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= 036298
(368 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SIU|B Chain B, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIU|E Chain E, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIV|B Chain B, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|E Chain E, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|H Chain H, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|K Chain K, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
Length = 254
Score = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 66/239 (27%), Positives = 111/239 (46%), Gaps = 24/239 (10%)
Query: 113 IENEIVSNHNFIRDSYRSKFGDLECLLPRPLHYALLAKAISTAGPRLEEVVDITSAEYFS 172
IENE+ H FIRD Y +F +LE L+P L Y + + G L++
Sbjct: 24 IENELNIIHKFIRDKYSKRFPELESLVPNALDYI---RTVKELGNSLDK----------- 69
Query: 173 LPCRLKEDLSDETQDRLVKVFKESPISRSWEPLPEDVLQMTMDACDRVIALDSEKKMLFD 232
C+ E+L + + V + + + L E+ L+ +ACD + L++ K +++
Sbjct: 70 --CKNNENLQQILTNATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNASKHRIYE 127
Query: 233 VLTSKVVHVAPNLCEVVGSXXXXXXXXXXXXXXTNLANMPASEIEVLGRQKSDNISF--- 289
+ S++ +APNL ++G+ TNL+ MPA I +LG Q+ F
Sbjct: 128 YVESRMSFIAPNLSIIIGA-STAAKIMGVAGGLTNLSKMPACNIMLLGAQRKTLSGFSST 186
Query: 290 ----YEGYLESTEMFQATTLCMRERARQLLAEKLKEAASVDLKRGDVSGSAGRALRDEI 344
+ GY+ +++ Q+ +R +A +L+A K AA VD G G L+DEI
Sbjct: 187 SVLPHTGYIYHSDIVQSLPPDLRRKAARLVAAKCTLAARVDSFHESTEGKVGYELKDEI 245
>pdb|2OZB|B Chain B, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
pdb|2OZB|E Chain E, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
Length = 260
Score = 86.3 bits (212), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 66/239 (27%), Positives = 111/239 (46%), Gaps = 24/239 (10%)
Query: 113 IENEIVSNHNFIRDSYRSKFGDLECLLPRPLHYALLAKAISTAGPRLEEVVDITSAEYFS 172
IENE+ H FIRD Y +F +LE L+P L Y + + G L++
Sbjct: 30 IENELNIIHKFIRDKYSKRFPELESLVPNALDYI---RTVKELGNSLDK----------- 75
Query: 173 LPCRLKEDLSDETQDRLVKVFKESPISRSWEPLPEDVLQMTMDACDRVIALDSEKKMLFD 232
C+ E+L + + V + + + L E+ L+ +ACD + L++ K +++
Sbjct: 76 --CKNNENLQQILTNATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNASKHRIYE 133
Query: 233 VLTSKVVHVAPNLCEVVGSXXXXXXXXXXXXXXTNLANMPASEIEVLGRQKSDNISF--- 289
+ S++ +APNL ++G+ TNL+ MPA I +LG Q+ F
Sbjct: 134 YVESRMSFIAPNLSIIIGA-STAAKIMGVAGGLTNLSKMPACNIMLLGAQRKTLSGFSST 192
Query: 290 ----YEGYLESTEMFQATTLCMRERARQLLAEKLKEAASVDLKRGDVSGSAGRALRDEI 344
+ GY+ +++ Q+ +R +A +L+A K AA VD G G L+DEI
Sbjct: 193 SVLPHTGYIYHSDIVQSLPPDLRRKAARLVAAKCTLAARVDSFHESTEGKVGYELKDEI 251
>pdb|3NMU|A Chain A, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|B Chain B, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVI|A Chain A, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVI|C Chain C, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
Length = 379
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 63/261 (24%), Positives = 107/261 (40%), Gaps = 37/261 (14%)
Query: 107 IDQLESIENEIVSNHNFIRDSYRSKFGDLECLLPRPLHYALLAKAISTAGPRLEEVVDIT 166
+D ++ + N +V+ +R+ Y F +L+ LLP+ Y K + EEV
Sbjct: 148 LDDVDKVINLLVAR---LREWYSLHFPELDELLPKHPQYVAFVKTVGHRDNINEEV---- 200
Query: 167 SAEYFSLPCRLKE-DLSDETQDRLVKVFKESPISRSWEPLPEDVLQMTMDACDRVIALDS 225
L+E LS+E ++++ KE + + +V++ + DR+ L
Sbjct: 201 ----------LRELGLSEEKIKKILEA-KEKTMGAWMDQTDIEVVRQLAEEIDRLYQL-- 247
Query: 226 EKKMLFDVLTSKVVHVAPNLCEVVGSXXXXXXXXXXXXXXTNLANMPASEIEVLGRQKSD 285
+K L D + + VAPNL +VG+ LA MP+S I+VLG +K+
Sbjct: 248 -RKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGL-RELAMMPSSTIQVLGAEKAL 305
Query: 286 NISFY-------EGYLESTEMFQATTLCMRERARQLLAEKLKEAASVDLKRGDVSGSAGR 338
G + + R + + LA KL AA VD +G
Sbjct: 306 FRHLRTGAKPPKHGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDY-------FSGE 358
Query: 339 ALRDEILGTIEYEIRPPKTKF 359
+ +E+ +E IR K K+
Sbjct: 359 YIAEELKKELEARIREIKEKY 379
>pdb|2NNW|A Chain A, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
pdb|2NNW|C Chain C, Alternative Conformations Of Nop56/58-fibrillarin Complex
And Implication For Induced-fit Assenly Of Box C/d Rnps
Length = 376
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 46/179 (25%), Positives = 80/179 (44%), Gaps = 23/179 (12%)
Query: 107 IDQLESIENEIVSNHNFIRDSYRSKFGDLECLLPRPLHYALLAKAISTAGPRLEEVVDIT 166
+D ++ + N +V+ +R+ Y F +L+ LLP+ Y K + EEV
Sbjct: 148 LDDVDKVINLLVAR---LREWYSLHFPELDELLPKHPQYVAFVKTVGHRDNINEEV---- 200
Query: 167 SAEYFSLPCRLKE-DLSDETQDRLVKVFKESPISRSWEPLPEDVLQMTMDACDRVIALDS 225
L+E LS+E ++++ KE + + +V++ + DR+ L
Sbjct: 201 ----------LRELGLSEEKIKKILEA-KEKTMGAWMDQTDIEVVRQLAEEIDRLYQL-- 247
Query: 226 EKKMLFDVLTSKVVHVAPNLCEVVGSXXXXXXXXXXXXXXTNLANMPASEIEVLGRQKS 284
+K L D + + VAPNL +VG+ LA MP+S I+VLG +K+
Sbjct: 248 -RKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGL-RELAMMPSSTIQVLGAEKA 304
>pdb|3NVK|A Chain A, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVK|F Chain F, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 376
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 46/179 (25%), Positives = 80/179 (44%), Gaps = 23/179 (12%)
Query: 107 IDQLESIENEIVSNHNFIRDSYRSKFGDLECLLPRPLHYALLAKAISTAGPRLEEVVDIT 166
+D ++ + N +V+ +R+ Y F +L+ LLP+ Y K + EEV
Sbjct: 148 LDDVDKVINLLVAR---LREWYSLHFPELDELLPKHPQYVAFVKTVGHRDNINEEV---- 200
Query: 167 SAEYFSLPCRLKE-DLSDETQDRLVKVFKESPISRSWEPLPEDVLQMTMDACDRVIALDS 225
L+E LS+E ++++ KE + + +V++ + DR+ L
Sbjct: 201 ----------LRELGLSEEKIKKILEA-KEKTMGAWMDQTDIEVVRQLAEEIDRLYQL-- 247
Query: 226 EKKMLFDVLTSKVVHVAPNLCEVVGSXXXXXXXXXXXXXXTNLANMPASEIEVLGRQKS 284
+K L D + + VAPNL +VG+ LA MP+S I+VLG +K+
Sbjct: 248 -RKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGL-RELAMMPSSTIQVLGAEKA 304
>pdb|3NVM|A Chain A, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 371
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 60/249 (24%), Positives = 95/249 (38%), Gaps = 48/249 (19%)
Query: 124 IRDSYRSKFGDLECLLPRPLHYALLAKAISTAGPRLEEVVDITSAEYFSLPCRLKE-DLS 182
+R+ Y F +L+ LLP+ Y K + EEV L+E LS
Sbjct: 158 LREWYSLHFPELDELLPKHPQYVAFVKTVGHRDNINEEV--------------LRELGLS 203
Query: 183 DETQDRLVKVFKESPISRSWEPLPEDVLQMTMDACD----RVIALDSE-KKMLFDVLTSK 237
+E ++++ E + MD D R +A + + +K L D +
Sbjct: 204 EEKIKKILEA-------------KEKTMGAWMDQTDIEVVRQLAEEIQLRKKLEDYIDRA 250
Query: 238 VVHVAPNLCEVVGSXXXXXXXXXXXXXXTNLANMPASEIEVLGRQKSDNISFY------- 290
+ VAPNL +VG+ LA MP+S I+VLG +K+
Sbjct: 251 MDDVAPNLKALVGAKLAARLISLAGGL-RELAMMPSSTIQVLGAEKALFRHLRTGAKPPK 309
Query: 291 EGYLESTEMFQATTLCMRERARQLLAEKLKEAASVDLKRGDVSGSAGRALRDEILGTIEY 350
G + + R + + LA KL AA VD +G + +E+ +E
Sbjct: 310 HGVIYQYPAINRSPWWQRGKIARALAGKLAIAARVDY-------FSGEYIAEELKKELEA 362
Query: 351 EIRPPKTKF 359
IR K K+
Sbjct: 363 RIREIKEKY 371
>pdb|3ID5|A Chain A, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|E Chain E, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|A Chain A, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|B Chain B, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|K Chain K, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 388
Score = 31.2 bits (69), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 205 LPEDVLQMTMDACDRVIALDSEKKMLFDVLTSKVVHVAPNLCEVVGSXXXXXXXXXXXXX 264
+ ED L + ++ L + ++ L + L + VAPN+ +VG
Sbjct: 225 ISEDDLSAMRMIANTILDLYNIRRNLNNYLEGVMKEVAPNVTALVGPALGARLLSIAGSL 284
Query: 265 XTNLANMPASEIEVLGRQKS 284
LA MPAS I+VLG +K+
Sbjct: 285 -DELAKMPASTIQVLGAEKA 303
>pdb|3ICX|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
pdb|3ICX|B Chain B, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
pdb|3ICX|C Chain C, Crystal Structure Of Sulfolobus Solfataricus Nop5
(135-380)
Length = 255
Score = 31.2 bits (69), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 1/80 (1%)
Query: 205 LPEDVLQMTMDACDRVIALDSEKKMLFDVLTSKVVHVAPNLCEVVGSXXXXXXXXXXXXX 264
+ ED L + ++ L + ++ L + L + VAPN+ +VG
Sbjct: 92 ISEDDLSAMRMIANTILDLYNIRRNLNNYLEGVMKEVAPNVTALVGPALGARLLSIAGSL 151
Query: 265 XTNLANMPASEIEVLGRQKS 284
LA MPAS I+VLG +K+
Sbjct: 152 -DELAKMPASTIQVLGAEKA 170
>pdb|1NT2|B Chain B, Crystal Structure Of FibrillarinNOP5P COMPLEX
Length = 258
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 241 VAPNLCEVVGSXXXXXXXXXXXXXXTNLANMPASEIEVLGRQKSDNISF 289
+APN+ E+VG+ L +PAS+I+V+G +KS +F
Sbjct: 138 IAPNMTELVGAKVAAKLLERAGSM-ERLVRLPASKIQVIGAEKSLYKAF 185
>pdb|2XDV|A Chain A, Crystal Structure Of The Catalytic Domain Of Flj14393
Length = 442
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 152 ISTAG---PRLEEVVDITSAEYFSLPCRLKEDLSDETQDRLVKVFKESPISR 200
+ST G PRL+ VV + ++ L +D SDETQ+++V ++ SR
Sbjct: 327 LSTPGGKLPRLDSVVRLQFKDHIVLTVLPDQDQSDETQEKMVYIYHSLKNSR 378
>pdb|1P92|A Chain A, Crystal Structure Of (H79a)dtxr
Length = 226
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%), Gaps = 1/66 (1%)
Query: 141 RPLHYALLAKAISTAGPRLEEVVDITSAEYFSLPCRLKEDLSDETQDRLVKVFKESPISR 200
R L A++ KA A L +++ + + CR + +SDE + RLVKV K+ S
Sbjct: 69 RTLATAVMRKA-RLAERLLTDIIGLDINKVHDEACRWEHVMSDEVERRLVKVLKDVSRSP 127
Query: 201 SWEPLP 206
P+P
Sbjct: 128 FGNPIP 133
>pdb|1G3Y|A Chain A, Arg80ala Dtxr
Length = 226
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 175 CRLKEDLSDETQDRLVKVFKESPISRSWEPLP 206
CR + +SDE + RLVKV K+ S P+P
Sbjct: 102 CRWEHVMSDEVERRLVKVLKDVSRSPFGNPIP 133
>pdb|3GLX|A Chain A, Crystal Structure Analysis Of The Dtxr(E175k) Complexed
With Ni(Ii)
Length = 226
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 175 CRLKEDLSDETQDRLVKVFKESPISRSWEPLP 206
CR + +SDE + RLVKV K+ S P+P
Sbjct: 102 CRWEHVMSDEVERRLVKVLKDVSRSPFGNPIP 133
>pdb|1DPR|A Chain A, Structures Of The Apo-And Metal Ion Activated Forms Of The
Diphtheria Tox Repressor From Corynebacterium
Diphtheriae
pdb|1DPR|B Chain B, Structures Of The Apo-And Metal Ion Activated Forms Of The
Diphtheria Tox Repressor From Corynebacterium
Diphtheriae
pdb|1BI2|A Chain A, Structure Of Apo-And Holo-Diphtheria Toxin Repressor
pdb|1BI2|B Chain B, Structure Of Apo-And Holo-Diphtheria Toxin Repressor
pdb|2DTR|A Chain A, Structure Of Diphtheria Toxin Repressor
Length = 226
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 175 CRLKEDLSDETQDRLVKVFKESPISRSWEPLP 206
CR + +SDE + RLVKV K+ S P+P
Sbjct: 102 CRWEHVMSDEVERRLVKVLKDVSRSPFGNPIP 133
>pdb|1C0W|A Chain A, Crystal Structure Of The Cobalt-Activated Diphtheria Toxin
Repressor-Dna Complex Reveals A Metal Binding Sh-Like
Domain
pdb|1C0W|B Chain B, Crystal Structure Of The Cobalt-Activated Diphtheria Toxin
Repressor-Dna Complex Reveals A Metal Binding Sh-Like
Domain
pdb|1C0W|C Chain C, Crystal Structure Of The Cobalt-Activated Diphtheria Toxin
Repressor-Dna Complex Reveals A Metal Binding Sh-Like
Domain
pdb|1C0W|D Chain D, Crystal Structure Of The Cobalt-Activated Diphtheria Toxin
Repressor-Dna Complex Reveals A Metal Binding Sh-Like
Domain
Length = 225
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 175 CRLKEDLSDETQDRLVKVFKESPISRSWEPLP 206
CR + +SDE + RLVKV K+ S P+P
Sbjct: 101 CRWEHVMSDEVERRLVKVLKDVSRSPFGNPIP 132
>pdb|3QA8|A Chain A, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|B Chain B, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|C Chain C, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|D Chain D, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|E Chain E, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|F Chain F, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|G Chain G, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
pdb|3QA8|H Chain H, Crystal Structure Of Inhibitor Of Kappa B Kinase Beta
Length = 676
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 298 EMFQATTLCMRERARQLLAEKLK--EAASVDLKRGDVSGSAGRALRDEI 344
EM QA LC RER Q L +K+ + SVDL+R + G R D++
Sbjct: 517 EMEQAVELCGREREVQALVDKMMALQTDSVDLQRNPL-GRKHRGTLDDL 564
>pdb|3RZF|A Chain A, Crystal Structure Of Inhibitor Of Kappab Kinase Beta
(I4122)
Length = 677
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 298 EMFQATTLCMRERARQLLAEKLK--EAASVDLKRGDVSGSAGRALRDEI 344
EM QA LC RER Q L +K+ + SVDL+R + G R D++
Sbjct: 518 EMEQAVELCGREREVQALVDKMMALQTDSVDLQRNPL-GRKHRGTLDDL 565
>pdb|3QE6|A Chain A, Mouse Pacsin 3 F-Bar Domain Structure
pdb|3QE6|B Chain B, Mouse Pacsin 3 F-Bar Domain Structure
Length = 304
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 17/71 (23%)
Query: 31 LQKTVDSCDP----RLMAGADVLSTLAKMPAHDVEVLDRHESDNNSLNDGYQESHEDLAK 86
+++ +SC RL+ DVL TL H+ + S +D + E H DL +
Sbjct: 224 MEQAFESCQAAERQRLLFFKDVLLTL-------------HQHLDLSSSDKFHELHRDLQQ 270
Query: 87 YIDALKNEEDI 97
I+A +EED+
Sbjct: 271 SIEAASDEEDL 281
>pdb|3M3W|A Chain A, Crystal Strcuture Of Mouse Pacsin3 Bar Domain Mutant
pdb|3M3W|B Chain B, Crystal Strcuture Of Mouse Pacsin3 Bar Domain Mutant
Length = 320
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 17/71 (23%)
Query: 31 LQKTVDSCDP----RLMAGADVLSTLAKMPAHDVEVLDRHESDNNSLNDGYQESHEDLAK 86
+++ +SC RL+ DVL TL H+ + S +D + E H DL +
Sbjct: 224 MEQAFESCQAAERQRLLFFKDVLLTL-------------HQHLDLSSSDKFHELHRDLQQ 270
Query: 87 YIDALKNEEDI 97
I+A +EED+
Sbjct: 271 SIEAASDEEDL 281
>pdb|3SYV|A Chain A, Crystal Structure Of Mpacsin 3 F-Bar Domain Mutant
pdb|3SYV|B Chain B, Crystal Structure Of Mpacsin 3 F-Bar Domain Mutant
pdb|3SYV|C Chain C, Crystal Structure Of Mpacsin 3 F-Bar Domain Mutant
pdb|3SYV|D Chain D, Crystal Structure Of Mpacsin 3 F-Bar Domain Mutant
pdb|3SYV|E Chain E, Crystal Structure Of Mpacsin 3 F-Bar Domain Mutant
pdb|3SYV|F Chain F, Crystal Structure Of Mpacsin 3 F-Bar Domain Mutant
pdb|3SYV|G Chain G, Crystal Structure Of Mpacsin 3 F-Bar Domain Mutant
pdb|3SYV|H Chain H, Crystal Structure Of Mpacsin 3 F-Bar Domain Mutant
Length = 347
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 34/71 (47%), Gaps = 17/71 (23%)
Query: 31 LQKTVDSCDP----RLMAGADVLSTLAKMPAHDVEVLDRHESDNNSLNDGYQESHEDLAK 86
+++ +SC RL+ DVL TL H+ + S +D + E H DL +
Sbjct: 230 MEQAFESCQAAERQRLLFFKDVLLTL-------------HQHLDLSSSDKFHELHRDLQQ 276
Query: 87 YIDALKNEEDI 97
I+A +EED+
Sbjct: 277 SIEAASDEEDL 287
>pdb|3GQU|A Chain A, Pyrococcus Horikoshii Nop5 Rna Binding Domain
pdb|3GQX|B Chain B, Pyrococcus Horikoshii Nop5 Rna Binding Domain From A
Twinned Crystal Form
pdb|3GQX|A Chain A, Pyrococcus Horikoshii Nop5 Rna Binding Domain From A
Twinned Crystal Form
Length = 169
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 35/131 (26%), Positives = 53/131 (40%), Gaps = 9/131 (6%)
Query: 241 VAPNLCEVVGSXXXXXXXXXXXXXXTNLANMPASEIEVLGRQKS-------DNISFYEGY 293
VAPNL +VG+ LA +P+S I+VLG +K+ G
Sbjct: 33 VAPNLKALVGAKLGARLISLAGGL-KELAMLPSSTIQVLGAEKALFRHLRTGAKPPKHGV 91
Query: 294 LESTEMFQATTLCMRERARQLLAEKLKEAASVDLKRGD-VSGSAGRALRDEILGTIEYEI 352
+ + R + + LA KL AA VD G+ ++ + L I E
Sbjct: 92 IYQYPAINRSPWWQRGKIARALAGKLAIAARVDYFSGEYIAEELKKELEARIKEIKEKYP 151
Query: 353 RPPKTKFQLRR 363
RPPK + + R+
Sbjct: 152 RPPKRRKEERK 162
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 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,684,183
Number of Sequences: 62578
Number of extensions: 370778
Number of successful extensions: 1007
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 982
Number of HSP's gapped (non-prelim): 26
length of query: 368
length of database: 14,973,337
effective HSP length: 100
effective length of query: 268
effective length of database: 8,715,537
effective search space: 2335763916
effective search space used: 2335763916
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)