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= psy13836
(96 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 122 bits (305), Expect = 6e-29, Method: Composition-based stats.
Identities = 52/88 (59%), Positives = 67/88 (76%)
Query: 9 LLFISDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDS 68
LLF D E V +E ++Y IA ++GG+ AGE NG+RGY+LTY+IAY+RD +YY IG+S
Sbjct: 468 LLFEGDREKVLQHEKQVYDIAAKFGGLAAGEDNGQRGYLLTYVIAYMRDLGLEYYIIGES 527
Query: 69 FETSVPWDKTVLLCINVKKRLTRECTEK 96
FETS PWD+ V LC NVK+R+ REC EK
Sbjct: 528 FETSAPWDRVVDLCRNVKERIRRECKEK 555
>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 = 122 bits (305), Expect = 6e-29, Method: Composition-based stats.
Identities = 52/88 (59%), Positives = 67/88 (76%)
Query: 9 LLFISDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDS 68
LLF D E V +E ++Y IA ++GG+ AGE NG+RGY+LTY+IAY+RD +YY IG+S
Sbjct: 468 LLFEGDREKVLQHEKQVYDIAAKFGGLAAGEDNGQRGYLLTYVIAYMRDLGLEYYIIGES 527
Query: 69 FETSVPWDKTVLLCINVKKRLTRECTEK 96
FETS PWD+ V LC NVK+R+ REC EK
Sbjct: 528 FETSAPWDRVVDLCRNVKERIRRECKEK 555
>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 = 122 bits (305), Expect = 8e-29, Method: Composition-based stats.
Identities = 52/88 (59%), Positives = 67/88 (76%)
Query: 9 LLFISDPEDVKNNEDKIYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDS 68
LLF D E V +E ++Y IA ++GG+ AGE NG+RGY+LTY+IAY+RD +YY IG+S
Sbjct: 468 LLFEGDREKVLQHEKQVYDIAAKFGGLAAGEDNGQRGYLLTYVIAYMRDLGLEYYIIGES 527
Query: 69 FETSVPWDKTVLLCINVKKRLTRECTEK 96
FETS PWD+ V LC NVK+R+ REC EK
Sbjct: 528 FETSAPWDRVVDLCRNVKERIRRECKEK 555
>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 = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGDSFETSVPW 75
IY ++ R+ G+P+ S G T I+ ++ DFA Y S T VPW
Sbjct: 53 IYKVSNRFSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYC----SQNTLVPW 101
>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 = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/100 (22%), Positives = 34/100 (34%), Gaps = 27/100 (27%)
Query: 1 MVKTPLRMLLFISDPEDVKNNEDK-------------------------IYSIAKRYGGI 35
M +TPL + + + DP + + IY ++ R+ G+
Sbjct: 4 MTQTPLSLPVSLGDPASISCRSSQSLVHSNGNTYLHWYLQKPGQSPKLLIYKVSNRFSGV 63
Query: 36 PAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 75
P S G T I+ + YF S T VPW
Sbjct: 64 PDKFSGSGSGTDFTLKISRVEAEDQGVYFCSQS--THVPW 101
>pdb|3GKW|L Chain L, Crystal Structure Of The Fab Fragment Of Nimotuzumab. An
Anti- Epidermal Growth Factor Receptor Antibody
Length = 219
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 32/70 (45%), Gaps = 10/70 (14%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGDSFETSVPWDKTVLLC 82
IY ++ R+ G+P+ S G T+ I+ ++ D A Y F + VPW
Sbjct: 53 IYKVSNRFSGVPSRFSGSGSGTDFTFTISSLQPEDIATYYCFQ----YSHVPW----TFG 104
Query: 83 INVKKRLTRE 92
K ++TRE
Sbjct: 105 QGTKLQITRE 114
>pdb|4EPL|A Chain A, Crystal Structure Of Arabidopsis Thaliana Gh3.11 (Jar1) In
Complex With Ja-Ile
Length = 581
Score = 28.1 bits (61), Expect = 1.5, Method: Composition-based stats.
Identities = 27/97 (27%), Positives = 42/97 (43%), Gaps = 13/97 (13%)
Query: 2 VKTPLRMLLFISDPEDVKNNEDKIYSIAKRYGGIPAGESNGR------RGYMLTYIIAYI 55
V+T + LL +PE + K S++ YG IPA N + G M Y + +
Sbjct: 265 VRTAMSKLL-TPNPELAETIRTKCMSLSNWYGLIPALFPNAKYVYGIMTGSMEPY-VPKL 322
Query: 56 RDFACDYYFIGDSFETSVPWDKTVLLCINVKKRLTRE 92
R +A D + + +S W + NV RL+ E
Sbjct: 323 RHYAGDLPLVSHDYGSSEGW-----IAANVTPRLSPE 354
>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 = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 75
IY ++ R+ G+P S G T I+ + YF S T VPW
Sbjct: 53 IYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQS--THVPW 101
>pdb|1FLR|L Chain L, 4-4-20 Fab Fragment
Length = 219
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 75
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 = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 75
IY ++ R+ G+P S G T I+ + YF S T VPW
Sbjct: 53 IYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQS--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 = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 23/45 (51%), Gaps = 2/45 (4%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGD 67
IY ++ R+ G+P+ S G T+ I+ ++ D A Y F G
Sbjct: 53 IYKVSNRFSGVPSRFSGSGSGTDFTFTISSLQPEDIATYYCFQGS 97
>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 = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFA---CDYYFI 65
IYS + RY G+P+ S G T I+ ++ DFA C Y+I
Sbjct: 48 IYSASYRYTGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYYI 93
>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 = 2.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 62
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 = 2.1, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 62
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>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 = 2.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGDSFETSV 73
IYS + Y G+P+ S R G T I+ ++ DFA Y+ S+ + +
Sbjct: 48 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFAT--YYCQQSYSSPI 96
>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 = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 60 CDYYFIGDSFETSVPWDKTVLLCINV 85
CDY F G S++ P KTV I
Sbjct: 84 CDYKFTGGSYKPETPGGKTVRRSIRA 109
>pdb|3PGF|L Chain L, Crystal Structure Of Maltose Bound Mbp With A
Conformationally Specific Synthetic Antigen Binder
(Sab)
Length = 215
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 62
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>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 = 2.2, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 62
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>pdb|3UJJ|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 4025 In Complex
With Con A Peptide
Length = 213
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR-DFACDYY 63
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 = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 60 CDYYFIGDSFETSVPWDKTVLLCINV 85
CDY F G S++ P KTV I
Sbjct: 60 CDYKFTGGSYKPETPGGKTVRRSIRA 85
>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 = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 62
IYS + Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>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 = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 60 CDYYFIGDSFETSVPWDKTVLLCINV 85
CDY F G S++ P KTV I
Sbjct: 60 CDYKFTGGSYKPETPGGKTVRRSIRA 85
>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 = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 4/47 (8%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDYYFIGDSF 69
IY + RY G+P+ S G T I+ ++ DFA Y+ G S+
Sbjct: 48 IYGASNRYTGVPSRFSGSGSGTDFTLTISSLQPDDFAT--YYCGQSY 92
>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 = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFA 59
IYS + Y G+P+ S R G T I+ ++ DFA
Sbjct: 48 IYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFA 84
>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 = 3.2, Method: Composition-based stats.
Identities = 16/67 (23%), Positives = 28/67 (41%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPWDKTVLLCIN 84
++ I + G + G+ Y + YIRDF D+ D ET+V + L +
Sbjct: 413 VFDILSKNAAFGLGSAPGKTWAEKRYDLPYIRDFLLDHNMWVDVAETTVSYANLQTLWKD 472
Query: 85 VKKRLTR 91
K+ +
Sbjct: 473 AKQTFVK 479
>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 = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 60 CDYYFIGDSFETSVPWDKTVLLCINV 85
CDY F G S++ P KTV I
Sbjct: 51 CDYKFTGGSYKPETPGGKTVRRSIRA 76
>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 = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 29 AKRYGGIPAGESNGRRGYMLT 49
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 = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 29 AKRYGGIPAGESNGRRGYMLT 49
AK Y G+PA E+ +GY LT
Sbjct: 240 AKLYVGLPASETAANQGYYLT 260
>pdb|2VQ1|A Chain A, Anti Trimeric Lewis X Fab54-5c10-A
pdb|2VQ1|E Chain E, Anti Trimeric Lewis X Fab54-5c10-A
Length = 217
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 2/51 (3%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIRDFACDYYFIGDSFETSVPW 75
IY ++ R+ G+P S G T I+ + YF + T VPW
Sbjct: 53 IYKVSNRFSGVPDRFSGSGSGTDFTLKISRMEAEDLGIYFCSQT--THVPW 101
>pdb|3DVG|A Chain A, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To
K63-Linked Di- Ubiquitin
Length = 217
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 25 IYSIAKRYGGIPAGESNGRRGYMLTYIIAYIR--DFACDY 62
IYS Y G+P+ S R G T I+ ++ DFA Y
Sbjct: 49 IYSARSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYY 88
>pdb|1S72|Z Chain Z, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|2OTJ|Z Chain Z, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|Z Chain Z, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QEX|Z Chain Z, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
Length = 73
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 60 CDYYFIGDSFETSVPWDKTV 79
CDY F G S++ P KTV
Sbjct: 51 CDYKFTGGSYKPETPGGKTV 70
>pdb|3G4S|Z Chain Z, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|Z Chain Z, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|Z Chain Z, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
Length = 73
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 60 CDYYFIGDSFETSVPWDKTV 79
CDY F G S++ P KTV
Sbjct: 51 CDYKFTGGSYKPETPGGKTV 70
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
0.323 0.141 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,011,487
Number of Sequences: 62578
Number of extensions: 115295
Number of successful extensions: 356
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 342
Number of HSP's gapped (non-prelim): 32
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)