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= psy9095
(203 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3J2K|6 Chain 6, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
Termination Complex
Length = 411
Score = 362 bits (930), Expect = e-101, Method: Compositional matrix adjust.
Identities = 169/191 (88%), Positives = 182/191 (95%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFG 69
VPPNGLV+YCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALL+DD+KFG
Sbjct: 79 VPPNGLVVYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLSDDSKFG 138
Query: 70 FIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 129
FIV+DG+GALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE
Sbjct: 139 FIVIDGSGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 198
Query: 130 VATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQA 189
A LFI+ DK N+AGL+LAGSADFKTELSQSDMFD RLQ+K++KLVD+SYGGENGFNQA
Sbjct: 199 TAVQLFISGDKVNVAGLVLAGSADFKTELSQSDMFDQRLQSKVLKLVDISYGGENGFNQA 258
Query: 190 IELAAESLQNV 200
IEL+ E L NV
Sbjct: 259 IELSTEVLSNV 269
>pdb|3E1Y|A Chain A, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|B Chain B, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|C Chain C, Crystal Structure Of Human Erf1ERF3 COMPLEX
pdb|3E1Y|D Chain D, Crystal Structure Of Human Erf1ERF3 COMPLEX
Length = 451
Score = 362 bits (928), Expect = e-101, Method: Compositional matrix adjust.
Identities = 169/194 (87%), Positives = 183/194 (94%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFG 69
VPPNGLV+YCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALL+DD+KFG
Sbjct: 102 VPPNGLVVYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLSDDSKFG 161
Query: 70 FIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 129
FIV+DG+GALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE
Sbjct: 162 FIVIDGSGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 221
Query: 130 VATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQA 189
A LFI+ DK N+AGL+LAGSADFKTELSQSDMFD RLQ+K++KLVD+SYGGENGFNQA
Sbjct: 222 TAVQLFISGDKVNVAGLVLAGSADFKTELSQSDMFDQRLQSKVLKLVDISYGGENGFNQA 281
Query: 190 IELAAESLQNVLIV 203
IEL+ E L NV +
Sbjct: 282 IELSTEVLSNVKFI 295
>pdb|1DT9|A Chain A, The Crystal Structure Of Human Eukaryotic Release Factor
Erf1-Mechanism Of Stop Codon Recognition And
Peptidyl-Trna Hydrolysis
Length = 437
Score = 361 bits (927), Expect = e-100, Method: Compositional matrix adjust.
Identities = 169/194 (87%), Positives = 183/194 (94%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFG 69
VPPNGLV+YCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALL+DD+KFG
Sbjct: 88 VPPNGLVVYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLSDDSKFG 147
Query: 70 FIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 129
FIV+DG+GALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE
Sbjct: 148 FIVIDGSGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 207
Query: 130 VATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQA 189
A LFI+ DK N+AGL+LAGSADFKTELSQSDMFD RLQ+K++KLVD+SYGGENGFNQA
Sbjct: 208 TAVQLFISGDKVNVAGLVLAGSADFKTELSQSDMFDQRLQSKVLKLVDISYGGENGFNQA 267
Query: 190 IELAAESLQNVLIV 203
IEL+ E L NV +
Sbjct: 268 IELSTEVLSNVKFI 281
>pdb|3E20|C Chain C, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|B Chain B, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|H Chain H, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
pdb|3E20|K Chain K, Crystal Structure Of S.Pombe Erf1ERF3 COMPLEX
Length = 441
Score = 308 bits (789), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 144/194 (74%), Positives = 164/194 (84%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFG 69
VP NGLVIYCG ++ E K +K+NIDFEPFKPINTS YLCDNKFHTEAL LL D +FG
Sbjct: 93 VPDNGLVIYCGEVIMEGNKTRKLNIDFEPFKPINTSQYLCDNKFHTEALAELLESDQRFG 152
Query: 70 FIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAE 129
FIVMDG+ L+G + G+ REVL +FTVDLPKKHGRGGQSALRFARLR EKRHNYVRKVAE
Sbjct: 153 FIVMDGHQTLYGVVSGSAREVLQRFTVDLPKKHGRGGQSALRFARLRDEKRHNYVRKVAE 212
Query: 130 VATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYGGENGFNQA 189
A FIT+DKPN+AG++LAGSADFKTEL QSD+FD RLQ++IIK VDVSYGG+ GFNQA
Sbjct: 213 GAVQHFITDDKPNVAGIVLAGSADFKTELGQSDLFDQRLQSRIIKTVDVSYGGDAGFNQA 272
Query: 190 IELAAESLQNVLIV 203
IELAA++L NV V
Sbjct: 273 IELAADTLSNVKYV 286
>pdb|2HST|A Chain A, Solution Structure Of The Middle Domain Of Human
Eukaryotic Translation Termination Factor Erf1
Length = 143
Score = 248 bits (634), Expect = 1e-66, Method: Compositional matrix adjust.
Identities = 116/137 (84%), Positives = 129/137 (94%)
Query: 62 LADDNKFGFIVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRH 121
L+DD+KFGFIV+DG+GALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRH
Sbjct: 1 LSDDSKFGFIVIDGSGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRH 60
Query: 122 NYVRKVAEVATTLFITNDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKIIKLVDVSYG 181
NYVRKVAE A LFI+ DK N+AGL+LAGSADFKTELSQSDMFD RLQ+K++KLVD+SYG
Sbjct: 61 NYVRKVAETAVQLFISGDKVNVAGLVLAGSADFKTELSQSDMFDQRLQSKVLKLVDISYG 120
Query: 182 GENGFNQAIELAAESLQ 198
GENGFNQAIEL+ E L+
Sbjct: 121 GENGFNQAIELSTEVLE 137
>pdb|2LLX|A Chain A, Solution Structure Of The N-Terminal Domain Of Human
Polypeptide Chain Release Factor Erf1
Length = 150
Score = 120 bits (300), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 53/55 (96%), Positives = 55/55 (100%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLAD 64
VPPNGLV+YCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALL+D
Sbjct: 88 VPPNGLVVYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLSD 142
>pdb|2LGT|A Chain A, Backbone 1h, 13c, And 15n Chemical Shift Assignments For
Qfm(Y)f
Length = 144
Score = 112 bits (281), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 49/55 (89%), Positives = 52/55 (94%)
Query: 10 VPPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLAD 64
VPPNGLV+YCGTIVTEEGKEKKVNIDFEPFKPIN +Y CDNKFHTEALTALL+D
Sbjct: 88 VPPNGLVVYCGTIVTEEGKEKKVNIDFEPFKPINQFMYFCDNKFHTEALTALLSD 142
>pdb|3AGK|A Chain A, Crystal Structure Of Archaeal Translation Termination
Factor, Arf1
pdb|3VMF|B Chain B, Archaeal Protein
Length = 373
Score = 100 bits (248), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 63/183 (34%), Positives = 99/183 (54%), Gaps = 7/183 (3%)
Query: 11 PPNGLVIYCGTIVTEEGKEKKVNIDFEPFKPINTSLYLCDNKFHTEALTALLADDNKFGF 70
PPNGLV++CG ++ E F P +PI Y D +F T+ L ++ D+N G
Sbjct: 89 PPNGLVLFCGEDMSTGKFE---CFMFSPPEPIRVFYYRTDKRFITDFLEDMVEDNNAIGI 145
Query: 71 IVMDGNGALFGTLQGNTREVLHKFTVDLPKKHGRGGQSALRFARLRMEKRHNYVRKVAEV 130
I+++ + A G L+G EVL + +P KH GGQS R+ R+ + + +KV E
Sbjct: 146 IIVERDQATIGLLKGARLEVLKELEGFVPGKHKMGGQSQRRYERIIEQMVDEFFKKVGEE 205
Query: 131 ATTLFIT-NDKPNIAGLILAGSADFKTELSQSDMFDPRLQAKII--KLVDVSYGGENGFN 187
A+ L + +K + G+I+AG K E + + D RL+ KI+ +LVDV+Y G G
Sbjct: 206 ASNLLVPLAEKGVLKGVIVAGPGLAKQEFVEGNYLDYRLK-KILAPELVDVAYQGLQGLK 264
Query: 188 QAI 190
+A+
Sbjct: 265 EAV 267
>pdb|3JVI|A Chain A, Product State Mimic Crystal Structure Of Protein Tyrosine
Phosphatase From Entamoeba Histolytica
Length = 161
Score = 30.4 bits (67), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 24/40 (60%)
Query: 163 MFDPRLQAKIIKLVDVSYGGENGFNQAIELAAESLQNVLI 202
M D K ++ D YGGE GF++ I++ ++ +N++I
Sbjct: 113 MVDFCTTIKTTEVPDPYYGGEKGFHRVIDILEDACENLII 152
>pdb|3IDO|A Chain A, Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica With A Phosphotyrosine Crude Mimic
Hepes Molecule In The Active Site
pdb|3IDO|B Chain B, Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica With A Phosphotyrosine Crude Mimic
Hepes Molecule In The Active Site
pdb|3ILY|A Chain A, Apo Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica Featuring A Disordered Active Site
pdb|3ILY|B Chain B, Apo Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica Featuring A Disordered Active Site
pdb|3JS5|A Chain A, Crystal Structure Of Protein Tyrosine Phosphatase From
Entamoeba Histolytica With Hepes In The Active Site.
High Resolution, Alternative Crystal Form With 1
Molecule In Asymmetric Unit
Length = 178
Score = 30.0 bits (66), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 24/40 (60%)
Query: 163 MFDPRLQAKIIKLVDVSYGGENGFNQAIELAAESLQNVLI 202
M D K ++ D YGGE GF++ I++ ++ +N++I
Sbjct: 130 MVDFCTTIKTTEVPDPYYGGEKGFHRVIDILEDACENLII 169
>pdb|4AAW|A Chain A, S.Pneumoniae Glmu In Complex With An Antibacterial
Inhibitor
pdb|4AC3|A Chain A, S.Pneumoniae Glmu In Complex With An Antibacterial
Inhibitor
Length = 459
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 49/105 (46%), Gaps = 7/105 (6%)
Query: 29 EKKVNIDFEP-FKPINTSLYLCDNKFHTEALTALLADDNKFGFIVMDGNGALFGTLQGNT 87
E+K DFE K INT Y+ DN+ EAL + ++ + + + D + G + T
Sbjct: 154 EQKDATDFEKQIKEINTGTYVFDNERLFEALKNINTNNAQGEYYITD----VIGIFR-ET 208
Query: 88 REVLHKFTV-DLPKKHGRGGQSALRFARLRMEKRHNYVRKVAEVA 131
E + +T+ D + G + AL A M +R N+ V V+
Sbjct: 209 GEKVGAYTLKDFDESLGVNDRVALATAESVMRRRINHKHMVNGVS 253
>pdb|1HM9|A Chain A, Crystal Structure Of S.Pneumoniae
N-Acetylglucosamine-1-Phosphate Uridyltransferase, Glmu,
Bound To Acetyl Coenzyme A And Udp-N- Acetylglucosamine
pdb|1HM9|B Chain B, Crystal Structure Of S.Pneumoniae
N-Acetylglucosamine-1-Phosphate Uridyltransferase, Glmu,
Bound To Acetyl Coenzyme A And Udp-N- Acetylglucosamine
pdb|1HM8|A Chain A, Crystal Structure Of S.Pneumoniae
N-Acetylglucosamine-1-Phosphate Uridyltransferase, Glmu,
Bound To Acetyl Coenzyme A
pdb|1HM8|B Chain B, Crystal Structure Of S.Pneumoniae
N-Acetylglucosamine-1-Phosphate Uridyltransferase, Glmu,
Bound To Acetyl Coenzyme A
pdb|1HM0|A Chain A, Crystal Structure Of S.Pneumoniae N-Acetylglucosamine
1-Phosphate Uridyltransferase, Glmu
pdb|1HM0|B Chain B, Crystal Structure Of S.Pneumoniae N-Acetylglucosamine
1-Phosphate Uridyltransferase, Glmu
Length = 468
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 49/105 (46%), Gaps = 7/105 (6%)
Query: 29 EKKVNIDFEP-FKPINTSLYLCDNKFHTEALTALLADDNKFGFIVMDGNGALFGTLQGNT 87
E+K DFE K INT Y+ DN+ EAL + ++ + + + D + G + T
Sbjct: 163 EQKDATDFEKQIKEINTGTYVFDNERLFEALKNINTNNAQGEYYITD----VIGIFR-ET 217
Query: 88 REVLHKFTV-DLPKKHGRGGQSALRFARLRMEKRHNYVRKVAEVA 131
E + +T+ D + G + AL A M +R N+ V V+
Sbjct: 218 GEKVGAYTLKDFDESLGVNDRVALATAESVMRRRINHKHMVNGVS 262
>pdb|1G95|A Chain A, Crystal Structure Of S.Pneumoniae Glmu, Apo Form
pdb|1G97|A Chain A, S.Pneumoniae Glmu Complexed With Udp-N-Acetylglucosamine
And Mg2+
Length = 459
Score = 28.1 bits (61), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 49/105 (46%), Gaps = 7/105 (6%)
Query: 29 EKKVNIDFEP-FKPINTSLYLCDNKFHTEALTALLADDNKFGFIVMDGNGALFGTLQGNT 87
E+K DFE K INT Y+ DN+ EAL + ++ + + + D + G + T
Sbjct: 154 EQKDATDFEKQIKEINTGTYVFDNERLFEALKNINTNNAQGEYYITD----VIGIFR-ET 208
Query: 88 REVLHKFTV-DLPKKHGRGGQSALRFARLRMEKRHNYVRKVAEVA 131
E + +T+ D + G + AL A M +R N+ V V+
Sbjct: 209 GEKVGAYTLKDFDESLGVNDRVALATAESVMRRRINHKHMVNGVS 253
>pdb|3CC2|C Chain C, 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|C Chain C, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|C Chain C, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|C Chain C, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|C Chain C, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|C Chain C, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|C Chain C, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|3G4S|C Chain C, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|C Chain C, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|C Chain C, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3I55|C Chain C, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|C Chain C, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|C Chain C, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 246
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 125 RKVAEVATTLFITNDKPNIAGLILAGSADFKT 156
RK A+ LF+T+D+P+ A LAG AD T
Sbjct: 184 RKYRRPASILFVTSDEPSTAARNLAG-ADVAT 214
>pdb|1JJ2|C Chain C, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|C Chain C, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|E Chain E, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|E Chain E, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|E Chain E, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|E Chain E, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|E Chain E, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|E Chain E, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|E Chain E, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|E Chain E, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|E Chain E, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|E Chain E, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|E Chain E, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|E Chain E, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|E Chain E, 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|C Chain C, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|C Chain C, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1S72|C Chain C, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1W2B|C Chain C, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|1YHQ|C Chain C, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|C Chain C, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|C Chain C, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|C Chain C, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|C Chain C, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|C Chain C, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|C Chain C, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|C Chain C, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|C Chain C, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|C Chain C, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|C Chain C, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|C Chain C, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|C Chain C, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|C Chain C, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|C Chain C, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|C Chain C, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|C Chain C, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|C Chain C, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|C Chain C, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|C Chain C, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|C Chain C, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|C Chain C, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|2QEX|C Chain C, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3CXC|C Chain C, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3OW2|C Chain C, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 246
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 125 RKVAEVATTLFITNDKPNIAGLILAGSADFKT 156
RK A+ LF+T+D+P+ A LAG AD T
Sbjct: 184 RKYRRPASILFVTSDEPSTAARNLAG-ADVAT 214
>pdb|1FFK|C Chain C, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1GIY|F Chain F, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
pdb|1ML5|FF Chain f, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|F Chain F, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. Large Subunit. The Coordinates For The Small
Subunit Are In The Pdb Entry 1yl4.
pdb|2B66|F Chain F, 50s Ribosomal Subunit From A Crystal Structure Of Release
Factor Rf1, Trnas And Mrna Bound To The Ribosome. This
File Contains The 50s Subunit From A Crystal Structure
Of Release Factor Rf1, Trnas And Mrna Bound To The
Ribosome And Is Described In Remark 400
pdb|2B9N|F Chain F, 50s Ribosomal Subunit From A Crystal Structure Of Release
Factor Rf2, Trnas And Mrna Bound To The Ribosome. This
File Contains The 50s Subunit From A Crystal Structure
Of Release Factor Rf1, Trnas And Mrna Bound To The
Ribosome And Is Described In Remark 400.
pdb|2B9P|F Chain F, 50s Ribosomal Subunit From A Crystal Structure Of The
Ribosome In Complex With Trnas And Mrna With A Stop
Codon In The A-Site. This File Contains The 50s Subunit
From A Crystal Structure Of The Ribosome In Complex With
Trnas And Mrna With A Stop Codon In The A-Site And Is
Described In Remark 400
Length = 246
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 125 RKVAEVATTLFITNDKPNIAGLILAGSADFKT 156
RK A+ LF+T+D+P+ A LAG AD T
Sbjct: 184 RKYRRPASILFVTSDEPSTAARNLAG-ADVAT 214
>pdb|3UAA|A Chain A, Multicopper Oxidase Cueo Mutant C500se506q (Data1)
pdb|3UAB|A Chain A, Multicopper Oxidase Cueo Mutant C500se506q (Data2)
pdb|3UAC|A Chain A, Multicopper Oxidase Cueo Mutant C500se506q (Data4)
pdb|3UAD|A Chain A, Multicopper Oxidase Cueo Mutant C500se506q (Data5)
pdb|3UAE|A Chain A, Multicopper Oxidase Cueo Mutant C500se506q (Data6)
Length = 489
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 83 LQGNTREVLHKFTVDLPKKHGRGGQSAL 110
++GN EVL KF D PK+H S L
Sbjct: 447 VEGNVSEVLVKFNHDAPKEHAYMAHSHL 474
>pdb|3NSC|A Chain A, C500s Mutant Of Cueo Bound To Cu(Ii)
pdb|3NT0|A Chain A, C500s (T1d) Mutant Of Cueo Soaked In And Bound To Cu(I)
Length = 505
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 83 LQGNTREVLHKFTVDLPKKHGRGGQSAL 110
++GN EVL KF D PK+H S L
Sbjct: 447 VEGNVSEVLVKFNHDAPKEHAYMAHSHL 474
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
0.320 0.138 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,007,648
Number of Sequences: 62578
Number of extensions: 239988
Number of successful extensions: 592
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 568
Number of HSP's gapped (non-prelim): 24
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
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: 49 (23.5 bits)