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= 018674
(352 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 = 473 bits (1218), Expect = e-134, Method: Compositional matrix adjust.
Identities = 230/347 (66%), Positives = 287/347 (82%), Gaps = 2/347 (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-GQYVPVGGIAYYITAPS 351
ISQ++ R+SGN V+LLG W ++ G + PVGG+ +Y++ P
Sbjct: 303 VISQMLSARFSGNLLVSLLGTWSDTSSGGPARAYPVGGLCHYLSPPE 349
>pdb|3MP7|A Chain A, Lateral Opening Of A Translocon Upon Entry Of Protein
Suggests The Mechanism Of Insertion Into Membranes
Length = 482
Score = 192 bits (487), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 119/340 (35%), Positives = 199/340 (58%), Gaps = 23/340 (6%)
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 MYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAP 350
+ R G+ LG++ + S P+ G Y+ P
Sbjct: 306 LDR--LGH---PWLGRFDPTTGS-----PISGFVLYVIPP 335
>pdb|1RH5|A Chain A, The Structure Of A Protein Conducting Channel
Length = 436
Score = 183 bits (464), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 123/341 (36%), Positives = 189/341 (55%), Gaps = 46/341 (13%)
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 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAP 350
+YR + +LG Y GG+ V GIAYY++ P
Sbjct: 275 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTP 303
>pdb|1RHZ|A Chain A, The Structure Of A Protein Conducting Channel
Length = 436
Score = 183 bits (464), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 123/341 (36%), Positives = 189/341 (55%), Gaps = 46/341 (13%)
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 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAP 350
+YR + +LG Y GG+ V GIAYY++ P
Sbjct: 275 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTP 303
>pdb|3DKN|A Chain A, Sec61 In The Canine Ribosome-Channel Complex From The
Endoplasmic Reticulum
Length = 430
Score = 183 bits (464), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 123/341 (36%), Positives = 189/341 (55%), Gaps = 46/341 (13%)
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 ATVLIFLIVIYFQGFRVVLPVRSKNARGQQGSYPIKLFYTSNMPIILQSALVSNLYFISQ 309
T+++FL+V+Y + RV +P+ +G G YPIK Y SN+P+IL +AL +N+
Sbjct: 214 GTIIVFLMVVYAECMRVEIPLAHGRIKGAVGKYPIKFVYVSNIPVILAAALFANIQLWGL 273
Query: 310 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAP 350
+YR + +LG Y GG+ V GIAYY++ P
Sbjct: 274 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTP 302
>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 = 179 bits (455), Expect = 2e-45, Method: Compositional matrix adjust.
Identities = 121/341 (35%), Positives = 187/341 (54%), Gaps = 51/341 (14%)
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 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAP 350
+YR + +LG Y GG+ V GIAYY++ P
Sbjct: 270 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTP 298
>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 = 176 bits (447), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 123/341 (36%), Positives = 186/341 (54%), Gaps = 56/341 (16%)
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 LMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAP 350
+YR + +LG Y GG+ V GIAYY++ P
Sbjct: 265 ALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTP 293
>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 = 167 bits (423), Expect = 8e-42, Method: Compositional matrix adjust.
Identities = 109/340 (32%), Positives = 181/340 (53%), Gaps = 19/340 (5%)
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----QLMYRRYSGNFFVNLLGKWKES 330
+ ++ ++ + QL+ + + ++G ++ +
Sbjct: 297 LFSYTILFYIHIFAFVLIQLVAKNEPTHIICKIMGHYENA 336
>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 = 166 bits (420), Expect = 2e-41, Method: Compositional matrix adjust.
Identities = 121/348 (34%), Positives = 188/348 (54%), Gaps = 53/348 (15%)
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 NLYFISQLMYRRYSGNFFVNLLGKWKESEYSGGQYVPVGGIAYYITAP 350
N+ +YR + +LG Y GG+ V GIAYY++ P
Sbjct: 274 NIQLWGLALYR-----MGIPILG-----HYEGGR--AVDGIAYYLSTP 309
>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 = 0.003, 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 = 0.32, 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 = 30.4 bits (67), Expect = 1.7, 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
>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 = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 43/193 (22%), Positives = 86/193 (44%), Gaps = 30/193 (15%)
Query: 23 SADRKVPFREKVIYTVISLFIFLVCSQLPLYGIH--------STTGADPFYWMRVILASN 74
SA + R++V++T++ L + + + +P G+ T F + + N
Sbjct: 7 SALQIPELRQRVLFTLLVLAAYRLGAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSGGN 66
Query: 75 --RGTVMELGITPIVTSGLVMQLLAG--SKIIEVDNNVREDRALLNGAQKLLGIIIAIGE 130
R ++ LGI P +T+ ++MQ+L + ++ E R ++N ++ G IA+G
Sbjct: 67 FERFSIFALGIMPYITAAIIMQILVTVVPALEKLSKEGEEGRRIINQYTRIGG--IALGA 124
Query: 131 AVAYVLSGMYGSVNQLGVGNAIL-----------IIVQLCFAGI-IVICLDELLQKGYGL 178
+ L+ + G +L ++V AGI +++ + E + + YG+
Sbjct: 125 FQGFFLATAFLGAEG---GRFLLPGWSPGPFFWFVVVVTQVAGIALLLWMAERITE-YGI 180
Query: 179 GSGISLFIATNIC 191
G+G SL I I
Sbjct: 181 GNGTSLIIFAGIV 193
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
0.327 0.143 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,858,343
Number of Sequences: 62578
Number of extensions: 389313
Number of successful extensions: 900
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: 845
Number of HSP's gapped (non-prelim): 17
length of query: 352
length of database: 14,973,337
effective HSP length: 100
effective length of query: 252
effective length of database: 8,715,537
effective search space: 2196315324
effective search space used: 2196315324
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: 52 (24.6 bits)