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= 011844
(476 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 = 662 bits (1707), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 323/471 (68%), Positives = 393/471 (83%), Gaps = 3/471 (0%)
Query: 6 RVLHLVRPFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFY 65
+ L +++PF LPE+Q +RK+ F+EKV++T I+LFIFLVC Q+PL+GI S+ ADPFY
Sbjct: 4 KFLEVIKPFCVILPEIQKPERKIQFKEKVLWTAITLFIFLVCCQIPLFGIMSSDSADPFY 63
Query: 66 WMRVILASNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGII 125
WMRVILASNRGT+MELGI+PIVTSGL+MQLLAG+KIIEV + + DRAL NGAQKL G+I
Sbjct: 64 WMRVILASNRGTLMELGISPIVTSGLIMQLLAGAKIIEVGDTPK-DRALFNGAQKLFGMI 122
Query: 126 IAIGEAVAYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLF 185
I IG+++ YV++GMYG +++G G +LI +QL AG+IV+ LDELLQKGYGLGSGISLF
Sbjct: 123 ITIGQSIVYVMTGMYGDPSEMGAGICLLITIQLFVAGLIVLLLDELLQKGYGLGSGISLF 182
Query: 186 IATNICENIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPNV 245
IATNICE I+WKAFSPTT+N+GRG EFEGA+IALFHLL TR DKVRALREAFYRQNLPN+
Sbjct: 183 IATNICETIVWKAFSPTTVNTGRGMEFEGAIIALFHLLATRTDKVRALREAFYRQNLPNL 242
Query: 246 TNLLATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLY 305
NL+AT+ +F +VIYFQGFRV LP++S RGQ +YPIKLFYTSN+PIILQSALVSNLY
Sbjct: 243 MNLIATIFVFAVVIYFQGFRVDLPIKSARYRGQYNTYPIKLFYTSNIPIILQSALVSNLY 302
Query: 306 FISQLMYRRYSGNFFVNLLGKWKESEYSG-GQYVPVGGIAYYITAPSSLADMAANPFHAL 364
ISQ++ R+SGN V+LLG W ++ G + PVGG+ +Y++ P S + +P HA+
Sbjct: 303 VISQMLSARFSGNLLVSLLGTWSDTSSGGPARAYPVGGLCHYLSPPESFGSVLEDPVHAV 362
Query: 365 FYLVFMLSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHREANLQKELNRYIPTAAA 424
Y+VFML +CA FSKTWIEVSGSSA+DVAKQLKEQQMVM GHRE ++ ELNRYIPTAAA
Sbjct: 363 VYIVFMLGSCAFFSKTWIEVSGSSAKDVAKQLKEQQMVMRGHRETSMVHELNRYIPTAAA 422
Query: 425 FGGMCIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASELGFFG 475
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 = 288 bits (737), Expect = 5e-78, Method: Compositional matrix adjust.
Identities = 165/463 (35%), Positives = 275/463 (59%), Gaps = 25/463 (5%)
Query: 17 FLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILASNRG 76
+ PEV+ R+VP RE+ ++T ++L ++ V +++P+YGI D F ++RV+LA G
Sbjct: 13 WFPEVERPKRRVPLRERFMWTGVALILYYVLAEIPVYGIPERI-QDYFQFLRVVLAGRNG 71
Query: 77 TVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIIIAIGEAVAYVL 136
+++ LGI PIVT+G+++QLL GS+II++D EDR Q++ + + EA ++L
Sbjct: 72 SILTLGIGPIVTAGIILQLLVGSEIIKLDLANPEDRRFYQALQRVFSVFMCFFEAAVWIL 131
Query: 137 SGMYGSVN-QLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICENII 195
G +G V + A+L+I+QL GI++I LDEL+ K +G+GSGISLFIA + + I+
Sbjct: 132 GGAFGRVGVDVTYAIAVLMILQLAMGGIVLIILDELVSK-WGIGSGISLFIAAGVSQTIL 190
Query: 196 WKAFSPTT----INSGRGAEFEGAVIALFHLLITRNDKVRALREAFYR-QNLPNVTNLLA 250
++ +P T I+ G I F I + D L A YR + P++ +++A
Sbjct: 191 TRSLNPLTDPNIIDPLTGQPAIVGAIPYFIQHILKGD----LWGAIYRGGSAPDMLSVVA 246
Query: 251 TVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLYFISQL 310
T+++F IV+YF+ RV +P+ + +GSYPI+ Y SN+PIIL AL +N+ +++
Sbjct: 247 TIVVFFIVVYFESMRVEIPLGYRGVT-VRGSYPIRFLYVSNIPIILTFALYANIQLWARV 305
Query: 311 MYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPSSLADMAANPFHALFYLVFM 370
+ R G+ LG++ + S P+ G Y+ P ++ + NP A+ YL+
Sbjct: 306 LDR--LGH---PWLGRFDPTTGS-----PISGFVLYVIPPRNIFSVIDNPVRAIVYLILT 355
Query: 371 LSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHREA--NLQKELNRYIPTAAAFGGM 428
+ LF W+E++G AR +A+QL+ + +PG R L+K L RYIP +G +
Sbjct: 356 VIFSLLFGYLWVELTGLDARSIARQLQRAGLQIPGFRRDPRTLEKVLQRYIPYVTFWGSL 415
Query: 429 CIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 471
+ + VLADF+GA+G+GTGILL V I+Y+++E +E+ +E+
Sbjct: 416 TVALIAVLADFLGALGTGTGILLTVGILYRFYEEIAREQITEM 458
>pdb|3DKN|A Chain A, Sec61 In The Canine Ribosome-Channel Complex From The
Endoplasmic Reticulum
Length = 430
Score = 276 bits (707), Expect = 1e-74, Method: Compositional matrix adjust.
Identities = 164/462 (35%), Positives = 262/462 (56%), Gaps = 46/462 (9%)
Query: 13 PFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ +++ F+EK+ +T I L ++ + + +Y + A +W + I A
Sbjct: 5 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFW-QTITA 63
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIIIAIGEAV 132
S GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL II+ EAV
Sbjct: 64 SRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 123
Query: 133 AYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 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 NIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPNV---TNLL 249
I A P EG + + LI Q +PN+ ++
Sbjct: 180 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 213
Query: 250 ATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T+++FL+V+Y + RV +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 214 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 273
Query: 310 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPSSLADMAANPFHALFYLVF 369
+YR + +LG Y GG+ V GIAYY++ P L+ + ++P HA+ Y++
Sbjct: 274 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTPYGLSSVISDPIHAIVYMIA 321
Query: 370 MLSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHREANLQKELNRYIPTAAAFGGMC 429
M+ C +F W+E +G + +AK++ M + G R++ ++ L RYIP
Sbjct: 322 MIITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSAIEHRLKRYIPPLTVMSSAF 381
Query: 430 IGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 471
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 382 VGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 423
>pdb|1RH5|A Chain A, The Structure Of A Protein Conducting Channel
Length = 436
Score = 274 bits (700), Expect = 8e-74, Method: Compositional matrix adjust.
Identities = 166/464 (35%), Positives = 261/464 (56%), Gaps = 48/464 (10%)
Query: 13 PFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ +++ F+EK+ +T I L ++ + + +Y + A +W + I A
Sbjct: 6 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFW-QTITA 64
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIIIAIGEAV 132
S GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL II+ EAV
Sbjct: 65 SRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 124
Query: 133 AYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 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 NIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPN---VTNLL 249
I A P EG + + LI Q +PN + ++
Sbjct: 181 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 214
Query: 250 ATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T+++FL+V+Y + RV +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 215 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 274
Query: 310 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPSSLADMAANPFHALFYLVF 369
+YR + +LG Y GG+ V GIAYY++ P L+ + ++P HA+ Y++
Sbjct: 275 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTPYGLSSVISDPIHAIVYMIA 322
Query: 370 MLSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHR--EANLQKELNRYIPTAAAFGG 427
M+ C +F W+E +G + +AK++ M + G R E ++ L RYIP
Sbjct: 323 MIITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSS 382
Query: 428 MCIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 471
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +ER SEL
Sbjct: 383 AFVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLRERTSEL 426
>pdb|1RHZ|A Chain A, The Structure Of A Protein Conducting Channel
Length = 436
Score = 273 bits (697), Expect = 2e-73, Method: Compositional matrix adjust.
Identities = 165/464 (35%), Positives = 261/464 (56%), Gaps = 48/464 (10%)
Query: 13 PFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ +++ F+EK+ +T I L ++ + + +Y + A +W + I A
Sbjct: 6 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFW-QTITA 64
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIIIAIGEAV 132
S GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL II+ EAV
Sbjct: 65 SRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 124
Query: 133 AYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 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 NIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPN---VTNLL 249
I A P EG + + LI Q +PN + ++
Sbjct: 181 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 214
Query: 250 ATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T+++FL+V+Y + RV +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 215 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 274
Query: 310 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPSSLADMAANPFHALFYLVF 369
+YR + +LG Y GG+ V GIAYY++ P L+ + ++P HA+ Y++
Sbjct: 275 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTPYGLSSVISDPIHAIVYMIA 322
Query: 370 MLSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHR--EANLQKELNRYIPTAAAFGG 427
M+ C +F W+E +G + +AK++ M + G R E ++ L RYIP
Sbjct: 323 MIITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSS 382
Query: 428 MCIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 471
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 383 AFVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 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 = 269 bits (688), Expect = 2e-72, Method: Compositional matrix adjust.
Identities = 163/464 (35%), Positives = 259/464 (55%), Gaps = 53/464 (11%)
Query: 13 PFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ +++ F+EK+ +T I L ++ + + +Y + A +W R+
Sbjct: 6 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFWGRI--- 62
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIIIAIGEAV 132
GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL II+ EAV
Sbjct: 63 ---GTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 119
Query: 133 AYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 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 NIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPN---VTNLL 249
I A P EG + + LI Q +PN + ++
Sbjct: 176 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 209
Query: 250 ATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T+++FL+V+Y + RV +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 210 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 269
Query: 310 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPSSLADMAANPFHALFYLVF 369
+YR + +LG Y GG+ V GIAYY++ P L+ + ++P HA+ Y++
Sbjct: 270 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTPYGLSSVISDPIHAIVYMIA 317
Query: 370 MLSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHR--EANLQKELNRYIPTAAAFGG 427
M+ C +F W+E +G + +AK++ M + G R E ++ L RYIP
Sbjct: 318 MIITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSS 377
Query: 428 MCIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 471
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 378 AFVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 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 = 266 bits (680), Expect = 2e-71, Method: Compositional matrix adjust.
Identities = 165/464 (35%), Positives = 258/464 (55%), Gaps = 58/464 (12%)
Query: 13 PFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ +++ F+EK+ +T I L ++ + + +Y T GA I A
Sbjct: 6 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVY----TAGAQ-------IPA 54
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIIIAIGEAV 132
GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL II+ EAV
Sbjct: 55 IFGGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 114
Query: 133 AYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 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 NIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPN---VTNLL 249
I A P EG + + LI Q +PN + ++
Sbjct: 171 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 204
Query: 250 ATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T+++FL+V+Y + RV +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 205 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 264
Query: 310 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPSSLADMAANPFHALFYLVF 369
+YR + +LG Y GG+ V GIAYY++ P L+ + ++P HA+ Y++
Sbjct: 265 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTPYGLSSVISDPIHAIVYMIA 312
Query: 370 MLSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHR--EANLQKELNRYIPTAAAFGG 427
M+ C +F W+E +G + +AK++ M + G R E ++ L RYIP
Sbjct: 313 MIITCVMFGIFWVETTGLDPKSMAKRIGSLGMAIKGFRKSEKAIEHRLKRYIPPLTVMSS 372
Query: 428 MCIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 471
+G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 373 AFVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 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 = 256 bits (655), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 163/474 (34%), Positives = 261/474 (55%), Gaps = 58/474 (12%)
Query: 13 PFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVILA 72
P L +PEV+ +++ F+EK+ +T I L ++ + + +Y + A +W + I A
Sbjct: 5 PILEKIPEVELPVKEITFKEKLKWTGIVLVLYFIMGCIDVYTAGAQIPAIFEFW-QTITA 63
Query: 73 SNRGTVMELGITPIVTSGLVMQLLAGSKIIEVDNNVREDRALLNGAQKLLGIIIAIGEAV 132
S GT++ LGI PIVT+G++MQLL GS II++D ++ E+RAL G QKLL II+ EAV
Sbjct: 64 SRIGTLITLGIGPIVTAGIIMQLLVGSGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAV 123
Query: 133 AYVLSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYGLGSGISLFIATNICE 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 NIIWKAFSPTTINSGRGAEFEGAVIALFHLLITRNDKVRALREAFYRQNLPN---VTNLL 249
I A P EG + + LI Q +PN + ++
Sbjct: 180 TIFVGALGP-----------EGYLWKFLNSLI---------------QGVPNIEYIAPII 213
Query: 250 ATVLIFLIVIYFQGFR---VVLPVRSKNAR----GQQGSYPIKLFYTSNMPIILQSALVS 302
T+++FL+V+Y + R VV + + R Q P+K+ Y SN+P+IL +AL +
Sbjct: 214 GTIIVFLMVVYAECMRRRIVVNYAKRQQGRRVYAAQSTHLPLKVVYVSNIPVILAAALFA 273
Query: 303 NLYFISQLMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAPSSLADMAANPFH 362
N+ +YR + +LG Y GG+ V GIAYY++ P L+ + ++P H
Sbjct: 274 NIQLWGLALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTPYGLSSVISDPIH 321
Query: 363 ALFYLVFMLSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHREAN-----LQKELNR 417
A+ Y++ M+ C +F W+E +G + +AK++K+ +PG R ++ L R
Sbjct: 322 AIVYMIAMIITCVMFGIFWVETTGLDPKSMAKRIKKSGAFVPGIRPGEQTAKYIEHRLKR 381
Query: 418 YIPTAAAFGGMCIGALTVLADFMGAIGSGTGILLAVTIIYQYFETFEKERASEL 471
YIP +G L +A+F+GA+G GTG+LL V+I+Y+ +E +E+ SEL
Sbjct: 382 YIPPLTVMSSAFVGFLATIANFIGALGGGTGVLLTVSIVYRMYEQLLREKVSEL 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 = 229 bits (585), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 148/463 (31%), Positives = 242/463 (52%), Gaps = 21/463 (4%)
Query: 4 GFRVLHLVRPFLAFLPEVQSADRKVPFREKVIYTVISLFIFLVCSQLPLYGIHSTTGA-- 61
GFR++ +V+P L 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 LLGIIIAIGEAVAYVLSGMYG---SVNQLGVGNAILIIVQLCFAGIIVICLDELLQKGYG 177
+ I+ + ++ +G +G SV Q+G LI QL AGI L E++ KG+G
Sbjct: 122 VFAIVQYVILTNIFIFAGYFGDDLSVVQIG-----LINFQLVGAGIFTTLLAEVIDKGFG 176
Query: 178 LGSGISLFIATNICENIIWKAFSPTTINSGRG--AEFEGAVIALFHLLITRNDK-VRALR 234
SG + I N++ F + I G E +GA+I L L +++ + +
Sbjct: 177 FSSGAMIINTVVIATNLVADTFGVSQIKVGEDDQTEAQGALINLIQGLRSKHKTFIGGII 236
Query: 235 EAFYRQNLPNVTNLLATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPI 294
AF R LPN+T + + I +IV Y Q RV LP+RS ARG YPIKL YT + +
Sbjct: 237 SAFNRDYLPNLTTTIIVLAIAIIVCYLQSVRVELPIRSTRARGTNNVYPIKLLYTGCLSV 296
Query: 295 ILQSALVSNLYFIS----QLMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAP 350
+ ++ ++ + QL+ + + ++G ++ + + VP ++
Sbjct: 297 LFSYTILFYIHIFAFVLIQLVAKNEPTHIICKIMGHYENA--NNLLAVPTFPLSLLAPPT 354
Query: 351 SSLADMAANPFHALFYLVFMLSACALFSKTWIEVSGSSARDVAKQLKEQQMVMPGHREAN 410
S + P + Y F+L F+ W +SGSSARDVA + K+Q + + G RE N
Sbjct: 355 SFFKGVTQQPLTFITYSAFILVTGIWFADKWQAISGSSARDVALEFKDQGITLMGRREQN 414
Query: 411 LQKELNRYIPTAAAFGGMCIGALTVLADFMGAIGSGTGILLAV 453
+ KELN+ IP AA G + +TV+ + +G G GI++ +
Sbjct: 415 VAKELNKVIPIAAVTGASVLSLITVIGESLGLKGKAAGIVVGI 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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 50/185 (27%), Positives = 83/185 (44%), Gaps = 25/185 (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----RALLNGAQKLLGIIIAIGEA--VAY 134
LG+ P +++ ++MQLL + I + +E+ R +N K L + +A ++ +A+
Sbjct: 75 LGVMPYISASIMMQLLTVA-IPSLQRLAKEEGDYGRYKINEYTKYLTLFVATVQSLGIAF 133
Query: 135 VLSGMYGSVNQLGVGNA----ILIIVQLCFAG--IIVICLDELLQKGYGLGSGISLFIAT 188
+ G V N ILI V AG +V D + +K G+G+G SL I
Sbjct: 134 WIRGQVSPKGIPVVENPGISFILITVLTLVAGTMFLVWIADRITEK--GIGNGASLIIFA 191
Query: 189 NICEN 193
I N
Sbjct: 192 GIVAN 196
>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 = 32.7 bits (73), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 45/87 (51%), Gaps = 16/87 (18%)
Query: 27 KVP-FREKVIYTVISLFIFLVCSQLPLYGIH---------------STTGADPFYWMRVI 70
K+P 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|3J01|A Chain A, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
Length = 435
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 30/157 (19%), Positives = 68/157 (43%), Gaps = 17/157 (10%)
Query: 31 REKVIYTVISLFIFLVCSQLPLYGIHSTTGADPFYWMRVIL----------ASNRGTVME 80
+ ++++ + +L +F + S +P+ GI + A R + A +R ++
Sbjct: 13 KRRLLFVIGALIVFRIGSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFA 72
Query: 81 LGITPIVTSGLVMQLLA--GSKIIEVDNNVREDRALLNGAQKLLGIIIAIGEAVAYV--- 135
LGI P +++ +++QLL + E+ R ++ + +++AI +++
Sbjct: 73 LGIMPYISASIIIQLLTVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGL 132
Query: 136 --LSGMYGSVNQLGVGNAILIIVQLCFAGIIVICLDE 170
+ GM G V G +V L + ++ L E
Sbjct: 133 PNMPGMQGLVINPGFAFYFTAVVSLVTGTMFLMWLGE 169
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 0.142 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,224,252
Number of Sequences: 62578
Number of extensions: 526109
Number of successful extensions: 1383
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: 1320
Number of HSP's gapped (non-prelim): 17
length of query: 476
length of database: 14,973,337
effective HSP length: 102
effective length of query: 374
effective length of database: 8,590,381
effective search space: 3212802494
effective search space used: 3212802494
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)