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= 008816
(552 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 130 bits (327), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 73/177 (41%), Positives = 106/177 (59%), Gaps = 3/177 (1%)
Query: 334 DLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAAMEEALVRI 393
D++ AL L+ L+ +VA E+ + L E + L GKK+ T I++ A++EA+ I
Sbjct: 51 DVDKALDELEIDLLEADVALEVVDALREKIKQKLVGKKVRIGTDKGKIIEEAVKEAVSEI 110
Query: 394 LTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDT 453
L R ID++ ++ A+ KPY K+T +AK+A WL H SV++AA DT
Sbjct: 111 LETSRRIDLIEEIRKAE---KPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDT 167
Query: 454 FRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
FR+GA+EQL HA+R+ V + + Y DPA VA +AIQ A G DVVL+DTAGR +
Sbjct: 168 FRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQHAKARGIDVVLIDTAGRSE 224
>pdb|3DM9|B Chain B, Structures And Conformations In Solution Of The Signal
Recognition Particle Receptor From The Archaeon
Pyrococcus Furiosus
Length = 328
Score = 130 bits (327), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 74/177 (41%), Positives = 107/177 (60%), Gaps = 3/177 (1%)
Query: 334 DLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAAMEEALVRI 393
D++ AL L+ L+ +VA E+ + L E + L GKK+ T I++ A++EA+ I
Sbjct: 51 DVDKALDELEIDLLEADVALEVVDALREKIKQKLVGKKVRIGTDKGKIIEEAVKEAVSEI 110
Query: 394 LTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDT 453
L R ID++ ++ A+ KPY K+T +AK+A WL H SV++AA DT
Sbjct: 111 LETSRRIDLIEEIRKAE---KPYVIXFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDT 167
Query: 454 FRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
FR+GA+EQL HA+R+ V + + Y DPA VA +AIQ A G DVVL+DTAGR +
Sbjct: 168 FRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQHAKARGIDVVLIDTAGRSE 224
>pdb|2FH5|A Chain A, The Structure Of The Mammalian Srp Receptor
pdb|2GO5|1 Chain 1, Structure Of Signal Recognition Particle Receptor (Sr) In
Complex With Signal Recognition Particle (Srp) And
Ribosome Nascent Chain Complex
Length = 185
Score = 75.9 bits (185), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 40/99 (40%), Positives = 62/99 (62%), Gaps = 5/99 (5%)
Query: 1 MLEQLLIFTRGGLILWTCKELGNALKGSPIDTLIRSCLLEERSGLASFNYDSAGAAYTLK 60
M++ IF++GGL+LW + + ++ G P++ LIRS LL+ER G SF ++ A TLK
Sbjct: 10 MVDFFTIFSKGGLVLWCFQGVSDSCTG-PVNALIRSVLLQERGGNNSFTHE----ALTLK 64
Query: 61 WTFHNELGLVFVAVYQRILHLLYVDDLLAMMKQSFSEIY 99
+ N+ LVFV +Q+IL L YVD L+ + + F + Y
Sbjct: 65 YKLDNQFELVFVVGFQKILTLTYVDKLIDDVHRLFRDKY 103
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 54/100 (54%)
Query: 411 EQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQ 470
E + P+ K+T + K+A Q SVM+AA DTFR+ AVEQL+ +R
Sbjct: 89 EGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNN 148
Query: 471 VPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
+P+ + D A V +AIQ A DV++ DTAGR+Q
Sbjct: 149 IPVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQ 188
>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 = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 54/100 (54%)
Query: 411 EQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQ 470
E + P+ K+T + K+A Q SVM+AA DTFR+ AVEQL+ +R
Sbjct: 94 EGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNN 153
Query: 471 VPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
+P+ + D A V +AIQ A DV++ DTAGR+Q
Sbjct: 154 IPVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQ 193
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
Receptor Ftsy
Length = 309
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 54/100 (54%)
Query: 411 EQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQ 470
E + P+ K+T + K+A Q SVM+AA DTFR+ AVEQL+ +R
Sbjct: 95 EGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNN 154
Query: 471 VPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
+P+ + D A V +AIQ A DV++ DTAGR+Q
Sbjct: 155 IPVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQ 194
>pdb|2J37|W Chain W, Model Of Mammalian Srp Bound To 80s Rncs
Length = 504
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 46/193 (23%), Positives = 99/193 (51%), Gaps = 9/193 (4%)
Query: 317 FSSMFQSIAGKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFT 376
+S +S++ +++ L LK + L+ +V ++ ++L E+V ++++ +++AS
Sbjct: 10 ITSALRSLSNATIINEEVLNAMLKEVCTALLEADVNIKLVKQLRENVKSAIDLEEMASGL 69
Query: 377 RISSIVQAAMEEALVRILTPRRSIDILRDVHA-AKEQRKPYXXXXXXXXXXXKSTNLAKV 435
++Q A+ + LV+++ P V A + K K+T +K+
Sbjct: 70 NKRKMIQHAVFKELVKLVDP--------GVKAWTPTKGKQNVIMFVGLQGSGKTTTCSKL 121
Query: 436 AYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATR 495
AY+ + + DTFR+GA +QL+ +A + ++P + E DP I+A E +++
Sbjct: 122 AYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEKFKN 181
Query: 496 NGSDVVLVDTAGR 508
++++VDT+GR
Sbjct: 182 ENFEIIIVDTSGR 194
>pdb|2YHS|A Chain A, Structure Of The E. Coli Srp Receptor Ftsy
Length = 503
Score = 67.4 bits (163), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 54/100 (54%)
Query: 411 EQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQ 470
E + P+ K+T + K+A Q SVM+AA DTFR+ AVEQL+ +R
Sbjct: 289 EGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNN 348
Query: 471 VPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
+P+ + D A V +AIQ A DV++ DTAGR+Q
Sbjct: 349 IPVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQ 388
>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 = 65.1 bits (157), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 53/183 (28%), Positives = 92/183 (50%), Gaps = 12/183 (6%)
Query: 329 NLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAAMEE 388
NLD++ E L L++ L+ + + A K+ +++ + +L S +I + A+++
Sbjct: 41 NLDES--ESILDELEEVLLVSDFGPKTALKIVDTIRKDILAGRLKSGPQI----KEALKK 94
Query: 389 ALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMM 448
+ ++LT R + L+ ++ +P K+T L K+A + V V+M
Sbjct: 95 NIFKLLTERVTTTELQLGNS-----RPAVLMIVGVNGGGKTTTLGKLANRFKKEGVKVLM 149
Query: 449 AACDTFRSGAVEQLRTHARRLQVPI-FEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAG 507
AA DTFR+ A EQL A+R I +G + PA V +A++ A DVVL DT+G
Sbjct: 150 AAGDTFRAAAGEQLEVWAQRTGSEIVMAEGPKPRPAAVLSQAVRRAVEEDFDVVLCDTSG 209
Query: 508 RMQ 510
R+
Sbjct: 210 RLH 212
>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 = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 90/193 (46%), Gaps = 10/193 (5%)
Query: 317 FSSMFQSIAGKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAA-SLEGKKLASF 375
++ + IA +++D+A ++ ++ ++ L+ +V + +L + +LE K A
Sbjct: 10 LANTLKKIARASSVDEALIKELVRDIQRALIQADVNVRLVLQLTREIQRRALEEKPPAGI 69
Query: 376 TRISSIVQAAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKV 435
++ I++ EE + T + I+I + KP K+T +AK+
Sbjct: 70 SKKEHIIKIVYEELTKFLGTEAKPIEI---------KEKPTILLMVGIQGSGKTTTVAKL 120
Query: 436 AYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATR 495
A + + V + DT+R GA QLR R + +F EKD +AKE +
Sbjct: 121 ARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYFKS 180
Query: 496 NGSDVVLVDTAGR 508
G D+++VDTAGR
Sbjct: 181 KGVDIIIVDTAGR 193
>pdb|2IY3|A Chain A, Structure Of The E. Coli Signal Recognition Particle Bound
To A Translating Ribosome
Length = 432
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 48/188 (25%), Positives = 85/188 (45%), Gaps = 9/188 (4%)
Query: 324 IAGKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQ 383
+ G+ + + DL+ L+ ++ LM +V E+A E V GK++ + ++
Sbjct: 16 LRGRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEALGKQVLESLTPAEVIL 75
Query: 384 AAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHK 443
A + EAL L + +L+D + K+T AK+A +
Sbjct: 76 ATVYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKG 126
Query: 444 VSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLV 503
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LV
Sbjct: 127 RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILV 186
Query: 504 DTAGRMQV 511
DTAGR+Q+
Sbjct: 187 DTAGRLQI 194
>pdb|2OG2|A Chain A, Crystal Structure Of Chloroplast Ftsy From Arabidopsis
Thaliana
Length = 359
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 51/179 (28%), Positives = 86/179 (48%), Gaps = 10/179 (5%)
Query: 333 ADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAAMEEALVR 392
A+ + L L++ L+ + +I ++ E + + KL S S ++ A++E+++
Sbjct: 84 AETDRVLDELEEALLVSDFGPKITVRIVERLREDIMSGKLKS----GSEIKDALKESVLE 139
Query: 393 ILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACD 452
+L + S L+ RKP K+T+L K+A+ L V+MAA D
Sbjct: 140 MLAKKNSKTELQLGF-----RKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGD 194
Query: 453 TFRSGAVEQLRTHARRLQVPI-FEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
TFR+ A +QL A R I +G + A V +A++ G DVVL DT+GR+
Sbjct: 195 TFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAVKRGKEEGYDVVLCDTSGRLH 253
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 63/134 (47%), Gaps = 5/134 (3%)
Query: 382 VQAAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXX-----KSTNLAKVA 436
++ A++E LV +L P LR + ++ KP K+T +AK+
Sbjct: 63 LKEAVKEKLVGMLEPDERRATLRKLGFNPQKPKPVEPKGRVVLVVGVNGVGKTTTIAKLG 122
Query: 437 YWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRN 496
+ VM A DTFR+ QL +RL +P+ + DPA +A +A+Q
Sbjct: 123 RYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMKAR 182
Query: 497 GSDVVLVDTAGRMQ 510
G D++ VDTAGR+
Sbjct: 183 GYDLLFVDTAGRLH 196
>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 = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 63/134 (47%), Gaps = 5/134 (3%)
Query: 382 VQAAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXX-----KSTNLAKVA 436
++ A++E LV +L P LR + ++ KP K+T +AK+
Sbjct: 64 LKEAVKEKLVGMLEPDERRATLRKLGFNPQKPKPVEPKGRVVLVVGVNGVGKTTTIAKLG 123
Query: 437 YWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRN 496
+ VM A DTFR+ QL +RL +P+ + DPA +A +A+Q
Sbjct: 124 RYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMKAR 183
Query: 497 GSDVVLVDTAGRMQ 510
G D++ VDTAGR+
Sbjct: 184 GYDLLFVDTAGRLH 197
>pdb|3B9Q|A Chain A, The Crystal Structure Of Cpftsy From Arabidopsis Thaliana
Length = 302
Score = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 51/179 (28%), Positives = 86/179 (48%), Gaps = 10/179 (5%)
Query: 333 ADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAAMEEALVR 392
A+ + L L++ L+ + +I ++ E + + KL S + I + A++E+++
Sbjct: 27 AETDRVLDELEEALLVSDFGPKITVRIVERLREDIMSGKLKSGSEI----KDALKESVLE 82
Query: 393 ILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACD 452
+L + S L+ RKP K+T+L K+A+ L V+MAA D
Sbjct: 83 MLAKKNSKTELQLGF-----RKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGD 137
Query: 453 TFRSGAVEQLRTHARRLQVPI-FEKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
TFR+ A +QL A R I +G + A V +A++ G DVVL DT+GR+
Sbjct: 138 TFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAVKRGKEEGYDVVLCDTSGRLH 196
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 63/134 (47%), Gaps = 5/134 (3%)
Query: 382 VQAAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXX-----KSTNLAKVA 436
++ A++E LV +L P LR + ++ KP K+T +AK+
Sbjct: 43 LKEAVKEKLVGMLEPDERRATLRKLGFNPQKPKPVEPKGRVVLVVGVNGVGKTTTIAKLG 102
Query: 437 YWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRN 496
+ VM A DTFR+ QL +RL +P+ + DPA +A +A+Q
Sbjct: 103 RYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMKAR 162
Query: 497 GSDVVLVDTAGRMQ 510
G D++ VDTAGR+
Sbjct: 163 GYDLLFVDTAGRLH 176
>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 = 63.2 bits (152), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 40/134 (29%), Positives = 63/134 (47%), Gaps = 5/134 (3%)
Query: 382 VQAAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXX-----KSTNLAKVA 436
++ A++E LV +L P LR + ++ KP K+T +AK+
Sbjct: 44 LKEAVKEKLVGMLEPDERRATLRKLGFNPQKPKPVEPKGRVVLVVGVNGVGKTTTIAKLG 103
Query: 437 YWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRN 496
+ VM A DTFR+ QL +RL +P+ + DPA +A +A+Q
Sbjct: 104 RYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQAMKAR 163
Query: 497 GSDVVLVDTAGRMQ 510
G D++ VDTAGR+
Sbjct: 164 GYDLLFVDTAGRLH 177
>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 = 62.4 bits (150), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 48/186 (25%), Positives = 84/186 (45%), Gaps = 9/186 (4%)
Query: 326 GKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAA 385
G+ + + DL+ L+ ++ LM +V E+A E V GK++ + ++ A
Sbjct: 18 GRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEALGKQVLESLTPAEVILAT 77
Query: 386 MEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVS 445
+ EAL L + +L+D + K+T AK+A +
Sbjct: 78 VYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKGRR 128
Query: 446 VMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDT 505
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LVDT
Sbjct: 129 PLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDT 188
Query: 506 AGRMQV 511
AGR+Q+
Sbjct: 189 AGRLQI 194
>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 = 62.0 bits (149), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 48/186 (25%), Positives = 84/186 (45%), Gaps = 9/186 (4%)
Query: 326 GKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAA 385
G+ + + DL+ L+ ++ LM +V E+A E V GK++ + ++ A
Sbjct: 18 GRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEALGKQVLESLTPAEVILAT 77
Query: 386 MEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVS 445
+ EAL L + +L+D + K+T AK+A +
Sbjct: 78 VYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKGRR 128
Query: 446 VMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDT 505
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LVDT
Sbjct: 129 PLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDT 188
Query: 506 AGRMQV 511
AGR+Q+
Sbjct: 189 AGRLQI 194
>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 = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 48/186 (25%), Positives = 84/186 (45%), Gaps = 9/186 (4%)
Query: 326 GKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAA 385
G+ + + DL+ L+ ++ LM +V E+A E V GK++ + ++ A
Sbjct: 18 GRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEALGKQVLESLTPAEVILAT 77
Query: 386 MEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVS 445
+ EAL L + +L+D + K+T AK+A +
Sbjct: 78 VYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKGRR 128
Query: 446 VMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDT 505
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LVDT
Sbjct: 129 PLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDT 188
Query: 506 AGRMQV 511
AGR+Q+
Sbjct: 189 AGRLQI 194
>pdb|1LS1|A Chain A, T. Aquaticus Ffh Ng Domain At 1.1a Resolution
Length = 295
Score = 62.0 bits (149), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 48/186 (25%), Positives = 84/186 (45%), Gaps = 9/186 (4%)
Query: 326 GKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAA 385
G+ + + DL+ L+ ++ LM +V E+A E V GK++ + ++ A
Sbjct: 18 GRGRITEEDLKATLREIRRALMDADVNLEVARDFVERVREEALGKQVLESLTPAEVILAT 77
Query: 386 MEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVS 445
+ EAL L + +L+D + K+T AK+A +
Sbjct: 78 VYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKGRR 128
Query: 446 VMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDT 505
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LVDT
Sbjct: 129 PLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDT 188
Query: 506 AGRMQV 511
AGR+Q+
Sbjct: 189 AGRLQI 194
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 47/186 (25%), Positives = 83/186 (44%), Gaps = 9/186 (4%)
Query: 326 GKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAA 385
G+ + + DL+ L+ ++ LM +V E+ E V GK++ + ++ A
Sbjct: 18 GRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALGKQVLESLTPAEVILAT 77
Query: 386 MEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVS 445
+ EAL L + +L+D + K+T AK+A +
Sbjct: 78 VYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKGRR 128
Query: 446 VMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDT 505
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LVDT
Sbjct: 129 PLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDT 188
Query: 506 AGRMQV 511
AGR+Q+
Sbjct: 189 AGRLQI 194
>pdb|2NG1|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition
Protein Ffh From Thermus Aquaticus
Length = 293
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 47/186 (25%), Positives = 83/186 (44%), Gaps = 9/186 (4%)
Query: 326 GKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAA 385
G+ + + DL+ L+ ++ LM +V E+ E V GK++ + ++ A
Sbjct: 17 GRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALGKQVLESLTPAEVILAT 76
Query: 386 MEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVS 445
+ EAL L + +L+D + K+T AK+A +
Sbjct: 77 VYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKGRR 127
Query: 446 VMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDT 505
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LVDT
Sbjct: 128 PLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDT 187
Query: 506 AGRMQV 511
AGR+Q+
Sbjct: 188 AGRLQI 193
>pdb|1FFH|A Chain A, N And Gtpase Domains Of The Signal Sequence Recognition
Protein Ffh From Thermus Aquaticus
Length = 294
Score = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 47/186 (25%), Positives = 83/186 (44%), Gaps = 9/186 (4%)
Query: 326 GKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAA 385
G+ + + DL+ L+ ++ LM +V E+ E V GK++ + ++ A
Sbjct: 17 GRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALGKQVLESLTPAEVILAT 76
Query: 386 MEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVS 445
+ EAL L + +L+D + K+T AK+A +
Sbjct: 77 VYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKGRR 127
Query: 446 VMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDT 505
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LVDT
Sbjct: 128 PLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDT 187
Query: 506 AGRMQV 511
AGR+Q+
Sbjct: 188 AGRLQI 193
>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 = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 47/188 (25%), Positives = 84/188 (44%), Gaps = 9/188 (4%)
Query: 324 IAGKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQ 383
+ G+ + + DL+ L+ ++ LM +V E+ E V GK++ + ++
Sbjct: 16 LRGRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALGKQVLESLTPAEVIL 75
Query: 384 AAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHK 443
A + EAL L + +L+D + K+T AK+A +
Sbjct: 76 ATVYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKG 126
Query: 444 VSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLV 503
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LV
Sbjct: 127 RRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILV 186
Query: 504 DTAGRMQV 511
DTAGR+Q+
Sbjct: 187 DTAGRLQI 194
>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 = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 47/186 (25%), Positives = 83/186 (44%), Gaps = 9/186 (4%)
Query: 326 GKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQAA 385
G+ + + DL+ L+ ++ LM +V E+ E V GK++ + ++ A
Sbjct: 18 GRGRITEEDLKATLREIRRALMDADVNLEVTRDFVERVREEALGKQVLESLTPAEVILAT 77
Query: 386 MEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHKVS 445
+ EAL L + +L+D + K+T AK+A +
Sbjct: 78 VYEALKEALGGEARLPVLKDRN---------LWFLVGLQGSGKTTTAAKLALYYKGKGRR 128
Query: 446 VMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLVDT 505
++ A DT R A EQLR ++ VP+ E + P + + ++A D++LVDT
Sbjct: 129 PLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKARLEARDLILVDT 188
Query: 506 AGRMQV 511
AGR+Q+
Sbjct: 189 AGRLQI 194
>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 = 59.7 bits (143), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 62/134 (46%), Gaps = 5/134 (3%)
Query: 382 VQAAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXX-----KSTNLAKVA 436
++ A++E LV +L P LR + ++ KP K+T +AK+
Sbjct: 64 LKEAVKEKLVGMLEPDERRATLRKLGFNPQKPKPVEPKGRVVLVVGVNGVGKTTTIAKLG 123
Query: 437 YWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRN 496
+ VM A DTFR+ QL +RL +P+ + D A +A +A+Q
Sbjct: 124 RYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDSAALAYDAVQAMKAR 183
Query: 497 GSDVVLVDTAGRMQ 510
G D++ VDTAGR+
Sbjct: 184 GYDLLFVDTAGRLH 197
>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 = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 48/200 (24%), Positives = 94/200 (47%), Gaps = 10/200 (5%)
Query: 314 TGWFSSMFQSIAGKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKL- 372
T S ++I+G+ L + +++ L+ ++ L+ +VA + + V G ++
Sbjct: 6 TDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAVGHEVN 65
Query: 373 ASFTRISSIVQAAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNL 432
S T V+ E + + +++++ AA+ P K+T++
Sbjct: 66 KSLTPGQEFVKIVRNELVAAMGEENQTLNL-----AAQ---PPAVVLMAGLQGAGKTTSV 117
Query: 433 AKVAYWLLQ-HKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQ 491
K+ +L + HK V++ + D +R A++QL T A ++ V F + P + A++
Sbjct: 118 GKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALK 177
Query: 492 EATRNGSDVVLVDTAGRMQV 511
EA DV+LVDTAGR+ V
Sbjct: 178 EAKLKFYDVLLVDTAGRLHV 197
>pdb|2J28|9 Chain 9, Model Of E. Coli Srp Bound To 70s Rncs
Length = 430
Score = 58.2 bits (139), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 48/200 (24%), Positives = 94/200 (47%), Gaps = 10/200 (5%)
Query: 314 TGWFSSMFQSIAGKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKL- 372
T S ++I+G+ L + +++ L+ ++ L+ +VA + + V G ++
Sbjct: 5 TDRLSRTLRNISGRGRLTEDNVKDTLREVRMALLEADVALPVVREFINRVKEKAVGHEVN 64
Query: 373 ASFTRISSIVQAAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNL 432
S T V+ E + + +++++ AA+ P K+T++
Sbjct: 65 KSLTPGQEFVKIVRNELVAAMGEENQTLNL-----AAQP---PAVVLMAGLQGAGKTTSV 116
Query: 433 AKVAYWLLQ-HKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQ 491
K+ +L + HK V++ + D +R A++QL T A ++ V F + P + A++
Sbjct: 117 GKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALK 176
Query: 492 EATRNGSDVVLVDTAGRMQV 511
EA DV+LVDTAGR+ V
Sbjct: 177 EAKLKFYDVLLVDTAGRLHV 196
>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 = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 35/87 (40%), Positives = 55/87 (63%), Gaps = 4/87 (4%)
Query: 428 KSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHAR-RL--QVPIFEKG-YEKDPA 483
K+T+LAK+A + + V++AA DTFR+GA +QL + RL +V + + DPA
Sbjct: 118 KTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLEEWIKTRLNNKVDLVKANKLNADPA 177
Query: 484 IVAKEAIQEATRNGSDVVLVDTAGRMQ 510
V +AI++A D++L+DTAGR+Q
Sbjct: 178 SVVFDAIKKAKEQNYDLLLIDTAGRLQ 204
>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 = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 51/82 (62%), Gaps = 3/82 (3%)
Query: 428 KSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIF-EKGYEKDPAIVA 486
K+T AK+A ++ + + + A DT+R A EQL+ A ++ VPI+ ++ K P +
Sbjct: 112 KTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIV 171
Query: 487 KEAIQEATRNGSDVVLVDTAGR 508
KE +++ + +DV+++DTAGR
Sbjct: 172 KEGMEKFKK--ADVLIIDTAGR 191
>pdb|3NDB|B Chain B, Crystal Structure Of A Signal Sequence Bound To The Signal
Recognition Particle
Length = 454
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 51/82 (62%), Gaps = 3/82 (3%)
Query: 428 KSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIF-EKGYEKDPAIVA 486
K+T AK+A ++ + + + A DT+R A EQL+ A ++ VPI+ ++ K P +
Sbjct: 112 KTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIV 171
Query: 487 KEAIQEATRNGSDVVLVDTAGR 508
KE +++ + +DV+++DTAGR
Sbjct: 172 KEGMEKFKK--ADVLIIDTAGR 191
>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 = 52.0 bits (123), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 47/94 (50%)
Query: 415 PYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIF 474
P+ K+T K+AY+ + V + A D +R A +QL ++ V ++
Sbjct: 104 PFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVY 163
Query: 475 EKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGR 508
+ ++P +AK+ + +N D+++VDTAGR
Sbjct: 164 GEPNNQNPIEIAKKGVDIFVKNKMDIIIVDTAGR 197
>pdb|3KL4|A Chain A, Recognition Of A Signal Peptide By The Signal Recognition
Particle
Length = 433
Score = 52.0 bits (123), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 47/94 (50%)
Query: 415 PYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIF 474
P+ K+T K+AY+ + V + A D +R A +QL ++ V ++
Sbjct: 97 PFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVY 156
Query: 475 EKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGR 508
+ ++P +AK+ + +N D+++VDTAGR
Sbjct: 157 GEPNNQNPIEIAKKGVDIFVKNKMDIIIVDTAGR 190
>pdb|2PX0|A Chain A, Crystal Structure Of Flhf Complexed With GmppnpMG(2+)
pdb|2PX0|B Chain B, Crystal Structure Of Flhf Complexed With GmppnpMG(2+)
pdb|2PX0|C Chain C, Crystal Structure Of Flhf Complexed With GmppnpMG(2+)
pdb|2PX0|D Chain D, Crystal Structure Of Flhf Complexed With GmppnpMG(2+)
pdb|2PX0|E Chain E, Crystal Structure Of Flhf Complexed With GmppnpMG(2+)
pdb|2PX0|F Chain F, Crystal Structure Of Flhf Complexed With GmppnpMG(2+)
pdb|2PX0|G Chain G, Crystal Structure Of Flhf Complexed With GmppnpMG(2+)
pdb|2PX0|H Chain H, Crystal Structure Of Flhf Complexed With GmppnpMG(2+)
pdb|2PX3|A Chain A, Crystal Structure Of Flhf Complexed With GtpMG(2+)
pdb|3SYN|A Chain A, Crystal Structure Of Flhf In Complex With Its Activator
pdb|3SYN|B Chain B, Crystal Structure Of Flhf In Complex With Its Activator
pdb|3SYN|C Chain C, Crystal Structure Of Flhf In Complex With Its Activator
pdb|3SYN|D Chain D, Crystal Structure Of Flhf In Complex With Its Activator
Length = 296
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/82 (42%), Positives = 45/82 (54%), Gaps = 7/82 (8%)
Query: 428 KSTNLAKVA-YWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVA 486
K+T LAK+A +L+ + DT+R AVEQL+T+A LQ P+ E Y K+ A
Sbjct: 118 KTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPL-EVCYTKEEFQQA 176
Query: 487 KEAIQEATRNGSDVVLVDTAGR 508
KE E D V VDTAGR
Sbjct: 177 KELFSEY-----DHVFVDTAGR 193
>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens
Length = 297
Score = 50.4 bits (119), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/185 (22%), Positives = 86/185 (46%), Gaps = 8/185 (4%)
Query: 324 IAGKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQ 383
+ G ++ DKA +E +K L+ L++ +V ++ L + L+ +K ++
Sbjct: 15 LTGSSSYDKA-VEDFIKELQKSLISADVNVKLVFSLTNKIKERLKNEKPPTYIERREWFI 73
Query: 384 AAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHK 443
+ + L + + ++ D + PY K+T K+AY+ +
Sbjct: 74 KIVYDELSNLFGGDKEPKVIPD-------KIPYVIMLVGVQGTGKTTTAGKLAYFYKKKG 126
Query: 444 VSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLV 503
V + D +R A+EQL+ +++ VP++ + EKD +AK +++ ++++V
Sbjct: 127 FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEKMEIIIV 186
Query: 504 DTAGR 508
DTAGR
Sbjct: 187 DTAGR 191
>pdb|1J8Y|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens T112a Mutant
Length = 297
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/185 (22%), Positives = 86/185 (46%), Gaps = 8/185 (4%)
Query: 324 IAGKANLDKADLEPALKALKDRLMTKNVAEEIAEKLCESVAASLEGKKLASFTRISSIVQ 383
+ G ++ DKA +E +K L+ L++ +V ++ L + L+ +K ++
Sbjct: 15 LTGSSSYDKA-VEDFIKELQKSLISADVNVKLVFSLTNKIKERLKNEKPPTYIERREWFI 73
Query: 384 AAMEEALVRILTPRRSIDILRDVHAAKEQRKPYXXXXXXXXXXXKSTNLAKVAYWLLQHK 443
+ + L + + ++ D + PY K+T K+AY+ +
Sbjct: 74 KIVYDELSNLFGGDKEPKVIPD-------KIPYVIMLVGVQGTGKATTAGKLAYFYKKKG 126
Query: 444 VSVMMAACDTFRSGAVEQLRTHARRLQVPIFEKGYEKDPAIVAKEAIQEATRNGSDVVLV 503
V + D +R A+EQL+ +++ VP++ + EKD +AK +++ ++++V
Sbjct: 127 FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEKMEIIIV 186
Query: 504 DTAGR 508
DTAGR
Sbjct: 187 DTAGR 191
>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 = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 50/96 (52%)
Query: 415 PYXXXXXXXXXXXKSTNLAKVAYWLLQHKVSVMMAACDTFRSGAVEQLRTHARRLQVPIF 474
P+ K+T+ K+A + SV++AA DTFR+ A+EQL+ R+ +
Sbjct: 104 PFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVI 163
Query: 475 EKGYEKDPAIVAKEAIQEATRNGSDVVLVDTAGRMQ 510
DPA VA +A+ A DVV++DTAGR+
Sbjct: 164 SHSEGADPAAVAFDAVAHALARNKDVVIIDTAGRLH 199
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
0.317 0.132 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,472,446
Number of Sequences: 62578
Number of extensions: 478112
Number of successful extensions: 1493
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1434
Number of HSP's gapped (non-prelim): 39
length of query: 552
length of database: 14,973,337
effective HSP length: 104
effective length of query: 448
effective length of database: 8,465,225
effective search space: 3792420800
effective search space used: 3792420800
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)