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= 032311
(143 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J3W|A Chain A, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex.
pdb|2J3W|C Chain C, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex
Length = 142
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 45/146 (30%), Positives = 66/146 (45%), Gaps = 26/146 (17%)
Query: 7 VVGHQNNPLYIQSF------TEADDALKLHH-IVHCSLDVVDERV----NNPKKSGPTLN 55
+VGH +NP++ F DD L+ I H +LD+VDE + N K+ N
Sbjct: 11 IVGHHDNPVFEMEFLPPGKAESKDDHRHLNQFIAHAALDLVDENMWLSNNMYLKTVDKFN 70
Query: 56 ETFLGLLYPTENYKVYGYLTNTKVKFILVTTDLDVRDAD-VRNFFRRFHAAYIDAVSNPF 114
E F V ++T ++FI++ DVR D ++NFF + YI NPF
Sbjct: 71 EWF-----------VSAFVTAGHMRFIMLH---DVRQEDGIKNFFTDVYDLYIKFAMNPF 116
Query: 115 HVPGKKITSRTFAERVSTIVKSFGLS 140
+ P I S F +V + K LS
Sbjct: 117 YEPNSPIRSSAFDRKVQFLGKKHLLS 142
>pdb|1H3Q|A Chain A, Crystal Sturcture Of Sedl At 2.4 Angstroms Resolution
Length = 140
Score = 53.5 bits (127), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 42/142 (29%), Positives = 65/142 (45%), Gaps = 18/142 (12%)
Query: 7 VVGHQNNPLYIQSF------TEADDALKLHH-IVHCSLDVVDERVNNPKKSGPTLNETFL 59
+VGH +NP++ F DD L+ I H +LD+VDE + N +L
Sbjct: 9 IVGHHDNPVFEMEFLPPGKAESKDDHRHLNQFIAHAALDLVDENM-------WLSNNMYL 61
Query: 60 GLLYPTENYKVYGYLTNTKVKFILVTTDLDVRDAD-VRNFFRRFHAAYIDAVSNPFHVPG 118
+ + V ++T ++FI++ DVR D ++NFF + YI NPF+ P
Sbjct: 62 KTVDKFNEWFVSAFVTAGHMRFIMLH---DVRQEDGIKNFFTDVYDLYIKFAMNPFYEPN 118
Query: 119 KKITSRTFAERVSTIVKSFGLS 140
I S F +V + K LS
Sbjct: 119 SPIRSSAFDRKVQFLGKKHLLS 140
>pdb|1P9E|A Chain A, Crystal Structure Analysis Of Methyl Parathion Hydrolase
From Pseudomonas Sp Wbc-3
pdb|1P9E|B Chain B, Crystal Structure Analysis Of Methyl Parathion Hydrolase
From Pseudomonas Sp Wbc-3
Length = 331
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 40 VDERVNNPK-KSGPTLNETFLGLLYPTENYKVYGYLTNTKVKFILVTT 86
VD+R+N P K+ L ++F P E V GYL NT K +LV T
Sbjct: 69 VDKRLNQPAPKTQSALAKSFQKA--PLET-SVTGYLVNTGSKLVLVDT 113
>pdb|4DY9|A Chain A, Leishmania Major Peroxidase Is A Cytochrome C Peroxidase
pdb|4GED|B Chain B, Crystal Structure Of The Leishmania Major
Peroxidase-Cytochrome C Complex
Length = 113
Score = 27.7 bits (60), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 20/41 (48%)
Query: 38 DVVDERVNNPKKSGPTLNETFLGLLYPTENYKVYGYLTNTK 78
+V+D + NPKK P +F G+ P E V YL K
Sbjct: 73 EVLDVYLENPKKFMPGTKMSFAGIKKPQERADVIAYLETLK 113
>pdb|2YK3|A Chain A, Crithidia Fasciculata Cytochrome C
pdb|2YK3|B Chain B, Crithidia Fasciculata Cytochrome C
pdb|2YK3|C Chain C, Crithidia Fasciculata Cytochrome C
Length = 114
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 19/41 (46%)
Query: 38 DVVDERVNNPKKSGPTLNETFLGLLYPTENYKVYGYLTNTK 78
DV+D + NP K P +F G+ P E V YL K
Sbjct: 73 DVLDVYLENPXKFMPGTKMSFAGMKKPQERADVIAYLETLK 113
>pdb|3ZV8|A Chain A, Crystal Structure Of 3c Protease Of Enterovirus 68
pdb|3ZV9|A Chain A, 3c Protease Of Enterovirus 68 Complexed With Michael
Receptor Inhibitor 74
pdb|3ZVA|A Chain A, 3c Protease Of Enterovirus 68 Complexed With Michael
Receptor Inhibitor 75
pdb|3ZVB|A Chain A, 3c Protease Of Enterovirus 68 Complexed With Michael
Receptor Inhibitor 81
pdb|3ZVC|A Chain A, 3c Protease Of Enterovirus 68 Complexed With Michael
Receptor Inhibitor 82
pdb|3ZVD|A Chain A, 3c Protease Of Enterovirus 68 Complexed With Michael
Receptor Inhibitor 83
pdb|3ZVE|A Chain A, 3c Protease Of Enterovirus 68 Complexed With Michael
Receptor Inhibitor 84
pdb|3ZVF|A Chain A, 3c Protease Of Enterovirus 68 Complexed With Michael
Receptor Inhibitor 85
pdb|3ZVG|A Chain A, 3c Protease Of Enterovirus 68 Complexed With Michael
Receptor Inhibitor 98
Length = 190
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%)
Query: 74 LTNTKVKFILVTTDLDVRDADVRNFFRRFHAAYIDAV 110
LT+T ++ +V D + + D+R+F R+ Y DAV
Sbjct: 65 LTDTNLEITIVKLDRNQKFRDIRHFLPRYEDDYNDAV 101
>pdb|3FCX|A Chain A, Crystal Structure Of Human Esterase D
pdb|3FCX|B Chain B, Crystal Structure Of Human Esterase D
Length = 282
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 31/72 (43%), Gaps = 4/72 (5%)
Query: 67 NYKVYGYLTNTKVKFILVTTDLDVRDADVRNFFRRFHAAYIDAVSNPFHVPGKKITSRTF 126
NY++Y Y+T + I +D + + H A I A+ N PGK + F
Sbjct: 117 NYRMYSYVTEELPQLINANFPVDPQRMSIFGHSMGGHGALICALKN----PGKYKSVSAF 172
Query: 127 AERVSTIVKSFG 138
A + ++ +G
Sbjct: 173 APICNPVLCPWG 184
>pdb|1FFK|T Chain T, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|V Chain V, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|V Chain V, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|X Chain X, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|X Chain X, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|X Chain X, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|X Chain X, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|X Chain X, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|X Chain X, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|X Chain X, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|X Chain X, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|X Chain X, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|X Chain X, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|X Chain X, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|X Chain X, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|X Chain X, 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|V Chain V, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|V Chain V, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1S72|W Chain W, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1W2B|V Chain V, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|1YHQ|W Chain W, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|W Chain W, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|W Chain W, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|W Chain W, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|W Chain W, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|W Chain W, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|W Chain W, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|W Chain W, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|W Chain W, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|W Chain W, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|W Chain W, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|W Chain W, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|W Chain W, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|W Chain W, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|W Chain W, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|W Chain W, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|W Chain W, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|W Chain W, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|W Chain W, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|W Chain W, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|W Chain W, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|W Chain W, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|W Chain W, 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|W Chain W, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|W Chain W, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|W Chain W, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|V Chain V, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|W Chain W, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|W Chain W, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|W Chain W, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3CXC|V Chain V, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3G4S|W Chain W, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|W Chain W, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|W Chain W, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
pdb|3I55|W Chain W, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|W Chain W, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|W Chain W, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
pdb|3OW2|V Chain V, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 154
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/125 (24%), Positives = 51/125 (40%), Gaps = 18/125 (14%)
Query: 1 MIACVAVVGHQNNPLYIQSFTEADDALKLHHIVHCSLDVVDERVNNPKKSGPTLNETFLG 60
M A V + G N IQ E L +HH+ HC+L V E + + G
Sbjct: 1 MHALVQLRGEVNMHTDIQDTLEM---LNIHHVNHCTL--VPE------------TDAYRG 43
Query: 61 LLYPTENYKVYGYLTNTKVKFILVTTDLDVR-DADVRNFFRRFHAAYIDAVSNPFHVPGK 119
++ ++ +G + ++ +L T + DADV + + H Y D F + +
Sbjct: 44 MVAKVNDFVAFGEPSQETLETVLATRAEPLEGDADVDDEWVAEHTDYDDISGLAFALLSE 103
Query: 120 KITSR 124
+ T R
Sbjct: 104 ETTLR 108
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
0.322 0.137 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,279,930
Number of Sequences: 62578
Number of extensions: 165625
Number of successful extensions: 410
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 401
Number of HSP's gapped (non-prelim): 10
length of query: 143
length of database: 14,973,337
effective HSP length: 89
effective length of query: 54
effective length of database: 9,403,895
effective search space: 507810330
effective search space used: 507810330
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)