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= 029657
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OKC|A Chain A, Structure Of Mitochondrial AdpATP CARRIER IN COMPLEX WITH
Carboxyatractyloside
pdb|2C3E|A Chain A, The Bovine Mitochondrial Adp-Atp Carrier
Length = 297
Score = 89.0 bits (219), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 53/144 (36%), Positives = 73/144 (50%), Gaps = 12/144 (8%)
Query: 49 ISQLLAGGVAGALSKTCTAPLARLTILFQVQGMHSD-TATLRKASIWREASRIISEEGFR 107
+ LAGGVA A+SKT AP+ R+ +L QVQ +A + I RI E+GF
Sbjct: 8 LKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISAEKQYKGIIDCVVRIPKEQGFL 67
Query: 108 AFWKGNLVTIAHRLPYSSVNFYAYEHYKKLLHAIPVVESQGENMSSDLFVHF----VSGG 163
+FW+GNL + P ++NF + YK++ G + + +F SGG
Sbjct: 68 SFWRGNLANVIRYFPTQALNFAFKDKYKQIFLG-------GVDRHKQFWRYFAGNLASGG 120
Query: 164 LAGITAASVTYPLDLVRTRLAAQV 187
AG T+ YPLD RTRLAA V
Sbjct: 121 AAGATSLCFVYPLDFARTRLAADV 144
Score = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 35/145 (24%), Positives = 57/145 (39%), Gaps = 28/145 (19%)
Query: 51 QLLAGGVAGALSKTCTAPL--ARLTILFQVQGMHSDTATLRKASIWRE-------ASRII 101
L +GG AGA S PL AR + A + K + RE ++I
Sbjct: 115 NLASGGAAGATSLCFVYPLDFARTRL----------AADVGKGAAQREFTGLGNCITKIF 164
Query: 102 SEEGFRAFWKGNLVTIAHRLPYSSVNFYAYEHYKKLLHAIPVVESQGENMSSDLFVHFVS 161
+G R ++G V++ + Y + F Y+ K +L + + + V ++
Sbjct: 165 KSDGLRGLYQGFNVSVQGIIIYRAAYFGVYDTAKGMLP---------DPKNVHIIVSWMI 215
Query: 162 GGLAGITAASVTYPLDLVRTRLAAQ 186
A V+YP D VR R+ Q
Sbjct: 216 AQTVTAVAGLVSYPFDTVRRRMMMQ 240
>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
Determined By Nmr Molecular Fragment Replacement
Length = 303
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 41/137 (29%), Positives = 57/137 (41%), Gaps = 11/137 (8%)
Query: 47 GTISQLLAGGVAGALSKTCTAPLARLTILFQVQGMHSDTATLRKASIWREASRIIS-EEG 105
G S+LLAG GAL+ P + + FQ Q R+ EA + I+ EEG
Sbjct: 103 GIGSRLLAGSTTGALAVAVAQPTDVVKVRFQAQARAGGG---RRYQSTVEAYKTIAREEG 159
Query: 106 FRAFWKGNLVTIAHRLPYSSVNFYAYEHYKKLLHAIPVVESQGENMSSDLFVHFVSGGLA 165
R WKG +A + Y+ K L + M+ DL HF S A
Sbjct: 160 IRGLWKGTSPNVARNAIVNCAELVTYDLIKDTLL-------KANLMTDDLPCHFTSAFGA 212
Query: 166 GITAASVTYPLDLVRTR 182
G + P+D+V+TR
Sbjct: 213 GFCTTVIASPVDVVKTR 229
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 100 IISEEGFRAFWKGNLVTIAHRLPYSSVNFYAYEHYKKLLHA 140
++ +EG RAF+KG + + ++ V F YE K+ L A
Sbjct: 248 MLRKEGPRAFYKGFMPSFLRLGSWNVVMFVTYEQLKRALMA 288
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 18/33 (54%)
Query: 157 VHFVSGGLAGITAASVTYPLDLVRTRLAAQVQS 189
V F+ G A A +T+PLD + RL Q +S
Sbjct: 3 VKFLGAGTAACIADLITFPLDTAKVRLQIQGES 35
>pdb|2I3O|A Chain A, Crystal Structure Of Gamma-Glutamyl Transferase Related
Protein From Thermoplasma Acidophilum
pdb|2I3O|B Chain B, Crystal Structure Of Gamma-Glutamyl Transferase Related
Protein From Thermoplasma Acidophilum
pdb|2I3O|C Chain C, Crystal Structure Of Gamma-Glutamyl Transferase Related
Protein From Thermoplasma Acidophilum
pdb|2I3O|D Chain D, Crystal Structure Of Gamma-Glutamyl Transferase Related
Protein From Thermoplasma Acidophilum
Length = 516
Score = 30.4 bits (67), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 17/22 (77%)
Query: 96 EASRIISEEGFRAFWKGNLVTI 117
E+ R+ SEEGFR+F+ G+L I
Sbjct: 190 ESFRLXSEEGFRSFYDGSLADI 211
>pdb|3T24|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa Opdq
pdb|3T24|B Chain B, Crystal Structure Of Pseudomonas Aeruginosa Opdq
pdb|3T24|C Chain C, Crystal Structure Of Pseudomonas Aeruginosa Opdq
Length = 401
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 110 WKGNLVTIAHRLPYSSVNFYAYEHYKKLLHAIPVVESQGENMSSDL 155
W NL T H Y ++ + +HY L+H +P+ + Q ++ SD+
Sbjct: 201 WTDNLSTSYH---YGKLDNFYKQHYLGLVHTLPIADKQ--SLKSDI 241
>pdb|1MJT|A Chain A, Crystal Structure Of Sanos, A Bacterial Nitric Oxide
Synthase Oxygenase Protein, In Complex With Nad+ And
Seitu
pdb|1MJT|B Chain B, Crystal Structure Of Sanos, A Bacterial Nitric Oxide
Synthase Oxygenase Protein, In Complex With Nad+ And
Seitu
Length = 347
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/119 (22%), Positives = 48/119 (40%), Gaps = 27/119 (22%)
Query: 95 REASRIISEEGFRAFWKG-----NLVTIAHRLPYSSVNFYAY------------EHYKKL 137
+E +R+ + G WKG +++ + ++LP SV FY Y HY KL
Sbjct: 138 KEVTRLANHLG----WKGKGTNFDVLPLIYQLPNESVKFYEYPTSLIKEVPIEHNHYPKL 193
Query: 138 ------LHAIPVVESQGENMSSDLFVHFVSGGLAGITAASVTYPLDLVRTRLAAQVQSA 190
+A+P++ + + ++ G +T V +D R L +V A
Sbjct: 194 RKLNLKWYAVPIISNMDLKIGGIVYPTAPFNGWYMVTEIGVRNFIDDYRYNLLEKVADA 252
>pdb|1JJ2|B Chain B, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|B Chain B, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|D Chain D, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|D Chain D, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|D Chain D, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|D Chain D, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|D Chain D, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|D Chain D, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|D Chain D, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|D Chain D, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|D Chain D, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|D Chain D, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|D Chain D, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|D Chain D, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|D Chain D, 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|B Chain B, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|B Chain B, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|B Chain B, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|2OTL|B Chain B, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|3CXC|B Chain B, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3G4S|B Chain B, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|B Chain B, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|B Chain B, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3OW2|B Chain B, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 337
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 136 KLLHAIPVVESQGENMSSDLFVHFVSGGLAGITAASVT 173
+L HA+ +VE GE+ +D+F +AG+T T
Sbjct: 174 RLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGT 211
>pdb|1S72|B Chain B, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|B Chain B, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|B Chain B, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|B Chain B, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|B Chain B, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|B Chain B, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|B Chain B, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|B Chain B, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|B Chain B, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|B Chain B, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|B Chain B, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|B Chain B, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|B Chain B, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|B Chain B, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|B Chain B, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|B Chain B, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|B Chain B, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|B Chain B, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|B Chain B, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|B Chain B, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|B Chain B, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2QA4|B Chain B, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|B Chain B, 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|B Chain B, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|B Chain B, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|B Chain B, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|B Chain B, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|B Chain B, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|B Chain B, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|B Chain B, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|B Chain B, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|B Chain B, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|B Chain B, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 338
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 136 KLLHAIPVVESQGENMSSDLFVHFVSGGLAGITAASVT 173
+L HA+ +VE GE+ +D+F +AG+T T
Sbjct: 175 RLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGT 212
>pdb|1GIY|E Chain E, 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|EE Chain e, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|E Chain E, 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|E Chain E, 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|E Chain E, 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|E Chain E, 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 = 338
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 136 KLLHAIPVVESQGENMSSDLFVHFVSGGLAGITAASVT 173
+L HA+ +VE GE+ +D+F +AG+T T
Sbjct: 174 RLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGT 211
>pdb|1FFK|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 337
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%)
Query: 136 KLLHAIPVVESQGENMSSDLFVHFVSGGLAGITAASVT 173
+L HA+ +VE GE+ +D+F +AG+T T
Sbjct: 173 RLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGT 210
>pdb|1TXG|A Chain A, Structure Of Glycerol-3-Phosphate Dehydrogenase From
Archaeoglobus Fulgidus
pdb|1TXG|B Chain B, Structure Of Glycerol-3-Phosphate Dehydrogenase From
Archaeoglobus Fulgidus
Length = 335
Score = 26.6 bits (57), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 1/58 (1%)
Query: 58 AGALSKTCTAPLARLTILFQVQGMHSDTATLRKASIWREASRI-ISEEGFRAFWKGNL 114
AGA+ + PL ++ G DT L+ S RE R+ + G FW L
Sbjct: 8 AGAMGSALSVPLVDNGNEVRIWGTEFDTEILKSISAGREHPRLGVKLNGVEIFWPEQL 65
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 0.131 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,118,445
Number of Sequences: 62578
Number of extensions: 139779
Number of successful extensions: 337
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 322
Number of HSP's gapped (non-prelim): 18
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
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)