BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 011900
(475 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WWB|A Chain A, Cryo-Em Structure Of The Mammalian Sec61 Complex Bound To
The Actively Translating Wheat Germ 80s Ribosome
Length = 476
Score = 654 bits (1687), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 322/471 (68%), Positives = 394/471 (83%), Gaps = 4/471 (0%)
Query: 6 RVLHLVRPFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFY 65
+ L +++PF LPE+Q +RKI F+EKV++T I+LFIFLVC Q+PL+GI S+ ADPFY
Sbjct: 4 KFLEVIKPFCVILPEIQKPERKIQFKEKVLWTAITLFIFLVCCQIPLFGIMSSDSADPFY 63
Query: 66 WMRVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIL 125
WMRVILASNRGT+MELGI+PIVTSGL+MQLLAG+KIIEV + + DRAL NGAQKL G++
Sbjct: 64 WMRVILASNRGTLMELGISPIVTSGLIMQLLAGAKIIEVGDTPK-DRALFNGAQKLFGMI 122
Query: 126 IAIGEAVAYVMSGMYGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLF 185
I IG+++ YVM+GMYG S++GAG +LI +QL AG+IV+ LDELLQKGYGLGSGISLF
Sbjct: 123 ITIGQSIVYVMTGMYGDPSEMGAGICLLITIQLFVAGLIVLLLDELLQKGYGLGSGISLF 182
Query: 186 IATNICESIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPNI 245
IATNICE+I+WKAFSPTT+N+GRG EFEGA+IALFHLL T+ +KV ALREAFYRQNLPN+
Sbjct: 183 IATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYRQNLPNL 242
Query: 246 TNLLATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSALVSNLY 305
NL+AT+ VF +V+YFQGF+V LP++S RGQ YPIKLFYTSN+PIILQSALVSNLY
Sbjct: 243 MNLIATIFVFAVVIYFQGFRVDLPIKSARYRGQYNTYPIKLFYTSNIPIILQSALVSNLY 302
Query: 306 FISQLLYRKYSGNFFVNLLGKWKESEYSG--HSIPVGGLAYYVTAPASLADMAANPFHAL 363
ISQ+L ++SGN V+LLG W ++ G + PVGGL +Y++ P S + +P HA+
Sbjct: 303 VISQMLSARFSGNLLVSLLGTWSDTSSGGPARAYPVGGLCHYLSPPESFGSVLEDPVHAV 362
Query: 364 FYLVFMLTACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDSNLQKELNRYIPTAAA 423
Y+VFML +CA FSKTWIEVSGSSA+DVAKQLKEQQMVM GHR++++ ELNRYIPTAAA
Sbjct: 363 VYIVFMLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHRETSMVHELNRYIPTAAA 422
Query: 424 FGGVCIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASELGFFG 474
FGG+CIGAL+VLADF+GAIGSGTGILLAVTIIYQYFE F KE+ SE+G G
Sbjct: 423 FGGLCIGALSVLADFLGAIGSGTGILLAVTIIYQYFEIFVKEQ-SEVGSMG 472
>pdb|3MP7|A Chain A, Lateral Opening Of A Translocon Upon Entry Of Protein
Suggests The Mechanism Of Insertion Into Membranes
Length = 482
Score = 290 bits (741), Expect = 2e-78, Method: Compositional matrix adjust.
Identities = 167/462 (36%), Positives = 276/462 (59%), Gaps = 24/462 (5%)
Query: 17 FLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILASNRG 76
+ PEV+ R++P RE+ ++T ++L ++ V +++P+YGI D F ++RV+LA G
Sbjct: 13 WFPEVERPKRRVPLRERFMWTGVALILYYVLAEIPVYGIPERI-QDYFQFLRVVLAGRNG 71
Query: 77 TVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAVAYVM 136
+++ LGI PIVT+G+++QLL GS+II++D EDR Q++ + + EA +++
Sbjct: 72 SILTLGIGPIVTAGIILQLLVGSEIIKLDLANPEDRRFYQALQRVFSVFMCFFEAAVWIL 131
Query: 137 SGMYGSVS-QLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICESII 195
G +G V + A+L+ILQL GI++I LDEL+ K +G+GSGISLFIA + ++I+
Sbjct: 132 GGAFGRVGVDVTYAIAVLMILQLAMGGIVLIILDELVSK-WGIGSGISLFIAAGVSQTIL 190
Query: 196 WKAFSPTT----INSGRGAEFEGAVIALFHLLITKQNKVGALREAFYR-QNLPNITNLLA 250
++ +P T I+ G I F I K G L A YR + P++ +++A
Sbjct: 191 TRSLNPLTDPNIIDPLTGQPAIVGAIPYFIQHILK----GDLWGAIYRGGSAPDMLSVVA 246
Query: 251 TVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSALVSNLYFISQL 310
T++VF IVVYF+ +V +P+ + +G+YPI+ Y SN+PIIL AL +N+ +++
Sbjct: 247 TIVVFFIVVYFESMRVEIPLGYRGVT-VRGSYPIRFLYVSNIPIILTFALYANIQLWARV 305
Query: 311 LYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLVFML 370
L R G+ LG++ + S P+ G YV P ++ + NP A+ YL+ +
Sbjct: 306 LDRL--GH---PWLGRFDPTTGS----PISGFVLYVIPPRNIFSVIDNPVRAIVYLILTV 356
Query: 371 TACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDS--NLQKELNRYIPTAAAFGGVC 428
LF W+E++G AR +A+QL+ + +PG R L+K L RYIP +G +
Sbjct: 357 IFSLLFGYLWVELTGLDARSIARQLQRAGLQIPGFRRDPRTLEKVLQRYIPYVTFWGSLT 416
Query: 429 IGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 470
+ + VLADF+GA+G+GTGILL V I+Y+++E +E+ +E+
Sbjct: 417 VALIAVLADFLGALGTGTGILLTVGILYRFYEEIAREQITEM 458
>pdb|3DKN|A Chain A, Sec61 In The Canine Ribosome-Channel Complex From The
Endoplasmic Reticulum
Length = 430
Score = 275 bits (704), Expect = 3e-74, Method: Compositional matrix adjust.
Identities = 164/461 (35%), Positives = 261/461 (56%), Gaps = 45/461 (9%)
Query: 13 PFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ ++I F+EK+ +T I L ++ + + +Y + A +W + I A
Sbjct: 5 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFW-QTITA 63
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAV 132
S GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL I++ EAV
Sbjct: 64 SRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 123
Query: 133 AYVMSGMYGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 192
+V +G +G ++ L A L+I+Q+ F II+I LDE++ K YG+GSGI LFIA + +
Sbjct: 124 LFVGAGAFGILTPL---LAFLVIIQIAFGSIILIYLDEIVSK-YGIGSGIGLFIAAGVSQ 179
Query: 193 SIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPNI---TNLL 249
+I A P EG + + LI Q +PNI ++
Sbjct: 180 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 213
Query: 250 ATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T++VFL+VVY + +V +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 214 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 273
Query: 310 LLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLVFM 369
LYR + +LG ++ V G+AYY++ P L+ + ++P HA+ Y++ M
Sbjct: 274 ALYR-----MGIPILGHYEGGR------AVDGIAYYLSTPYGLSSVISDPIHAIVYMIAM 322
Query: 370 LTACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDSNLQKELNRYIPTAAAFGGVCI 429
+ C +F W+E +G + +AK++ M + G R S ++ L RYIP +
Sbjct: 323 IITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSAIEHRLKRYIPPLTVMSSAFV 382
Query: 430 GALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 470
G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 383 GFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 423
>pdb|1RH5|A Chain A, The Structure Of A Protein Conducting Channel
Length = 436
Score = 272 bits (696), Expect = 3e-73, Method: Compositional matrix adjust.
Identities = 165/463 (35%), Positives = 261/463 (56%), Gaps = 47/463 (10%)
Query: 13 PFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ ++I F+EK+ +T I L ++ + + +Y + A +W + I A
Sbjct: 6 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFW-QTITA 64
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAV 132
S GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL I++ EAV
Sbjct: 65 SRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 124
Query: 133 AYVMSGMYGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 192
+V +G +G ++ L A L+I+Q+ F II+I LDE++ K YG+GSGI LFIA + +
Sbjct: 125 LFVGAGAFGILTPL---LAFLVIIQIAFGSIILIYLDEIVSK-YGIGSGIGLFIAAGVSQ 180
Query: 193 SIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPN---ITNLL 249
+I A P EG + + LI Q +PN I ++
Sbjct: 181 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 214
Query: 250 ATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T++VFL+VVY + +V +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 215 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 274
Query: 310 LLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLVFM 369
LYR + +LG ++ V G+AYY++ P L+ + ++P HA+ Y++ M
Sbjct: 275 ALYR-----MGIPILGHYEGGR------AVDGIAYYLSTPYGLSSVISDPIHAIVYMIAM 323
Query: 370 LTACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDSN--LQKELNRYIPTAAAFGGV 427
+ C +F W+E +G + +AK++ M + G R S ++ L RYIP
Sbjct: 324 IITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSSA 383
Query: 428 CIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 470
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +ER SEL
Sbjct: 384 FVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLRERTSEL 426
>pdb|1RHZ|A Chain A, The Structure Of A Protein Conducting Channel
Length = 436
Score = 271 bits (692), Expect = 8e-73, Method: Compositional matrix adjust.
Identities = 164/463 (35%), Positives = 261/463 (56%), Gaps = 47/463 (10%)
Query: 13 PFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ ++I F+EK+ +T I L ++ + + +Y + A +W + I A
Sbjct: 6 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFW-QTITA 64
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAV 132
S GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL I++ EAV
Sbjct: 65 SRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 124
Query: 133 AYVMSGMYGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 192
+V +G +G ++ L A L+I+Q+ F II+I LDE++ K YG+GSGI LFIA + +
Sbjct: 125 LFVGAGAFGILTPL---LAFLVIIQIAFGSIILIYLDEIVSK-YGIGSGIGLFIAAGVSQ 180
Query: 193 SIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPN---ITNLL 249
+I A P EG + + LI Q +PN I ++
Sbjct: 181 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 214
Query: 250 ATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T++VFL+VVY + +V +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 215 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 274
Query: 310 LLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLVFM 369
LYR + +LG ++ V G+AYY++ P L+ + ++P HA+ Y++ M
Sbjct: 275 ALYR-----MGIPILGHYEGGR------AVDGIAYYLSTPYGLSSVISDPIHAIVYMIAM 323
Query: 370 LTACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDSN--LQKELNRYIPTAAAFGGV 427
+ C +F W+E +G + +AK++ M + G R S ++ L RYIP
Sbjct: 324 IITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSSA 383
Query: 428 CIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 470
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 384 FVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 426
>pdb|2YXQ|A Chain A, The Plug Domain Of The Secy Protein Stablizes The Closed
State Of The Translocation Channel And Maintains A
Membrane Seal
Length = 431
Score = 268 bits (684), Expect = 6e-72, Method: Compositional matrix adjust.
Identities = 162/463 (34%), Positives = 259/463 (55%), Gaps = 52/463 (11%)
Query: 13 PFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ ++I F+EK+ +T I L ++ + + +Y + A +W R+
Sbjct: 6 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFWGRI--- 62
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAV 132
GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL I++ EAV
Sbjct: 63 ---GTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 119
Query: 133 AYVMSGMYGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 192
+V +G +G ++ L A L+I+Q+ F II+I LDE++ K YG+GSGI LFIA + +
Sbjct: 120 LFVGAGAFGILTPL---LAFLVIIQIAFGSIILIYLDEIVSK-YGIGSGIGLFIAAGVSQ 175
Query: 193 SIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPN---ITNLL 249
+I A P EG + + LI Q +PN I ++
Sbjct: 176 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 209
Query: 250 ATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T++VFL+VVY + +V +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 210 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 269
Query: 310 LLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLVFM 369
LYR + +LG ++ V G+AYY++ P L+ + ++P HA+ Y++ M
Sbjct: 270 ALYR-----MGIPILGHYEGGR------AVDGIAYYLSTPYGLSSVISDPIHAIVYMIAM 318
Query: 370 LTACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDSN--LQKELNRYIPTAAAFGGV 427
+ C +F W+E +G + +AK++ M + G R S ++ L RYIP
Sbjct: 319 IITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSSA 378
Query: 428 CIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 470
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 379 FVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 421
>pdb|2YXR|A Chain A, The Plug Domain Of The Secy Protein Stablizes The Closed
State Of The Translocation Channel And Maintains A
Membrane Seal
Length = 426
Score = 265 bits (676), Expect = 6e-71, Method: Compositional matrix adjust.
Identities = 164/463 (35%), Positives = 258/463 (55%), Gaps = 57/463 (12%)
Query: 13 PFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ ++I F+EK+ +T I L ++ + + +Y T GA I A
Sbjct: 6 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVY----TAGAQ-------IPA 54
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAV 132
GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL I++ EAV
Sbjct: 55 IFGGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 114
Query: 133 AYVMSGMYGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 192
+V +G +G ++ L A L+I+Q+ F II+I LDE++ K YG+GSGI LFIA + +
Sbjct: 115 LFVGAGAFGILTPL---LAFLVIIQIAFGSIILIYLDEIVSK-YGIGSGIGLFIAAGVSQ 170
Query: 193 SIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPN---ITNLL 249
+I A P EG + + LI Q +PN I ++
Sbjct: 171 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 204
Query: 250 ATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T++VFL+VVY + +V +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 205 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 264
Query: 310 LLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHALFYLVFM 369
LYR + +LG ++ V G+AYY++ P L+ + ++P HA+ Y++ M
Sbjct: 265 ALYR-----MGIPILGHYEGGR------AVDGIAYYLSTPYGLSSVISDPIHAIVYMIAM 313
Query: 370 LTACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDSN--LQKELNRYIPTAAAFGGV 427
+ C +F W+E +G + +AK++ M + G R S ++ L RYIP
Sbjct: 314 IITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSSA 373
Query: 428 CIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 470
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 374 FVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 416
>pdb|3BO0|A Chain A, Ribosome-Secy Complex
pdb|3BO1|A Chain A, Ribosome-Secy Complex
pdb|3KCR|A Chain A, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
Length = 442
Score = 254 bits (649), Expect = 7e-68, Method: Compositional matrix adjust.
Identities = 162/473 (34%), Positives = 261/473 (55%), Gaps = 57/473 (12%)
Query: 13 PFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ ++I F+EK+ +T I L ++ + + +Y + A +W + I A
Sbjct: 5 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFW-QTITA 63
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAV 132
S GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL I++ EAV
Sbjct: 64 SRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 123
Query: 133 AYVMSGMYGSVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 192
+V +G +G ++ L A L+I+Q+ F II+I LDE++ K YG+GSGI LFIA + +
Sbjct: 124 LFVGAGAFGILTPL---LAFLVIIQIAFGSIILIYLDEIVSK-YGIGSGIGLFIAAGVSQ 179
Query: 193 SIIWKAFSPTTINSGRGAEFEGAVIALFHLLITKQNKVGALREAFYRQNLPN---ITNLL 249
+I A P EG + + LI Q +PN I ++
Sbjct: 180 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 213
Query: 250 ATVLVFLIVVYFQGFK---VVLPVRSKNAR----GQQGAYPIKLFYTSNMPIILQSALVS 302
T++VFL+VVY + + VV + + R Q P+K+ Y SN+P+IL +AL +
Sbjct: 214 GTIIVFLMVVYAECMRRRIVVNYAKRQQGRRVYAAQSTHLPLKVVYVSNIPVILAAALFA 273
Query: 303 NLYFISQLLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPASLADMAANPFHA 362
N+ LYR + +LG ++ V G+AYY++ P L+ + ++P HA
Sbjct: 274 NIQLWGLALYR-----MGIPILGHYEGGR------AVDGIAYYLSTPYGLSSVISDPIHA 322
Query: 363 LFYLVFMLTACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDSN-----LQKELNRY 417
+ Y++ M+ C +F W+E +G + +AK++K+ +PG R ++ L RY
Sbjct: 323 IVYMIAMIITCVMFGIFWVETTGLDPKSMAKRIKKSGAFVPGIRPGEQTAKYIEHRLKRY 382
Query: 418 IPTAAAFGGVCIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 470
IP +G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 383 IPPLTVMSSAFVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 435
>pdb|2WW9|A Chain A, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound
To The Yeast 80s Ribosome
pdb|2WWA|A Chain A, Cryo-Em Structure Of Idle Yeast Ssh1 Complex Bound To The
Yeast 80s Ribosome
Length = 490
Score = 236 bits (602), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 147/462 (31%), Positives = 244/462 (52%), Gaps = 20/462 (4%)
Query: 4 GFRVLHLVRPFLPFLPEVQSADRKIPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGA-- 61
GFR++ +V+P LP LPEV+ K+PF +K++YT+ + I+L +Q PL G+ T
Sbjct: 3 GFRLIDIVKPILPILPEVELPFEKLPFDDKIVYTIFAGLIYLF-AQFPLVGLPKATTPNV 61
Query: 62 -DPFYWMRVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQK 120
DP Y++R + T++E G+ P ++SGL++QLLAG K+I+V+ ++ DR L K
Sbjct: 62 NDPIYFLRGVFGCEPRTLLEFGLFPNISSGLILQLLAGLKVIKVNFKIQSDRELFQSLTK 121
Query: 121 LLGILIAIGEAVAYVMSGMYG---SVSQLGAGNAILIILQLCFAGIIVICLDELLQKGYG 177
+ I+ + ++ +G +G SV Q+G LI QL AGI L E++ KG+G
Sbjct: 122 VFAIVQYVILTNIFIFAGYFGDDLSVVQIG-----LINFQLVGAGIFTTLLAEVIDKGFG 176
Query: 178 LGSGISLFIATNICESIIWKAFSPTTINSGRG--AEFEGAVIALFHLLITKQNK-VGALR 234
SG + I +++ F + I G E +GA+I L L +K +G +
Sbjct: 177 FSSGAMIINTVVIATNLVADTFGVSQIKVGEDDQTEAQGALINLIQGLRSKHKTFIGGII 236
Query: 235 EAFYRQNLPNITNLLATVLVFLIVVYFQGFKVVLPVRSKNARGQQGAYPIKLFYTSNMPI 294
AF R LPN+T + + + +IV Y Q +V LP+RS ARG YPIKL YT + +
Sbjct: 237 SAFNRDYLPNLTTTIIVLAIAIIVCYLQSVRVELPIRSTRARGTNNVYPIKLLYTGCLSV 296
Query: 295 ILQSALVSNLYFIS----QLLYRKYSGNFFVNLLGKWKESEYSGHSIPVGGLAYYVTAPA 350
+ ++ ++ + QL+ + + ++G + E+ + ++P L+ +
Sbjct: 297 LFSYTILFYIHIFAFVLIQLVAKNEPTHIICKIMGHY-ENANNLLAVPTFPLSLLAPPTS 355
Query: 351 SLADMAANPFHALFYLVFMLTACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHRDSNL 410
+ P + Y F+L F+ W +SGSSARDVA + K+Q + + G R+ N+
Sbjct: 356 FFKGVTQQPLTFITYSAFILVTGIWFADKWQAISGSSARDVALEFKDQGITLMGRREQNV 415
Query: 411 QKELNRYIPTAAAFGGVCIGALTVLADFMGAIGSGTGILLAV 452
KELN+ IP AA G + +TV+ + +G G GI++ +
Sbjct: 416 AKELNKVIPIAAVTGASVLSLITVIGESLGLKGKAAGIVVGI 457
>pdb|3DL8|G Chain G, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
pdb|3DL8|H Chain H, Structure Of The Complex Of Aquifex Aeolicus Secyeg And
Bacillus Subtilis Seca
Length = 429
Score = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 44/189 (23%), Positives = 86/189 (45%), Gaps = 25/189 (13%)
Query: 31 REKVIYTVISLFIFLVCSQLPLYGIHSTTGAD--------PFYWMRVILASNRG--TVME 80
R+K I+T++ I+ + S +P+ GI+ D F + N G TV
Sbjct: 15 RQKFIFTLLMFVIYRLGSHIPIPGINPEALRDFLKAFEGSVFALYDIFSGGNLGRLTVFA 74
Query: 81 LGITPIVTSGLVMQLLAGSKIIEVDNNVRED----RALLNGAQKLLGILIAIGEA--VAY 134
LG+ P +++ ++MQLL + I + +E+ R +N K L + +A ++ +A+
Sbjct: 75 LGVMPYISASIMMQLLTVA-IPSLQRLAKEEGDYGRYKINEYTKYLTLFVATVQSLGIAF 133
Query: 135 VMSGMYGS-----VSQLGAGNAILIILQLCFAGIIVICL-DELLQKGYGLGSGISLF--I 186
+ G V G ++ +L L + ++ + D + +KG G G+ + +F I
Sbjct: 134 WIRGQVSPKGIPVVENPGISFILITVLTLVAGTMFLVWIADRITEKGIGNGASLIIFAGI 193
Query: 187 ATNICESII 195
N ++I
Sbjct: 194 VANFPNAVI 202
>pdb|3DIN|C Chain C, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
pdb|3DIN|F Chain F, Crystal Structure Of The Protein-Translocation Complex
Formed By The Secy Channel And The Seca Atpase
Length = 431
Score = 33.1 bits (74), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 45/87 (51%), Gaps = 16/87 (18%)
Query: 27 KIP-FREKVIYTVISLFIFLVCSQLPLYGIH---------------STTGADPFYWMRVI 70
KIP R+++I+T ++L +F + +P+ G++ G FY +
Sbjct: 10 KIPELRDRIIFTFLALIVFRMGIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFYDVFTG 69
Query: 71 LASNRGTVMELGITPIVTSGLVMQLLA 97
A +R +V + +TP +T+ +++QLLA
Sbjct: 70 GALSRFSVFTMSVTPYITASIILQLLA 96
>pdb|2ZJS|Y Chain Y, Crystal Structure Of Secye Translocon From Thermus
Thermophilus With A Fab Fragment
pdb|2ZQP|Y Chain Y, Crystal Structure Of Secye Translocon From Thermus
Thermophilus
Length = 434
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 45/192 (23%), Positives = 89/192 (46%), Gaps = 35/192 (18%)
Query: 27 KIP-FREKVIYTVISLFIFLVCSQLPLYGIH--------STTGADPFYWMRVILASN--R 75
+IP R++V++T++ L + + + +P G+ T F + + N R
Sbjct: 10 QIPELRQRVLFTLLVLAAYRLGAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSGGNFER 69
Query: 76 GTVMELGITPIVTSGLVMQLLAG--SKIIEVDNNVREDRALLNGAQKLLGILIAIGEAVA 133
++ LGI P +T+ ++MQ+L + ++ E R ++N ++ G IA+G
Sbjct: 70 FSIFALGIMPYITAAIIMQILVTVVPALEKLSKEGEEGRRIINQYTRIGG--IALG---- 123
Query: 134 YVMSGMYGSVSQLGA--GNAIL-----------IILQLCFAGI-IVICLDELLQKGYGLG 179
G + + + LGA G +L +++ AGI +++ + E + + YG+G
Sbjct: 124 -AFQGFFLATAFLGAEGGRFLLPGWSPGPFFWFVVVVTQVAGIALLLWMAERITE-YGIG 181
Query: 180 SGISLFIATNIC 191
+G SL I I
Sbjct: 182 NGTSLIIFAGIV 193
>pdb|3J01|A Chain A, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
Length = 435
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 27/134 (20%), Positives = 60/134 (44%), Gaps = 17/134 (12%)
Query: 31 REKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVIL----------ASNRGTVME 80
+ ++++ + +L +F + S +P+ GI + A R + A +R ++
Sbjct: 13 KRRLLFVIGALIVFRIGSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFA 72
Query: 81 LGITPIVTSGLVMQLLA--GSKIIEVDNNVREDRALLNGAQKLLGILIAIGEAVAYV--- 135
LGI P +++ +++QLL + E+ R ++ + +++AI +++
Sbjct: 73 LGIMPYISASIIIQLLTVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGL 132
Query: 136 --MSGMYGSVSQLG 147
M GM G V G
Sbjct: 133 PNMPGMQGLVINPG 146
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.326 0.141 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,151,612
Number of Sequences: 62578
Number of extensions: 516357
Number of successful extensions: 1391
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1329
Number of HSP's gapped (non-prelim): 17
length of query: 475
length of database: 14,973,337
effective HSP length: 102
effective length of query: 373
effective length of database: 8,590,381
effective search space: 3204212113
effective search space used: 3204212113
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)