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= psy10021
(716 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 134 bits (338), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 85/241 (35%), Positives = 130/241 (53%), Gaps = 29/241 (12%)
Query: 463 LAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVTDN 522
L+ +R KL+ + K D + +QAV +DD+DK +N + R REWY HFPEL K++ D+
Sbjct: 120 LSLEYTRRKLRSAAQKRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDH 179
Query: 523 LKRNDNSTR--DK--TSASDLSEI-LPEDXXXXXXXXXXISMGTEISDDDIENILLLCDQ 577
+ +R D+ + L E+ E S+G +IS+DD+ + ++ +
Sbjct: 180 EEYATIVSRFGDRGFLTIDSLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMIANT 239
Query: 578 VLEISSYRGQLYDYLKSRMMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQILG 637
+L++ + R L +YL+ M VAPN+T L+G +GARL++ AGSL LAK PA
Sbjct: 240 ILDLYNIRRNLNNYLEGVMKEVAPNVTALVGPALGARLLSIAGSLDELAKMPA------- 292
Query: 638 AEKALFRSLLNLAKHPASTVQILGAEKALFRALKTKRDTPKYGLIYHSQLIGQSSTKNKG 697
ST+Q+LGAEKALFRAL++ PK+G+I+ I S +G
Sbjct: 293 -----------------STIQVLGAEKALFRALRSGGRPPKHGIIFQYPAIHTSPRWQRG 335
Query: 698 K 698
K
Sbjct: 336 K 336
Score = 62.8 bits (151), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 42/143 (29%), Positives = 66/143 (46%), Gaps = 29/143 (20%)
Query: 388 NHVGLAHSLS----RYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPE 443
++ H LS R KL+ + K D + +QAV +DD+DK +N + R REWY HFPE
Sbjct: 112 DYYNFLHELSLEYTRRKLRSAAQKRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPE 171
Query: 444 LGKIVTDNVAFVKTIKTIGLAHSLSRYKLK-----------------------FSPDKVD 480
L K++ D+ + + G L+ LK S D +
Sbjct: 172 LDKLIEDHEEYATIVSRFGDRGFLTIDSLKELGFNEQRINRILDAAKKSIGADISEDDLS 231
Query: 481 TMIVQAVSLLD--DLDKELNNYM 501
M + A ++LD ++ + LNNY+
Sbjct: 232 AMRMIANTILDLYNIRRNLNNYL 254
>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 = 129 bits (324), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 81/226 (35%), Positives = 122/226 (53%), Gaps = 29/226 (12%)
Query: 478 KVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVTDNLKRNDNSTR--DK-- 533
K D + +QAV +DD+DK +N + R REWY HFPEL K++ D+ + +R D+
Sbjct: 2 KRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGF 61
Query: 534 TSASDLSEI-LPEDXXXXXXXXXXISMGTEISDDDIENILLLCDQVLEISSYRGQLYDYL 592
+ L E+ E S+G +IS+DD+ + ++ + +L++ + R L +YL
Sbjct: 62 LTIDSLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMIANTILDLYNIRRNLNNYL 121
Query: 593 KSRMMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQILGAEKALFRSLLNLAKH 652
+ M VAPN+T L+G +GARL++ AGSL LAK PA
Sbjct: 122 EGVMKEVAPNVTALVGPALGARLLSIAGSLDELAKMPA---------------------- 159
Query: 653 PASTVQILGAEKALFRALKTKRDTPKYGLIYHSQLIGQSSTKNKGK 698
ST+Q+LGAEKALFRAL++ PK+G+I+ I S +GK
Sbjct: 160 --STIQVLGAEKALFRALRSGGRPPKHGIIFQYPAIHTSPRWQRGK 203
Score = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 56/120 (46%), Gaps = 25/120 (20%)
Query: 407 KVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVTDNVAFVKTIKTIGLAHS 466
K D + +QAV +DD+DK +N + R REWY HFPEL K++ D+ + + G
Sbjct: 2 KRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDHEEYATIVSRFGDRGF 61
Query: 467 LSRYKLK-----------------------FSPDKVDTMIVQAVSLLD--DLDKELNNYM 501
L+ LK S D + M + A ++LD ++ + LNNY+
Sbjct: 62 LTIDSLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMIANTILDLYNIRRNLNNYL 121
>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 = 123 bits (308), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 81/245 (33%), Positives = 122/245 (49%), Gaps = 31/245 (12%)
Query: 461 IGLAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVT 520
+G+A L+R +++ D M++QA+ LDD+DK +N + R REWY HFPEL +++
Sbjct: 121 VGVA--LTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLP 178
Query: 521 DNLKR----NDNSTRDKTSASDLSEI-LPEDXXXXXXXXXXISMGTEISDDDIENILLLC 575
+ + RD + L E+ L E+ +MG + DIE + L
Sbjct: 179 KHPQYVAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLA 238
Query: 576 DQVLEISSYRGQLYDYLKSRMMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQI 635
+++ + R +L DY+ M VAPNL L+G + ARL++ AG L LA P+ST+Q+
Sbjct: 239 EEIDRLYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQV 298
Query: 636 LGAEKALFRSLLNLAKHPASTVQILGAEKALFRALKTKRDTPKYGLIYHSQLIGQSSTKN 695
LGAEKALFR L AK PK+G+IY I +S
Sbjct: 299 LGAEKALFRHLRTGAK------------------------PPKHGVIYQYPAINRSPWWQ 334
Query: 696 KGKMG 700
+GK+
Sbjct: 335 RGKIA 339
Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 390 VGLAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVT 449
VG+A L+R +++ D M++QA+ LDD+DK +N + R REWY HFPEL +++
Sbjct: 121 VGVA--LTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLP 178
Query: 450 DNVAFVKTIKTIG 462
+ +V +KT+G
Sbjct: 179 KHPQYVAFVKTVG 191
>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 = 123 bits (308), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 81/245 (33%), Positives = 122/245 (49%), Gaps = 31/245 (12%)
Query: 461 IGLAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVT 520
+G+A L+R +++ D M++QA+ LDD+DK +N + R REWY HFPEL +++
Sbjct: 121 VGVA--LTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLP 178
Query: 521 DNLKR----NDNSTRDKTSASDLSEI-LPEDXXXXXXXXXXISMGTEISDDDIENILLLC 575
+ + RD + L E+ L E+ +MG + DIE + L
Sbjct: 179 KHPQYVAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLA 238
Query: 576 DQVLEISSYRGQLYDYLKSRMMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQI 635
+++ + R +L DY+ M VAPNL L+G + ARL++ AG L LA P+ST+Q+
Sbjct: 239 EEIDRLYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQV 298
Query: 636 LGAEKALFRSLLNLAKHPASTVQILGAEKALFRALKTKRDTPKYGLIYHSQLIGQSSTKN 695
LGAEKALFR L AK PK+G+IY I +S
Sbjct: 299 LGAEKALFRHLRTGAK------------------------PPKHGVIYQYPAINRSPWWQ 334
Query: 696 KGKMG 700
+GK+
Sbjct: 335 RGKIA 339
Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 390 VGLAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVT 449
VG+A L+R +++ D M++QA+ LDD+DK +N + R REWY HFPEL +++
Sbjct: 121 VGVA--LTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLP 178
Query: 450 DNVAFVKTIKTIG 462
+ +V +KT+G
Sbjct: 179 KHPQYVAFVKTVG 191
>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 = 123 bits (308), Expect = 4e-28, Method: Compositional matrix adjust.
Identities = 80/245 (32%), Positives = 122/245 (49%), Gaps = 31/245 (12%)
Query: 461 IGLAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVT 520
+G+A L+R +++ D M++QA+ LDD+DK +N + R REWY HFPEL +++
Sbjct: 121 VGVA--LTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLP 178
Query: 521 DNLKR----NDNSTRDKTSASDLSEI-LPEDXXXXXXXXXXISMGTEISDDDIENILLLC 575
+ + RD + L E+ L E+ +MG + DIE + L
Sbjct: 179 KHPQYVAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLA 238
Query: 576 DQVLEISSYRGQLYDYLKSRMMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQI 635
+++ + R +L DY+ M VAPNL L+G + ARL++ AG L LA P+ST+Q+
Sbjct: 239 EEIDRLYQLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQV 298
Query: 636 LGAEKALFRSLLNLAKHPASTVQILGAEKALFRALKTKRDTPKYGLIYHSQLIGQSSTKN 695
LGAEKALFR L+T PK+G+IY I +S
Sbjct: 299 LGAEKALFRH------------------------LRTGAKPPKHGVIYQYPAINRSPWWQ 334
Query: 696 KGKMG 700
+GK+
Sbjct: 335 RGKIA 339
Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 29/73 (39%), Positives = 47/73 (64%), Gaps = 2/73 (2%)
Query: 390 VGLAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVT 449
VG+A L+R +++ D M++QA+ LDD+DK +N + R REWY HFPEL +++
Sbjct: 121 VGVA--LTRMRIQEQSGARDKMVIQAIEALDDVDKVINLLVARLREWYSLHFPELDELLP 178
Query: 450 DNVAFVKTIKTIG 462
+ +V +KT+G
Sbjct: 179 KHPQYVAFVKTVG 191
>pdb|3NVM|A Chain A, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 371
Score = 110 bits (275), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 79/245 (32%), Positives = 118/245 (48%), Gaps = 39/245 (15%)
Query: 461 IGLAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVT 520
+G+A L+R +++ D M++QA+ LDD+ N + R REWY HFPEL +++
Sbjct: 121 VGVA--LTRMRIQEQSGARDKMVIQAIEALDDI----NLLVARLREWYSLHFPELDELLP 174
Query: 521 DNLKR----NDNSTRDKTSASDLSEI-LPEDXXXXXXXXXXISMGTEISDDDIENILLLC 575
+ + RD + L E+ L E+ +MG + DIE + L
Sbjct: 175 KHPQYVAFVKTVGHRDNINEEVLRELGLSEEKIKKILEAKEKTMGAWMDQTDIEVVRQLA 234
Query: 576 DQVLEISSYRGQLYDYLKSRMMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQI 635
+++ R +L DY+ M VAPNL L+G + ARL++ AG L LA P+ST+Q+
Sbjct: 235 EEI----QLRKKLEDYIDRAMDDVAPNLKALVGAKLAARLISLAGGLRELAMMPSSTIQV 290
Query: 636 LGAEKALFRSLLNLAKHPASTVQILGAEKALFRALKTKRDTPKYGLIYHSQLIGQSSTKN 695
LGAEKALFR L AK PK+G+IY I +S
Sbjct: 291 LGAEKALFRHLRTGAK------------------------PPKHGVIYQYPAINRSPWWQ 326
Query: 696 KGKMG 700
+GK+
Sbjct: 327 RGKIA 331
Score = 55.1 bits (131), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 44/73 (60%), Gaps = 6/73 (8%)
Query: 390 VGLAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVT 449
VG+A L+R +++ D M++QA+ LDD+ N + R REWY HFPEL +++
Sbjct: 121 VGVA--LTRMRIQEQSGARDKMVIQAIEALDDI----NLLVARLREWYSLHFPELDELLP 174
Query: 450 DNVAFVKTIKTIG 462
+ +V +KT+G
Sbjct: 175 KHPQYVAFVKTVG 187
>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 = 83.2 bits (204), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 103/213 (48%), Gaps = 30/213 (14%)
Query: 482 MIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVTDNL------KRNDNSTRDKTS 535
+IV A +L +++ ELN R+ Y FPEL +V + L K NS +
Sbjct: 13 VIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELGNSLDKCKN 72
Query: 536 ASDLSEILPEDXXXXXXXXXXISMGTEISDDDIENILLLCDQVLEISSYRGQLYDYLKSR 595
+L +IL + G ++S++++E + CD LE+++ + ++Y+Y++SR
Sbjct: 73 NENLQQILTNATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNASKHRIYEYVESR 132
Query: 596 MMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQILGAEKALFRSLLNLAKHPAS 655
M +APNL+I++G A+++ AG L NL+K PA + +LGA++ S
Sbjct: 133 MSFIAPNLSIIIGASTAAKIMGVAGGLTNLSKMPACNIMLLGAQRKTLSGF--------S 184
Query: 656 TVQILGAEKALFRALKTKRDTPKYGLIYHSQLI 688
+ +L P G IYHS ++
Sbjct: 185 STSVL----------------PHTGYIYHSDIV 201
Score = 35.8 bits (81), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 31/52 (59%)
Query: 411 MIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVTDNVAFVKTIKTIG 462
+IV A +L +++ ELN R+ Y FPEL +V + + +++T+K +G
Sbjct: 13 VIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELG 64
>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 = 82.8 bits (203), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 59/213 (27%), Positives = 103/213 (48%), Gaps = 30/213 (14%)
Query: 482 MIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVTDNL------KRNDNSTRDKTS 535
+IV A +L +++ ELN R+ Y FPEL +V + L K NS +
Sbjct: 19 VIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELGNSLDKCKN 78
Query: 536 ASDLSEILPEDXXXXXXXXXXISMGTEISDDDIENILLLCDQVLEISSYRGQLYDYLKSR 595
+L +IL + G ++S++++E + CD LE+++ + ++Y+Y++SR
Sbjct: 79 NENLQQILTNATIMVVSVTASTTQGQQLSEEELERLEEACDMALELNASKHRIYEYVESR 138
Query: 596 MMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQILGAEKALFRSLLNLAKHPAS 655
M +APNL+I++G A+++ AG L NL+K PA + +LGA++ S
Sbjct: 139 MSFIAPNLSIIIGASTAAKIMGVAGGLTNLSKMPACNIMLLGAQRKTLSGF--------S 190
Query: 656 TVQILGAEKALFRALKTKRDTPKYGLIYHSQLI 688
+ +L P G IYHS ++
Sbjct: 191 STSVL----------------PHTGYIYHSDIV 207
Score = 35.8 bits (81), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 36/61 (59%), Gaps = 2/61 (3%)
Query: 411 MIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVTDNVAFVKTIKTIGLAHSLSRY 470
+IV A +L +++ ELN R+ Y FPEL +V + + +++T+K +G +SL +
Sbjct: 19 VIVDANNLTVEIENELNIIHKFIRDKYSKRFPELESLVPNALDYIRTVKELG--NSLDKC 76
Query: 471 K 471
K
Sbjct: 77 K 77
>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 = 72.0 bits (175), Expect = 1e-12, Method: Composition-based stats.
Identities = 45/115 (39%), Positives = 59/115 (51%), Gaps = 24/115 (20%)
Query: 586 GQLYDYLKSRMMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQILGAEKALFRS 645
G L DY+ M VAPNL L+G +GARL++ AG L LA P+ST+Q+LGAEKALFR
Sbjct: 20 GGLEDYIDKAMDDVAPNLKALVGAKLGARLISLAGGLKELAMLPSSTIQVLGAEKALFRH 79
Query: 646 LLNLAKHPASTVQILGAEKALFRALKTKRDTPKYGLIYHSQLIGQSSTKNKGKMG 700
L+T PK+G+IY I +S +GK+
Sbjct: 80 ------------------------LRTGAKPPKHGVIYQYPAINRSPWWQRGKIA 110
>pdb|3ID6|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Nop5 (1-262)
And Fibrillarin Complex
Length = 268
Score = 71.6 bits (174), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 45/143 (31%), Positives = 77/143 (53%), Gaps = 5/143 (3%)
Query: 463 LAHSLSRYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPELGKIVTDN 522
L+ +R KL+ + K D + +QAV +DD+DK +N + R REWY HFPEL K++ D+
Sbjct: 120 LSLEYTRRKLRSAAQKRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPELDKLIEDH 179
Query: 523 LKRNDNSTR--DK--TSASDLSEI-LPEDXXXXXXXXXXISMGTEISDDDIENILLLCDQ 577
+ +R D+ + L E+ E S+G +IS+DD+ + ++ +
Sbjct: 180 EEYATIVSRFGDRGFLTIDSLKELGFNEQRINRILDAAKKSIGADISEDDLSAMRMIANT 239
Query: 578 VLEISSYRGQLYDYLKSRMMAVA 600
+L++ + R L +YL+ M VA
Sbjct: 240 ILDLYNIRRNLNNYLEGVMKEVA 262
Score = 62.4 bits (150), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 4/79 (5%)
Query: 388 NHVGLAHSLS----RYKLKFSPDKVDTMIVQAVSLLDDLDKELNNYMMRCREWYGWHFPE 443
++ H LS R KL+ + K D + +QAV +DD+DK +N + R REWY HFPE
Sbjct: 112 DYYNFLHELSLEYTRRKLRSAAQKRDLLAIQAVRAMDDIDKTINLFSERLREWYSIHFPE 171
Query: 444 LGKIVTDNVAFVKTIKTIG 462
L K++ D+ + + G
Sbjct: 172 LDKLIEDHEEYATIVSRFG 190
>pdb|1NT2|B Chain B, Crystal Structure Of FibrillarinNOP5P COMPLEX
Length = 258
Score = 56.6 bits (135), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 47/73 (64%)
Query: 577 QVLEISSYRGQLYDYLKSRMMAVAPNLTILMGELVGARLVAQAGSLLNLAKHPASTVQIL 636
++ E+ R + ++ M +APN+T L+G V A+L+ +AGS+ L + PAS +Q++
Sbjct: 116 KIRELRELRRDVEREIEEVMEKIAPNMTELVGAKVAAKLLERAGSMERLVRLPASKIQVI 175
Query: 637 GAEKALFRSLLNL 649
GAEK+L+++ +
Sbjct: 176 GAEKSLYKAFARM 188
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
0.316 0.132 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,493,936
Number of Sequences: 62578
Number of extensions: 497202
Number of successful extensions: 1171
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1129
Number of HSP's gapped (non-prelim): 24
length of query: 716
length of database: 14,973,337
effective HSP length: 106
effective length of query: 610
effective length of database: 8,340,069
effective search space: 5087442090
effective search space used: 5087442090
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: 55 (25.8 bits)