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= 026093
(243 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|EE Chain e, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 244
Score = 328 bits (841), Expect = 2e-90, Method: Compositional matrix adjust.
Identities = 154/201 (76%), Positives = 176/201 (87%)
Query: 43 KLIYNRTKQYAKEYDEEQKELIRLKREAKLKGGFYVNPEAKLLFIIRIRGINAVDPKTKK 102
K+IY R +QYA EY+ + KEL++LKREA++KGGFYV+PEAK LF++RIRGINA+ PKTKK
Sbjct: 44 KVIYARAEQYAGEYEAQDKELVQLKREARMKGGFYVSPEAKPLFVVRIRGINAMHPKTKK 103
Query: 103 ILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYVTYGYPNLKSVRELIYKRGYGKLNKQRI 162
ILQLLRLRQIFNGVFLKVNKAT+NML RVEPYVTYGYPNLKSVRELIYKRGYGKLNKQRI
Sbjct: 104 ILQLLRLRQIFNGVFLKVNKATINMLRRVEPYVTYGYPNLKSVRELIYKRGYGKLNKQRI 163
Query: 163 ALTDNSIIEQALGQHGIICMEDLIHEILTVGPHFKEANNFLWPFXXXXXXXXXXXXRNHY 222
L +N +IE+ LG+H IIC+EDL+HEILTVGPHFKEANNFLWPF RNHY
Sbjct: 164 PLANNKVIEEGLGKHNIICIEDLVHEILTVGPHFKEANNFLWPFKLKAPLGGLKKKRNHY 223
Query: 223 VEGGDAGNREDYINELIRRMN 243
VEGGDAGNRE+YIN+L+RRMN
Sbjct: 224 VEGGDAGNRENYINQLVRRMN 244
>pdb|2ZKR|WW Chain w, 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 = 270
Score = 278 bits (710), Expect = 2e-75, Method: Compositional matrix adjust.
Identities = 134/202 (66%), Positives = 155/202 (76%)
Query: 42 RKLIYNRTKQYAKEYDEEQKELIRLKREAKLKGGFYVNPEAKLLFIIRIRGINAVDPKTK 101
RKLIY + K Y KEY + + IR+ R A+ G FYV E KL F+IRIRGIN V PK +
Sbjct: 69 RKLIYEKAKHYHKEYRQMYRTEIRMARMARKAGNFYVPAEPKLAFVIRIRGINGVSPKVR 128
Query: 102 KILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYVTYGYPNLKSVRELIYKRGYGKLNKQR 161
K+LQLLRLRQIFNG F+K+NKA++NML VEPY+ +GYPNLKSV ELIYKRGYGK+NK+R
Sbjct: 129 KVLQLLRLRQIFNGTFVKLNKASINMLRIVEPYIAWGYPNLKSVNELIYKRGYGKINKKR 188
Query: 162 IALTDNSIIEQALGQHGIICMEDLIHEILTVGPHFKEANNFLWPFXXXXXXXXXXXXRNH 221
IALTDNS+I ++LG+ GIICMEDLIHEI TVG FKEANNFLWPF H
Sbjct: 189 IALTDNSLIARSLGKFGIICMEDLIHEIYTVGKRFKEANNFLWPFKLSSPRGGMKKKTTH 248
Query: 222 YVEGGDAGNREDYINELIRRMN 243
+VEGGDAGNRED IN LIRRMN
Sbjct: 249 FVEGGDAGNREDQINRLIRRMN 270
>pdb|3IZS|EE Chain e, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|G Chain G, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|G Chain G, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|F Chain F, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|F Chain F, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|F Chain F, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 244
Score = 237 bits (605), Expect = 3e-63, Method: Compositional matrix adjust.
Identities = 106/204 (51%), Positives = 152/204 (74%), Gaps = 2/204 (0%)
Query: 42 RKLIYNRTKQYAKEYDEEQKELIRLKREAKLKGGFYVNPEAKLLFIIRIRGINAVDPKTK 101
R +I R Y KEY+ ++ +I+ KR+AK G +YV + KL+F++RI+GIN + PK +
Sbjct: 41 RAIILERNAAYQKEYETAERNIIQAKRDAKAAGSYYVEAQHKLVFVVRIKGINKIPPKPR 100
Query: 102 KILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYVTYGYPNLKSVRELIYKRGYGKLNKQR 161
K+LQLLRL +I +G F+KV KATL +L +EPYV YGYP+ ++R+L+YKRG+GK+NKQR
Sbjct: 101 KVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGYPSYSTIRQLVYKRGFGKINKQR 160
Query: 162 IALTDNSIIEQALGQHGIICMEDLIHEILTVGPHFKEANNFLWPFXXXXXXXXXXXXR-- 219
+ L+DN+IIE LG++GI+ ++DLIHEI+TVGPHFK+ANNFLWPF R
Sbjct: 161 VPLSDNAIIEANLGKYGILSIDDLIHEIITVGPHFKQANNFLWPFKLSNPSGGWGVPRKF 220
Query: 220 NHYVEGGDAGNREDYINELIRRMN 243
H+++GG GNRE++IN+L++ MN
Sbjct: 221 KHFIQGGSFGNREEFINKLVKSMN 244
>pdb|4A17|V Chain V, 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|V Chain V, 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|V Chain V, 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|V Chain V, 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 = 239
Score = 237 bits (604), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 106/196 (54%), Positives = 146/196 (74%)
Query: 47 NRTKQYAKEYDEEQKELIRLKREAKLKGGFYVNPEAKLLFIIRIRGINAVDPKTKKILQL 106
++ ++YA EY+ +K+++ KR+A+ G FYV EAK+ F IRIRG+N + P K++L+L
Sbjct: 43 SKAQKYAAEYEAAEKKIVDEKRKARKTGAFYVPAEAKVAFAIRIRGVNQLHPDVKRVLRL 102
Query: 107 LRLRQIFNGVFLKVNKATLNMLHRVEPYVTYGYPNLKSVRELIYKRGYGKLNKQRIALTD 166
RLRQ+ NG F +VNKA+LNM+ RV P++T+GYP ++ +LIYKRG+ K+N QRI LTD
Sbjct: 103 FRLRQLHNGAFFRVNKASLNMIKRVLPFITFGYPTRNTISKLIYKRGFAKVNGQRIPLTD 162
Query: 167 NSIIEQALGQHGIICMEDLIHEILTVGPHFKEANNFLWPFXXXXXXXXXXXXRNHYVEGG 226
N+I+E++LG+ GI C+EDLIHEI TVGPHFKEANNFLWPF R+ Y +GG
Sbjct: 163 NTIVEKSLGKFGITCVEDLIHEITTVGPHFKEANNFLWPFKLDTPRGGFRNKRHAYHQGG 222
Query: 227 DAGNREDYINELIRRM 242
D GNRE YIN+L++ M
Sbjct: 223 DWGNREVYINDLVKAM 238
>pdb|1S1I|F Chain F, 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 = 162
Score = 204 bits (518), Expect = 4e-53, Method: Compositional matrix adjust.
Identities = 90/162 (55%), Positives = 127/162 (78%), Gaps = 2/162 (1%)
Query: 84 LLFIIRIRGINAVDPKTKKILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYVTYGYPNLK 143
L+F++RI+GIN + PK +K+LQLLRL +I +G F+KV KATL +L +EPYV YGYP+
Sbjct: 1 LVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGYPSYS 60
Query: 144 SVRELIYKRGYGKLNKQRIALTDNSIIEQALGQHGIICMEDLIHEILTVGPHFKEANNFL 203
++R+L+YKRG+GK+NKQR+ L+DN+IIE LG++GI+ ++DLIHEI+TVGPHFK+ANNFL
Sbjct: 61 TIRQLVYKRGFGKINKQRVPLSDNAIIEANLGKYGILSIDDLIHEIITVGPHFKQANNFL 120
Query: 204 WPFXXXXXXXXXXXXR--NHYVEGGDAGNREDYINELIRRMN 243
WPF R H+++GG GNRE++IN+L++ MN
Sbjct: 121 WPFKLSNPSGGWGVPRKFKHFIQGGSFGNREEFINKLVKSMN 162
>pdb|3JYW|F Chain F, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 213
Score = 204 bits (518), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 90/162 (55%), Positives = 127/162 (78%), Gaps = 2/162 (1%)
Query: 84 LLFIIRIRGINAVDPKTKKILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYVTYGYPNLK 143
L+F++RI+GIN + PK +K+LQLLRL +I +G F+KV KATL +L +EPYV YGYP+
Sbjct: 52 LVFVVRIKGINKIPPKPRKVLQLLRLTRINSGTFVKVTKATLELLKLIEPYVAYGYPSYS 111
Query: 144 SVRELIYKRGYGKLNKQRIALTDNSIIEQALGQHGIICMEDLIHEILTVGPHFKEANNFL 203
++R+L+YKRG+GK+NKQR+ L+DN+IIE LG++GI+ ++DLIHEI+TVGPHFK+ANNFL
Sbjct: 112 TIRQLVYKRGFGKINKQRVPLSDNAIIEANLGKYGILSIDDLIHEIITVGPHFKQANNFL 171
Query: 204 WPFXXXXXXXXXXXXR--NHYVEGGDAGNREDYINELIRRMN 243
WPF R H+++GG GNRE++IN+L++ MN
Sbjct: 172 WPFKLSNPSGGWGVPRKFKHFIQGGSFGNREEFINKLVKSMN 213
>pdb|3ZF7|WW Chain w, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 257
Score = 196 bits (497), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 91/197 (46%), Positives = 128/197 (64%)
Query: 46 YNRTKQYAKEYDEEQKELIRLKREAKLKGGFYVNPEAKLLFIIRIRGINAVDPKTKKILQ 105
Y+R +Y++EY +K+L L+R A+ G +Y+ + K+ + RIRGI V PK +KILQ
Sbjct: 60 YSRGLKYSREYRSTEKKLAGLRRNARQHGNYYLEAKPKVAVVTRIRGIAKVPPKQRKILQ 119
Query: 106 LLRLRQIFNGVFLKVNKATLNMLHRVEPYVTYGYPNLKSVRELIYKRGYGKLNKQRIALT 165
LLRLRQIFN VF+++NK NML VEPY+ YGYP+L +VR ++YKRG+ K+N QR+ +T
Sbjct: 120 LLRLRQIFNTVFVRLNKPMENMLRAVEPYIAYGYPSLSTVRAMVYKRGHLKINGQRVKIT 179
Query: 166 DNSIIEQALGQHGIICMEDLIHEILTVGPHFKEANNFLWPFXXXXXXXXXXXXRNHYVEG 225
DN +I+ I+C ED++++I G HF+ N LWPF R H+VEG
Sbjct: 180 DNQMIKDKYHNDDIVCAEDIVNQIYACGKHFRTVTNGLWPFKLAPPAGGMRQKRRHFVEG 239
Query: 226 GDAGNREDYINELIRRM 242
GD GNR+ IN + RM
Sbjct: 240 GDYGNRDTLINRFLARM 256
>pdb|3J21|Y Chain Y, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 155
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 47/159 (29%), Positives = 76/159 (47%), Gaps = 9/159 (5%)
Query: 85 LFIIRIRGINAVDPKTKKILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYVTYGYPNLKS 144
L +IRIRG V + L +LRL ++ + V + + L ML + + Y+T+G N ++
Sbjct: 4 LAVIRIRGRVNVKRPVRDTLAMLRLHRVNHCVIVDDTPSYLGMLQKAKDYITWGEINAET 63
Query: 145 VRELIYKRGYGKLNKQRIALTDNSIIEQALGQHGIICMEDLIHEILTVGPHFKEANNFLW 204
+ +LI KRG NK +TD + E+ LG + +E+ +++ K+ N
Sbjct: 64 LAKLIRKRGRLIGNK---PVTDEYVKEK-LG----MTIEEFAQKVVNGEMSLKDLPNLKP 115
Query: 205 PFXXXXXXXX-XXXXRNHYVEGGDAGNREDYINELIRRM 242
F + + EGG G R + INELI RM
Sbjct: 116 VFRLHPPRGGFRGSKKRSFKEGGALGYRGEKINELIERM 154
>pdb|1T6B|Y Chain Y, Crystal Structure Of B. Anthracis Protective Antigen
Complexed With Human Anthrax Toxin Receptor
Length = 189
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 40/92 (43%), Gaps = 16/92 (17%)
Query: 77 YVNPEAKLLFIIRIRGINAVDPKTKKILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYV- 135
+V+PE +L FI+ + IL L R K++K L L RV P
Sbjct: 44 FVSPEMRLSFIV-------FSSQATIILPLTGDRG-------KISKG-LEDLKRVSPVGE 88
Query: 136 TYGYPNLKSVRELIYKRGYGKLNKQRIALTDN 167
TY + LK E I K G K + IALTD
Sbjct: 89 TYIHEGLKLANEQIQKAGGLKTSSIIIALTDG 120
>pdb|1SHU|X Chain X, Crystal Structure Of The Von Willebrand Factor A Domain Of
Human Capillary Morphogenesis Protein 2: An Anthrax
Toxin Receptor
Length = 182
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 40/92 (43%), Gaps = 16/92 (17%)
Query: 77 YVNPEAKLLFIIRIRGINAVDPKTKKILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYV- 135
+V+PE +L FI+ + IL L R K++K L L RV P
Sbjct: 37 FVSPEMRLSFIV-------FSSQATIILPLTGDRG-------KISKG-LEDLKRVSPVGE 81
Query: 136 TYGYPNLKSVRELIYKRGYGKLNKQRIALTDN 167
TY + LK E I K G K + IALTD
Sbjct: 82 TYIHEGLKLANEQIQKAGGLKTSSIIIALTDG 113
>pdb|1SHT|X Chain X, Crystal Structure Of The Von Willebrand Factor A Domain Of
Human Capillary Morphogenesis Protein 2: An Anthrax
Toxin Receptor
Length = 181
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 39/92 (42%), Gaps = 16/92 (17%)
Query: 77 YVNPEAKLLFIIRIRGINAVDPKTKKILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYV- 135
+V+PE +L FI+ + P T G K++K L L RV P
Sbjct: 37 FVSPEMRLSFIVFSSQATIILPLT--------------GDRGKISKG-LEDLKRVSPVGE 81
Query: 136 TYGYPNLKSVRELIYKRGYGKLNKQRIALTDN 167
TY + LK E I K G K + IALTD
Sbjct: 82 TYIHEGLKLANEQIQKAGGLKTSSIIIALTDG 113
>pdb|1TZN|AA Chain a, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|BB Chain b, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|CC Chain c, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|DD Chain d, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|EE Chain e, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|FF Chain f, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|GG Chain g, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|HH Chain h, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|II Chain i, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|JJ Chain j, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|KK Chain k, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|LL Chain l, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|MM Chain m, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
pdb|1TZN|OO Chain o, Crystal Structure Of The Anthrax Toxin Protective Antigen
Heptameric Prepore Bound To The Vwa Domain Of Cmg2, An
Anthrax Toxin Receptor
Length = 181
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 39/92 (42%), Gaps = 16/92 (17%)
Query: 77 YVNPEAKLLFIIRIRGINAVDPKTKKILQLLRLRQIFNGVFLKVNKATLNMLHRVEPYV- 135
+V+PE +L FI+ + P T G K++K L L RV P
Sbjct: 36 FVSPEMRLSFIVFSSQATIILPLT--------------GDRGKISKG-LEDLKRVSPVGE 80
Query: 136 TYGYPNLKSVRELIYKRGYGKLNKQRIALTDN 167
TY + LK E I K G K + IALTD
Sbjct: 81 TYIHEGLKLANEQIQKAGGLKTSSIIIALTDG 112
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
0.322 0.141 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,920,518
Number of Sequences: 62578
Number of extensions: 217814
Number of successful extensions: 434
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 422
Number of HSP's gapped (non-prelim): 14
length of query: 243
length of database: 14,973,337
effective HSP length: 96
effective length of query: 147
effective length of database: 8,965,849
effective search space: 1317979803
effective search space used: 1317979803
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)