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= 026476
(238 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3F67|A Chain A, Crystal Structure Of Putative Dienelactone Hydrolase From
Klebsiella Pneumoniae Subsp. Pneumoniae Mgh 78578
Length = 241
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 49/223 (21%), Positives = 86/223 (38%), Gaps = 44/223 (19%)
Query: 42 VLLISDVYGYEAPNLRKLADKVAAAGFYVAVPD--FFHGDPYVADGGKPLQEWIKDHGVD 99
V+++ +++G ++R L ++A G+ P+ F GDP + H +
Sbjct: 35 VIVVQEIFGVHE-HIRDLCRRLAQEGYLAIAPELYFRQGDPN------------EYHDIP 81
Query: 100 KGFEE---AKPVIQALKSKGITAIGAA------------GFCWGAKVV-VQLGKREFIQA 143
F+E P Q L A AA GFCWG ++ + ++A
Sbjct: 82 TLFKELVSKVPDAQVLADLDHVASWAARHGGDAHRLLITGFCWGGRITWLYAAHNPQLKA 141
Query: 144 AVLLHPSFVTVDDIKGVEVPLSI---LGAEI-------DRLSPPALVKEFEEALNAKSGV 193
AV + V + + P+ I L A + D P V+ +AL A +
Sbjct: 142 AVAWYGKLVGEKSLNSPKHPVDIAVDLNAPVLGLYGAKDASIPQDTVETXRQALRAANAT 201
Query: 194 DSFVKIFPKVAHGWTVRYNVEDETAVKAAEEAHHNLLEWFAKY 236
V ++P+ H + Y ++A++ L WFA+Y
Sbjct: 202 AEIV-VYPEADHAFNADYRASYHE--ESAKDGWQRXLAWFAQY 241
>pdb|1QZQ|A Chain A, Human Tyrosyl Dna Phosphodiesterase
pdb|1QZQ|B Chain B, Human Tyrosyl Dna Phosphodiesterase
Length = 483
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 69/159 (43%), Gaps = 23/159 (14%)
Query: 33 TGSPDSKLAVLLISDVYGYEAPNLRKLAD-----KVAAAGFYV--AVPDFFHGDPYVADG 85
+G + LIS + Y AP+L++ D ++ Y+ + P F G G
Sbjct: 187 SGESPTHFKADLISYLMAYNAPSLKEWIDVIHKHDLSETNVYLIGSTPGRFQGSQKDNWG 246
Query: 86 GKPLQEWIKDHGVDKGFEEAKPVIQALKSKGITAIGAAGFCWGA----KVVVQLGKREFI 141
L++ +KDH E+ PV+ S G ++GA W + ++ LGK
Sbjct: 247 HFRLKKLLKDHASSMPNAESWPVVGQFSSVG--SLGADESKWLCSEFKESMLTLGKESKT 304
Query: 142 --QAAVLLHPSFVTVDDIK--------GVEVPLSILGAE 170
+++V L+ + +V++++ G +P SI AE
Sbjct: 305 PGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAE 343
>pdb|1MU7|A Chain A, Crystal Structure Of A Human Tyrosyl-dna Phosphodiesterase
(tdp1)- Tungstate Complex
pdb|1MU7|B Chain B, Crystal Structure Of A Human Tyrosyl-dna Phosphodiesterase
(tdp1)- Tungstate Complex
pdb|1MU9|A Chain A, Crystal Structure Of A Human Tyrosyl-Dna Phosphodiesterase
(Tdp1)- Vanadate Complex
pdb|1MU9|B Chain B, Crystal Structure Of A Human Tyrosyl-Dna Phosphodiesterase
(Tdp1)- Vanadate Complex
pdb|1NOP|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
(Tdp1) In Complex With Vanadate, Dna And A Human
Topoisomerase I-Derived Peptide
pdb|1NOP|B Chain B, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
(Tdp1) In Complex With Vanadate, Dna And A Human
Topoisomerase I-Derived Peptide
pdb|1RFF|A Chain A, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octapeptide Klnyydpr, And
Tetranucleotide Agtt.
pdb|1RFF|B Chain B, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octapeptide Klnyydpr, And
Tetranucleotide Agtt.
pdb|1RFI|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Pentapeptide Klnyk, And
Tetranucleotide Agtc
pdb|1RFI|B Chain B, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Pentapeptide Klnyk, And
Tetranucleotide Agtc
pdb|1RG1|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agtt
pdb|1RG1|B Chain B, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agtt
pdb|1RG2|A Chain A, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agta
pdb|1RG2|B Chain B, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agta
pdb|1RGT|A Chain A, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agtc
pdb|1RGT|B Chain B, Crystal Structure Of Human Tyrosyl-dna Phosphodiesterase
Complexed With Vanadate, Octopamine, And Tetranucleotide
Agtc
pdb|1RGU|A Chain A, The Crystal Structure Of Human Tyrosyl-dna
Phosphodiesterase Complexed With Vanadate, Octopamine,
And Tetranucleotide Agtg
pdb|1RGU|B Chain B, The Crystal Structure Of Human Tyrosyl-dna
Phosphodiesterase Complexed With Vanadate, Octopamine,
And Tetranucleotide Agtg
pdb|1RH0|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Octopamine And Trinucleotide
Gtt
pdb|1RH0|B Chain B, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
Complexed With Vanadate, Octopamine And Trinucleotide
Gtt
Length = 485
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 69/159 (43%), Gaps = 23/159 (14%)
Query: 33 TGSPDSKLAVLLISDVYGYEAPNLRKLAD-----KVAAAGFYV--AVPDFFHGDPYVADG 85
+G + LIS + Y AP+L++ D ++ Y+ + P F G G
Sbjct: 189 SGESPTHFKANLISYLTAYNAPSLKEWIDVIHKHDLSETNVYLIGSTPGRFQGSQKDNWG 248
Query: 86 GKPLQEWIKDHGVDKGFEEAKPVIQALKSKGITAIGAAGFCWGA----KVVVQLGKREFI 141
L++ +KDH E+ PV+ S G ++GA W + ++ LGK
Sbjct: 249 HFRLKKLLKDHASSMPNAESWPVVGQFSSVG--SLGADESKWLCSEFKESMLTLGKESKT 306
Query: 142 --QAAVLLHPSFVTVDDIK--------GVEVPLSILGAE 170
+++V L+ + +V++++ G +P SI AE
Sbjct: 307 PGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAE 345
>pdb|1JY1|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase
(Tdp1)
Length = 464
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 68/159 (42%), Gaps = 23/159 (14%)
Query: 33 TGSPDSKLAVLLISDVYGYEAPNLRKLAD-----KVAAAGFYV--AVPDFFHGDPYVADG 85
+G + LIS + Y AP+L++ D ++ Y+ + P F G G
Sbjct: 168 SGESPTHFKANLISYLTAYNAPSLKEWIDVIHKHDLSETNVYLIGSTPGRFQGSQKDNWG 227
Query: 86 GKPLQEWIKDHGVDKGFEEAKPVIQALKSKGITAIGAAGFCWGA----KVVVQLGKREFI 141
L++ +KDH E+ PV+ S G ++GA W + + LGK
Sbjct: 228 HFRLKKLLKDHASSXPNAESWPVVGQFSSVG--SLGADESKWLCSEFKESXLTLGKESKT 285
Query: 142 --QAAVLLHPSFVTVDDIK--------GVEVPLSILGAE 170
+++V L+ + +V++++ G +P SI AE
Sbjct: 286 PGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAE 324
>pdb|2CQB|A Chain A, Solution Structure Of The Rna Recognition Motif In
Peptidyl- Prolyl Cis-Trans Isomerase E
Length = 102
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 47/100 (47%), Gaps = 8/100 (8%)
Query: 121 GAAGFCWGAKVVVQLGKREFIQAAVLLHPSFVTVDDIKGVEVPLSILGAEIDRLSPPALV 180
G++G +V+ G E + VL H +F+ DI +++PL E ++ A V
Sbjct: 4 GSSGMATTKRVLYVGGLAEEVDDKVL-HAAFIPFGDITDIQIPLDY---ETEKHRGFAFV 59
Query: 181 KEFEEALNAKSGVDSFVKIFPKVAHGWTVRYNVEDETAVK 220
EFE A +A + +D+ + G T+R N+ +K
Sbjct: 60 -EFELAEDAAAAIDNMNE---SELFGRTIRVNLAKPMRIK 95
>pdb|2DFL|A Chain A, Crystal Structure Of Left-Handed Rada Filament
pdb|2Z43|A Chain A, Structure Of A Twinned Crystal Of Rada
pdb|2Z43|B Chain B, Structure Of A Twinned Crystal Of Rada
pdb|2Z43|C Chain C, Structure Of A Twinned Crystal Of Rada
pdb|2ZUB|A Chain A, Left Handed Rada
pdb|2ZUB|B Chain B, Left Handed Rada
pdb|2ZUC|A Chain A, Crystal Structure Of Left-Handed Rada Filament
pdb|2ZUC|B Chain B, Crystal Structure Of Left-Handed Rada Filament
pdb|2ZUD|A Chain A, Crystal Structure Of Left-Handed Rada Filament
pdb|2ZUD|B Chain B, Crystal Structure Of Left-Handed Rada Filament
Length = 324
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 70 VAVPDFFHGDPYVADGGKPL 89
+A PD F+GDP VA GG L
Sbjct: 258 MARPDMFYGDPTVAVGGHTL 277
>pdb|3ENQ|A Chain A, Substrate And Inhibitor Complexes Of Ribose 5-Phosphate
Isomerase A From Vibrio Vulnificus Yj016
pdb|3ENQ|B Chain B, Substrate And Inhibitor Complexes Of Ribose 5-Phosphate
Isomerase A From Vibrio Vulnificus Yj016
pdb|3ENV|A Chain A, Substrate And Inhibitor Complexes Of Ribose 5-Phosphate
Isomerase From Vibrio Vulnificus Yj016
pdb|3ENV|B Chain B, Substrate And Inhibitor Complexes Of Ribose 5-Phosphate
Isomerase From Vibrio Vulnificus Yj016
pdb|3ENW|A Chain A, Substrate And Inhibitor Complexes Of Ribose 5-Phosphate
Isomerase From Vibrio Vulnificus Yj016
pdb|3ENW|B Chain B, Substrate And Inhibitor Complexes Of Ribose 5-Phosphate
Isomerase From Vibrio Vulnificus Yj016
Length = 235
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 31/70 (44%), Gaps = 2/70 (2%)
Query: 19 AGHVEKLGGLNAYVTGSPDSKLAVLLISDVYGYEAPNLRKLADKVAAAGFYVAVPDFFHG 78
A + KLGG Y G V+L DVYG + N ++L D++ A V V F H
Sbjct: 161 ARQLVKLGGDPCYREGVITDNGNVIL--DVYGMKITNPKQLEDQINAIPGVVTVGLFAHR 218
Query: 79 DPYVADGGKP 88
V G P
Sbjct: 219 GADVVITGTP 228
>pdb|3LHR|A Chain A, Crystal Structure Of The Scan Domain From Human Znf24
pdb|3LHR|B Chain B, Crystal Structure Of The Scan Domain From Human Znf24
Length = 93
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 81 YVADGGKPLQEWIKDHGVDKGFEEAKPVIQALKSK 115
+VA K LQ W++DH + G EEA V++ L+S+
Sbjct: 57 FVAILPKELQTWVRDHHPENG-EEAVTVLEDLESE 90
>pdb|2BOL|A Chain A, Crystal Structure And Assembly Of Tsp36, A Metazoan Small
Heat Shock Protein
pdb|2BOL|B Chain B, Crystal Structure And Assembly Of Tsp36, A Metazoan Small
Heat Shock Protein
Length = 314
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 27/111 (24%), Positives = 49/111 (44%), Gaps = 23/111 (20%)
Query: 100 KGFEEAKPVIQALKSKGITAIGAAGFCWGAKVVVQLGK---------REFIQAAVLLHPS 150
K F+ + I+A K+K + + C A + +G+ R IQA +
Sbjct: 121 KNFKAEEITIKADKNKLVVRAQKSVACGDAAMSESVGRSIPLPPSVDRNHIQATI----- 175
Query: 151 FVTVDDIKGVEVPLSILGAEIDRLSP-------PALVKEFEEALNAKSGVD 194
T DD+ +E P++ + +LSP P+ V+E + A+ K G++
Sbjct: 176 --TTDDVLVIEAPVNEPNYKAIKLSPEKGLAIQPSEVQERQLAVKNKEGLE 224
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
0.317 0.136 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,852,144
Number of Sequences: 62578
Number of extensions: 333317
Number of successful extensions: 872
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 871
Number of HSP's gapped (non-prelim): 14
length of query: 238
length of database: 14,973,337
effective HSP length: 96
effective length of query: 142
effective length of database: 8,965,849
effective search space: 1273150558
effective search space used: 1273150558
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 50 (23.9 bits)