLLMFVIYRLGSHIPIPGINPEALRDFLKAFEGSVFALYDIFSG 64
Query: 135 GGIGRLGICSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFA 194
G +GRL + +LG++P+I+A I+ QLL P LQ L K EG+ GR K+ +YT+Y ++ A
Sbjct: 65 GNLGRLTVFALGVMPYISASIMMQLLTVAIPSLQRLAKEEGDYGRYKINEYTKYLTLFVA 124
Query: 195 IVQAIGQVLYLR--------PYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNG 246
VQ++G ++R P V + ++L +V L G+ F +I +RI++ +GNG
Sbjct: 125 TVQSLGIAFWIRGQVSPKGIPVVENPGISFILITVLTLVAGTMFLVWIADRITEKGIGNG 184
Query: 247 TSLLIFTSIISYLPASFGRTVAEAFQ-DGNYIGLATIIISFILLVLGIVYVQEAERKIPI 305
SL+IF I++ P + + + D + L II I +++GIVYVQEAER+IPI
Sbjct: 185 ASLIIFAGIVANFPNAVIQFYEKVKTGDIGPLTLLLIIALIIAIIVGIVYVQEAERRIPI 244
Query: 306 NYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAALKKAAVAL 365
Y R R R YLP K+N +GV+PIIF+ + L +P TL F +K A
Sbjct: 245 QYPGRQVGRQLYAGRKTYLPIKINPAGVIPIIFAQALLLIPSTLLNFVQNPFIKVIADMF 304
Query: 366 NPGGSFYLPTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVL 425
PG FY + I FF Y+YT + ++P +++E L + GA IP VRPG+ T +L+ ++
Sbjct: 305 QPGAIFYNFLYVTFIVFFTYFYTAVLINPVELAENLHKAGAFIPGVRPGQDTVKYLERII 364
Query: 426 SRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIISQK 485
+R+ G++FL+++A P +I ++ + F GT+ LI+VG A DT R+++ +I +K
Sbjct: 365 NRLIFFGALFLSVIALIPILISVWFNIPFY--FGGTTALIVVGVALDTFRQIETYLIQKK 422
Query: 486 YK 487
YK
Sbjct: 423 YK 424
>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 = 384 bits (990), Expect = e-130
Identities = 134/425 (31%), Positives = 214/425 (50%), Gaps = 19/425 (4%)
Query: 78 FGDFFKGP-LPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNS--LLSTLDSFSG 134
F + P L + L L LA RLG +IP GV+ + L + ++ FSG
Sbjct: 5 FWSALQIPELRQRVLFTLLVLAAYRLGAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSG 64
Query: 135 GGIGRLGICSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFA 194
G R I +LGI+P+I A I+ Q+L + P L+ L K EGE GR+ + QYTR +
Sbjct: 65 GNFERFSIFALGIMPYITAAIIMQILVTVVPALEKLSK-EGEEGRRIINQYTRIGGIALG 123
Query: 195 IVQAIGQVLYLR--------PYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNG 246
Q + V G A ++ ERI++ +GNG
Sbjct: 124 AFQGFFLATAFLGAEGGRFLLPGWSPGPFFWFVVVVTQVAGIALLLWMAERITEYGIGNG 183
Query: 247 TSLLIFTSIISYLPASFGRTVAEAFQ-DGNYIGLATIIISFILLVLGIVYVQEAERKIPI 305
TSL+IF I+ RT+ + N + + +L G+ VQ+AER+IP+
Sbjct: 184 TSLIIFAGIVVEWLPQILRTIGLIRTGEVNLVAFLFFLAFIVLAFAGMAAVQQAERRIPV 243
Query: 306 NYASRYTSRS--GGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTG-IAALKKAA 362
YA + GG ++ Y+P K+N++GV+PIIF+ + L +P LA L+ A
Sbjct: 244 QYARKVVGGRVYGG--QATYIPIKLNAAGVIPIIFAAAILQIPIFLAAPFQDNPVLQGIA 301
Query: 363 VALNPGGSFYLPTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLK 422
NP L +LL+ F Y YT +Q DP ++E L+ G IP +RPG+ T FL+
Sbjct: 302 NFFNPTRPSGLFIEVLLVILFTYVYTAVQFDPKRIAESLREYGGFIPGIRPGEPTVKFLE 361
Query: 423 TVLSRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEII 482
++SR+++ G++FL ++ P +I+ T + + F+G +LI+VG A DT R+V+++++
Sbjct: 362 HIVSRLTLWGALFLGLVTLLPQIIQNLTGIHSIA-FSGIGLLIVVGVALDTLRQVESQLM 420
Query: 483 SQKYK 487
+ Y+
Sbjct: 421 LRSYE 425
>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 = 383 bits (986), Expect = e-130
Identities = 132/414 (31%), Positives = 236/414 (57%), Gaps = 20/414 (4%)
Query: 89 KFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNS--LLSTLDSFSGGGIGRLGICSLG 146
+ L ++G L + R+G +IP+ G++ L+Q ++ + FSGG + R I +LG
Sbjct: 15 RLLFVIGALIVFRIGSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALG 74
Query: 147 IVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQVLYLR 206
I+P+I+A I+ QLL ++P L +++K EGE+GR+K+ QYTRY ++ AI Q+IG L
Sbjct: 75 IMPYISASIIIQLLTVVHPTLAEIKK-EGESGRRKISQYTRYGTLVLAIFQSIGIATGLP 133
Query: 207 ------PYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNGTSLLIFTSIISYLP 260
V + + T+V L G+ F ++GE+I++ +GNG S++IF I++ LP
Sbjct: 134 NMPGMQGLVINPGFAFYFTAVVSLVTGTMFLMWLGEQITERGIGNGISIIIFAGIVAGLP 193
Query: 261 ASFGRTVAEAFQ-DGNYIGLATIIISFILLVLGIVYVQEAERKIPINYASRYTSRS--GG 317
+ T+ +A Q D +++ L + + + +V+V+ +R+I +NYA R R
Sbjct: 194 PAIAHTIEQARQGDLHFLVLLLVAVLVFAVTFFVVFVERGQRRIVVNYAKRQQGRRVYAA 253
Query: 318 LQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAA----LKKAAVALNPGGSFYL 373
+S +LP KVN +GV+P IF++S + P T+A + G L ++ L PG Y+
Sbjct: 254 --QSTHLPLKVNMAGVIPAIFASSIILFPATIASWFGGGTGWNWLTTISLYLQPGQPLYV 311
Query: 374 PTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVLSRISVLGS 433
I FF ++YT L +P + ++ LK+ GA +P +RPG+ TA ++ V++R++++G+
Sbjct: 312 LLYASAIIFFCFFYTALVFNPRETADNLKKSGAFVPGIRPGEQTAKYIDKVMTRLTLVGA 371
Query: 434 VFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIISQKYK 487
+++ + P + + + F GTS+LI+V D +VQ ++S +Y+
Sbjct: 372 LYITFICLIPEFMRDAMKVPFY--FGGTSLLIVVVVIMDFMAQVQTLMMSSQYE 423
>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 = 377 bits (970), Expect = e-127
Identities = 137/424 (32%), Positives = 224/424 (52%), Gaps = 23/424 (5%)
Query: 78 FGDFFKGP-LPGKFLKLLGYLALSRLGIYIPLGGVNREAF-------VGNLDQNSLLSTL 129
F + FK P L + + L + R+GIYIP+ G+N EA+ +LS
Sbjct: 5 FKNAFKIPELRDRIIFTFLALIVFRMGIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFY 64
Query: 130 DSFSGGGIGRLGICSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYA 189
D F+GG + R + ++ + P+I A I+ QLLA + P L+++ + EGE GRKK +YTR
Sbjct: 65 DVFTGGALSRFSVFTMSVTPYITASIILQLLASVMPSLKEMLR-EGEEGRKKFAKYTRRL 123
Query: 190 SVGFAIVQAIGQVLYLR------PYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKL 243
++ QA L + + S + G+ F ++GERI++ +
Sbjct: 124 TLLIGGFQAFFVSFSLARSNPDMVAPGVNVLQFTVLSTMSMLAGTMFLLWLGERITEKGI 183
Query: 244 GNGTSLLIFTSIISYLPASFGRTVAEAFQDGNYIGLATIIISFILLVLGIVYVQEAERKI 303
GNG S+LIF I++ P+ + N + +I ++ + GI+ VQ+AER+I
Sbjct: 184 GNGISILIFAGIVARYPSYIRQAYL---GGLNLLEWIFLIAVALITIFGIILVQQAERRI 240
Query: 304 PINYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAALKKAAV 363
I YA R T R S YLP KVN GV+PIIF+++ +++P +A T L
Sbjct: 241 TIQYARRVTGRRVYGGASTYLPIKVNQGGVIPIIFASAIVSIPSAIASITNNETL---KN 297
Query: 364 ALNPGGSFYLPTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLKT 423
GG YL LL+ FF Y+Y+ + DP ++SE +++ G IP +RPG+ST +L
Sbjct: 298 LFRAGGFLYLLIYGLLVFFFTYFYSVVIFDPREISENIRKYGGYIPGLRPGRSTEQYLHR 357
Query: 424 VLSRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIIS 483
VL+R++ +G+VFL ++A P +++ + + GTS LI VG A D ++++ ++
Sbjct: 358 VLNRVTFIGAVFLVVIALLPYLVQGAIKVNVW--IGGTSALIAVGVALDIIQQMETHMVM 415
Query: 484 QKYK 487
+ Y+
Sbjct: 416 RHYE 419
>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 = 269 bits (690), Expect = 1e-85
Identities = 72/436 (16%), Positives = 133/436 (30%), Gaps = 62/436 (14%)
Query: 85 PLPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNSLLSTLDSFSGGGIGRLGICS 144
K L L + I + + ++ + + + +
Sbjct: 22 TFKEKLKWTGIVLVLYFIMGCIDVYTAGAQI-------PAIFEFWQTITASR--IGTLIT 72
Query: 145 LGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQVLY 204
LGI P + A I+ QLL + + R + S+ V+A+ V
Sbjct: 73 LGIGPIVTAGIIMQLLV--GSGIIQMDL-SIPENRALFQGCQKLLSIIMCFVEAVLFVGA 129
Query: 205 LRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNGTSLLIFTSIISYLPASFG 264
+ + + GS Y+ E +S +G+G L I + +
Sbjct: 130 GAFGILTPL--LAFLVIIQIAFGSIILIYLDEIVSKYGIGSGIGLFIAAGVSQTIFVGAL 187
Query: 265 RTVAEAF-------QDGNYIGLATIIISFILLVLGIVYVQEAERKIPINYASRYTSRSGG 317
+ Q I II I++ L +VY + +IP+ + R G
Sbjct: 188 GPEGYLWKFLNSLIQGVPNIEYIAPIIGTIIVFLMVVYAECMRVEIPLAHG-----RIKG 242
Query: 318 LQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARF------------TGIAALKKAAVAL 365
P K +P+I + + A G A+ A L
Sbjct: 243 --AVGKYPIKFVYVSNIPVILAAALFANIQLWGLALYRMGIPILGHYEGGRAVDGIAYYL 300
Query: 366 NPGGS------------FYLPTNILLIAFFNY-YYTFLQLDPDDVSEQLKRQGASIPLVR 412
+ Y+ I+ F + LDP +++++ G +I R
Sbjct: 301 STPYGLSSVISDPIHAIVYMIAMIITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFR 360
Query: 413 PGKSTAA-FLKTVLSRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCAT 471
+ LK + ++V+ S F+ LA + A GT VL+ V
Sbjct: 361 KSEKAIEHRLKRYIPPLTVMSSAFVGFLATIANF------IGAL--GGGTGVLLTVSIVY 412
Query: 472 DTARKVQAEIISQKYK 487
++ E S+ +
Sbjct: 413 RMYEQLLRERTSELHP 428
>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane
protein complex, preprotein TRAN membrane insertion,;
2.90A {Pyrococcus furiosus}
Length = 482
Score = 259 bits (664), Expect = 3e-81
Identities = 80/466 (17%), Positives = 146/466 (31%), Gaps = 89/466 (19%)
Query: 83 KGPLPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNSLLSTLDSFSGGGIGRLGI 142
+ PL +F+ L L + IP+ G+ L G I
Sbjct: 23 RVPLRERFMWTGVALILYYVLAEIPVYGIPERI-------QDYFQFLRVVLAGR--NGSI 73
Query: 143 CSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQV 202
+LGI P + A I+ QLL ++ L R+ R SV +A +
Sbjct: 74 LTLGIGPIVTAGIILQLLV--GSEIIKLDL-ANPEDRRFYQALQRVFSVFMCFFEAAVWI 130
Query: 203 --LYLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNGTSLLIFTSIISYLP 260
D + + + L +G + E +S +G+G SL I + +
Sbjct: 131 LGGAFGRVGVDVTYAIAVLMILQLAMGGIVLIILDELVSKWGIGSGISLFIAAGVSQTIL 190
Query: 261 ASFGRTVA-------------------------------EAFQDGNYIGLATIIISFILL 289
+ A G +++ I++
Sbjct: 191 TRSLNPLTDPNIIDPLTGQPAIVGAIPYFIQHILKGDLWGAIYRGGSAPDMLSVVATIVV 250
Query: 290 VLGIVYVQEAERKIPINYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTL 349
+VY + +IP+ Y P + +PII + + A
Sbjct: 251 FFIVVYFESMRVEIPLGYRGV--------TVRGSYPIRFLYVSNIPIILTFALYANIQLW 302
Query: 350 ARF--------------TGIAALKKAAVALNPGGSFYLPTN------------ILLIAFF 383
AR T + + + + P + + + ++ F
Sbjct: 303 ARVLDRLGHPWLGRFDPTTGSPISGFVLYVIPPRNIFSVIDNPVRAIVYLILTVIFSLLF 362
Query: 384 NYYYTFLQ-LDPDDVSEQLKRQGASIPLVRPGKSTAA-FLKTVLSRISVLGSVFLAILAA 441
Y + L LD ++ QL+R G IP R T L+ + ++ GS+ +A++A
Sbjct: 363 GYLWVELTGLDARSIARQLQRAGLQIPGFRRDPRTLEKVLQRYIPYVTFWGSLTVALIAV 422
Query: 442 GPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIISQKYK 487
L A GT +L+ VG ++ E I++ +
Sbjct: 423 LADF------LGAL--GTGTGILLTVGILYRFYEEIAREQITEMFP 460
>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 = 182 bits (462), Expect = 7e-52
Identities = 70/466 (15%), Positives = 130/466 (27%), Gaps = 98/466 (21%)
Query: 85 PLPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNSLLSTLDSFSGGGIGRLGICS 144
K L L + + IPL G+ + R +
Sbjct: 27 QFKEKVLWTAITLFIFLVCCQIPLFGIMSSD------SADPFYWMRVILASN--RGTLME 78
Query: 145 LGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQVL- 203
LGI P + + ++ QLLA ++ R + + I Q+I V+
Sbjct: 79 LGISPIVTSGLIMQLLAGAKIIEVGDTPKD----RALFNGAQKLFGMIITIGQSIVYVMT 134
Query: 204 YLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLK-LGNGTSLLIFTSIISYLPAS 262
+ ++ L L + + E + LG+G SL I T+I +
Sbjct: 135 GMYGDPSEMGAGICLLITIQLFVAGLIVLLLDELLQKGYGLGSGISLFIATNICETIVWK 194
Query: 263 FGRTVAEAFQDGNYIGLA------------------------------TIIISFILLVLG 292
G A +I+ I +
Sbjct: 195 AFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYRQNLPNLMNLIATIFVFAV 254
Query: 293 IVYVQEAERKIPINYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARF 352
++Y Q +PI A + P K+ + +PII ++ ++ +++
Sbjct: 255 VIYFQGFRVDLPIKSARYRGQYN-------TYPIKLFYTSNIPIILQSALVSNLYVISQM 307
Query: 353 TG-------------------------IAALKKAAVALNPGGSF------------YLPT 375
+ L+P SF Y+
Sbjct: 308 LSARFSGNLLVSLLGTWSDTSSGGPARAYPVGGLCHYLSPPESFGSVLEDPVHAVVYIVF 367
Query: 376 NILLIAFFNYYYTFLQ-LDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVLSRISVLGSV 434
+ AFF+ + + DV++QLK Q + R S L + + G +
Sbjct: 368 MLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHRET-SMVHELNRYIPTAAAFGGL 426
Query: 435 FLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAE 480
+ L+ + +GT +L+ V E
Sbjct: 427 CIGALSVLADFLGAI--------GSGTGILLAVTIIYQYFEIFVKE 464
>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 = 158 bits (400), Expect = 5e-43
Identities = 66/472 (13%), Positives = 141/472 (29%), Gaps = 101/472 (21%)
Query: 83 KGPLPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNSLLSTLDSFSGGGIGRLGI 142
K P K + + + PL G+ + D L + +
Sbjct: 26 KLPFDDKIVYTIFAGLIYLFA-QFPLVGLPKATTPNVNDPIYFLRGVFGCEPRTL----- 79
Query: 143 CSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQV 202
G+ P I++ ++ QLLA K+ + + ++ R+ T+ ++ ++ +
Sbjct: 80 LEFGLFPNISSGLILQLLA--GLKVIKVNF-KIQSDRELFQSLTKVFAIVQYVILTNIFI 136
Query: 203 LYLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERIS-DLKLGNGTSLLIFTSIISYLPA 261
+ +D S + L FTT + E I +G ++ I + L A
Sbjct: 137 FAGY-FGDDLSVVQIGLINFQLVGAGIFTTLLAEVIDKGFGFSSGAMIINTVVIATNLVA 195
Query: 262 ----------------------------------SFGRTVAEAFQDGNYIGLATIIISFI 287
+F + AF +Y+ T I +
Sbjct: 196 DTFGVSQIKVGEDDQTEAQGALINLIQGLRSKHKTFIGGIISAFN-RDYLPNLTTTIIVL 254
Query: 288 LLVLGIVYVQEAERKIPINYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPG 347
+ + + Y+Q ++PI + + P K+ +G + ++FS + L
Sbjct: 255 AIAIIVCYLQSVRVELPIRSTRARGTNN-------VYPIKLLYTGCLSVLFSYTILFYIH 307
Query: 348 TLARFT-------------------------GIAALKKAAVALNPGGS------------ 370
A +A L P S
Sbjct: 308 IFAFVLIQLVAKNEPTHIICKIMGHYENANNLLAVPTFPLSLLAPPTSFFKGVTQQPLTF 367
Query: 371 -FYLPTNILLIAFFNYYYTFLQ-LDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVLSRI 428
Y ++ +F + + DV+ + K QG ++ R ++ A L V+
Sbjct: 368 ITYSAFILVTGIWFADKWQAISGSSARDVALEFKDQGITLMGRRE-QNVAKELNKVIPIA 426
Query: 429 SVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAE 480
+V G+ L+++ + +++ + + E
Sbjct: 427 AVTGASVLSLITVIGESLGLK--------GKAAGIVVGIAGGFSLLEVITIE 470
>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 = 56.8 bits (136), Expect = 1e-08
Identities = 71/460 (15%), Positives = 134/460 (29%), Gaps = 119/460 (25%)
Query: 5 LWNKISLSLQQNCEGSVFDPLGINPDVCSHLNSTWESFLSLLSPTFESTSGTKREKSSSA 64
L + I +Q P + + + + F + ++ +
Sbjct: 94 LMSPIKTEQRQ--------PSMMTRMYIEQRDRLYND-----NQVFAKYNVSRLQPYLKL 140
Query: 65 RGVAAAMEDSSIDFGDFFKGPLPGKFLKLLG-------YLALSRL-----------GIY- 105
R A +E P K + + G ++AL I+
Sbjct: 141 R--QALLELR------------PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 106 IPLGGVNREAFVGNLDQ-NSLLSTLDSFSGGGIGRLGICSLGIVPFINAQIVFQLLAQIN 164
+ L N V L+ LL +D R S + + Q + L +
Sbjct: 187 LNLKNCNSPETV--LEMLQKLLYQIDP---NWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 165 PK------LQDLQ-KREGEA--GRKKVLQYTRYASVGFAIVQAIGQVLYLRPYVNDFSTD 215
P L ++Q + A K+L TR+ V + ++ S
Sbjct: 242 PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV----TDFLSAATTTHISLDHHS-- 295
Query: 216 WVLTSVTLLTLGSAFTTYIGERISDL-KLGNGTSLLIFTSIISYLPASF--GRTVAEAFQ 272
LT + +L Y+ R DL + T+ +S + S G + ++
Sbjct: 296 MTLTPDEVKSL---LLKYLDCRPQDLPREVLTTNPR----RLSIIAESIRDGLATWDNWK 348
Query: 273 DGNYIGLATIIISFILLVLGIVYVQEAERKIPINYASRYTSRSGGLQRSAYLPFKV---- 328
N L TII S + V E P Y + S SA++P +
Sbjct: 349 HVNCDKLTTIIESSLN-------VLE-----PAEYRKMFDRLS-VFPPSAHIPTILLSLI 395
Query: 329 ----NSSGVMPII--FSTSSLA----------LPG----TLARFTGIAALKKAAVALNPG 368
S VM ++ SL +P + AL ++ V
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNI 455
Query: 369 GSFYLPTNILLIAFFNYYYTFL-----QLDPDDVSEQLKR 403
+ +++ Y+Y+ + ++ + +
Sbjct: 456 PKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRM 495
Score = 44.1 bits (103), Expect = 1e-04
Identities = 68/422 (16%), Positives = 112/422 (26%), Gaps = 154/422 (36%)
Query: 1 MLSNLWNKISLSLQQNCEGSVFDPLGINP----------------------DVCSHLNST 38
ML L +I + + S L I+ +V +
Sbjct: 201 MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKA 258
Query: 39 WESF-LS---LLSPTFESTSGTKREKSSSARGVAAAMEDSSIDFGDFFKGPLPGKFLKLL 94
W +F LS LL T R K + AA S+D P + LL
Sbjct: 259 WNAFNLSCKILL---------TTRFKQVTDFLSAATTTHISLD--HHSMTLTPDEVKSLL 307
Query: 95 G-YL-----ALSRLGIYI-PL----------GGVNR----------------EAFVGNLD 121
YL L R + P G+ E+ + L+
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367
Query: 122 QNSLLSTLDSFSGGGI---------GRLGICSLGIVPFINAQIVFQL----LAQINPK-- 166
D S + L + ++ +V +L L + PK
Sbjct: 368 PAEYRKMFDRLS---VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424
Query: 167 ---LQDLQ-----KREGEAG--RKKVLQYT---RYASVGFA-------IVQAIG------ 200
+ + K E E R V Y + S IG
Sbjct: 425 TISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI 484
Query: 201 ---------QVLYLRPYVNDF----------STDWVLTSVTLLTLGSAFTTYIGERISDL 241
++++L DF ST W + L TL Y I D
Sbjct: 485 EHPERMTLFRMVFL-----DFRFLEQKIRHDSTAWNASGSILNTLQQ-LKFY-KPYICD- 536
Query: 242 KLGNGTSLLIFTSIISYLPASFGRTVAEAFQDGNYIGLATIIISFILLVLGIVYVQEAER 301
+ + +I+ +LP + + D ++ L+ +EA +
Sbjct: 537 --NDPKYERLVNAILDFLPKIEENLICSKYTD---------LLRIALMAEDEAIFEEAHK 585
Query: 302 KI 303
++
Sbjct: 586 QV 587
Score = 39.1 bits (90), Expect = 0.003
Identities = 47/334 (14%), Positives = 94/334 (28%), Gaps = 115/334 (34%)
Query: 204 YLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISD-LKLGNGTS--LLIFTSIISYLP 260
+ +V++F V S + E I + + S L +F +++S
Sbjct: 25 FEDAFVDNFDCKDVQDM-----PKSILSK---EEIDHIIMSKDAVSGTLRLFWTLLSKQE 76
Query: 261 ASFGRTVAEAFQDGNYIGLATIIISFILLVLGIVYVQEAERKIPINYASRYTSRSGGLQR 320
+ V E + NY L + I + E++ P Y QR
Sbjct: 77 EMVQKFVEEVLRI-NYKFLMSPI--------------KTEQRQPSMMTRMYIE-----QR 116
Query: 321 SAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAALKKAAVALNP---------GGS- 370
+++ + + ++R L++A + L P GS
Sbjct: 117 DR--------------LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG 162
Query: 371 ----------------------FYL------PTNILLIAFFNYYYTFLQLDPDDVSEQLK 402
F+L +L Y Q+DP+
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY---QIDPNW--TSRS 217
Query: 403 RQGASIPLVRPGKSTAAFLKTVLSRISVLGSVF---LAILAAGPAVIEQTTHLTAFRGFA 459
++I L ++ L R+ + + L +L ++ AF
Sbjct: 218 DHSSNIKL------RIHSIQAELRRL-LKSKPYENCLLVLLN----VQNAKAWNAF---- 262
Query: 460 GTSVLILVGC---ATDTARKVQAEIISQKYKNIE 490
+ C T ++V + + +I
Sbjct: 263 ------NLSCKILLTTRFKQVTDFLSAATTTHIS 290
>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 = 55.4 bits (133), Expect = 4e-08
Identities = 102/595 (17%), Positives = 180/595 (30%), Gaps = 207/595 (34%)
Query: 10 SLSLQQNCEGSVFDPLGINPDVCSHLNSTWESFLSLL-SPTFESTSGTKREKSSSARGVA 68
L+L GS+ L + + E F +L PT G A
Sbjct: 8 PLTLSH---GSLEHVLLVPTASFFIASQLQEQFNKILPEPT---------------EGFA 49
Query: 69 AAMEDSSIDFGDFFKGPLPGKFLKLLGYLAL----SRLGIYIP-----LGGVNREAFVGN 119
A E ++ L GKFL GY++ S++G + L ++
Sbjct: 50 ADDEPTT-------PAELVGKFL---GYVSSLVEPSKVGQFDQVLNLCLTEFEN-CYLEG 98
Query: 120 LDQNSLLSTLDSFSGGGIGRLGICSLGIVPFINAQIVFQ--LLAQINPKLQDLQKREGEA 177
D ++L + L + + + I +I A+I+ + + N L R
Sbjct: 99 NDIHALAAKLLQENDTTLVKT---KELIKNYITARIMAKRPFDKKSNSAL----FRAVGE 151
Query: 178 GRKKV----------------LQ--YTRYASVGFAIVQAIGQVL-----------YLRPY 208
G ++ L+ Y Y + +++ + L +
Sbjct: 152 GNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ 211
Query: 209 VNDF-----------STDWVLT---SVTLLTLGSAFTTYI----------GERISDLK-- 242
+ D++L+ S L+ + Y+ GE S LK
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGV-IQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 243 LGNGTSLLIFTSIISYLP--ASFGRTVAEA----FQDGNYIGL------------ATIII 284
G+ L+ I+ SF +V +A F +IG+ +I+
Sbjct: 271 TGHSQGLVT-AVAIAETDSWESFFVSVRKAITVLF----FIGVRCYEAYPNTSLPPSILE 325
Query: 285 ----------SFILLVLGI------VYVQEAERKIPIN---YASRYTSR-----SG---- 316
S +L + + YV + +P S SG
Sbjct: 326 DSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS 385
Query: 317 --GLQ---RSAYLPFKVNSSGV----MPIIFSTSSLALPGTLARFTGIAA------LKKA 361
GL R A P ++ S + + FS RF +A+ L A
Sbjct: 386 LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSN----------RFLPVASPFHSHLLVPA 435
Query: 362 AVALN---PGGSFYLPTNILLIAFFNYYYTF----LQLDPDDVSEQLKRQGASIPLVRPG 414
+ +N + + I ++ TF L++ +SE++ +P+
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYD---TFDGSDLRVLSGSISERIVDCIIRLPVKWE- 491
Query: 415 KSTAAFLKTVLSRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSV-LILVG 468
T + + IL GP LT R GT V +I+ G
Sbjct: 492 -------TTTQFKAT-------HILDFGPGGASGLGVLTH-RNKDGTGVRVIVAG 531
Score = 52.4 bits (125), Expect = 3e-07
Identities = 51/300 (17%), Positives = 92/300 (30%), Gaps = 91/300 (30%)
Query: 25 LGINP-DVCSHLNS------------------TWESFLSLLSPTFEST--SGTKREKSSS 63
LG P ++ S+L +WESF + G + ++
Sbjct: 256 LGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP 315
Query: 64 ARGVAAAMEDSSIDFGDFFKGP------LPGKFL-----KLLGYLALSRLGIYIPLGGVN 112
+ ++ + S++ + P L + + K +L + + I L VN
Sbjct: 316 NTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ-VEISL--VN 372
Query: 113 -REAFV--GN---LDQ-NSLLSTLDSFSGGGIGRLGICSLGIVPFINAQIVFQ------- 158
+ V G L N L + SG R +PF ++ F
Sbjct: 373 GAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR--------IPFSERKLKFSNRFLPVA 424
Query: 159 ------LLAQINPKL-QDLQKREGEAGRKKVLQYTRY------------ASVGFAIVQAI 199
LL + + +DL + + K +Q Y S+ IV I
Sbjct: 425 SPFHSHLLVPASDLINKDLV-KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCI 483
Query: 200 GQVLYLRPYVNDFSTDW---VLTSVT-LLTLGSAFTTYIGERISDLKLGNGTSLLIFTSI 255
+R V W T +L G + +G K G G +++ ++
Sbjct: 484 -----IRLPV-----KWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTL 533
Score = 30.8 bits (69), Expect = 1.5
Identities = 36/217 (16%), Positives = 64/217 (29%), Gaps = 83/217 (38%)
Query: 301 RKIPINYAS-RYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAALK 359
++I NY++ + + G ++ + FK + F + L T +FT A
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKI-FKEINEHSTSYTFRSEKGLLSAT--QFTQPA--- 1735
Query: 360 KAAVALNPGGSFYLPTNILL--IAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKST 417
+ L A F E LK +G + P +T
Sbjct: 1736 -----------------LTLMEKAAF---------------EDLKSKG-----LIPADAT 1758
Query: 418 AAFLKTVLSRISVLG-SV--FLAILAAGPAV--IEQTTHLTAFRGFA----------GTS 462
A G S+ + A LA+ V IE + +RG G S
Sbjct: 1759 FA------------GHSLGEYAA-LASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRS 1805
Query: 463 VL---------ILVGCATDTARKVQAEIISQKYKNIE 490
+ + + + V + + +E
Sbjct: 1806 NYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVE 1842
>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 = 31.8 bits (71), Expect = 0.26
Identities = 11/49 (22%), Positives = 16/49 (32%), Gaps = 21/49 (42%)
Query: 399 EQLKRQGASIPLVRPGKSTAAFLKTVLSRISVLGSVFLAILAAGPAVIE 447
+ LK+ AS+ L + A LAI A +E
Sbjct: 20 QALKKLQASLKLYADDSAPA-----------------LAI----KATME 47
Score = 29.1 bits (64), Expect = 2.2
Identities = 7/33 (21%), Positives = 12/33 (36%), Gaps = 11/33 (33%)
Query: 40 ESFLSLLSPTFESTSGTKREKSSSARGVAAAME 72
++ L L + S+ A + A ME
Sbjct: 26 QASLKLYAD-----------DSAPALAIKATME 47
>2wus_R RODZ, putative uncharacterized protein; structural protein, cell
WALL morphogenesis, bacterial cytos bacterial actin;
2.90A {Thermotoga maritima}
Length = 112
Score = 27.0 bits (60), Expect = 6.4
Identities = 7/37 (18%), Positives = 17/37 (45%)
Query: 373 LPTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIP 409
L + + ++ Y FL+L PD++ + + +
Sbjct: 48 LDAEVYIKSYIKRYSEFLELSPDEMLKLYEEGKEEVA 84
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
0.321 0.138 0.394
Gapped
Lambda K H
0.267 0.0712 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,481,167
Number of extensions: 459476
Number of successful extensions: 1047
Number of sequences better than 10.0: 1
Number of HSP's gapped: 973
Number of HSP's successfully gapped: 26
Length of query: 499
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 401
Effective length of database: 3,965,535
Effective search space: 1590179535
Effective search space used: 1590179535
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: 59 (26.5 bits)