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= psy14785
(211 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|D Chain D, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 405
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 46/75 (61%)
Query: 2 MANTDLARLLKSEEIKKVLRRPIRGVRRASRKLNPLTNKRMMLRLNPFAQVTIRSAIISE 61
MAN DL R++ S+E++ V++ + V+R ++ NPL N +L+LNP+ + A ++E
Sbjct: 289 MANADLGRIINSDEVQSVVKPLNKEVKRREKRKNPLKNVAAVLKLNPYFGTARKMATLAE 348
Query: 62 EKRKLAREAKLAEKR 76
R AR+ KL KR
Sbjct: 349 AARIKARKEKLDSKR 363
>pdb|2ZKR|CC Chain c, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 421
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/72 (41%), Positives = 42/72 (58%)
Query: 2 MANTDLARLLKSEEIKKVLRRPIRGVRRASRKLNPLTNKRMMLRLNPFAQVTIRSAIISE 61
M NTDL+R+LK + LR P + + R K NPL N R+ML+LNP+A+ R+ I+ +
Sbjct: 284 MLNTDLSRILKMPRDPRALRAPRKKIHRRVLKKNPLKNLRIMLKLNPYAKTMRRNTILRQ 343
Query: 62 EKRKLAREAKLA 73
K R K A
Sbjct: 344 AKNHKLRMDKAA 355
>pdb|4A17|C Chain C, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2.
pdb|4A1A|C Chain C, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 3.
pdb|4A1C|C Chain C, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 4.
pdb|4A1E|C Chain C, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 1
Length = 410
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 46/84 (54%), Gaps = 3/84 (3%)
Query: 1 MMANTDLARLLKSEEIKKVLRRPIRGVRRA-SRKLNPLTNKRMMLRLNPFAQVTIRSAII 59
++AN D+AR++ S E++ V++ + G RK NPLTN + +LNP A++ A
Sbjct: 289 LLANADIARIINSNEVQSVVK--VAGTTETHERKKNPLTNNNALFKLNPAAKIVKEQAKK 346
Query: 60 SEEKRKLAREAKLAEKRGVSTTSK 83
+ E K R+A L R + T K
Sbjct: 347 AAEASKAKRQATLKANRKAAKTHK 370
>pdb|1S1I|D Chain D, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h
Length = 361
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 37/54 (68%), Gaps = 2/54 (3%)
Query: 1 MMANTDLARLLKSEEIKKVLRRPIRGVRRASRKL--NPLTNKRMMLRLNPFAQV 52
+++ +D+ R++ S EI+ +R + ++ + L NPL NK+++LRLNP+A+V
Sbjct: 279 IISTSDVTRIINSSEIQSAIRPAGQATQKRTHVLKKNPLKNKQVLLRLNPYAKV 332
>pdb|2WW9|H Chain H, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound
To The Yeast 80s Ribosome
pdb|2WWA|H Chain H, Cryo-Em Structure Of Idle Yeast Ssh1 Complex Bound To The
Yeast 80s Ribosome
pdb|2WWB|H Chain H, Cryo-Em Structure Of The Mammalian Sec61 Complex Bound To
The Actively Translating Wheat Germ 80s Ribosome
Length = 362
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 37/54 (68%), Gaps = 2/54 (3%)
Query: 1 MMANTDLARLLKSEEIKKVLRRPIRGVRRASRKL--NPLTNKRMMLRLNPFAQV 52
+++ +D+ R++ S EI+ +R + ++ + L NPL NK+++LRLNP+A+V
Sbjct: 280 IISTSDVTRIINSSEIQSAIRPAGQATQKRTHVLKKNPLKNKQVLLRLNPYAKV 333
>pdb|3IZS|D Chain D, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|D Chain D, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|D Chain D, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|C Chain C, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|C Chain C, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|C Chain C, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 362
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 37/54 (68%), Gaps = 2/54 (3%)
Query: 1 MMANTDLARLLKSEEIKKVLRRPIRGVRRASRKL--NPLTNKRMMLRLNPFAQV 52
+++ +D+ R++ S EI+ +R + ++ + L NPL NK+++LRLNP+A+V
Sbjct: 280 IISTSDVTRIINSSEIQSAIRPAGQATQKRTHVLKKNPLKNKQVLLRLNPYAKV 333
>pdb|1EX1|A Chain A, Beta-D-Glucan Exohydrolase From Barley
pdb|1IEX|A Chain A, Crystal Structure Of Barley Beta-D-Glucan Glucohydrolase
Isoenzyme Exo1 In Complex With
4i,4iii,4v-S-Trithiocellohexaose
pdb|1IEW|A Chain A, Crystal Structure Of Barley Beta-D-Glucan Glucohydrolase
Isoenzyme Exo1 In Complex With
2-Deoxy-2-Fluoro-Alpha-D-Glucoside
pdb|1IEV|A Chain A, Crystal Structure Of Barley Beta-D-Glucan Glucohydrolase
Isoenzyme Exo1 In Complex With Cyclohexitol
pdb|1IEQ|A Chain A, Crystal Structure Of Barley Beta-D-Glucan Glucohydrolase
Isoenzyme Exo1
pdb|1J8V|A Chain A, Crystal Structure Of Barley Beta-D-Glucan Glucohydrolase
Isoenzyme Exo1 In Complex With 4'-Nitrophenyl
3i-Thiolaminaritrioside
Length = 605
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 42 MMLRLNPFAQVTIRSAIISEEKRKLAREAK----LAEKRGVSTTSKSLLGVPRSA 92
M L NP+A + + +E R LAREA + K G ++T LL +P+ A
Sbjct: 356 MGLFENPYADPAMAEQLGKQEHRDLAREAARKSLVLLKNGKTSTDAPLLPLPKKA 410
>pdb|1LQ2|A Chain A, Crystal Structure Of Barley Beta-D-Glucan Glucohydrolase
Isoenzyme Exo1 In Complex With Gluco-Phenylimidazole
pdb|1X38|A Chain A, Crystal Structure Of Barley Beta-D-Glucan Glucohydrolase
Isoenzyme Exo1 In Complex With Gluco-Phenylimidazole
pdb|1X39|A Chain A, Crystal Structure Of Barley Beta-D-Glucan Glucohydrolase
Isoenzyme Exo1 In Complex With Gluco-Phenylimidazole
Length = 602
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 42 MMLRLNPFAQVTIRSAIISEEKRKLAREAK----LAEKRGVSTTSKSLLGVPRSA 92
M L NP+A + + +E R LAREA + K G ++T LL +P+ A
Sbjct: 356 MGLFENPYADPAMAEQLGKQEHRDLAREAARKSLVLLKNGKTSTDAPLLPLPKKA 410
>pdb|3ZF7|RR Chain r, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 374
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 24/36 (66%)
Query: 1 MMANTDLARLLKSEEIKKVLRRPIRGVRRASRKLNP 36
M+ +TD+ R+++SEE+++VL+ +R SR P
Sbjct: 281 MLTSTDVTRIMQSEEVRRVLKPKKLQPKRPSRYRQP 316
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 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,037,057
Number of Sequences: 62578
Number of extensions: 230227
Number of successful extensions: 491
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 482
Number of HSP's gapped (non-prelim): 11
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
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: 49 (23.5 bits)