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= 022952
(289 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J28|9 Chain 9, Model Of E. Coli Srp Bound To 70s Rncs
Length = 430
Score = 211 bits (537), Expect = 3e-55, Method: Compositional matrix adjust.
Identities = 112/233 (48%), Positives = 158/233 (67%), Gaps = 6/233 (2%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
MMDE+K V +NP E L VVDAMTGQ+AA FN + +TG +LTK+DGD+RGGAAL
Sbjct: 200 MMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEALPLTGVVLTKVDGDARGGAAL 259
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
S++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDVLS +E + + + AE++
Sbjct: 260 SIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDVLSLIEDIESKVDRAQAEKLA 319
Query: 121 KKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREA--EKSLKIMEAM 177
K+ + FD NDFL+Q R + MG M+ ++G +PGMG+I P V+ +K L MEA+
Sbjct: 320 SKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI-PDNVKSQMDDKVLVRMEAI 378
Query: 178 IEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNL 230
I +MT +ER KPE++ S R++R+A G Q V++L+ Q M+ MK +
Sbjct: 379 INSMTMKERAKPEIIKGS--RKRRIAAGCGMQVQDVNRLLKQFDDMQRMMKKM 429
>pdb|2XXA|A Chain A, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|C Chain C, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 433
Score = 210 bits (535), Expect = 6e-55, Method: Compositional matrix adjust.
Identities = 111/227 (48%), Positives = 156/227 (68%), Gaps = 6/227 (2%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
MMDE+K V +NP E L VVDAMTGQ+AA FN + +TG +LTK+DGD+RGGAAL
Sbjct: 201 MMDEIKQVHASINPVETLFVVDAMTGQDAANTAKAFNEALPLTGVVLTKVDGDARGGAAL 260
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
S++ ++GKPIK +G GE+ E LEPF+PDR+A RILGMGDVLS +E + + + AE++
Sbjct: 261 SIRHITGKPIKFLGVGEKTEALEPFHPDRIASRILGMGDVLSLIEDIESKVDRAQAEKLA 320
Query: 121 KKIMSAN-FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREA--EKSLKIMEAM 177
K+ + FD NDFL+Q R + MG M+ ++G +PGMG+I P V+ +K L MEA+
Sbjct: 321 SKLKKGDGFDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI-PDNVKSQMDDKVLVRMEAI 379
Query: 178 IEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMR 224
I +MT +ER KPE++ S R++R+A SG Q V++L+ Q M+
Sbjct: 380 INSMTMKERAKPEIIKGS--RKRRIAAGSGMQVQDVNRLLKQFDDMQ 424
>pdb|2FFH|A Chain A, The Signal Sequence Binding Protein Ffh From Thermus
Aquaticus
pdb|2FFH|B Chain B, The Signal Sequence Binding Protein Ffh From Thermus
Aquaticus
pdb|2FFH|C Chain C, The Signal Sequence Binding Protein Ffh From Thermus
Aquaticus
Length = 425
Score = 201 bits (512), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 107/230 (46%), Positives = 157/230 (68%), Gaps = 11/230 (4%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 198 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 257
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
S + V+GKPI G E+ E LEPFYP+R+AGRILGMGDV S EK + + +A +
Sbjct: 258 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDVASLAEKVRAAGLEAEAPKSA 317
Query: 121 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREAEKSLKIMEAMIEA 180
K++ DFLKQ + + R+G S ++G++PG+ P ++ EK++K +EA++ +
Sbjct: 318 KEL-----SLEDFLKQMQNLKRLGPFSEILGLLPGV----PQGLKVDEKAIKRLEAIVLS 368
Query: 181 MTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNL 230
MTPEER+ P +L S RRKR+A+ SG + Q+V++ + +M+ MK+L
Sbjct: 369 MTPEERKDPRILNGS--RRKRIAKGSGTSVQEVNRFIKAFEEMKALMKSL 416
>pdb|2IY3|A Chain A, Structure Of The E. Coli Signal Recognition Particle Bound
To A Translating Ribosome
Length = 432
Score = 169 bits (429), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 94/216 (43%), Positives = 140/216 (64%), Gaps = 14/216 (6%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 198 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 257
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
S + V+GKPI G E+ E LEPFYP+R+AGRILGMGD+ S +EK + + E+ +++Q
Sbjct: 258 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDIESILEKVKGL---EEYDKIQ 314
Query: 121 KKIMS-----ANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA----QVREAEKSL 171
KK+ D Q + +MG +S+V+ IPG+G + P Q++ E+ +
Sbjct: 315 KKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKI 374
Query: 172 KIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSG 207
+ A + +MT +E E P ++ +S R +R+A+ SG
Sbjct: 375 RRWLAALNSMTYKELENPNIIDKS--RMRRIAEGSG 408
>pdb|2V3C|C Chain C, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
pdb|2V3C|D Chain D, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
Length = 432
Score = 160 bits (405), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 86/219 (39%), Positives = 132/219 (60%), Gaps = 5/219 (2%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAIL-TKLDGDSRGGAA 59
+++E+K +K + NP E++LV+D GQ+A F +G G+I+ TKLDG ++GG A
Sbjct: 198 LLEEMKQIKEITNPDEIILVIDGTIGQQAGIQAKAFKEAVGEIGSIIVTKLDGSAKGGGA 257
Query: 60 LSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEM 119
LS + PIK +G GE ++DLEPF P + R+LGMGD+ S +EKA++ M E EE
Sbjct: 258 LSAVAETKAPIKFIGIGEGIDDLEPFDPKKFISRLLGMGDLESLLEKAED-MVDEKTEES 316
Query: 120 QKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVRE-AEKSLKIMEAMI 178
IM F N+ + Q + MGSM +++ MIPG G P ++ E +K + +I
Sbjct: 317 IDAIMRGKFTLNELMTQLEAIENMGSMKKILSMIPGFGGAMPKELSHLTEAKIKKYKVII 376
Query: 179 EAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLV 217
+MT EERE P+++ S +R R+A+ SG TE V +++
Sbjct: 377 SSMTKEERENPKIIKASRIR--RIARGSGTTENDVREVL 413
>pdb|3NDB|B Chain B, Crystal Structure Of A Signal Sequence Bound To The Signal
Recognition Particle
Length = 454
Score = 160 bits (404), Expect = 9e-40, Method: Compositional matrix adjust.
Identities = 86/219 (39%), Positives = 132/219 (60%), Gaps = 5/219 (2%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAIL-TKLDGDSRGGAA 59
+++E+K +K + NP E++LV+D GQ+A F +G G+I+ TKLDG ++GG A
Sbjct: 198 LLEEMKQIKEITNPDEIILVIDGTIGQQAGIQAKAFKEAVGEIGSIIVTKLDGSAKGGGA 257
Query: 60 LSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEM 119
LS + PIK +G GE ++DLEPF P + R+LGMGD+ S +EKA++ M E EE
Sbjct: 258 LSAVAETKAPIKFIGIGEGIDDLEPFDPKKFISRLLGMGDLESLLEKAED-MVDEKTEES 316
Query: 120 QKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVRE-AEKSLKIMEAMI 178
IM F N+ + Q + MGSM +++ MIPG G P ++ E +K + +I
Sbjct: 317 IDAIMRGKFTLNELMTQLEAIENMGSMKKILSMIPGFGGAMPKELSHLTEAKIKKYKVII 376
Query: 179 EAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLV 217
+MT EERE P+++ S +R R+A+ SG TE V +++
Sbjct: 377 SSMTKEERENPKIIKASRIR--RIARGSGTTENDVREVL 413
>pdb|3DM5|A Chain A, Structures Of Srp54 And Srp19, The Two Proteins Assembling
The Ribonucleic Core Of The Signal Recognition Particle
From The Archaeon Pyrococcus Furiosus.
pdb|3DM5|B Chain B, Structures Of Srp54 And Srp19, The Two Proteins Assembling
The Ribonucleic Core Of The Signal Recognition Particle
From The Archaeon Pyrococcus Furiosus
Length = 443
Score = 149 bits (376), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 83/232 (35%), Positives = 137/232 (59%), Gaps = 4/232 (1%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+++E+K + V++P EV+LV+D GQ+A F I I+TKLDG ++GG AL
Sbjct: 200 LIEEMKQISNVIHPHEVILVIDGTIGQQAYNQALAFKEATPIGSIIVTKLDGSAKGGGAL 259
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQ-EDAEEM 119
S +G PIK +G GE+++D+EPF P R R+LG+GD+ +EK +E+ ++ E EE
Sbjct: 260 SAVAATGAPIKFIGTGEKIDDIEPFDPPRFVSRLLGLGDIQGLLEKFKELEKEVEIKEED 319
Query: 120 QKKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVRE-AEKSLKIMEAMI 178
++ + F D Q + +MG + +++ MIPG+G P V E+ LK + ++
Sbjct: 320 IERFLRGKFTLKDMYAQLEAMRKMGPLKQILRMIPGLGYSLPDDVISIGEERLKKFKVIM 379
Query: 179 EAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNL 230
++MT EE PE++ S R KR+A+ SG + + V +L+ Q QM+ K++
Sbjct: 380 DSMTEEELLNPEIINYS--RIKRIARGSGTSTKDVKELLDQYRQMKKLFKSM 429
>pdb|1RJ9|B Chain B, Structure Of The Heterodimer Of The Conserved Gtpase
Domains Signal Recognition Particle (Ffh) And Its
Receptor (Ftsy)
Length = 300
Score = 133 bits (335), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 64/103 (62%), Positives = 80/103 (77%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 198 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 257
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSF 103
S + V+GKPI G E+ E LEPFYP+R+AGRILGMGDV S
Sbjct: 258 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDVASL 300
>pdb|2C03|A Chain A, Gdp Complex Of Srp Gtpase Ffh Ng Domain
pdb|2C03|B Chain B, Gdp Complex Of Srp Gtpase Ffh Ng Domain
Length = 297
Score = 132 bits (331), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 63/100 (63%), Positives = 79/100 (79%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 198 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 257
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 100
S + V+GKPI G E+ E LEPFYP+R+AGRILGMGDV
Sbjct: 258 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDV 297
>pdb|1O87|A Chain A, A New Mggdp Complex Of The Ffh Ng Domain
pdb|1O87|B Chain B, A New Mggdp Complex Of The Ffh Ng Domain
pdb|2C04|A Chain A, Gmppcp Complex Of Srp Gtpase Ffh Ng Domain At Ultra-High
Resolution
pdb|2C04|B Chain B, Gmppcp Complex Of Srp Gtpase Ffh Ng Domain At Ultra-High
Resolution
pdb|2J45|A Chain A, Water Structure Of T. Aquaticus Ffh Ng Domain At 1.1a
Resolution
pdb|2J45|B Chain B, Water Structure Of T. Aquaticus Ffh Ng Domain At 1.1a
Resolution
pdb|2J46|A Chain A, Water Structure Of T. Aquaticus Ffh Ng Domain At 1.1a
Resolution
pdb|2J46|B Chain B, Water Structure Of T. Aquaticus Ffh Ng Domain At 1.1a
Resolution
Length = 297
Score = 132 bits (331), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 63/100 (63%), Positives = 79/100 (79%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 198 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 257
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDV 100
S + V+GKPI G E+ E LEPFYP+R+AGRILGMGDV
Sbjct: 258 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGDV 297
>pdb|2J37|W Chain W, Model Of Mammalian Srp Bound To 80s Rncs
Length = 504
Score = 130 bits (327), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 73/247 (29%), Positives = 134/247 (54%), Gaps = 9/247 (3%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+ +E+ V + P ++ V+DA GQ A F ++ + I+TKLDG ++GG AL
Sbjct: 201 LFEEMLQVANAIQPDNIVYVMDASIGQACEAQAKAFKDKVDVASVIVTKLDGHAKGGGAL 260
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
S + PI +G GE ++D EPF ++LGMGD+ ++K E ++ +D E +
Sbjct: 261 SAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNE-LKLDDNEALI 319
Query: 121 KKIMSANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK--ITPAQVREAEKSLKIMEAMI 178
+K+ F D +Q + + +MG S+++GMIPG G ++ +E+ LK + ++
Sbjct: 320 EKLKHGQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIM 379
Query: 179 EAMTPEEREKPE---LLAESPVRRKRVAQDSGKTEQQVSQLVAQ---LFQMRVRMKNLMG 232
++M +E + + + ++ P R +RVA+ SG + + V +L+ Q QM +M + G
Sbjct: 380 DSMNDQELDSTDGAKVFSKQPGRIQRVARGSGVSTRDVQELLTQYTKFAQMVKKMGGIKG 439
Query: 233 VMEGGSL 239
+ +GG +
Sbjct: 440 LFKGGDM 446
>pdb|1JPJ|A Chain A, Gmppnp Complex Of Srp Gtpase Ng Domain
pdb|1JPN|A Chain A, Gmppnp Complex Of Srp Gtpase Ng Domain
pdb|1JPN|B Chain B, Gmppnp Complex Of Srp Gtpase Ng Domain
pdb|1RY1|U Chain U, Structure Of The Signal Recognition Particle Interacting
With The Elongation-Arrested Ribosome
Length = 296
Score = 130 bits (327), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 62/99 (62%), Positives = 78/99 (78%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 198 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 257
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGD 99
S + V+GKPI G E+ E LEPFYP+R+AGRILGMGD
Sbjct: 258 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMGD 296
>pdb|1LS1|A Chain A, T. Aquaticus Ffh Ng Domain At 1.1a Resolution
Length = 295
Score = 128 bits (321), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 61/98 (62%), Positives = 77/98 (78%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 198 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 257
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG 98
S + V+GKPI G E+ E LEPFYP+R+AGRILGMG
Sbjct: 258 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMG 295
>pdb|1FFH|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition
Protein Ffh From Thermus Aquaticus
Length = 294
Score = 128 bits (321), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 61/98 (62%), Positives = 77/98 (78%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 197 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 256
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMG 98
S + V+GKPI G E+ E LEPFYP+R+AGRILGMG
Sbjct: 257 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGMG 294
>pdb|3KL4|A Chain A, Recognition Of A Signal Peptide By The Signal Recognition
Particle
Length = 433
Score = 127 bits (319), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 75/216 (34%), Positives = 127/216 (58%), Gaps = 14/216 (6%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+++E+K++ VL P +V+LV+DA GQ+A L + F+ I I+TK+DG ++GG AL
Sbjct: 199 LLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQASPIGSVIITKMDGTAKGGGAL 258
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
S +G IK +G GE++++LE F R RILGMGD+ S +EK + + E+ +++Q
Sbjct: 259 SAVVATGATIKFIGTGEKIDELETFNAKRFVSRILGMGDIESILEKVKGL---EEYDKIQ 315
Query: 121 KKIMSA-----NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA----QVREAEKSL 171
KK+ D Q + +MG +S+V+ IPG+G + P Q++ E+ +
Sbjct: 316 KKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKI 375
Query: 172 KIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSG 207
+ A + +MT +E E P ++ +S R +R+A+ SG
Sbjct: 376 RRWLAALNSMTYKELENPNIIDKS--RMRRIAEGSG 409
>pdb|1QZW|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|C Chain C, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|E Chain E, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|G Chain G, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZX|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZX|B Chain B, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
Length = 440
Score = 127 bits (319), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 75/216 (34%), Positives = 127/216 (58%), Gaps = 14/216 (6%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+++E+K++ VL P +V+LV+DA GQ+A L + F+ I I+TK+DG ++GG AL
Sbjct: 206 LLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQASPIGSVIITKMDGTAKGGGAL 265
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGMGDVLSFVEKAQEVMQQEDAEEMQ 120
S +G IK +G GE++++LE F R RILGMGD+ S +EK + + E+ +++Q
Sbjct: 266 SAVVATGATIKFIGTGEKIDELETFNAKRFVSRILGMGDIESILEKVKGL---EEYDKIQ 322
Query: 121 KKIMSA-----NFDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPA----QVREAEKSL 171
KK+ D Q + +MG +S+V+ IPG+G + P Q++ E+ +
Sbjct: 323 KKMEDVMEGKGKLTLRDVYAQIIALRKMGPLSKVLQHIPGLGIMLPTPSEDQLKIGEEKI 382
Query: 172 KIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSG 207
+ A + +MT +E E P ++ +S R +R+A+ SG
Sbjct: 383 RRWLAALNSMTYKELENPNIIDKS--RMRRIAEGSG 416
>pdb|2NG1|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition
Protein Ffh From Thermus Aquaticus
Length = 293
Score = 125 bits (315), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 60/97 (61%), Positives = 76/97 (78%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 197 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 256
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGM 97
S + V+GKPI G E+ E LEPFYP+R+AGRILGM
Sbjct: 257 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGM 293
>pdb|3NG1|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition
Protein Ffh From Thermus Aquaticus
pdb|3NG1|B Chain B, N And Gtpase Domains Of The Signal Sequence Recognition
Protein Ffh From Thermus Aquaticus
pdb|1OKK|A Chain A, Homo-Heterodimeric Complex Of The Srp Gtpases
pdb|2CNW|A Chain A, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
pdb|2CNW|B Chain B, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
pdb|2CNW|C Chain C, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
pdb|2J7P|A Chain A, Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh
And Ftsy
pdb|2J7P|B Chain B, Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh
And Ftsy
pdb|1NG1|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition
Protein Ffh From Thermus Aquaticus
pdb|2XKV|A Chain A, Atomic Model Of The Srp-Ftsy Early Conformation
Length = 294
Score = 125 bits (315), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 60/97 (61%), Positives = 76/97 (78%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+M EL +K VL P EVLLV+DAMTGQEA ++ F+ ++G+TG +LTKLDGD+RGGAAL
Sbjct: 198 LMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVGVTGLVLTKLDGDARGGAAL 257
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILGM 97
S + V+GKPI G E+ E LEPFYP+R+AGRILGM
Sbjct: 258 SARHVTGKPIYFAGVSEKPEGLEPFYPERLAGRILGM 294
>pdb|2YHS|A Chain A, Structure Of The E. Coli Srp Receptor Ftsy
Length = 503
Score = 85.5 bits (210), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 43/94 (45%), Positives = 59/94 (62%), Gaps = 6/94 (6%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK + RV+ P EV+L +DA TGQ A + F+ +G+TG LTKLDG +
Sbjct: 393 LMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTA 452
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPD 88
+GG SV + G PI+ +G GER+EDL PF D
Sbjct: 453 KGGVIFSVADQFGIPIRYIGVGERIEDLRPFKAD 486
>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|D Chain D, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 302
Score = 85.1 bits (209), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 43/94 (45%), Positives = 59/94 (62%), Gaps = 6/94 (6%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK + RV+ P EV+L +DA TGQ A + F+ +G+TG LTKLDG +
Sbjct: 198 LMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTA 257
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPD 88
+GG SV + G PI+ +G GER+EDL PF D
Sbjct: 258 KGGVIFSVADQFGIPIRYIGVGERIEDLRPFKAD 291
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
Receptor Ftsy
Length = 309
Score = 85.1 bits (209), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 43/94 (45%), Positives = 59/94 (62%), Gaps = 6/94 (6%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK + RV+ P EV+L +DA TGQ A + F+ +G+TG LTKLDG +
Sbjct: 199 LMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTA 258
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPD 88
+GG SV + G PI+ +G GER+EDL PF D
Sbjct: 259 KGGVIFSVADQFGIPIRYIGVGERIEDLRPFKAD 292
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 84.7 bits (208), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 43/94 (45%), Positives = 59/94 (62%), Gaps = 6/94 (6%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK + RV+ P EV+L +DA TGQ A + F+ +G+TG LTKLDG +
Sbjct: 193 LMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAVGLTGITLTKLDGTA 252
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPD 88
+GG SV + G PI+ +G GER+EDL PF D
Sbjct: 253 KGGVIFSVADQFGIPIRYIGVGERIEDLRPFKAD 286
>pdb|3DMD|B Chain B, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
pdb|3DMD|A Chain A, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
pdb|3DMD|C Chain C, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
pdb|3E70|C Chain C, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
Length = 328
Score = 81.6 bits (200), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 43/96 (44%), Positives = 54/96 (56%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+MDE+K + RV P V+ V DA+ G FN + I G ILTKLD D+RGGAAL
Sbjct: 229 LMDEMKKIARVTKPNLVIFVGDALAGNAIVEQARQFNEAVKIDGIILTKLDADARGGAAL 288
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG 96
S+ V PI VG G+ +DL PF + RI G
Sbjct: 289 SISYVIDAPILFVGVGQGYDDLRPFEKEWFLERIFG 324
>pdb|1VMA|A Chain A, Crystal Structure Of Cell Division Protein Ftsy (Tm0570)
From Thermotoga Maritima At 1.60 A Resolution
pdb|1VMA|B Chain B, Crystal Structure Of Cell Division Protein Ftsy (Tm0570)
From Thermotoga Maritima At 1.60 A Resolution
Length = 306
Score = 80.5 bits (197), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 42/94 (44%), Positives = 56/94 (59%), Gaps = 6/94 (6%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+EL+ V RV+ P E LLV+DA TGQ F + +TG ILTKLDG +
Sbjct: 204 LMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFKEAVNVTGIILTKLDGTA 263
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPD 88
+GG L++ G PIK +G GE+ EDL PF P+
Sbjct: 264 KGGITLAIARELGIPIKFIGVGEKAEDLRPFDPE 297
>pdb|1J8Y|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens T112a Mutant
Length = 297
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 38/94 (40%), Positives = 59/94 (62%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+++E+K++ + P EV LV+DA GQ+A L + FN I I+TK+DG ++GG AL
Sbjct: 200 LLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGGGAL 259
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRI 94
S +G IK +G GE++++LE F P R R+
Sbjct: 260 SAVAATGATIKFIGTGEKIDELEVFNPRRFVARL 293
>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens
Length = 297
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 38/94 (40%), Positives = 59/94 (62%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+++E+K++ + P EV LV+DA GQ+A L + FN I I+TK+DG ++GG AL
Sbjct: 200 LLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASKIGTIIITKMDGTAKGGGAL 259
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRI 94
S +G IK +G GE++++LE F P R R+
Sbjct: 260 SAVAATGATIKFIGTGEKIDELEVFNPRRFVARL 293
>pdb|3B9Q|A Chain A, The Crystal Structure Of Cpftsy From Arabidopsis Thaliana
Length = 302
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 44/101 (43%), Positives = 58/101 (57%), Gaps = 6/101 (5%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+EL K+ + P E+LLV+D TG FN +GITG ILTKLDG +
Sbjct: 201 LMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQAREFNEVVGITGLILTKLDGSA 260
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL 95
RGG +SV E G P+K +G GE +EDL+PF P+ I
Sbjct: 261 RGGCVVSVVEELGIPVKFIGVGEAVEDLQPFDPEAFVNAIF 301
>pdb|2OG2|A Chain A, Crystal Structure Of Chloroplast Ftsy From Arabidopsis
Thaliana
Length = 359
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 44/101 (43%), Positives = 58/101 (57%), Gaps = 6/101 (5%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+EL K+ + P E+LLV+D TG FN +GITG ILTKLDG +
Sbjct: 258 LMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQAREFNEVVGITGLILTKLDGSA 317
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL 95
RGG +SV E G P+K +G GE +EDL+PF P+ I
Sbjct: 318 RGGCVVSVVEELGIPVKFIGVGEAVEDLQPFDPEAFVNAIF 358
>pdb|4AK9|A Chain A, Structure Of Chloroplast Ftsy From Physcomitrella Patens
pdb|4AK9|B Chain B, Structure Of Chloroplast Ftsy From Physcomitrella Patens
Length = 318
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 43/91 (47%), Positives = 57/91 (62%), Gaps = 6/91 (6%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+EL+ KR ++ P EVLLV+D TG A FN IG+TG ILTKLDG +
Sbjct: 217 LMEELRGCKRAVSKALSSAPNEVLLVLDGTTGLNMLAQAREFNQVIGVTGFILTKLDGTA 276
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPF 85
RGG +SV + P+K VG GE ++DL+PF
Sbjct: 277 RGGCVVSVVDELSIPVKFVGVGEGIDDLQPF 307
>pdb|3DM9|B Chain B, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
Length = 328
Score = 77.8 bits (190), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 42/96 (43%), Positives = 52/96 (54%)
Query: 1 MMDELKDVKRVLNPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDSRGGAAL 60
+ DE K + RV P V+ V DA+ G FN + I G ILTKLD D+RGGAAL
Sbjct: 229 LXDEXKKIARVTKPNLVIFVGDALAGNAIVEQARQFNEAVKIDGIILTKLDADARGGAAL 288
Query: 61 SVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRILG 96
S+ V PI VG G+ +DL PF + RI G
Sbjct: 289 SISYVIDAPILFVGVGQGYDDLRPFEKEWFLERIFG 324
>pdb|2CNW|D Chain D, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
pdb|2CNW|E Chain E, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
pdb|2CNW|F Chain F, Gdpalf4 Complex Of The Srp Gtpases Ffh And Ftsy
pdb|2IYL|D Chain D, Structure Of An Ftsy:gdp Complex
Length = 284
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 42/101 (41%), Positives = 59/101 (58%), Gaps = 6/101 (5%)
Query: 1 MMDELKDVKRVL------NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK VKR + P EV LV+DA+TGQ F+ +G+TG I+TKLDG +
Sbjct: 182 LMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTA 241
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL 95
+GG + + PIK VG GE +DL+PF P+ +L
Sbjct: 242 KGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPEAFVEALL 282
>pdb|2J7P|D Chain D, Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh
And Ftsy
pdb|2J7P|E Chain E, Gmppnp-Stabilized Ng Domain Complex Of The Srp Gtpases Ffh
And Ftsy
Length = 283
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 42/101 (41%), Positives = 59/101 (58%), Gaps = 6/101 (5%)
Query: 1 MMDELKDVKRVL------NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK VKR + P EV LV+DA+TGQ F+ +G+TG I+TKLDG +
Sbjct: 181 LMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTA 240
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDRMAGRIL 95
+GG + + PIK VG GE +DL+PF P+ +L
Sbjct: 241 KGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPEAFVEALL 281
>pdb|2Q9A|A Chain A, Structure Of Apo Ftsy
pdb|2Q9A|B Chain B, Structure Of Apo Ftsy
pdb|2Q9B|A Chain A, Structure Of Ftsy:gmppnp Complex
pdb|2Q9B|B Chain B, Structure Of Ftsy:gmppnp Complex
pdb|2Q9C|A Chain A, Structure Of Ftsy:gmppnp With Mgcl Complex
pdb|2Q9C|B Chain B, Structure Of Ftsy:gmppnp With Mgcl Complex
Length = 304
Score = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 41/94 (43%), Positives = 57/94 (60%), Gaps = 6/94 (6%)
Query: 1 MMDELKDVKRVL------NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK VKR + P EV LV+DA+TGQ F+ +G+TG I+TKLDG +
Sbjct: 202 LMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTA 261
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPD 88
+GG + + PIK VG GE +DL+PF P+
Sbjct: 262 KGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPE 295
>pdb|1RJ9|A Chain A, Structure Of The Heterodimer Of The Conserved Gtpase
Domains Signal Recognition Particle (Ffh) And Its
Receptor (Ftsy)
Length = 304
Score = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 41/94 (43%), Positives = 57/94 (60%), Gaps = 6/94 (6%)
Query: 1 MMDELKDVKRVL------NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK VKR + P EV LV+DA+TGQ F+ +G+TG I+TKLDG +
Sbjct: 202 LMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTA 261
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPD 88
+GG + + PIK VG GE +DL+PF P+
Sbjct: 262 KGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPE 295
>pdb|1OKK|D Chain D, Homo-Heterodimeric Complex Of The Srp Gtpases
pdb|2XKV|D Chain D, Atomic Model Of The Srp-Ftsy Early Conformation
Length = 303
Score = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 41/94 (43%), Positives = 57/94 (60%), Gaps = 6/94 (6%)
Query: 1 MMDELKDVKRVL------NPTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M+ELK VKR + P EV LV+DA+TGQ F+ +G+TG I+TKLDG +
Sbjct: 201 LMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVGLTGVIVTKLDGTA 260
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPD 88
+GG + + PIK VG GE +DL+PF P+
Sbjct: 261 KGGVLIPIVRTLKVPIKFVGVGEGPDDLQPFDPE 294
>pdb|1HQ1|A Chain A, Structural And Energetic Analysis Of Rna Recognition By A
Universally Conserved Protein From The Signal
Recognition Particle
Length = 105
Score = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 43/99 (43%), Positives = 64/99 (64%), Gaps = 5/99 (5%)
Query: 128 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREA--EKSLKIMEAMIEAMTPEE 185
FD NDFL+Q R + MG M+ ++G +PGMG+I P V+ +K L MEA+I +MT +E
Sbjct: 2 FDLNDFLEQLRQMKNMGGMASLMGKLPGMGQI-PDNVKSQMDDKVLVRMEAIINSMTMKE 60
Query: 186 REKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMR 224
R KPE++ S R++R+A SG Q V++L+ Q M+
Sbjct: 61 RAKPEIIKGS--RKRRIAAGSGMQVQDVNRLLKQFDDMQ 97
>pdb|1ZU4|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group P21212
pdb|1ZU5|A Chain A, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
pdb|1ZU5|B Chain B, Crystal Structure Of Ftsy From Mycoplasma Mycoides- Space
Group H32
Length = 320
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 58/95 (61%), Gaps = 6/95 (6%)
Query: 1 MMDELKDVKRVLN------PTEVLLVVDAMTGQEAAALVTTFNIEIGITGAILTKLDGDS 54
+M EL+ + +++ P EVLLV+DA TGQ F+ ++G ILTK+D S
Sbjct: 209 LMAELEKMNKIIQQVEKSAPHEVLLVIDATTGQNGVIQAEEFSKVADVSGIILTKMDSTS 268
Query: 55 RGGAALSVKEVSGKPIKLVGRGERMEDLEPFYPDR 89
+GG L++KE+ PIK++G GE+++DL F D+
Sbjct: 269 KGGIGLAIKELLNIPIKMIGVGEKVDDLLAFDIDQ 303
>pdb|2PXB|A Chain A, Variant 2 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXD|A Chain A, Variant 1 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXE|A Chain A, Variant 4 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXF|A Chain A, Variant 5 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXK|A Chain A, Variant 8 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXL|A Chain A, Variant 9 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXP|A Chain A, Variant 13 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXQ|A Chain A, Variant 14 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXT|A Chain A, Variant 15 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXU|A Chain A, Variant 16 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
pdb|2PXV|A Chain A, Variant 6 Of Ribonucleoprotein Core Of The E. Coli Signal
Recognition Particle
Length = 102
Score = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 56/95 (58%), Gaps = 5/95 (5%)
Query: 128 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREA--EKSLKIMEAMIEAMTPEE 185
FD NDFL+Q R + G + + G +PG G+I P V+ +K L EA+I + T +E
Sbjct: 1 FDLNDFLEQLRQMKNXGGXASLXGKLPGXGQI-PDNVKSQXDDKVLVRXEAIINSXTXKE 59
Query: 186 REKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQL 220
R KPE++ S R++R+A SG Q V++L+ Q
Sbjct: 60 RAKPEIIKGS--RKRRIAAGSGXQVQDVNRLLKQF 92
>pdb|3LQX|A Chain A, Srp Ribonucleoprotein Core Complexed With Cobalt Hexammine
Length = 105
Score = 60.8 bits (146), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 55/95 (57%), Gaps = 5/95 (5%)
Query: 128 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGKITPAQVREA--EKSLKIMEAMIEAMTPEE 185
FD NDFL+Q R G + + G +PG G+I P V+ +K L EA+I + T +E
Sbjct: 2 FDLNDFLEQLRQXKNXGGXASLXGKLPGXGQI-PDNVKSQXDDKVLVRXEAIINSXTXKE 60
Query: 186 REKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQL 220
R KPE++ S R++R+A SG Q V++L+ Q
Sbjct: 61 RAKPEIIKGS--RKRRIAAGSGXQVQDVNRLLKQF 93
>pdb|1MFQ|C Chain C, Crystal Structure Analysis Of A Ternary S-Domain Complex
Of Human Signal Recognition Particle
Length = 129
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 61/113 (53%), Gaps = 5/113 (4%)
Query: 126 ANFDFNDFLKQTRTVARMGSMSRVIGMIPGMGK--ITPAQVREAEKSLKIMEAMIEAMTP 183
F D +Q + + +MG S+++GMIPG G ++ +E+ LK + ++++M
Sbjct: 13 GQFTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMND 72
Query: 184 EEREKPE---LLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRMKNLMGV 233
+E + + + ++ P R +RVA+ SG + + V +L+ Q + +K + G+
Sbjct: 73 QELDSTDGAKVFSKQPGRIQRVARGSGVSTRDVQELLTQYTKFAQMVKKMGGI 125
>pdb|1QB2|A Chain A, Crystal Structure Of The Conserved Subdomain Of Human
Protein Srp54m At 2.1a Resolution: Evidence For The
Mechanism Of Signal Peptide Binding
pdb|1QB2|B Chain B, Crystal Structure Of The Conserved Subdomain Of Human
Protein Srp54m At 2.1a Resolution: Evidence For The
Mechanism Of Signal Peptide Binding
pdb|1RY1|W Chain W, Structure Of The Signal Recognition Particle Interacting
With The Elongation-Arrested Ribosome
pdb|2GO5|W Chain W, Structure Of Signal Recognition Particle Receptor (Sr) In
Complex With Signal Recognition Particle (Srp) And
Ribosome Nascent Chain Complex
Length = 109
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 55/98 (56%), Gaps = 5/98 (5%)
Query: 128 FDFNDFLKQTRTVARMGSMSRVIGMIPGMGK--ITPAQVREAEKSLKIMEAMIEAMTPEE 185
F D +Q + + +MG S+++GMIPG G ++ +E+ LK + ++++M +E
Sbjct: 2 FTLRDMYEQFQNIMKMGPFSQILGMIPGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQE 61
Query: 186 REKPE---LLAESPVRRKRVAQDSGKTEQQVSQLVAQL 220
+ + + ++ P R +RVA+ SG + + V +L+ Q
Sbjct: 62 LDSTDGAKVFSKQPGRIQRVARGSGVSTRDVQELLTQY 99
>pdb|2JQE|A Chain A, Soution Structure Of Af54 M-Domain
Length = 119
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 50/94 (53%), Gaps = 4/94 (4%)
Query: 126 ANFDFNDFLKQTRTVARMGSMSRVIGMIP-GMGKITPAQVRE-AEKSLKIMEAMIEAMTP 183
F D KQ + +MG + ++ M+P G+G V E ++ +K ++++MT
Sbjct: 8 GTFTLKDIYKQIEAMNKMGPVRKIFEMLPFGLGLKVDNDVMEMTQEKMKKFRVIMDSMTE 67
Query: 184 EEREKPELLAESPVRRKRVAQDSGKTEQQVSQLV 217
EE P+++ S +R R+A SG + Q+V +L+
Sbjct: 68 EELLNPKIIDSSRIR--RIAIGSGTSPQEVKELL 99
>pdb|2XKV|C Chain C, Atomic Model Of The Srp-Ftsy Early Conformation
Length = 69
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 40/63 (63%), Gaps = 2/63 (3%)
Query: 168 EKSLKIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQLFQMRVRM 227
+K L MEA+I +MT +ER KPE++ S R++R+A SG Q V++L+ Q M+ M
Sbjct: 9 QKVLVRMEAIINSMTMKERAKPEIIKGS--RKRRIAAGSGMQVQDVNRLLKQFDDMQRMM 66
Query: 228 KNL 230
K +
Sbjct: 67 KKM 69
>pdb|1DUL|A Chain A, Structure Of The Ribonucleoprotein Core Of The E. Coli
Signal Recognition Particle
Length = 69
Score = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 33/53 (62%), Gaps = 2/53 (3%)
Query: 168 EKSLKIMEAMIEAMTPEEREKPELLAESPVRRKRVAQDSGKTEQQVSQLVAQL 220
+K L EA+I + T +ER KPE++ S R++R+A SG Q V++L+ Q
Sbjct: 9 QKVLVRXEAIINSXTXKERAKPEIIKGS--RKRRIAAGSGXQVQDVNRLLKQF 59
>pdb|2WV9|A Chain A, Crystal Structure Of The Ns3 Protease-Helicase From Murray
Valley Encephalitis Virus
Length = 673
Score = 30.8 bits (68), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 71/148 (47%), Gaps = 12/148 (8%)
Query: 35 TFNIEIGITGAILTKLDGDSRGGAALSVKEVSGKPIKLVGRGERMEDLEP--FYPDRMAG 92
+ + IG +G+ + +G+ G V +G + + +GER+E+ P + P+ +
Sbjct: 181 SLDYPIGTSGSPIVNSNGEIIGLYGNGVILGNGAYVSAIVQGERVEEPVPEAYNPEMLKK 240
Query: 93 RILGMGDVLSFVEKAQEVMQQEDAEEMQKKIMSANFDFNDFLKQTRTVARMGSMSRVIGM 152
R L + D+ K + ++ Q + +QK++ +A L TR VA M+ +
Sbjct: 241 RQLTVLDLHPGAGKTRRILPQIIKDAIQKRLRTA------VLAPTRVVA--AEMAEALRG 292
Query: 153 IPGMGKITPAQVREAEKSLKIMEAMIEA 180
+P + +TPA RE + +I++ M A
Sbjct: 293 LP-VRYLTPAVQREHSGN-EIVDVMCHA 318
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
0.315 0.131 0.354
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,569,463
Number of Sequences: 62578
Number of extensions: 285036
Number of successful extensions: 642
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 566
Number of HSP's gapped (non-prelim): 62
length of query: 289
length of database: 14,973,337
effective HSP length: 98
effective length of query: 191
effective length of database: 8,840,693
effective search space: 1688572363
effective search space used: 1688572363
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)