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= 025016
(259 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|H Chain H, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 258
Score = 399 bits (1025), Expect = e-112, Method: Compositional matrix adjust.
Identities = 192/237 (81%), Positives = 207/237 (87%)
Query: 23 NPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAXXXXXXXXXXXXXXKVPPALNQFTKTLD 82
NPLFEKRPKQFGIGGALPPKKDLHR+VKWPK KVPPALNQFT+TLD
Sbjct: 22 NPLFEKRPKQFGIGGALPPKKDLHRFVKWPKVVRIQRQRRILKQRLKVPPALNQFTRTLD 81
Query: 83 KNLASSLFKLLLKYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQ 142
KNLA++LFK+LLKYRPED+AAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQ
Sbjct: 82 KNLATNLFKMLLKYRPEDKAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQ 141
Query: 143 NKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKN 202
+KAQLVVIAHDVDPIELVVWLPALCRKME+PYCIVKGK+RLGSIVHKKTASVLCLTTVKN
Sbjct: 142 SKAQLVVIAHDVDPIELVVWLPALCRKMEVPYCIVKGKARLGSIVHKKTASVLCLTTVKN 201
Query: 203 EDKMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKSQXXXXXXXXXXXXXXXQRLT 259
EDK+EFSKILEAIKANFNDK++E+RKKWGGG+MGSKSQ QR+T
Sbjct: 202 EDKLEFSKILEAIKANFNDKFDEVRKKWGGGVMGSKSQAKTKAREKLLAKEAAQRMT 258
>pdb|2ZKR|FF Chain f, 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 = 266
Score = 262 bits (670), Expect = 1e-70, Method: Compositional matrix adjust.
Identities = 123/218 (56%), Positives = 160/218 (73%), Gaps = 1/218 (0%)
Query: 23 NPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAXXXXXXXXXXXXXXKVPPALNQFTKTLD 82
NPLFEKRPK FGIG + PK+DL R+VKWP+ KVPPA+NQFT+ LD
Sbjct: 29 NPLFEKRPKNFGIGQDIQPKRDLTRFVKWPRYIRLQRQRAILYKRLKVPPAINQFTQALD 88
Query: 83 KNLASSLFKLLLKYRPEDRAAKKERLLKRAQAEAEGK-TVEAKKPIVVKYGLNHVTYLIE 141
+ A+ L KL KYRPE + KK+RLL RA+ +A GK V K+P V++ G+N VT L+E
Sbjct: 89 RQTATQLLKLAHKYRPETKQEKKQRLLARAEKKAAGKGDVPTKRPPVLRAGVNTVTTLVE 148
Query: 142 QNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVK 201
KAQLVVIAHDVDPIELVV+LPALCRKM +PYCI+KGK+RLG +VH+KT + + T V
Sbjct: 149 NKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLGHLVHRKTCTTVAFTQVN 208
Query: 202 NEDKMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKS 239
+EDK +K++EAI+ N+ND+Y+E+R+ WGG ++G KS
Sbjct: 209 SEDKGALAKLVEAIRTNYNDRYDEIRRHWGGNVLGPKS 246
>pdb|4A17|F Chain F, 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|F Chain F, 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|F Chain F, 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|F Chain F, 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 = 255
Score = 255 bits (652), Expect = 1e-68, Method: Compositional matrix adjust.
Identities = 121/218 (55%), Positives = 160/218 (73%), Gaps = 1/218 (0%)
Query: 23 NPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAXXXXXXXXXXXXXXKVPPALNQFTKTLD 82
NPLF+ +P+ F +GG + PK+DL R+V+WP+ KVPP ++QFTKTLD
Sbjct: 19 NPLFQAKPRSFRVGGDIQPKRDLTRFVRWPRYITLQRQKRVLLQRLKVPPQIHQFTKTLD 78
Query: 83 KNLASSLFKLLLKYRPEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQ 142
KN +S+LFKLL Y PE A KK+RL+ +A+A+ +GK VE KKPIV+KYGLNH+T LIE
Sbjct: 79 KNQSSNLFKLLASYAPEKPAEKKQRLVAQAEAKKDGKQVETKKPIVLKYGLNHITTLIEN 138
Query: 143 NKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKN 202
+A+LVVIAHDVDPIELV++LP LCRK ++P+ VKGK+ LG +V+KKTA+ + LT V+N
Sbjct: 139 KQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVNKKTATAVALTEVRN 198
Query: 203 EDKMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKSQ 240
EDK + + E K N+N +ELRK WGGGI+G KSQ
Sbjct: 199 EDKAKLQQFSELFKTNYNAN-DELRKTWGGGILGQKSQ 235
>pdb|3IZS|H Chain H, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|H Chain H, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|H Chain H, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|G Chain G, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 256
Score = 250 bits (638), Expect = 7e-67, Method: Compositional matrix adjust.
Identities = 123/220 (55%), Positives = 157/220 (71%), Gaps = 2/220 (0%)
Query: 23 NPLFEKRPKQFGIGGALPPKKDLHRYVKWPKAXXXXXXXXXXXXXXKVPPALNQFTKTLD 82
NPL PK FGIG A+ PK++L RYVKWP+ KVPP + QF TLD
Sbjct: 24 NPLTHSTPKNFGIGQAVQPKRNLSRYVKWPEYVRVQRQKKILSIRLKVPPTIAQFQYTLD 83
Query: 83 KNLASSLFKLLLKYRPEDRAAKKERLLKRAQAEAEGKTVE--AKKPIVVKYGLNHVTYLI 140
+N A+ FKL KYRPE A KKERL K A A AEGK+ + + KP VKYGLNHV LI
Sbjct: 84 RNTAAETFKLFNKYRPETAAEKKERLTKEAAAVAEGKSKQDASPKPYAVKYGLNHVVALI 143
Query: 141 EQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTV 200
E KA+LV+IA+DVDPIELVV+LPALC+KM +PY IVKGK+RLG++V++KT++V LT V
Sbjct: 144 ENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAALTEV 203
Query: 201 KNEDKMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKSQ 240
+ ED+ +K++ I ANF DKY+E++K WGGGI+G+K+Q
Sbjct: 204 RAEDEAALAKLVSTIDANFADKYDEVKKHWGGGILGNKAQ 243
>pdb|3ZF7|XX Chain x, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 276
Score = 184 bits (466), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 92/217 (42%), Positives = 133/217 (61%), Gaps = 2/217 (0%)
Query: 26 FEKRPKQFGIGGALPPKKDLHRYVKWPKAXXXXXXXXXXXXXXKVPPALNQFTKTLDKNL 85
F RPK FGIG +P +DL R+++WP KVPPALNQFTK LD++
Sbjct: 40 FVARPKDFGIGRDVPYARDLSRFMRWPTFVTMQRKKRVLQRRLKVPPALNQFTKVLDRSS 99
Query: 86 ASSLFKLLLKYRPEDRAAKKERLLKRAQAEAEG--KTVEAKKPIVVKYGLNHVTYLIEQN 143
+ L KL+ KY PE R A+++RL K A+ + + TV K P+ V GL VT IE+
Sbjct: 100 RNELLKLVKKYAPETRKARRDRLTKVAEEKKKNPKGTVSTKAPLCVVSGLQEVTRTIEKK 159
Query: 144 KAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNE 203
A+LV+IA++VDPIELV+W+P LCR +IPY IVK K+RLG + +KTA+ + T V E
Sbjct: 160 TARLVLIANNVDPIELVLWMPTLCRANKIPYAIVKDKARLGDAIGRKTATCVAFTDVNAE 219
Query: 204 DKMEFSKILEAIKANFNDKYEELRKKWGGGIMGSKSQ 240
D+ + ++ A F + + +R++WGG + +S+
Sbjct: 220 DQAALKNLTRSVNARFLARSDVIRRQWGGLQLSLRSR 256
>pdb|1S1I|G Chain G, 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 = 119
Score = 136 bits (343), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 70/118 (59%), Positives = 91/118 (77%), Gaps = 2/118 (1%)
Query: 102 AAKKERLLKRAQAEAEGKTVE--AKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIEL 159
A KKERL K A A AEGK+ + + KP VKYGLNHV LIE KA+LV+IA+DVDPIEL
Sbjct: 2 AEKKERLTKEAAAVAEGKSKQDASPKPYAVKYGLNHVVALIENKKAKLVLIANDVDPIEL 61
Query: 160 VVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKA 217
VV+LPALC+KM +PY IVKGK+RLG++V++KT++V LT V+ ED+ +K++ I A
Sbjct: 62 VVFLPALCKKMGVPYAIVKGKARLGTLVNQKTSAVAALTEVRAEDEAALAKLVSTIDA 119
>pdb|3JYW|G Chain G, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 113
Score = 131 bits (330), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 66/112 (58%), Positives = 87/112 (77%), Gaps = 2/112 (1%)
Query: 106 ERLLKRAQAEAEGKTVE--AKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWL 163
ERL K A A AEGK+ + + KP VKYGLNHV LIE KA+LV+IA+DVDPIELVV+L
Sbjct: 1 ERLTKEAAAVAEGKSKQDASPKPYAVKYGLNHVVALIENKKAKLVLIANDVDPIELVVFL 60
Query: 164 PALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAI 215
PALC+KM +PY IVKGK+RLG++V++KT++V LT V+ ED+ +K++ I
Sbjct: 61 PALCKKMGVPYAIVKGKARLGTLVNQKTSAVAALTEVRAEDEAALAKLVSTI 112
>pdb|2FC3|A Chain A, Crystal Structure Of The Extremely Thermostable Aeropyrum
Pernix L7ae Multifunctional Protein
Length = 124
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 46/134 (34%), Positives = 63/134 (47%), Gaps = 19/134 (14%)
Query: 98 PEDRAAKKERLLKRAQAEAEGKTVEAKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPI 157
PED A K +KRA+ +K G N T +E+ A+LVVIA DVDP
Sbjct: 9 PEDLAEKAYEAVKRARETGR-----------IKKGTNETTKAVERGLAKLVVIAEDVDPP 57
Query: 158 ELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKA 217
E+V+ LP LC + +IPY V K RLG + A+ + + +I+E +K
Sbjct: 58 EIVMHLPLLCDEKKIPYVYVPSKKRLGEAAGIEVAAASVAIIEPGDAETLVREIVEKVK- 116
Query: 218 NFNDKYEELRKKWG 231
ELR K G
Sbjct: 117 -------ELRAKAG 123
>pdb|3LWO|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
5BRU
pdb|3LWP|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
5BRDU
pdb|3LWQ|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
3MU
pdb|3LWR|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
4SU
pdb|3LWV|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
2'- Deoxyuridine
pdb|3J20|3 Chain 3, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
pdb|3J21|G Chain G, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
pdb|3J21|4 Chain 4, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 123
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
++ G N T +E+ +A+LV+IA DVDP E+V LP LC + EIPY V K LG
Sbjct: 32 IRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 87
>pdb|3NMU|C Chain C, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|G Chain G, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVI|B Chain B, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVI|D Chain D, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVK|E Chain E, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVK|H Chain H, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 129
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
++ G N T +E+ +A+LV+IA DVDP E+V LP LC + EIPY V K LG
Sbjct: 38 IRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 93
>pdb|2HVY|D Chain D, Crystal Structure Of An HACA BOX RNP FROM PYROCOCCUS
FURIOSUS
pdb|3HAX|D Chain D, Crystal Structure Of A Substrate-Bound Gar1-Minus HACA RNP
FROM Pyrococcus Furiosus
pdb|3HAY|D Chain D, Crystal Structure Of A Substrate-Bound Full HACA RNP FROM
Pyrococcus Furiosus
Length = 130
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
++ G N T +E+ +A+LV+IA DVDP E+V LP LC + EIPY V K LG
Sbjct: 33 IRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 88
>pdb|2CZW|A Chain A, Crystal Structure Analysis Of Protein Component Ph1496p Of
P.Horikoshii Ribonuclease P
Length = 124
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
++ G N T +E+ +A+LV+IA DVDP E+V LP LC + EIPY V K LG
Sbjct: 33 IRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 88
>pdb|3HJW|C Chain C, Structure Of A Functional Ribonucleoprotein Pseudouridine
Synthase Bound To A Substrate Rna
Length = 120
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
++ G N T +E+ +A+LV+IA DVDP E+V LP LC + EIPY V K LG
Sbjct: 30 IRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 85
>pdb|1RLG|A Chain A, Molecular Basis Of Box CD RNA-Protein Interaction: Co-
Crystal Structure Of The Archaeal Srnp Intiation Complex
pdb|1RLG|B Chain B, Molecular Basis Of Box CD RNA-Protein Interaction: Co-
Crystal Structure Of The Archaeal Srnp Intiation Complex
Length = 119
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 34/89 (38%), Positives = 46/89 (51%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188
VK G N T +E+ A+LV IA DVDP E+V LP LC + +PY VK K+ LG V
Sbjct: 28 VKKGTNETTKAVERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDLGRAVG 87
Query: 189 KKTASVLCLTTVKNEDKMEFSKILEAIKA 217
+ + E + E ++E IK
Sbjct: 88 IEVPCASAAIINEGELRKELGSLVEKIKG 116
>pdb|1PXW|A Chain A, Crystal Structure Of L7ae Srnp Core Protein From
Pyrococcus Abyssii
pdb|1PXW|B Chain B, Crystal Structure Of L7ae Srnp Core Protein From
Pyrococcus Abyssii
Length = 128
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/56 (48%), Positives = 36/56 (64%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
++ G N T +E+ +A+LV+IA DVDP E+V LP LC + EIPY V K LG
Sbjct: 37 IRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPSKKELG 92
>pdb|3ID5|C Chain C, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|G Chain G, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|C Chain C, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|D Chain D, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|L Chain L, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 130
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/62 (45%), Positives = 38/62 (61%)
Query: 123 AKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSR 182
AK+ +K G N T +E+ +A+LV+IA DV P E+V LP LC + +IPY V K
Sbjct: 29 AKESGKIKKGTNETTKAVERGQAKLVIIAEDVQPEEIVAHLPLLCDEKKIPYVYVSSKKA 88
Query: 183 LG 184
LG
Sbjct: 89 LG 90
>pdb|1RA4|A Chain A, Crystal Structure Of The Methanococcus Jannaschii L7ae
Protein
pdb|1XBI|A Chain A, High Resolution Structure Of Methanocaldococcus Jannaschii
L7ae
Length = 120
Score = 53.9 bits (128), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 44/84 (52%), Gaps = 2/84 (2%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188
+K G N VT +E+ A+LV+IA DV P E+V LP LC + IPY V K LG
Sbjct: 30 IKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAG 89
Query: 189 KKTASVLCLTTVKNEDKMEFSKIL 212
+ A+ + NE E K+L
Sbjct: 90 LEVAA--SSVAIINEGDAEELKVL 111
>pdb|1SDS|A Chain A, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
pdb|1SDS|B Chain B, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
pdb|1SDS|C Chain C, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
Length = 117
Score = 53.9 bits (128), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 44/84 (52%), Gaps = 2/84 (2%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188
+K G N VT +E+ A+LV+IA DV P E+V LP LC + IPY V K LG
Sbjct: 27 IKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAG 86
Query: 189 KKTASVLCLTTVKNEDKMEFSKIL 212
+ A+ + NE E K+L
Sbjct: 87 LEVAA--SSVAIINEGDAEELKVL 108
>pdb|3PAF|A Chain A, M. Jannaschii L7ae Mutant
pdb|3PAF|B Chain B, M. Jannaschii L7ae Mutant
Length = 117
Score = 53.9 bits (128), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 46/86 (53%), Gaps = 6/86 (6%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSI-- 186
+K G N VT +E+ A+LV+IA DV P E+V LP LC + IPY V K LG
Sbjct: 27 IKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAG 86
Query: 187 VHKKTASVLCLTTVKNEDKMEFSKIL 212
V + +SV + NE E K+L
Sbjct: 87 VSRPASSVAII----NEGDAEELKVL 108
>pdb|3G4S|F Chain F, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|F Chain F, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|F Chain F, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
Length = 119
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 47/105 (44%), Gaps = 8/105 (7%)
Query: 123 AKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSR 182
A+ VK G N T IE+ A+LV +A DV P E+V+ +P L + +P+ V+ +
Sbjct: 23 ARDTGAVKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDD 82
Query: 183 LGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANFNDKYEELR 227
LG + S T E + I DK EELR
Sbjct: 83 LGHAAGLEVGSAAAAVTDAGEADADVEDIA--------DKVEELR 119
>pdb|1S72|F Chain F, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|F Chain F, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|F Chain F, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|F Chain F, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|F Chain F, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|F Chain F, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|F Chain F, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|F Chain F, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|F Chain F, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|F Chain F, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|F Chain F, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|F Chain F, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|F Chain F, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|F Chain F, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|F Chain F, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|F Chain F, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|F Chain F, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|F Chain F, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|F Chain F, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|F Chain F, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|F Chain F, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|F Chain F, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|F Chain F, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|F Chain F, The Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution With Rrna Sequence For The 23s Rrna And
Genome-Derived Sequences For R-Proteins
pdb|3CC4|F Chain F, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|F Chain F, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|F Chain F, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|F Chain F, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|F Chain F, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|F Chain F, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|F Chain F, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|F Chain F, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|F Chain F, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 120
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 47/105 (44%), Gaps = 8/105 (7%)
Query: 123 AKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSR 182
A+ VK G N T IE+ A+LV +A DV P E+V+ +P L + +P+ V+ +
Sbjct: 24 ARDTGAVKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDD 83
Query: 183 LGSIVHKKTASVLCLTTVKNEDKMEFSKILEAIKANFNDKYEELR 227
LG + S T E + I DK EELR
Sbjct: 84 LGHAAGLEVGSAAAAVTDAGEADADVEDIA--------DKVEELR 120
>pdb|3O85|A Chain A, Giardia Lamblia 15.5kd Rna Binding Protein
pdb|3O85|B Chain B, Giardia Lamblia 15.5kd Rna Binding Protein
Length = 122
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 33/56 (58%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
+K G N + + KA+LV+IA D DPIE+V+ LP C +PY + K+ LG
Sbjct: 32 IKRGANEALKQVNRGKAELVIIAADADPIEIVLHLPLACEDKGVPYVFIGSKNALG 87
>pdb|2JNB|A Chain A, Solution Structure Of Rna-Binding Protein 15.5k
Length = 144
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 40/78 (51%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188
++ G N T + + ++ +V+A D +P+E+++ LP LC +PY V+ K LG
Sbjct: 51 LRKGANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACG 110
Query: 189 KKTASVLCLTTVKNEDKM 206
+ C T+K ++
Sbjct: 111 VSRPVIACSVTIKEGSQL 128
>pdb|2OZB|A Chain A, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
pdb|2OZB|D Chain D, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
pdb|3SIU|A Chain A, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIU|D Chain D, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIV|A Chain A, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|D Chain D, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|G Chain G, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|J Chain J, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
Length = 130
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 40/78 (51%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188
++ G N T + + ++ +V+A D +P+E+++ LP LC +PY V+ K LG
Sbjct: 37 LRKGANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACG 96
Query: 189 KKTASVLCLTTVKNEDKM 206
+ C T+K ++
Sbjct: 97 VSRPVIACSVTIKEGSQL 114
>pdb|1E7K|A Chain A, Crystal Structure Of The Spliceosomal 15.5kd Protein Bound
To A U4 Snrna Fragment
pdb|1E7K|B Chain B, Crystal Structure Of The Spliceosomal 15.5kd Protein Bound
To A U4 Snrna Fragment
Length = 128
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 40/78 (51%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVH 188
++ G N T + + ++ +V+A D +P+E+++ LP LC +PY V+ K LG
Sbjct: 35 LRKGANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRSKQALGRACG 94
Query: 189 KKTASVLCLTTVKNEDKM 206
+ C T+K ++
Sbjct: 95 VSRPVIACSVTIKEGSQL 112
>pdb|2LBX|A Chain A, Solution Structure Of The S. Cerevisiae HACA RNP PROTEIN
NHP2P
Length = 121
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 52/100 (52%), Gaps = 2/100 (2%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSI-V 187
VK G+ V + + + LVVIA D+ P +++ +P LC +PY + K LG+
Sbjct: 21 VKRGVKEVVKALRKGEKGLVVIAGDISPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGA 80
Query: 188 HKKTASVLCLTTVKNEDKMEFSKILEAIKANFNDKYEELR 227
K+ SV+ + N+ K +K E K +FN+ +E++
Sbjct: 81 TKRPTSVVFIVPGSNKKKDGKNK-EEEYKESFNEVVKEVQ 119
>pdb|1FFK|E Chain E, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|F Chain F, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|F Chain F, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|H Chain H, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|H Chain H, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|H Chain H, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|H Chain H, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|H Chain H, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|H Chain H, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|H Chain H, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|H Chain H, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|H Chain H, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|H Chain H, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|H Chain H, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|H Chain H, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|H Chain H, Crystal Structure Of Cca-Phe-Cap-Biotin Bound
Simultaneously At Half Occupancy To Both The A-Site And
P- Site Of The The 50s Ribosomal Subunit.
pdb|1QVF|F Chain F, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|F Chain F, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|F Chain F, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|F Chain F, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3OW2|F Chain F, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 119
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 35/62 (56%)
Query: 123 AKKPIVVKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSR 182
A+ VK G N T IE+ A+LV +A DV P E+V+ +P L + +P+ V+ +
Sbjct: 23 ARDTGAVKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDD 82
Query: 183 LG 184
LG
Sbjct: 83 LG 84
>pdb|2LBW|A Chain A, Solution Structure Of The S. Cerevisiae HACA RNP PROTEIN
NHP2P-S82w Mutant
Length = 121
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 52/100 (52%), Gaps = 2/100 (2%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSI-V 187
VK G+ V + + + LVVIA D+ P +++ +P LC +PY + K LG+
Sbjct: 21 VKRGVKEVVKALRKGEKGLVVIAGDIWPADVISHIPVLCEDHSVPYIFIPSKQDLGAAGA 80
Query: 188 HKKTASVLCLTTVKNEDKMEFSKILEAIKANFNDKYEELR 227
K+ SV+ + N+ K +K E K +FN+ +E++
Sbjct: 81 TKRPTSVVFIVPGSNKKKDGKNK-EEEYKESFNEVVKEVQ 119
>pdb|2ALE|A Chain A, Crystal Structure Of Yeast Rna Splicing Factor Snu13p
Length = 134
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 32/56 (57%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
+K G N T + + ++ +++A D +PIE+++ LP LC +PY V + LG
Sbjct: 33 LKKGANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALG 88
>pdb|1ZWZ|A Chain A, Structural Comparison Of Yeast Snornp And Splicesomal
Protein Snu13p With Its Homologs
pdb|1ZWZ|B Chain B, Structural Comparison Of Yeast Snornp And Splicesomal
Protein Snu13p With Its Homologs
Length = 126
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 32/56 (57%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
+K G N T + + ++ +++A D +PIE+++ LP LC +PY V + LG
Sbjct: 33 LKKGANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALG 88
>pdb|2AIF|A Chain A, Crystal Structure Of High Mobility Like Protein, Nhp2,
Putative From Cryptosporidium Parvum
Length = 135
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 33/56 (58%)
Query: 129 VKYGLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLG 184
++ G N T + + A++V++A D +P+E+++ LP +C PY V+ K LG
Sbjct: 42 LRKGANEATKALNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRSKVALG 97
>pdb|2XZM|U Chain U, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|U Chain U, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 126
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 31/62 (50%)
Query: 132 GLNHVTYLIEQNKAQLVVIAHDVDPIELVVWLPALCRKMEIPYCIVKGKSRLGSIVHKKT 191
GL+ V IE +A V +A D D V + ALC K EI Y V ++ LG + T
Sbjct: 28 GLHEVLRTIEAKQALFVCVAEDCDQGNYVKLVKALCAKNEIKYVSVPKRASLGEYLGHFT 87
Query: 192 AS 193
A+
Sbjct: 88 AN 89
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
0.318 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,874,284
Number of Sequences: 62578
Number of extensions: 197790
Number of successful extensions: 596
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 552
Number of HSP's gapped (non-prelim): 37
length of query: 259
length of database: 14,973,337
effective HSP length: 97
effective length of query: 162
effective length of database: 8,903,271
effective search space: 1442329902
effective search space used: 1442329902
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: 50 (23.9 bits)