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= psy7622
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZKR|EE Chain e, 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 = 192
Score = 169 bits (428), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 82/112 (73%), Positives = 94/112 (83%), Gaps = 1/112 (0%)
Query: 34 GTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEK 93
G +KE+A VRT+CSH+ NM+KGVT GF YKMR+ YAHFPIN V EN +L+EIRNFLGEK
Sbjct: 62 GNRKELATVRTICSHVQNMIKGVTLGFRYKMRSVYAHFPINVVIQENGSLVEIRNFLGEK 121
Query: 94 YIRRVKMAPGVKVSNSK-QKDELIIEGNDIENVSRSAALIQQSTTVKNKDIH 144
YIRRV+M PGV S S+ QKDELI+EGNDIE VS SAALIQQ+TTVKNKDI
Sbjct: 122 YIRRVRMRPGVACSVSQAQKDELILEGNDIELVSNSAALIQQATTVKNKDIR 173
>pdb|3IZR|F Chain F, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 190
Score = 139 bits (350), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 69/118 (58%), Positives = 86/118 (72%), Gaps = 1/118 (0%)
Query: 27 FDVDCDNGTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINCVTSENNTLLEI 86
VD GT++ +AA+RT SH+ N++ GVTKG+ YKMR YAHFPIN + +NT +EI
Sbjct: 54 LQVDAWFGTRRTMAAIRTAISHVQNLITGVTKGYRYKMRFVYAHFPINASITNSNTAIEI 113
Query: 87 RNFLGEKYIRRVKMAPGVKVSNS-KQKDELIIEGNDIENVSRSAALIQQSTTVKNKDI 143
RNFLGEK +R+V M GV + S K KDEL+++GNDIE VSRSAALI Q VKNKDI
Sbjct: 114 RNFLGEKKVRKVDMLEGVTILRSEKVKDELVLDGNDIELVSRSAALINQKCHVKNKDI 171
>pdb|1S1I|H Chain H, 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.
pdb|3IZS|F Chain F, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|I Chain I, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|I Chain I, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|H Chain H, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|H Chain H, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|3J16|F Chain F, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
pdb|4B6A|H Chain H, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 191
Score = 112 bits (281), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 59/122 (48%), Positives = 81/122 (66%), Gaps = 3/122 (2%)
Query: 25 ETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINC--VTSENNT 82
+ V NG +K +AA+RTV S + NM+ GVTKG+ YKMR YAHFPIN V +
Sbjct: 51 QLIKVAVHNGGRKHVAALRTVKSLVDNMITGVTKGYKYKMRYVYAHFPINVNIVEKDGAK 110
Query: 83 LLEIRNFLGEKYIRRVKMAPGVKVSNSKQ-KDELIIEGNDIENVSRSAALIQQSTTVKNK 141
+E+RNFLG+K IR V + GV + S KDE+++ GN +E+VS++AA +QQ V+NK
Sbjct: 111 FIEVRNFLGDKKIRNVPVRDGVTIEFSTNVKDEIVLSGNSVEDVSQNAADLQQICRVRNK 170
Query: 142 DI 143
DI
Sbjct: 171 DI 172
>pdb|3JYW|H Chain H, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 179
Score = 112 bits (281), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 59/122 (48%), Positives = 81/122 (66%), Gaps = 3/122 (2%)
Query: 25 ETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINC--VTSENNT 82
+ V NG +K +AA+RTV S + NM+ GVTKG+ YKMR YAHFPIN V +
Sbjct: 46 QLIKVAVHNGGRKHVAALRTVKSLVDNMITGVTKGYKYKMRYVYAHFPINVNIVEKDGAK 105
Query: 83 LLEIRNFLGEKYIRRVKMAPGVKVSNSKQ-KDELIIEGNDIENVSRSAALIQQSTTVKNK 141
+E+RNFLG+K IR V + GV + S KDE+++ GN +E+VS++AA +QQ V+NK
Sbjct: 106 FIEVRNFLGDKKIRNVPVRDGVTIEFSTNVKDEIVLSGNSVEDVSQNAADLQQICRVRNK 165
Query: 142 DI 143
DI
Sbjct: 166 DI 167
>pdb|3ZF7|YY Chain y, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 189
Score = 112 bits (281), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 62/113 (54%), Positives = 77/113 (68%), Gaps = 5/113 (4%)
Query: 34 GTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGEK 93
G K + + T SH+ NM+ GVTKGF +K+R AYAHFPI VT EN L+EIRNFLGEK
Sbjct: 60 GNKINNSTINTALSHVRNMITGVTKGFRFKVRFAYAHFPI-SVTVENQ-LVEIRNFLGEK 117
Query: 94 YIRRVKMAPGVKVSNSKQ---KDELIIEGNDIENVSRSAALIQQSTTVKNKDI 143
+RR +A VKV + KDEL++EGND+E VSR AA++ Q VK KDI
Sbjct: 118 RVRRQVVADDVKVYRTDAALVKDELVLEGNDLEQVSREAAVMHQLCLVKKKDI 170
>pdb|4A17|E Chain E, 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|E Chain E, 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|E Chain E, 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|E Chain E, 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 = 188
Score = 110 bits (276), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 51/112 (45%), Positives = 82/112 (73%), Gaps = 1/112 (0%)
Query: 33 NGTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINCVTSENNTLLEIRNFLGE 92
++KE A ++++ S I NM++GVT+G+ +KM+ A+AHFPI +++ + +EI++FLGE
Sbjct: 59 QASRKERAVLQSIASQIKNMIRGVTEGYKFKMKLAFAHFPIQEAVAKDGSSIEIKHFLGE 118
Query: 93 KYIRRVKMAPGVKVSNS-KQKDELIIEGNDIENVSRSAALIQQSTTVKNKDI 143
K IRR++ PGVK+S ++K+ L ++G D+ NVS++ ALI QS VK KDI
Sbjct: 119 KRIRRIQALPGVKISRKDEEKNTLTLQGIDLNNVSQTCALIHQSCLVKEKDI 170
>pdb|3J21|F Chain F, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 184
Score = 97.4 bits (241), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 49/111 (44%), Positives = 71/111 (63%), Gaps = 4/111 (3%)
Query: 32 DNGTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINCVTSENNTLLEIRNFLG 91
D +K++A RT +HI NM+KGVT+GF YK++ Y+HFPI+ + ++E NFLG
Sbjct: 58 DFPRRKDVAIARTFAAHIRNMIKGVTEGFTYKLKVVYSHFPISVKVQGDEVIIE--NFLG 115
Query: 92 EKYIRRVKMAPGVKVSNSKQKDELIIEGNDIENVSRSAALIQQSTTVKNKD 142
EK R+ K+ PGV V Q E+I+EG D E V ++AA I+Q+T + D
Sbjct: 116 EKAPRKAKILPGVTVKVRGQ--EIIVEGIDKEAVGQTAANIEQATRITKWD 164
>pdb|1S72|E Chain E, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|E Chain E, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|E Chain E, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|E Chain E, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|E Chain E, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|E Chain E, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|E Chain E, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|E Chain E, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|E Chain E, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|E Chain E, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|E Chain E, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|E Chain E, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|E Chain E, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|E Chain E, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|E Chain E, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|E Chain E, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|E Chain E, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|E Chain E, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|E Chain E, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|E Chain E, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|E Chain E, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|E Chain E, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|E Chain E, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|E Chain E, 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|E Chain E, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|E Chain E, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|E Chain E, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|E Chain E, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|E Chain E, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|E Chain E, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|E Chain E, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|E Chain E, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|E Chain E, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|E Chain E, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 178
Score = 79.7 bits (195), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 43/121 (35%), Positives = 66/121 (54%), Gaps = 4/121 (3%)
Query: 25 ETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINCVTSENNTLL 84
+T ++ D K ++ + T SHI NM GVT+G+ Y M Y+HFP+ + ++
Sbjct: 46 DTVVIESDEDNAKTMSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDEVVI 105
Query: 85 EIRNFLGEKYIRRVKMAPGVKVSNSKQKDELIIEGNDIENVSRSAALIQQSTTVKNKDIH 144
E NFLGEK RR + V + EL + G DIE V ++AA I+Q T + +KD+
Sbjct: 106 E--NFLGEKAPRRTTIHGDTDVEIDGE--ELTVSGPDIEAVGQTAADIEQLTRINDKDVR 161
Query: 145 L 145
+
Sbjct: 162 V 162
>pdb|1FFK|1 Chain 1, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|E Chain E, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|E Chain E, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|G Chain G, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|G Chain G, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|G Chain G, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|G Chain G, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|G Chain G, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|G Chain G, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|G Chain G, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|G Chain G, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|G Chain G, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|G Chain G, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|G Chain G, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|G Chain G, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|G Chain G, 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|E Chain E, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|E Chain E, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|E Chain E, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|E Chain E, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
Length = 177
Score = 79.3 bits (194), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 43/121 (35%), Positives = 66/121 (54%), Gaps = 4/121 (3%)
Query: 25 ETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINCVTSENNTLL 84
+T ++ D K ++ + T SHI NM GVT+G+ Y M Y+HFP+ + ++
Sbjct: 45 DTVVIESDEDNAKTMSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDEVVI 104
Query: 85 EIRNFLGEKYIRRVKMAPGVKVSNSKQKDELIIEGNDIENVSRSAALIQQSTTVKNKDIH 144
E NFLGEK RR + V + EL + G DIE V ++AA I+Q T + +KD+
Sbjct: 105 E--NFLGEKAPRRTTIHGDTDVEIDGE--ELTVSGPDIEAVGQTAADIEQLTRINDKDVR 160
Query: 145 L 145
+
Sbjct: 161 V 161
>pdb|3G4S|E Chain E, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|E Chain E, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|E Chain E, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|E Chain E, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 172
Score = 79.3 bits (194), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 43/121 (35%), Positives = 66/121 (54%), Gaps = 4/121 (3%)
Query: 25 ETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTKGFLYKMRAAYAHFPINCVTSENNTLL 84
+T ++ D K ++ + T SHI NM GVT+G+ Y M Y+HFP+ + ++
Sbjct: 45 DTVVIESDEDNAKTMSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNVEGDEVVI 104
Query: 85 EIRNFLGEKYIRRVKMAPGVKVSNSKQKDELIIEGNDIENVSRSAALIQQSTTVKNKDIH 144
E NFLGEK RR + V + EL + G DIE V ++AA I+Q T + +KD+
Sbjct: 105 E--NFLGEKAPRRTTIHGDTDVEIDGE--ELTVSGPDIEAVGQTAADIEQLTRINDKDVR 160
Query: 145 L 145
+
Sbjct: 161 V 161
>pdb|2CQL|A Chain A, Solution Structure Of The N-Terminal Domain Of Human
Ribosomal Protein L9
Length = 100
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 26/36 (72%)
Query: 24 EETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTKG 59
++ VD G +KE+A VRT+CSH+ NM+KGVT G
Sbjct: 59 KKRLRVDKWWGNRKELATVRTICSHVQNMIKGVTLG 94
>pdb|1AYL|A Chain A, Phosphoenolpyruvate Carboxykinase
Length = 541
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 14 CLYLNKTYRWEETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTK 58
L N T R + T +D D+G+K E V HI N++K V+K
Sbjct: 308 ALLENVTVREDGT--IDFDDGSKTENTRVSYPIYHIDNIVKPVSK 350
>pdb|1K3C|A Chain A, Phosphoenolpyruvate Carboxykinase In Complex With Adp,
Alf3 And Pyruvate
pdb|1K3D|A Chain A, Phosphoenolpyruvate Carboxykinase In Complex With Adp And
Alf3
pdb|1OS1|A Chain A, Structure Of Phosphoenolpyruvate Carboxykinase Complexed
With Atp,Mg, Ca And Pyruvate.
pdb|2OLQ|A Chain A, How Does An Enzyme Recognize Co2?
pdb|2OLR|A Chain A, Crystal Structure Of Escherichia Coli Phosphoenolpyruvate
Carboxykinase Complexed With Carbon Dioxide, Mg2+, Atp
pdb|1AQ2|A Chain A, Phosphoenolpyruvate Carboxykinase
pdb|2PXZ|X Chain X, E. Coli Phosphoenolpyruvate Carboxykinase (Pepck)
Complexed With Atp, Mg2+, Mn2+, Carbon Dioxide And
Oxaloacetate
Length = 540
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 14 CLYLNKTYRWEETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTK 58
L N T R + T +D D+G+K E V HI N++K V+K
Sbjct: 308 ALLENVTVREDGT--IDFDDGSKTENTRVSYPIYHIDNIVKPVSK 350
>pdb|2PY7|X Chain X, Crystal Structure Of E. Coli Phosphoenolpyruvate
Carboxykinase Mutant Lys213ser Complexed With
Atp-mg2+-mn2+
Length = 540
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 14 CLYLNKTYRWEETFDVDCDNGTKKEIAAVRTVCSHISNMLKGVTK 58
L N T R + T +D D+G+K E V HI N++K V+K
Sbjct: 308 ALLENVTVREDGT--IDFDDGSKTENTRVSYPIYHIDNIVKPVSK 350
>pdb|1RP0|A Chain A, Crystal Structure Of Thi1 Protein From Arabidopsis
Thaliana
pdb|1RP0|B Chain B, Crystal Structure Of Thi1 Protein From Arabidopsis
Thaliana
Length = 284
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 102 PGVKVSNSKQKDELIIEGNDIENVSRSAALIQQ 134
P VK+ N+ ++LI++GN + V + AL+ Q
Sbjct: 133 PNVKLFNAVAAEDLIVKGNRVGGVVTNWALVAQ 165
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 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,407,928
Number of Sequences: 62578
Number of extensions: 199171
Number of successful extensions: 439
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 410
Number of HSP's gapped (non-prelim): 21
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
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: 48 (23.1 bits)