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= psy16486
(150 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4BCA|A Chain A, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Tyr578phe Mutant
pdb|4BCA|B Chain B, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Tyr578phe Mutant
pdb|4BCA|C Chain C, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Tyr578phe Mutant
pdb|4BCA|D Chain D, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Tyr578phe Mutant
Length = 658
Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 48/83 (57%), Positives = 63/83 (75%)
Query: 1 FSRDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFE 60
F D E V +E ++Y IA ++GG+ AGE NG+RGY+LTY+IAY+RD +YY IG+SFE
Sbjct: 470 FEGDREKVLQHEKQVYDIAAKFGGLAAGEDNGQRGYLLTYVIAYMRDLGLEYYIIGESFE 529
Query: 61 TSVPWDKTVLLCINVKKRLTREC 83
TS PWD+ V LC NVK+R+ REC
Sbjct: 530 TSAPWDRVVDLCRNVKERIRREC 552
>pdb|4BBY|A Chain A, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Wild-Type
pdb|4BBY|B Chain B, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Wild-Type
pdb|4BBY|C Chain C, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Wild-Type
pdb|4BBY|D Chain D, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Wild-Type
pdb|4BC9|A Chain A, Mammalian Alkyldihydroxyacetonephosphate Synthase: Wild-
Type, Adduct With Cyanoethyl
pdb|4BC9|B Chain B, Mammalian Alkyldihydroxyacetonephosphate Synthase: Wild-
Type, Adduct With Cyanoethyl
pdb|4BC9|C Chain C, Mammalian Alkyldihydroxyacetonephosphate Synthase: Wild-
Type, Adduct With Cyanoethyl
pdb|4BC9|D Chain D, Mammalian Alkyldihydroxyacetonephosphate Synthase: Wild-
Type, Adduct With Cyanoethyl
Length = 658
Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 48/83 (57%), Positives = 63/83 (75%)
Query: 1 FSRDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFE 60
F D E V +E ++Y IA ++GG+ AGE NG+RGY+LTY+IAY+RD +YY IG+SFE
Sbjct: 470 FEGDREKVLQHEKQVYDIAAKFGGLAAGEDNGQRGYLLTYVIAYMRDLGLEYYIIGESFE 529
Query: 61 TSVPWDKTVLLCINVKKRLTREC 83
TS PWD+ V LC NVK+R+ REC
Sbjct: 530 TSAPWDRVVDLCRNVKERIRREC 552
>pdb|4BC7|A Chain A, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Arg419his Mutant
pdb|4BC7|B Chain B, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Arg419his Mutant
pdb|4BC7|C Chain C, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Arg419his Mutant
pdb|4BC7|D Chain D, Mammalian Alkyldihydroxyacetonephosphate Synthase:
Arg419his Mutant
Length = 658
Score = 111 bits (277), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 48/83 (57%), Positives = 63/83 (75%)
Query: 1 FSRDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFE 60
F D E V +E ++Y IA ++GG+ AGE NG+RGY+LTY+IAY+RD +YY IG+SFE
Sbjct: 470 FEGDREKVLQHEKQVYDIAAKFGGLAAGEDNGQRGYLLTYVIAYMRDLGLEYYIIGESFE 529
Query: 61 TSVPWDKTVLLCINVKKRLTREC 83
TS PWD+ V LC NVK+R+ REC
Sbjct: 530 TSAPWDRVVDLCRNVKERIRREC 552
>pdb|3HR5|L Chain L, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|A Chain A, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|P Chain P, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|Q Chain Q, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
Length = 219
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGDSFETSVPW 65
IY ++ R+ G+P+ S G T I+ ++ DFA Y S T VPW
Sbjct: 53 IYKVSNRFSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYC----SQNTLVPW 101
>pdb|2R8S|L Chain L, High Resolution Structure Of A Specific Synthetic Fab
Bound To P4-P6 Rna Ribozyme Domain
Length = 214
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGDSFETSV 63
IYS + Y G+P+ S R G T I+ ++ DFA Y+ S+ + +
Sbjct: 48 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFAT--YYCQQSYSSPI 96
>pdb|1T66|L Chain L, The Structure Of Fab With Intermediate Affinity For
Fluorescein.
pdb|1T66|C Chain C, The Structure Of Fab With Intermediate Affinity For
Fluorescein
Length = 219
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 65
IY ++ R+ G+P S G T I+ + YF S T VPW
Sbjct: 53 IYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQS--THVPW 101
>pdb|3N85|L Chain L, Crystallographic Trimer Of Her2 Extracellular Regions In
Complex With Tryptophan-Rich Antibody Fragment
Length = 217
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 52
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 48 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 87
>pdb|3IVK|L Chain L, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
pdb|3IVK|B Chain B, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
Length = 213
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 52
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>pdb|1FLR|L Chain L, 4-4-20 Fab Fragment
Length = 219
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 65
IY ++ R+ G+P S G T I+ + YF S T VPW
Sbjct: 53 IYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQS--THVPW 101
>pdb|4FAB|L Chain L, Three-Dimensional Structure Of A Fluorescein-Fab Complex
Crystallized In 2-Methyl-2,4-Pentanediol
Length = 219
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 65
IY ++ R+ G+P S G T I+ + YF S T VPW
Sbjct: 53 IYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQS--THVPW 101
>pdb|3DVN|A Chain A, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
pdb|3DVN|L Chain L, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
Length = 217
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 52
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>pdb|3PNW|A Chain A, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|D Chain D, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|G Chain G, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|J Chain J, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|M Chain M, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|P Chain P, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|S Chain S, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|V Chain V, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
Length = 228
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 52
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>pdb|3PGF|L Chain L, Crystal Structure Of Maltose Bound Mbp With A
Conformationally Specific Synthetic Antigen Binder
(Sab)
Length = 215
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 52
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>pdb|1L7I|L Chain L, Crystal Structure Of The Anti-Erbb2 Fab2c4
pdb|1S78|C Chain C, Insights Into Erbb Signaling From The Structure Of The
Erbb2- Pertuzumab Complex
pdb|1S78|E Chain E, Insights Into Erbb Signaling From The Structure Of The
Erbb2- Pertuzumab Complex
Length = 214
Score = 26.9 bits (58), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFA---CDYYFI 55
IYS + RY G+P+ S G T I+ ++ DFA C Y+I
Sbjct: 48 IYSASYRYTGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYYI 93
>pdb|2H1P|L Chain L, The Three-Dimensional Structures Of A Polysaccharide
Binding Antibody To Cryptococcus Neoformans And Its
Complex With A Peptide From A Phage Display Library:
Implications For The Identification Of Peptide Mimotopes
Length = 219
Score = 26.9 bits (58), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 65
IY ++ R+ G+P S G T I+ + YF S T VPW
Sbjct: 53 IYKVSNRFSGVPDKFSGSGSGTDFTLKISRVEAEDQGVYFCSQS--THVPW 101
>pdb|1S3K|L Chain L, Crystal Structure Of A Humanized Fab (Hu3s193) In
Complex With The Lewis Y Tetrasaccharide
pdb|3EYV|L Chain L, Anti-Lewis Y Fab Fragment With Lewis Y Antigen In The
Presence Of Zinc Ions
pdb|3EYV|A Chain A, Anti-Lewis Y Fab Fragment With Lewis Y Antigen In The
Presence Of Zinc Ions
Length = 219
Score = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGD 57
IY ++ R+ G+P+ S G T+ I+ ++ D A Y F G
Sbjct: 53 IYKVSNRFSGVPSRFSGSGSGTDFTFTISSLQPEDIATYYCFQGS 97
>pdb|3GKW|L Chain L, Crystal Structure Of The Fab Fragment Of Nimotuzumab. An
Anti- Epidermal Growth Factor Receptor Antibody
Length = 219
Score = 26.9 bits (58), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGDSFETSVPW 65
IY ++ R+ G+P+ S G T+ I+ ++ D A Y F + VPW
Sbjct: 53 IYKVSNRFSGVPSRFSGSGSGTDFTFTISSLQPEDIATYYCFQ----YSHVPW 101
>pdb|2UUU|A Chain A, Alkyldihydroxyacetonephosphate Synthase In P212121
pdb|2UUU|B Chain B, Alkyldihydroxyacetonephosphate Synthase In P212121
pdb|2UUU|C Chain C, Alkyldihydroxyacetonephosphate Synthase In P212121
pdb|2UUU|D Chain D, Alkyldihydroxyacetonephosphate Synthase In P212121
pdb|2UUV|A Chain A, Alkyldihydroxyacetonephosphate Synthase In P1
pdb|2UUV|B Chain B, Alkyldihydroxyacetonephosphate Synthase In P1
pdb|2UUV|C Chain C, Alkyldihydroxyacetonephosphate Synthase In P1
pdb|2UUV|D Chain D, Alkyldihydroxyacetonephosphate Synthase In P1
Length = 584
Score = 26.9 bits (58), Expect = 4.7, Method: Composition-based stats.
Identities = 16/67 (23%), Positives = 28/67 (41%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCIN 74
++ I + G + G+ Y + YIRDF D+ D ET+V + L +
Sbjct: 413 VFDILSKNAAFGLGSAPGKTWAEKRYDLPYIRDFLLDHNMWVDVAETTVSYANLQTLWKD 472
Query: 75 VKKRLTR 81
K+ +
Sbjct: 473 AKQTFVK 479
>pdb|2QR0|A Chain A, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|E Chain E, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|G Chain G, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|K Chain K, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|M Chain M, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|Q Chain Q, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|S Chain S, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|W Chain W, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
Length = 213
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFA 49
IYS + Y G+P+ S R G T I+ ++ DFA
Sbjct: 48 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFA 84
>pdb|2XVN|A Chain A, A. Fumigatus Chitinase A1 Phenyl-Methylguanylurea Complex
pdb|2XVN|B Chain B, A. Fumigatus Chitinase A1 Phenyl-Methylguanylurea Complex
pdb|2XVN|C Chain C, A. Fumigatus Chitinase A1 Phenyl-Methylguanylurea Complex
Length = 309
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 19 AKRYGGIPAGESNGRRGYMLT 39
AK Y G+PA E+ +GY LT
Sbjct: 239 AKLYVGLPASETAANQGYYLT 259
>pdb|2XUC|A Chain A, Natural Product-Guided Discovery Of A Fungal Chitinase
Inhibitor
pdb|2XUC|B Chain B, Natural Product-Guided Discovery Of A Fungal Chitinase
Inhibitor
pdb|2XUC|C Chain C, Natural Product-Guided Discovery Of A Fungal Chitinase
Inhibitor
pdb|2XVP|A Chain A, Chia1 From Aspergillus Fumigatus, Apostructure
pdb|2XVP|B Chain B, Chia1 From Aspergillus Fumigatus, Apostructure
pdb|2XTK|A Chain A, Chia1 From Aspergillus Fumigatus In Complex With
Acetazolamide
pdb|2XTK|B Chain B, Chia1 From Aspergillus Fumigatus In Complex With
Acetazolamide
Length = 310
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 19 AKRYGGIPAGESNGRRGYMLT 39
AK Y G+PA E+ +GY LT
Sbjct: 240 AKLYVGLPASETAANQGYYLT 260
>pdb|3CC2|Z Chain Z, 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|Z Chain Z, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|Z Chain Z, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|Z Chain Z, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CMA|Z Chain Z, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|Z Chain Z, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|3I55|Z Chain Z, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|Z Chain Z, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
Length = 116
Score = 26.6 bits (57), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 50 CDYYFIGDSFETSVPWDKTVLLCINV 75
CDY F G S++ P KTV I
Sbjct: 84 CDYKFTGGSYKPETPGGKTVRRSIRA 109
>pdb|3UJJ|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 4025 In Complex
With Con A Peptide
Length = 213
Score = 26.6 bits (57), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR-DFACDYY 53
IY +KR GIP S R G M T I+ + D DYY
Sbjct: 47 IYEDSKRPSGIPERFSGSRSGTMATLTISGAQVDDEADYY 86
>pdb|2QA4|Z Chain Z, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
Length = 92
Score = 26.6 bits (57), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 50 CDYYFIGDSFETSVPWDKTVLLCINV 75
CDY F G S++ P KTV I
Sbjct: 60 CDYKFTGGSYKPETPGGKTVRRSIRA 85
>pdb|3CPW|Y Chain Y, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|4ADX|Z Chain Z, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 92
Score = 26.6 bits (57), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 50 CDYYFIGDSFETSVPWDKTVLLCINV 75
CDY F G S++ P KTV I
Sbjct: 60 CDYKFTGGSYKPETPGGKTVRRSIRA 85
>pdb|4EQB|A Chain A, 1.5 Angstrom Crystal Structure Of SpermidinePUTRESCINE ABC
Transporter Substrate-Binding Protein From Streptococcus
Pneumoniae Strain Canada Mdr_19a In Complex With Calcium
And Hepes.
pdb|4EQB|B Chain B, 1.5 Angstrom Crystal Structure Of SpermidinePUTRESCINE ABC
Transporter Substrate-Binding Protein From Streptococcus
Pneumoniae Strain Canada Mdr_19a In Complex With Calcium
And Hepes
Length = 330
Score = 26.2 bits (56), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 2 SRDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIA 43
S+DP+ ++ DK+Y + I A E +GYM+ +A
Sbjct: 166 SKDPQQLEETVDKLYKLTPNIKAIVADE---MKGYMIQNNVA 204
>pdb|1B2W|L Chain L, Comparison Of The Three-Dimensional Structures Of A
Humanized And A Chimeric Fab Of An
Anti-Gamma-Interferon Antibody
pdb|1T04|A Chain A, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab In C2 Space Group
pdb|1T04|C Chain C, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab In C2 Space Group
pdb|1T3F|A Chain A, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab (Huzaf) In P21 21 21 Space Group
Length = 214
Score = 26.2 bits (56), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 15 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGDSF 59
IY + RY G+P+ S G T I+ ++ DFA Y+ G S+
Sbjct: 48 IYGASNRYTGVPSRFSGSGSGTDFTLTISSLQPDDFAT--YYCGQSY 92
>pdb|1YHQ|Z Chain Z, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|Z Chain Z, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|Z Chain Z, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|Z Chain Z, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|Z Chain Z, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|Z Chain Z, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|Z Chain Z, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|Z Chain Z, The Structure Of The Transition State Analogue "daa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ5|Z Chain Z, The Structure Of The Transition State Analogue "raa"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ6|Z Chain Z, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|Z Chain Z, The Structure Of The Transition State Analogue "dca"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQ8|Z Chain Z, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|Z Chain Z, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|Z Chain Z, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|Z Chain Z, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|Z Chain Z, The Structure Of The Transition State Analogue "dan"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQN|Z Chain Z, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To
The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|Z Chain Z, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|Z Chain Z, The Structure Of The Transition State Analogue "rap"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
Length = 83
Score = 26.2 bits (56), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 50 CDYYFIGDSFETSVPWDKTVLLCINV 75
CDY F G S++ P KTV I
Sbjct: 51 CDYKFTGGSYKPETPGGKTVRRSIRA 76
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 0.140 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,471,360
Number of Sequences: 62578
Number of extensions: 131753
Number of successful extensions: 364
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 351
Number of HSP's gapped (non-prelim): 31
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
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: 47 (22.7 bits)