RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014159
(429 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 = 389 bits (1003), Expect = e-133
Identities = 154/422 (36%), Positives = 240/422 (56%), Gaps = 14/422 (3%)
Query: 8 FGDFFKGP-LPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNS--LLSTLDSFSG 64
F+ L KF+ L + RLG +IP+ G+N EA L + + D FSG
Sbjct: 5 LKALFELKELRQKFIFTLLMFVIYRLGSHIPIPGINPEALRDFLKAFEGSVFALYDIFSG 64
Query: 65 GGIGRLGICSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFA 124
G +GRL + +LG++P+I+A I+ QLL P LQ L K EG+ GR K+ +YT+Y ++ A
Sbjct: 65 GNLGRLTVFALGVMPYISASIMMQLLTVAIPSLQRLAKEEGDYGRYKINEYTKYLTLFVA 124
Query: 125 IVQAIGQVLYLR--------PYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNG 176
VQ++G ++R P V + ++L +V L G+ F +I +RI++ +GNG
Sbjct: 125 TVQSLGIAFWIRGQVSPKGIPVVENPGISFILITVLTLVAGTMFLVWIADRITEKGIGNG 184
Query: 177 TSLLIFTSIISYLPASFGRTVAEAFQ-DGNYIGLATIIISFILLVLGIVYVQEAERKIPI 235
SL+IF I++ P + + + D + L II I +++GIVYVQEAER+IPI
Sbjct: 185 ASLIIFAGIVANFPNAVIQFYEKVKTGDIGPLTLLLIIALIIAIIVGIVYVQEAERRIPI 244
Query: 236 NYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAALKKAAVAL 295
Y R R R YLP K+N +GV+PIIF+ + L +P TL F +K A
Sbjct: 245 QYPGRQVGRQLYAGRKTYLPIKINPAGVIPIIFAQALLLIPSTLLNFVQNPFIKVIADMF 304
Query: 296 NPGGSFYLPTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVL 355
PG FY + I FF Y+YT + ++P +++E L + GA IP VRPG+ T +L+ ++
Sbjct: 305 QPGAIFYNFLYVTFIVFFTYFYTAVLINPVELAENLHKAGAFIPGVRPGQDTVKYLERII 364
Query: 356 SRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIISQK 415
+R+ G++FL+++A P +I ++ + F GT+ LI+VG A DT R+++ +I +K
Sbjct: 365 NRLIFFGALFLSVIALIPILISVWFNIPFY--FGGTTALIVVGVALDTFRQIETYLIQKK 422
Query: 416 YK 417
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 = 376 bits (969), Expect = e-128
Identities = 132/423 (31%), Positives = 212/423 (50%), Gaps = 15/423 (3%)
Query: 8 FGDFFKGP-LPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNS--LLSTLDSFSG 64
F + P L + L L LA RLG +IP GV+ + L + ++ FSG
Sbjct: 5 FWSALQIPELRQRVLFTLLVLAAYRLGAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSG 64
Query: 65 GGIGRLGICSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFA 124
G R I +LGI+P+I A I+ Q+L + P L+ L K EGE GR+ + QYTR +
Sbjct: 65 GNFERFSIFALGIMPYITAAIIMQILVTVVPALEKLSK-EGEEGRRIINQYTRIGGIALG 123
Query: 125 IVQAIGQVLYLR--------PYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNG 176
Q + V G A ++ ERI++ +GNG
Sbjct: 124 AFQGFFLATAFLGAEGGRFLLPGWSPGPFFWFVVVVTQVAGIALLLWMAERITEYGIGNG 183
Query: 177 TSLLIFTSIISYLPASFGRTVAEAFQ-DGNYIGLATIIISFILLVLGIVYVQEAERKIPI 235
TSL+IF I+ RT+ + N + + +L G+ VQ+AER+IP+
Sbjct: 184 TSLIIFAGIVVEWLPQILRTIGLIRTGEVNLVAFLFFLAFIVLAFAGMAAVQQAERRIPV 243
Query: 236 NYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTG-IAALKKAAVA 294
YA + ++ Y+P K+N++GV+PIIF+ + L +P LA L+ A
Sbjct: 244 QYARKVVGGRVYGGQATYIPIKLNAAGVIPIIFAAAILQIPIFLAAPFQDNPVLQGIANF 303
Query: 295 LNPGGSFYLPTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTV 354
NP L +LL+ F Y YT +Q DP ++E L+ G IP +RPG+ T FL+ +
Sbjct: 304 FNPTRPSGLFIEVLLVILFTYVYTAVQFDPKRIAESLREYGGFIPGIRPGEPTVKFLEHI 363
Query: 355 LSRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIISQ 414
+SR+++ G++FL ++ P +I+ T + + F+G +LI+VG A DT R+V+++++ +
Sbjct: 364 VSRLTLWGALFLGLVTLLPQIIQNLTGIHSIA-FSGIGLLIVVGVALDTLRQVESQLMLR 422
Query: 415 KYK 417
Y+
Sbjct: 423 SYE 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 = 375 bits (965), Expect = e-128
Identities = 132/412 (32%), Positives = 236/412 (57%), Gaps = 16/412 (3%)
Query: 19 KFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNS--LLSTLDSFSGGGIGRLGICSLG 76
+ L ++G L + R+G +IP+ G++ L+Q ++ + FSGG + R I +LG
Sbjct: 15 RLLFVIGALIVFRIGSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALG 74
Query: 77 IVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQVLYLR 136
I+P+I+A I+ QLL ++P L +++K EGE+GR+K+ QYTRY ++ AI Q+IG L
Sbjct: 75 IMPYISASIIIQLLTVVHPTLAEIKK-EGESGRRKISQYTRYGTLVLAIFQSIGIATGLP 133
Query: 137 ------PYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNGTSLLIFTSIISYLP 190
V + + T+V L G+ F ++GE+I++ +GNG S++IF I++ LP
Sbjct: 134 NMPGMQGLVINPGFAFYFTAVVSLVTGTMFLMWLGEQITERGIGNGISIIIFAGIVAGLP 193
Query: 191 ASFGRTVAEAFQ-DGNYIGLATIIISFILLVLGIVYVQEAERKIPINYASRYTSRSGGLQ 249
+ T+ +A Q D +++ L + + + +V+V+ +R+I +NYA R R
Sbjct: 194 PAIAHTIEQARQGDLHFLVLLLVAVLVFAVTFFVVFVERGQRRIVVNYAKRQQGRRVYAA 253
Query: 250 RSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAA----LKKAAVALNPGGSFYLPT 305
+S +LP KVN +GV+P IF++S + P T+A + G L ++ L PG Y+
Sbjct: 254 QSTHLPLKVNMAGVIPAIFASSIILFPATIASWFGGGTGWNWLTTISLYLQPGQPLYVLL 313
Query: 306 NILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVLSRISVLGSVF 365
I FF ++YT L +P + ++ LK+ GA +P +RPG+ TA ++ V++R++++G+++
Sbjct: 314 YASAIIFFCFFYTALVFNPRETADNLKKSGAFVPGIRPGEQTAKYIDKVMTRLTLVGALY 373
Query: 366 LAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIISQKYK 417
+ + P + + + F GTS+LI+V D +VQ ++S +Y+
Sbjct: 374 ITFICLIPEFMRDAMKVPFY--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 = 369 bits (950), Expect = e-125
Identities = 137/424 (32%), Positives = 224/424 (52%), Gaps = 23/424 (5%)
Query: 8 FGDFFKGP-LPGKFLKLLGYLALSRLGIYIPLGGVNREAF-------VGNLDQNSLLSTL 59
F + FK P L + + L + R+GIYIP+ G+N EA+ +LS
Sbjct: 5 FKNAFKIPELRDRIIFTFLALIVFRMGIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFY 64
Query: 60 DSFSGGGIGRLGICSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYA 119
D F+GG + R + ++ + P+I A I+ QLLA + P L+++ + EGE GRKK +YTR
Sbjct: 65 DVFTGGALSRFSVFTMSVTPYITASIILQLLASVMPSLKEMLR-EGEEGRKKFAKYTRRL 123
Query: 120 SVGFAIVQAIGQVLYLR------PYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKL 173
++ QA L + + S + G+ F ++GERI++ +
Sbjct: 124 TLLIGGFQAFFVSFSLARSNPDMVAPGVNVLQFTVLSTMSMLAGTMFLLWLGERITEKGI 183
Query: 174 GNGTSLLIFTSIISYLPASFGRTVAEAFQDGNYIGLATIIISFILLVLGIVYVQEAERKI 233
GNG S+LIF I++ P+ + N + +I ++ + GI+ VQ+AER+I
Sbjct: 184 GNGISILIFAGIVARYPSYIRQAYL---GGLNLLEWIFLIAVALITIFGIILVQQAERRI 240
Query: 234 PINYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAALKKAAV 293
I YA R T R S YLP KVN GV+PIIF+++ +++P +A T L
Sbjct: 241 TIQYARRVTGRRVYGGASTYLPIKVNQGGVIPIIFASAIVSIPSAIASITNNETL---KN 297
Query: 294 ALNPGGSFYLPTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLKT 353
GG YL LL+ FF Y+Y+ + DP ++SE +++ G IP +RPG+ST +L
Sbjct: 298 LFRAGGFLYLLIYGLLVFFFTYFYSVVIFDPREISENIRKYGGYIPGLRPGRSTEQYLHR 357
Query: 354 VLSRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIIS 413
VL+R++ +G+VFL ++A P +++ + + GTS LI VG A D ++++ ++
Sbjct: 358 VLNRVTFIGAVFLVVIALLPYLVQGAIKVNVW--IGGTSALIAVGVALDIIQQMETHMVM 415
Query: 414 QKYK 417
+ 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 = 261 bits (669), Expect = 2e-83
Identities = 72/436 (16%), Positives = 133/436 (30%), Gaps = 62/436 (14%)
Query: 15 PLPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNSLLSTLDSFSGGGIGRLGICS 74
K L L + I + + ++ + + + +
Sbjct: 22 TFKEKLKWTGIVLVLYFIMGCIDVYTAGAQI-------PAIFEFWQTITASR--IGTLIT 72
Query: 75 LGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQVLY 134
LGI P + A I+ QLL + + R + S+ V+A+ V
Sbjct: 73 LGIGPIVTAGIIMQLLV--GSGIIQMDL-SIPENRALFQGCQKLLSIIMCFVEAVLFVGA 129
Query: 135 LRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNGTSLLIFTSIISYLPASFG 194
+ + + GS Y+ E +S +G+G L I + +
Sbjct: 130 GAFGILTPL--LAFLVIIQIAFGSIILIYLDEIVSKYGIGSGIGLFIAAGVSQTIFVGAL 187
Query: 195 RTVAEAF-------QDGNYIGLATIIISFILLVLGIVYVQEAERKIPINYASRYTSRSGG 247
+ Q I II I++ L +VY + +IP+ + R G
Sbjct: 188 GPEGYLWKFLNSLIQGVPNIEYIAPIIGTIIVFLMVVYAECMRVEIPLAHG-----RIKG 242
Query: 248 LQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARF------------TGIAALKKAAVAL 295
P K +P+I + + A G A+ A L
Sbjct: 243 --AVGKYPIKFVYVSNIPVILAAALFANIQLWGLALYRMGIPILGHYEGGRAVDGIAYYL 300
Query: 296 NPGGS------------FYLPTNILLIAFFNY-YYTFLQLDPDDVSEQLKRQGASIPLVR 342
+ Y+ I+ F + LDP +++++ G +I R
Sbjct: 301 STPYGLSSVISDPIHAIVYMIAMIITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFR 360
Query: 343 PGKSTAA-FLKTVLSRISVLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCAT 401
+ LK + ++V+ S F+ LA + A GT VL+ V
Sbjct: 361 KSEKAIEHRLKRYIPPLTVMSSAFVGFLATIANF------IGAL--GGGTGVLLTVSIVY 412
Query: 402 DTARKVQAEIISQKYK 417
++ 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 = 251 bits (644), Expect = 5e-79
Identities = 80/466 (17%), Positives = 146/466 (31%), Gaps = 89/466 (19%)
Query: 13 KGPLPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNSLLSTLDSFSGGGIGRLGI 72
+ PL +F+ L L + IP+ G+ L G I
Sbjct: 23 RVPLRERFMWTGVALILYYVLAEIPVYGIPERI-------QDYFQFLRVVLAGR--NGSI 73
Query: 73 CSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQV 132
+LGI P + A I+ QLL ++ L R+ R SV +A +
Sbjct: 74 LTLGIGPIVTAGIILQLLV--GSEIIKLDL-ANPEDRRFYQALQRVFSVFMCFFEAAVWI 130
Query: 133 --LYLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLKLGNGTSLLIFTSIISYLP 190
D + + + L +G + E +S +G+G SL I + +
Sbjct: 131 LGGAFGRVGVDVTYAIAVLMILQLAMGGIVLIILDELVSKWGIGSGISLFIAAGVSQTIL 190
Query: 191 ASFGRTVA-------------------------------EAFQDGNYIGLATIIISFILL 219
+ A G +++ I++
Sbjct: 191 TRSLNPLTDPNIIDPLTGQPAIVGAIPYFIQHILKGDLWGAIYRGGSAPDMLSVVATIVV 250
Query: 220 VLGIVYVQEAERKIPINYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTL 279
+VY + +IP+ Y P + +PII + + A
Sbjct: 251 FFIVVYFESMRVEIPLGYRGV--------TVRGSYPIRFLYVSNIPIILTFALYANIQLW 302
Query: 280 ARF--------------TGIAALKKAAVALNPGGSFYLPTN------------ILLIAFF 313
AR T + + + + P + + + ++ F
Sbjct: 303 ARVLDRLGHPWLGRFDPTTGSPISGFVLYVIPPRNIFSVIDNPVRAIVYLILTVIFSLLF 362
Query: 314 NYYYTFLQ-LDPDDVSEQLKRQGASIPLVRPGKSTAA-FLKTVLSRISVLGSVFLAILAA 371
Y + L LD ++ QL+R G IP R T L+ + ++ GS+ +A++A
Sbjct: 363 GYLWVELTGLDARSIARQLQRAGLQIPGFRRDPRTLEKVLQRYIPYVTFWGSLTVALIAV 422
Query: 372 GPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAEIISQKYK 417
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 = 174 bits (442), Expect = 1e-49
Identities = 70/466 (15%), Positives = 130/466 (27%), Gaps = 98/466 (21%)
Query: 15 PLPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNSLLSTLDSFSGGGIGRLGICS 74
K L L + + IPL G+ + R +
Sbjct: 27 QFKEKVLWTAITLFIFLVCCQIPLFGIMSSD------SADPFYWMRVILASN--RGTLME 78
Query: 75 LGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQVL- 133
LGI P + + ++ QLLA ++ R + + I Q+I V+
Sbjct: 79 LGISPIVTSGLIMQLLAGAKIIEVGDTPKD----RALFNGAQKLFGMIITIGQSIVYVMT 134
Query: 134 YLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISDLK-LGNGTSLLIFTSIISYLPAS 192
+ ++ L L + + E + LG+G SL I T+I +
Sbjct: 135 GMYGDPSEMGAGICLLITIQLFVAGLIVLLLDELLQKGYGLGSGISLFIATNICETIVWK 194
Query: 193 FGRTVAEAFQDGNYIGLA------------------------------TIIISFILLVLG 222
G A +I+ I +
Sbjct: 195 AFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYRQNLPNLMNLIATIFVFAV 254
Query: 223 IVYVQEAERKIPINYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARF 282
++Y Q +PI A + P K+ + +PII ++ ++ +++
Sbjct: 255 VIYFQGFRVDLPIKSARYRGQYN-------TYPIKLFYTSNIPIILQSALVSNLYVISQM 307
Query: 283 TG-------------------------IAALKKAAVALNPGGSF------------YLPT 305
+ L+P SF Y+
Sbjct: 308 LSARFSGNLLVSLLGTWSDTSSGGPARAYPVGGLCHYLSPPESFGSVLEDPVHAVVYIVF 367
Query: 306 NILLIAFFNYYYTFLQ-LDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVLSRISVLGSV 364
+ AFF+ + + DV++QLK Q + R S L + + G +
Sbjct: 368 MLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHRET-SMVHELNRYIPTAAAFGGL 426
Query: 365 FLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAE 410
+ 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 = 150 bits (379), Expect = 1e-40
Identities = 62/471 (13%), Positives = 137/471 (29%), Gaps = 99/471 (21%)
Query: 13 KGPLPGKFLKLLGYLALSRLGIYIPLGGVNREAFVGNLDQNSLLSTLDSFSGGGIGRLGI 72
K P K + + + PL G+ + D L + +
Sbjct: 26 KLPFDDKIVYTIFAGLIYLFA-QFPLVGLPKATTPNVNDPIYFLRGVFGCEPRTL----- 79
Query: 73 CSLGIVPFINAQIVFQLLAQINPKLQDLQKREGEAGRKKVLQYTRYASVGFAIVQAIGQV 132
G+ P I++ ++ QLLA + + + ++ R+ T+ ++ ++ +
Sbjct: 80 LEFGLFPNISSGLILQLLAGLKVIKVNF---KIQSDRELFQSLTKVFAIVQYVILTNIFI 136
Query: 133 LYLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERIS-DLKLGNGTSLLIFTSIISYLPA 191
+ +D S + L FTT + E I +G ++ I + L A
Sbjct: 137 FAGY-FGDDLSVVQIGLINFQLVGAGIFTTLLAEVIDKGFGFSSGAMIINTVVIATNLVA 195
Query: 192 SF---------------------------------GRTVAEAFQDGNYIGLATIIISFIL 218
+ + +Y+ T I +
Sbjct: 196 DTFGVSQIKVGEDDQTEAQGALINLIQGLRSKHKTFIGGIISAFNRDYLPNLTTTIIVLA 255
Query: 219 LVLGIVYVQEAERKIPINYASRYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGT 278
+ + + Y+Q ++PI + + P K+ +G + ++FS + L
Sbjct: 256 IAIIVCYLQSVRVELPIRSTRARGTNN-------VYPIKLLYTGCLSVLFSYTILFYIHI 308
Query: 279 LARFT-------------------------GIAALKKAAVALNPGGS------------- 300
A +A L P S
Sbjct: 309 FAFVLIQLVAKNEPTHIICKIMGHYENANNLLAVPTFPLSLLAPPTSFFKGVTQQPLTFI 368
Query: 301 FYLPTNILLIAFFNYYYTFLQ-LDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVLSRIS 359
Y ++ +F + + DV+ + K QG ++ R ++ A L V+ +
Sbjct: 369 TYSAFILVTGIWFADKWQAISGSSARDVALEFKDQGITLMGRRE-QNVAKELNKVIPIAA 427
Query: 360 VLGSVFLAILAAGPAVIEQTTHLTAFRGFAGTSVLILVGCATDTARKVQAE 410
V G+ L+++ + +++ + + E
Sbjct: 428 VTGASVLSLITVIGESLGLK--------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 = 55.2 bits (132), Expect = 3e-08
Identities = 63/378 (16%), Positives = 115/378 (30%), Gaps = 92/378 (24%)
Query: 17 PGKFLKLLG-------YLALSRL-----------GIY-IPLGGVNREAFVGNLDQ-NSLL 56
P K + + G ++AL I+ + L N V L+ LL
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV--LEMLQKLL 206
Query: 57 STLDSFSGGGIGRLGICSLGIVPFINAQIVFQLLAQINPK------LQDLQ-KREGEA-- 107
+D R S + + Q + L + P L ++Q + A
Sbjct: 207 YQIDP---NWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263
Query: 108 GRKKVLQYTRYASVGFAIVQAIGQVLYLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGER 167
K+L TR+ V + ++ S LT + +L Y+ R
Sbjct: 264 LSCKILLTTRFKQV----TDFLSAATTTHISLDHHS--MTLTPDEVKSL---LLKYLDCR 314
Query: 168 ISDL-KLGNGTSLLIFTSIISYLPASF--GRTVAEAFQDGNYIGLATIIISFILLVLGIV 224
DL + T+ +S + S G + ++ N L TII S +
Sbjct: 315 PQDLPREVLTTNPR----RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLN------ 364
Query: 225 YVQEAERKIPINYASRYTSRSGGLQRSAYLPFKV--------NSSGVMPII--FSTSSLA 274
V E P Y + S SA++P + S VM ++ SL
Sbjct: 365 -VLE-----PAEYRKMFDRLS-VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417
Query: 275 ----------LPG----TLARFTGIAALKKAAVALNPGGSFYLPTNILLIAFFNYYYTFL 320
+P + AL ++ V + +++ Y+Y+ +
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI 477
Query: 321 -----QLDPDDVSEQLKR 333
++ + +
Sbjct: 478 GHHLKNIEHPERMTLFRM 495
Score = 39.5 bits (91), Expect = 0.002
Identities = 47/334 (14%), Positives = 94/334 (28%), Gaps = 115/334 (34%)
Query: 134 YLRPYVNDFSTDWVLTSVTLLTLGSAFTTYIGERISD-LKLGNGTS--LLIFTSIISYLP 190
+ +V++F V S + E I + + S L +F +++S
Sbjct: 25 FEDAFVDNFDCKDVQDM-----PKSILSK---EEIDHIIMSKDAVSGTLRLFWTLLSKQE 76
Query: 191 ASFGRTVAEAFQDGNYIGLATIIISFILLVLGIVYVQEAERKIPINYASRYTSRSGGLQR 250
+ V E + NY L + I + E++ P Y QR
Sbjct: 77 EMVQKFVEEVLRI-NYKFLMSPI--------------KTEQRQPSMMTRMYIE-----QR 116
Query: 251 SAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAALKKAAVALNP---------GGS- 300
+++ + + ++R L++A + L P GS
Sbjct: 117 DR--------------LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG 162
Query: 301 ----------------------FYL------PTNILLIAFFNYYYTFLQLDPDDVSEQLK 332
F+L +L Y Q+DP+
Sbjct: 163 KTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY---QIDPNW--TSRS 217
Query: 333 RQGASIPLVRPGKSTAAFLKTVLSRISVLGSVF---LAILAAGPAVIEQTTHLTAFRGFA 389
++I L ++ L R+ + + L +L ++ AF
Sbjct: 218 DHSSNIKL------RIHSIQAELRRL-LKSKPYENCLLVLLN----VQNAKAWNAF---- 262
Query: 390 GTSVLILVGC---ATDTARKVQAEIISQKYKNIE 420
+ 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 = 43.5 bits (102), Expect = 1e-04
Identities = 88/518 (16%), Positives = 159/518 (30%), Gaps = 181/518 (34%)
Query: 16 LPGKFLKLLGYLAL----SRLGIYIP-----LGGVNREAFVGNLDQNSLLSTLDSFSGGG 66
L GKFL GY++ S++G + L ++ D ++L + L +
Sbjct: 60 LVGKFL---GYVSSLVEPSKVGQFDQVLNLCLTEFEN-CYLEGNDIHALAAKLLQENDTT 115
Query: 67 IGRLGICSLGIVPFINAQIVFQ--LLAQINPKLQDLQKREGEAGRKKV------------ 112
+ + I +I A+I+ + + N L R G ++
Sbjct: 116 LVKT---KELIKNYITARIMAKRPFDKKSNSAL----FRAVGEGNAQLVAIFGGQGNTDD 168
Query: 113 ----LQ--YTRYASVGFAIVQAIGQVL-----------YLRPYVNDF-----------ST 144
L+ Y Y + +++ + L + +
Sbjct: 169 YFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDK 228
Query: 145 DWVLT---SVTLLTLGSAFTTYI----------GERISDLK--LGNGTSLLIFTSIISYL 189
D++L+ S L+ + Y+ GE S LK G+ L+ I+
Sbjct: 229 DYLLSIPISCPLIGV-IQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVT-AVAIAET 286
Query: 190 P--ASFGRTVAEA----FQDGNYIGL------------ATIII----------SFILLVL 221
SF +V +A F +IG+ +I+ S +L +
Sbjct: 287 DSWESFFVSVRKAITVLF----FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 222 GI------VYVQEAERKIPIN---YASRYTSR-----SG------GLQ---RSAYLPFKV 258
+ YV + +P S SG GL R A P +
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 259 NSSGV----MPIIFSTSSLALPGTLARFTGIAA------LKKAAVALN---PGGSFYLPT 305
+ S + + FS RF +A+ L A+ +N +
Sbjct: 403 DQSRIPFSERKLKFSN----------RFLPVASPFHSHLLVPASDLINKDLVKNNVSFNA 452
Query: 306 NILLIAFFNYYYTF----LQLDPDDVSEQLKRQGASIPLVRPGKSTAAFLKTVLSRISVL 361
+ I ++ TF L++ +SE++ +P+ T + +
Sbjct: 453 KDIQIPVYD---TFDGSDLRVLSGSISERIVDCIIRLPVKWE--------TTTQFKAT-- 499
Query: 362 GSVFLAILAAGPAVIEQTTHLTAFRGFAGTSV-LILVG 398
IL GP LT R GT V +I+ G
Sbjct: 500 -----HILDFGPGGASGLGVLTH-RNKDGTGVRVIVAG 531
Score = 40.4 bits (94), Expect = 0.001
Identities = 36/189 (19%), Positives = 58/189 (30%), Gaps = 58/189 (30%)
Query: 34 IYIPLGGVN-REAFV--GN---LDQ-NSLLSTLDSFSGGGIGRLGICSLGIVPFINAQIV 86
+ I L VN + V G L N L + SG R +PF ++
Sbjct: 366 VEISL--VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSR--------IPFSERKLK 415
Query: 87 FQ-------------LLAQINPKL-QDLQKREGEAGRKKVLQYTRY------------AS 120
F LL + + +DL + + K +Q Y S
Sbjct: 416 FSNRFLPVASPFHSHLLVPASDLINKDLV-KNNVSFNAKDIQIPVYDTFDGSDLRVLSGS 474
Query: 121 VGFAIVQAIGQVLYLRPYVNDFSTDW---VLTSVT-LLTLGSAFTTYIGERISDLKLGNG 176
+ IV I +R V W T +L G + +G K G G
Sbjct: 475 ISERIVDCI-----IRLPV-----KWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTG 524
Query: 177 TSLLIFTSI 185
+++ ++
Sbjct: 525 VRVIVAGTL 533
Score = 30.4 bits (68), Expect = 1.6
Identities = 36/217 (16%), Positives = 64/217 (29%), Gaps = 83/217 (38%)
Query: 231 RKIPINYAS-RYTSRSGGLQRSAYLPFKVNSSGVMPIIFSTSSLALPGTLARFTGIAALK 289
++I NY++ + + G ++ + FK + F + L T +FT A
Sbjct: 1682 KRIRENYSAMIFETIVDGKLKTEKI-FKEINEHSTSYTFRSEKGLLSAT--QFTQPA--- 1735
Query: 290 KAAVALNPGGSFYLPTNILL--IAFFNYYYTFLQLDPDDVSEQLKRQGASIPLVRPGKST 347
+ L A F E LK +G + P +T
Sbjct: 1736 -----------------LTLMEKAAF---------------EDLKSKG-----LIPADAT 1758
Query: 348 AAFLKTVLSRISVLG-SV--FLAILAAGPAV--IEQTTHLTAFRGFA----------GTS 392
A G S+ + A LA+ V IE + +RG G S
Sbjct: 1759 FA------------GHSLGEYAA-LASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRS 1805
Query: 393 VL---------ILVGCATDTARKVQAEIISQKYKNIE 420
+ + + + 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 = 31.5 bits (70), Expect = 0.23
Identities = 11/49 (22%), Positives = 16/49 (32%), Gaps = 21/49 (42%)
Query: 329 EQLKRQGASIPLVRPGKSTAAFLKTVLSRISVLGSVFLAILAAGPAVIE 377
+ LK+ AS+ L + A LAI A +E
Sbjct: 20 QALKKLQASLKLYADDSAPA-----------------LAI----KATME 47
>2wus_R RODZ, putative uncharacterized protein; structural protein, cell
WALL morphogenesis, bacterial cytos bacterial actin;
2.90A {Thermotoga maritima}
Length = 112
Score = 26.6 bits (59), Expect = 6.2
Identities = 7/37 (18%), Positives = 17/37 (45%)
Query: 303 LPTNILLIAFFNYYYTFLQLDPDDVSEQLKRQGASIP 339
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
0.323 0.140 0.399
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: 6,492,605
Number of extensions: 402801
Number of successful extensions: 929
Number of sequences better than 10.0: 1
Number of HSP's gapped: 858
Number of HSP's successfully gapped: 25
Length of query: 429
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 333
Effective length of database: 4,021,377
Effective search space: 1339118541
Effective search space used: 1339118541
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 (21.9 bits)
S2: 59 (26.5 bits)