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= psy6066
(370 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 205 bits (522), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 117/253 (46%), Positives = 144/253 (56%), Gaps = 48/253 (18%)
Query: 99 GQDIQPKRDLSRFVKWPKYIRIQRQKAVLQKRLKVPPPVHQFTQAVDKQTASQLFKFLEK 158
GQDIQPKRDL+RFVKWP+YIR+QRQ+A+L KRLKVPP ++QFTQA+D+QTA+QL K K
Sbjct: 42 GQDIQPKRDLTRFVKWPRYIRLQRQRAILYKRLKVPPAINQFTQALDRQTATQLLKLAHK 101
Query: 159 YRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQIKQGTNTVTRLVVKKKASLVIIAHDV 218
YRPE+ + KKQRL D PTK+P ++ G NTVT LV KKA LV+IAHDV
Sbjct: 102 YRPETKQEKKQRLLARAEKKAAGKGDVPTKRPPVLRAGVNTVTTLVENKKAQLVVIAHDV 161
Query: 219 DPIELFKFLEKYRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQIKQGTNTVTRLVVKK 278
DPIEL FL P K G V ++K
Sbjct: 162 DPIELVVFL----PALCR----------------------------KMG---VPYCIIKG 186
Query: 279 KASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLAKLIESVKVNFTDRYDEI 338
KA L + H C + + V+S DK LAKL+E+++ N+ DRYDEI
Sbjct: 187 KARLGHLVHR-----------KTC--TTVAFTQVNSEDKGALAKLVEAIRTNYNDRYDEI 233
Query: 339 RRQWGGGSLGSKS 351
RR WGG LG KS
Sbjct: 234 RRHWGGNVLGPKS 246
>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 = 162 bits (409), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 99/253 (39%), Positives = 135/253 (53%), Gaps = 49/253 (19%)
Query: 99 GQDIQPKRDLSRFVKWPKYIRIQRQKAVLQKRLKVPPPVHQFTQAVDKQTASQLFKFLEK 158
G + PK+DL RFVKWPK +RIQRQ+ +L++RLKVPP ++QFT+ +DK A+ LFK L K
Sbjct: 35 GGALPPKKDLHRFVKWPKVVRIQRQRRILKQRLKVPPALNQFTRTLDKNLATNLFKMLLK 94
Query: 159 YRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQIKQGTNTVTRLVVKKKASLVIIAHDV 218
YRPE AKK+RL KKP +K G N VT L+ + KA LV+IAHDV
Sbjct: 95 YRPEDKAAKKERLLKRAQAEAEGKT-VEAKKPIVVKYGLNHVTYLIEQSKAQLVVIAHDV 153
Query: 219 DPIELFKFLEKYRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQIKQGTNTVTRLVVKK 278
DPIEL +L +K + P I +G + +V KK
Sbjct: 154 DPIELVVWLPAL------CRKMEV------------------PYCIVKGKARLGSIVHKK 189
Query: 279 KASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLAKLIESVKVNFTDRYDEI 338
AS+ LC V + DK +K++E++K NF D++DE+
Sbjct: 190 TASV------------------LC------LTTVKNEDKLEFSKILEAIKANFNDKFDEV 225
Query: 339 RRQWGGGSLGSKS 351
R++WGGG +GSKS
Sbjct: 226 RKKWGGGVMGSKS 238
>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 = 159 bits (401), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 93/254 (36%), Positives = 131/254 (51%), Gaps = 49/254 (19%)
Query: 99 GQDIQPKRDLSRFVKWPKYIRIQRQKAVLQKRLKVPPPVHQFTQAVDKQTASQLFKFLEK 158
GQ +QPKR+LSR+VKWP+Y+R+QRQK +L RLKVPP + QF +D+ TA++ FK K
Sbjct: 37 GQAVQPKRNLSRYVKWPEYVRVQRQKKILSIRLKVPPTIAQFQYTLDRNTAAETFKLFNK 96
Query: 159 YRPESWEAKKQRLXXXXXX-XXXXXXDTPTKKPNQIKQGTNTVTRLVVKKKASLVIIAHD 217
YRPE+ KK+RL + KP +K G N V L+ KKA LV+IA+D
Sbjct: 97 YRPETAAEKKERLTKEAAAVAEGKSKQDASPKPYAVKYGLNHVVALIENKKAKLVLIAND 156
Query: 218 VDPIELFKFLEKYRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQIKQGTNTVTRLVVK 277
VDPIEL FL KK + P I +G + LV +
Sbjct: 157 VDPIELVVFLPAL------CKKMGV------------------PYAIVKGKARLGTLVNQ 192
Query: 278 KKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLAKLIESVKVNFTDRYDE 337
K +++ + V + D+A LAKL+ ++ NF D+YDE
Sbjct: 193 KTSAVAALTE------------------------VRAEDEAALAKLVSTIDANFADKYDE 228
Query: 338 IRRQWGGGSLGSKS 351
+++ WGGG LG+K+
Sbjct: 229 VKKHWGGGILGNKA 242
>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 = 153 bits (386), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 100/255 (39%), Positives = 129/255 (50%), Gaps = 50/255 (19%)
Query: 97 QTGQDIQPKRDLSRFVKWPKYIRIQRQKAVLQKRLKVPPPVHQFTQAVDKQTASQLFKFL 156
+ G DIQPKRDL+RFV+WP+YI +QRQK VL +RLKVPP +HQFT+ +DK +S LFK L
Sbjct: 30 RVGGDIQPKRDLTRFVRWPRYITLQRQKRVLLQRLKVPPQIHQFTKTLDKNQSSNLFKLL 89
Query: 157 EKYRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQIKQGTNTVTRLVVKKKASLVIIAH 216
Y PE KKQRL TKKP +K G N +T L+ K+A LV+IAH
Sbjct: 90 ASYAPEKPAEKKQRL-VAQAEAKKDGKQVETKKPIVLKYGLNHITTLIENKQAKLVVIAH 148
Query: 217 DVDPIELFKFLEKYRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQIKQGTNTVTRLVV 276
DVDPIEL FL + +K + P +G + +LV
Sbjct: 149 DVDPIELVIFLPQL------CRKNDV------------------PFAFVKGKAALGKLVN 184
Query: 277 KKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLAKLIESVKVNFTDRYD 336
KK A+ V + V + DKA L + E K N+ + D
Sbjct: 185 KKTATAVALTE------------------------VRNEDKAKLQQFSELFKTNY-NAND 219
Query: 337 EIRRQWGGGSLGSKS 351
E+R+ WGGG LG KS
Sbjct: 220 ELRKTWGGGILGQKS 234
>pdb|3ZF7|XX Chain x, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 276
Score = 126 bits (316), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 86/258 (33%), Positives = 126/258 (48%), Gaps = 49/258 (18%)
Query: 95 DKQTGQDIQPKRDLSRFVKWPKYIRIQRQKAVLQKRLKVPPPVHQFTQAVDKQTASQLFK 154
D G+D+ RDLSRF++WP ++ +QR+K VLQ+RLKVPP ++QFT+ +D+ + ++L K
Sbjct: 46 DFGIGRDVPYARDLSRFMRWPTFVTMQRKKRVLQRRLKVPPALNQFTKVLDRSSRNELLK 105
Query: 155 FLEKYRPESWEAKKQRLXXXXXXXXXXXXDT-PTKKPNQIKQGTNTVTRLVVKKKASLVI 213
++KY PE+ +A++ RL T TK P + G VTR + KK A LV+
Sbjct: 106 LVKKYAPETRKARRDRLTKVAEEKKKNPKGTVSTKAPLCVVSGLQEVTRTIEKKTARLVL 165
Query: 214 IAHDVDPIELFKFLEKYRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQIKQGTNTVTR 273
IA++VDPIEL ++ P A N +
Sbjct: 166 IANNVDPIELVLWM----PTLCRA-------------------------------NKIPY 190
Query: 274 LVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLAKLIESVKVNFTD 333
+VK KA L + + A C + + V++ D+A L L SV F
Sbjct: 191 AIVKDKARLG---------DAIGRKTATC----VAFTDVNAEDQAALKNLTRSVNARFLA 237
Query: 334 RYDEIRRQWGGGSLGSKS 351
R D IRRQWGG L +S
Sbjct: 238 RSDVIRRQWGGLQLSLRS 255
>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 = 73.9 bits (180), Expect = 1e-13, Method: Composition-based stats.
Identities = 39/67 (58%), Positives = 48/67 (71%), Gaps = 2/67 (2%)
Query: 258 TKKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDK 317
+ KP +K G N V L+ KKA LV+IA+DVDPIELV+FLPALC+KMG+PY IV K
Sbjct: 20 SPKPYAVKYGLNHVVALIENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKG--K 77
Query: 318 ANLAKLI 324
A L L+
Sbjct: 78 ARLGTLV 84
Score = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 23/41 (56%), Positives = 28/41 (68%)
Query: 187 TKKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
+ KP +K G N V L+ KKA LV+IA+DVDPIEL FL
Sbjct: 20 SPKPYAVKYGLNHVVALIENKKAKLVLIANDVDPIELVVFL 60
>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 = 73.2 bits (178), Expect = 2e-13, Method: Composition-based stats.
Identities = 39/67 (58%), Positives = 48/67 (71%), Gaps = 2/67 (2%)
Query: 258 TKKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDK 317
+ KP +K G N V L+ KKA LV+IA+DVDPIELV+FLPALC+KMG+PY IV K
Sbjct: 25 SPKPYAVKYGLNHVVALIENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKG--K 82
Query: 318 ANLAKLI 324
A L L+
Sbjct: 83 ARLGTLV 89
Score = 43.9 bits (102), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/41 (56%), Positives = 28/41 (68%)
Query: 187 TKKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
+ KP +K G N V L+ KKA LV+IA+DVDPIEL FL
Sbjct: 25 SPKPYAVKYGLNHVVALIENKKAKLVLIANDVDPIELVVFL 65
>pdb|3PAF|A Chain A, M. Jannaschii L7ae Mutant
pdb|3PAF|B Chain B, M. Jannaschii L7ae Mutant
Length = 117
Score = 58.2 bits (139), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 30/55 (54%), Positives = 35/55 (63%)
Query: 260 KPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
K QIK+G N VT+ V + A LVIIA DV P E+V LP LC + GIPY V S
Sbjct: 23 KAQQIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVAS 77
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/59 (45%), Positives = 33/59 (55%), Gaps = 5/59 (8%)
Query: 189 KPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL-----EKYRPESWEAKKQRL 242
K QIK+G N VT+ V + A LVIIA DV P E+ L EK P ++ A KQ L
Sbjct: 23 KAQQIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDL 81
>pdb|2FC3|A Chain A, Crystal Structure Of The Extremely Thermostable Aeropyrum
Pernix L7ae Multifunctional Protein
Length = 124
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/68 (44%), Positives = 41/68 (60%)
Query: 258 TKKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDK 317
++ +IK+GTN T+ V + A LV+IA DVDP E+V+ LP LC + IPY V S +
Sbjct: 23 ARETGRIKKGTNETTKAVERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKR 82
Query: 318 ANLAKLIE 325
A IE
Sbjct: 83 LGEAAGIE 90
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 34/61 (55%), Gaps = 5/61 (8%)
Query: 187 TKKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL-----EKYRPESWEAKKQR 241
++ +IK+GTN T+ V + A LV+IA DVDP E+ L EK P + K+R
Sbjct: 23 ARETGRIKKGTNETTKAVERGLAKLVVIAEDVDPPEIVMHLPLLCDEKKIPYVYVPSKKR 82
Query: 242 L 242
L
Sbjct: 83 L 83
>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 = 55.8 bits (133), Expect = 4e-08, Method: Composition-based stats.
Identities = 26/53 (49%), Positives = 33/53 (62%)
Query: 264 IKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSD 316
IK+G N + V + KA LVIIA D DPIE+VL LP C G+PY + S +
Sbjct: 32 IKRGANEALKQVNRGKAELVIIAADADPIEIVLHLPLACEDKGVPYVFIGSKN 84
Score = 35.8 bits (81), Expect = 0.039, Method: Composition-based stats.
Identities = 17/31 (54%), Positives = 21/31 (67%)
Query: 193 IKQGTNTVTRLVVKKKASLVIIAHDVDPIEL 223
IK+G N + V + KA LVIIA D DPIE+
Sbjct: 32 IKRGANEALKQVNRGKAELVIIAADADPIEI 62
>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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 35/53 (66%)
Query: 262 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
+I++GTN T+ V + +A LVIIA DVDP E+V LP LC + IPY V S
Sbjct: 30 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPS 82
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 191 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
+I++GTN T+ V + +A LVIIA DVDP E+ L
Sbjct: 30 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHL 66
>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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 35/53 (66%)
Query: 262 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
+I++GTN T+ V + +A LVIIA DVDP E+V LP LC + IPY V S
Sbjct: 36 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPS 88
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 191 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
+I++GTN T+ V + +A LVIIA DVDP E+ L
Sbjct: 36 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHL 72
>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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 35/53 (66%)
Query: 262 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
+I++GTN T+ V + +A LVIIA DVDP E+V LP LC + IPY V S
Sbjct: 31 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPS 83
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 191 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
+I++GTN T+ V + +A LVIIA DVDP E+ L
Sbjct: 31 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHL 67
>pdb|2CZW|A Chain A, Crystal Structure Analysis Of Protein Component Ph1496p Of
P.Horikoshii Ribonuclease P
Length = 124
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 35/53 (66%)
Query: 262 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
+I++GTN T+ V + +A LVIIA DVDP E+V LP LC + IPY V S
Sbjct: 31 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPS 83
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 191 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
+I++GTN T+ V + +A LVIIA DVDP E+ L
Sbjct: 31 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHL 67
>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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 35/53 (66%)
Query: 262 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
+I++GTN T+ V + +A LVIIA DVDP E+V LP LC + IPY V S
Sbjct: 35 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPS 87
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 191 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
+I++GTN T+ V + +A LVIIA DVDP E+ L
Sbjct: 35 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHL 71
>pdb|3HJW|C Chain C, Structure Of A Functional Ribonucleoprotein Pseudouridine
Synthase Bound To A Substrate Rna
Length = 120
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 35/53 (66%)
Query: 262 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
+I++GTN T+ V + +A LVIIA DVDP E+V LP LC + IPY V S
Sbjct: 28 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYIYVPS 80
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 25/37 (67%)
Query: 191 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
+I++GTN T+ V + +A LVIIA DVDP E+ L
Sbjct: 28 GKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHL 64
>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 = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 28/57 (49%), Positives = 36/57 (63%)
Query: 258 TKKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
K+ +IK+GTN T+ V + +A LVIIA DV P E+V LP LC + IPY V S
Sbjct: 29 AKESGKIKKGTNETTKAVERGQAKLVIIAEDVQPEEIVAHLPLLCDEKKIPYVYVSS 85
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 26/41 (63%)
Query: 187 TKKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
K+ +IK+GTN T+ V + +A LVIIA DV P E+ L
Sbjct: 29 AKESGKIKKGTNETTKAVERGQAKLVIIAEDVQPEEIVAHL 69
>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 = 53.1 bits (126), Expect = 3e-07, Method: Composition-based stats.
Identities = 32/63 (50%), Positives = 39/63 (61%), Gaps = 2/63 (3%)
Query: 260 KPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKAN 319
K +IK+G N VT+ V + A LVIIA DV P E+V LP LC + GIPY V S K +
Sbjct: 26 KAQKIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVAS--KQD 83
Query: 320 LAK 322
L K
Sbjct: 84 LGK 86
Score = 37.7 bits (86), Expect = 0.012, Method: Composition-based stats.
Identities = 26/59 (44%), Positives = 33/59 (55%), Gaps = 5/59 (8%)
Query: 189 KPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL-----EKYRPESWEAKKQRL 242
K +IK+G N VT+ V + A LVIIA DV P E+ L EK P ++ A KQ L
Sbjct: 26 KAQKIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDL 84
>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 = 52.4 bits (124), Expect = 4e-07, Method: Composition-based stats.
Identities = 31/66 (46%), Positives = 38/66 (57%)
Query: 260 KPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKAN 319
K +IK+G N VT+ V + A LVIIA DV P E+V LP LC + GIPY V S
Sbjct: 23 KAQKIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLG 82
Query: 320 LAKLIE 325
A +E
Sbjct: 83 KAAGLE 88
Score = 37.0 bits (84), Expect = 0.016, Method: Composition-based stats.
Identities = 26/59 (44%), Positives = 33/59 (55%), Gaps = 5/59 (8%)
Query: 189 KPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL-----EKYRPESWEAKKQRL 242
K +IK+G N VT+ V + A LVIIA DV P E+ L EK P ++ A KQ L
Sbjct: 23 KAQKIKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDL 81
>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 = 52.0 bits (123), Expect = 6e-07, Method: Composition-based stats.
Identities = 28/67 (41%), Positives = 39/67 (58%)
Query: 259 KKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKA 318
++ ++K+GTN T+ V + A LV IA DVDP E+V LP LC + +PY V S +
Sbjct: 23 RESGKVKKGTNETTKAVERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNVPYIYVKSKNDL 82
Query: 319 NLAKLIE 325
A IE
Sbjct: 83 GRAVGIE 89
Score = 34.3 bits (77), Expect = 0.12, Method: Composition-based stats.
Identities = 17/40 (42%), Positives = 25/40 (62%)
Query: 188 KKPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
++ ++K+GTN T+ V + A LV IA DVDP E+ L
Sbjct: 23 RESGKVKKGTNETTKAVERGLAKLVYIAEDVDPPEIVAHL 62
>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 = 48.9 bits (115), Expect = 4e-06, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 36/62 (58%)
Query: 264 IKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLAKL 323
+K+GTN T+ + + A LV +A DV P E+V+ +P L + G+P+ V+ D A
Sbjct: 30 VKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAG 89
Query: 324 IE 325
+E
Sbjct: 90 LE 91
Score = 31.6 bits (70), Expect = 0.76, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 193 IKQGTNTVTRLVVKKKASLVIIAHDVDPIEL 223
+K+GTN T+ + + A LV +A DV P E+
Sbjct: 30 VKKGTNETTKSIERGSAELVFVAEDVQPEEI 60
>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 = 48.9 bits (115), Expect = 4e-06, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 36/62 (58%)
Query: 264 IKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLAKL 323
+K+GTN T+ + + A LV +A DV P E+V+ +P L + G+P+ V+ D A
Sbjct: 29 VKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAG 88
Query: 324 IE 325
+E
Sbjct: 89 LE 90
Score = 31.6 bits (70), Expect = 0.79, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 193 IKQGTNTVTRLVVKKKASLVIIAHDVDPIEL 223
+K+GTN T+ + + A LV +A DV P E+
Sbjct: 29 VKKGTNETTKSIERGSAELVFVAEDVQPEEI 59
>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 = 48.1 bits (113), Expect = 7e-06, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 36/62 (58%)
Query: 264 IKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLAKL 323
+K+GTN T+ + + A LV +A DV P E+V+ +P L + G+P+ V+ D A
Sbjct: 29 VKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADEKGVPFIFVEQQDDLGHAAG 88
Query: 324 IE 325
+E
Sbjct: 89 LE 90
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 193 IKQGTNTVTRLVVKKKASLVIIAHDVDPIEL 223
+K+GTN T+ + + A LV +A DV P E+
Sbjct: 29 VKKGTNETTKSIERGSAELVFVAEDVQPEEI 59
>pdb|2ALE|A Chain A, Crystal Structure Of Yeast Rna Splicing Factor Snu13p
Length = 134
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 32/52 (61%)
Query: 263 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
Q+K+G N T+ + + + +I+A D +PIE++L LP LC +PY V S
Sbjct: 32 QLKKGANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPS 83
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 192 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
Q+K+G N T+ + + + +I+A D +PIE+ L
Sbjct: 32 QLKKGANEATKTLNRGISEFIIMAADCEPIEILLHL 67
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 32/52 (61%)
Query: 263 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
Q+K+G N T+ + + + +I+A D +PIE++L LP LC +PY V S
Sbjct: 32 QLKKGANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPS 83
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 192 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
Q+K+G N T+ + + + +I+A D +PIE+ L
Sbjct: 32 QLKKGANEATKTLNRGISEFIIMAADCEPIEILLHL 67
>pdb|2JNB|A Chain A, Solution Structure Of Rna-Binding Protein 15.5k
Length = 144
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 32/52 (61%)
Query: 263 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
Q+++G N T+ + + + +++A D +P+E++L LP LC +PY V S
Sbjct: 50 QLRKGANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRS 101
>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 = 44.7 bits (104), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 32/52 (61%)
Query: 263 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
Q+++G N T+ + + + +++A D +P+E++L LP LC +PY V S
Sbjct: 36 QLRKGANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRS 87
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 32/52 (61%)
Query: 263 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
Q+++G N T+ + + + +++A D +P+E++L LP LC +PY V S
Sbjct: 34 QLRKGANEATKTLNRGISEFIVMAADAEPLEIILHLPLLCEDKNVPYVFVRS 85
>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 = 1e-04, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 32/52 (61%)
Query: 263 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
Q+++G N T+ + + A +V++A D +P+E++L LP +C PY V S
Sbjct: 41 QLRKGANEATKALNRGIAEIVLLAADAEPLEILLHLPLVCEDKNTPYVFVRS 92
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 23/36 (63%)
Query: 192 QIKQGTNTVTRLVVKKKASLVIIAHDVDPIELFKFL 227
Q+++G N T+ + + A +V++A D +P+E+ L
Sbjct: 41 QLRKGANEATKALNRGIAEIVLLAADAEPLEILLHL 76
>pdb|2LBX|A Chain A, Solution Structure Of The S. Cerevisiae HACA RNP PROTEIN
NHP2P
Length = 121
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 260 KPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
K +K+G V + + K + LV+IA D+ P +++ +P LC +PY + S
Sbjct: 17 KAKNVKRGVKEVVKALRKGEKGLVVIAGDISPADVISHIPVLCEDHSVPYIFIPS 71
>pdb|2LBW|A Chain A, Solution Structure Of The S. Cerevisiae HACA RNP PROTEIN
NHP2P-S82w Mutant
Length = 121
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 260 KPNQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDS 314
K +K+G V + + K + LV+IA D+ P +++ +P LC +PY + S
Sbjct: 17 KAKNVKRGVKEVVKALRKGEKGLVVIAGDIWPADVISHIPVLCEDHSVPYIFIPS 71
>pdb|4FYE|A Chain A, Crystal Structure Of A Legionella Phosphoinositide
Phosphatase, Sidf
pdb|4FYF|A Chain A, Structural Basis For Substrate Recognition By A Novel
Legionella Phosphoinositide Phosphatase
pdb|4FYG|A Chain A, Structural Basis For Substrate Recognition By A Novel
Legionella Phosphoinositide Phosphatase
Length = 761
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 58/147 (39%), Gaps = 21/147 (14%)
Query: 73 QKAVLQKRLKVPPPVHQFTQAVDKQTGQDIQPKRDLSRFVKWPKYIRIQRQKAVLQKRLK 132
K L++ KV + QFTQAV K +G ++ K IR + +
Sbjct: 138 NKDFLEQLAKVEGSLQQFTQAVAKASGHKLKA------LDKEGHNIRSHNRDTL------ 185
Query: 133 VPPPVHQFTQAVDKQTASQLFKFLEKYRPESWEAKKQRLXXXXXXXXXXXXDTPTKKPNQ 192
+H+F K+ Q ++ R + ++QRL DT + K +
Sbjct: 186 ----IHRFKAPNSKEGEEQFIMYIPCGR---YTKRQQRLMGKDESEVNRDHDTTSHKRSD 238
Query: 193 IKQGTNTVTRLVVKKKAS--LVIIAHD 217
+ G +++ R++ + S V I HD
Sbjct: 239 LVLGNSSMARMIAGTRHSDGTVTIHHD 265
>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 = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 39/87 (44%), Gaps = 5/87 (5%)
Query: 262 NQIKQGTNTVTRLVVKKKASLVIIAHDVDPIELVLFLPALCRKMGIPYCIVDSSDKANLA 321
+ I +G + V R + K+A V +A D D V + ALC K I Y V +A+L
Sbjct: 23 DAISKGLHEVLRTIEAKQALFVCVAEDCDQGNYVKLVKALCAKNEIKY--VSVPKRASLG 80
Query: 322 KLIESVKVNFTDRYDEIRRQWGGGSLG 348
+ + N EI++ G SL
Sbjct: 81 EYLGHFTANAK---GEIKKVKGCSSLA 104
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
0.319 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,271,969
Number of Sequences: 62578
Number of extensions: 288534
Number of successful extensions: 691
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 608
Number of HSP's gapped (non-prelim): 69
length of query: 370
length of database: 14,973,337
effective HSP length: 100
effective length of query: 270
effective length of database: 8,715,537
effective search space: 2353194990
effective search space used: 2353194990
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)