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= 045723
(433 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2C1W|A Chain A, The Structure Of Xendou: A Splicing Independent Snorna
Processing Endoribonuclease
pdb|2C1W|B Chain B, The Structure Of Xendou: A Splicing Independent Snorna
Processing Endoribonuclease
pdb|2C1W|C Chain C, The Structure Of Xendou: A Splicing Independent Snorna
Processing Endoribonuclease
Length = 292
Score = 192 bits (487), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 110/276 (39%), Positives = 153/276 (55%), Gaps = 15/276 (5%)
Query: 166 DLSQGCYRLWELDSNRLVPGKDYEIDCGDGKKAY------QKDDMAQGSLFSWLSDDVFR 219
+LS+ LW+ D NR+ GKDY I GK Y Q D A LF ++ ++ +
Sbjct: 11 ELSKLFNELWDADQNRMKSGKDYRISL-QGKAGYVPAGSNQARDSASFPLFQFVDEEKLK 69
Query: 220 -KPTYSRFCSLLDNYNPNAGHKEVVTSEEKQEQAAFIEEISRTAPIKYLHKYLSAKGIVS 278
+ T++ F SLLDNY + G EVVT EE E F++ I T +K H YL K
Sbjct: 70 SRKTFATFISLLDNYEMDTGVAEVVTPEEIAENNNFLDAILETKVMKMAHDYLVRKNQAK 129
Query: 279 GNYQDFKRTISSLWFDLYGRG-GTSSCSSAFEHVFVGEIKQAGEQEVSGFHNWLQFCLEE 337
DFK + ++WF LY R G+ S FEHVFVGE K+ QE+ G HNW+QF L+E
Sbjct: 130 PTRNDFKVQLYNIWFQLYSRAPGSRPDSCGFEHVFVGESKRG--QEMMGLHNWVQFYLQE 187
Query: 338 AKGNVDYQGYIFPRRRGQVPDSETQLLTVQFEWNGILKSVSTTLVGVSPEFEIALYTLCF 397
+ N+DY+GY+ R+ PD + Q+L +QF W ++K V ++ +GVSPEFE ALYT+ F
Sbjct: 188 KRKNIDYKGYV-ARQNKSRPDEDDQVLNLQFNWKEMVKPVGSSFIGVSPEFEFALYTIVF 246
Query: 398 FVGGED---NYVQLGPYPVNIKCYRFGDRIGSVFPI 430
E V+L Y + I R G IG+ +P+
Sbjct: 247 LASQEKMSREVVRLEEYELQIVVNRHGRYIGTAYPV 282
>pdb|1W0O|A Chain A, Vibrio Cholerae Sialidase
pdb|1W0P|A Chain A, Vibrio Cholerae Sialidase With Alpha-2,6-Sialyllactose
Length = 781
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 153 IDDTLEPSEEELADLSQGCYRLW-ELDSNRLVPGKDYE 189
I +TLEPSE ++ +L G L LD N++V G +Y
Sbjct: 611 ILETLEPSEADMVELQNGDLLLTARLDFNQIVNGVNYS 648
>pdb|1KIT|A Chain A, Vibrio Cholerae Neuraminidase
Length = 757
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 153 IDDTLEPSEEELADLSQGCYRLW-ELDSNRLVPGKDYE 189
I +TLEPSE ++ +L G L LD N++V G +Y
Sbjct: 587 ILETLEPSEADMVELQNGDLLLTARLDFNQIVNGVNYS 624
>pdb|3P8Z|A Chain A, Dengue Methyltransferase Bound To A Sam-Based Inhibitor
pdb|3P8Z|C Chain C, Dengue Methyltransferase Bound To A Sam-Based Inhibitor
pdb|3P97|A Chain A, Dengue 3 Ns5 Methyltransferase Bound To The Substrate
S-Adenosyl Methionine
pdb|3P97|C Chain C, Dengue 3 Ns5 Methyltransferase Bound To The Substrate
S-Adenosyl Methionine
Length = 267
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 48/90 (53%), Gaps = 14/90 (15%)
Query: 117 ETVGRKPPRRQHKIQKEQWNGYKKPPNEQEYSNDVQIDDT-----LEPSEEELADLSQGC 171
ET+G K ++ +++ +++++ YKK S ++D T L+ E +S+G
Sbjct: 12 ETLGEKWKKKLNQLSRKEFDLYKK-------SGITEVDRTEAKEGLKRGETTHHAVSRGS 64
Query: 172 YRL-WELDSNRLVP-GKDYEIDCGDGKKAY 199
+L W ++ N ++P G+ ++ CG G +Y
Sbjct: 65 AKLQWFVERNMVIPEGRVIDLGCGRGGWSY 94
>pdb|2XBM|A Chain A, Crystal Structure Of The Dengue Virus Methyltransferase
Bound To A 5'-Capped Octameric Rna
pdb|2XBM|B Chain B, Crystal Structure Of The Dengue Virus Methyltransferase
Bound To A 5'-Capped Octameric Rna
pdb|2XBM|C Chain C, Crystal Structure Of The Dengue Virus Methyltransferase
Bound To A 5'-Capped Octameric Rna
pdb|2XBM|D Chain D, Crystal Structure Of The Dengue Virus Methyltransferase
Bound To A 5'-Capped Octameric Rna
Length = 263
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 48/90 (53%), Gaps = 14/90 (15%)
Query: 117 ETVGRKPPRRQHKIQKEQWNGYKKPPNEQEYSNDVQIDDT-----LEPSEEELADLSQGC 171
ET+G K ++ +++ +++++ YKK S ++D T L+ E +S+G
Sbjct: 7 ETLGEKWKKKLNQLSRKEFDLYKK-------SGITEVDRTEAKEGLKRGETTHHAVSRGS 59
Query: 172 YRL-WELDSNRLVP-GKDYEIDCGDGKKAY 199
+L W ++ N ++P G+ ++ CG G +Y
Sbjct: 60 AKLQWFVERNMVIPEGRVIDLGCGRGGWSY 89
>pdb|2OS8|C Chain C, Rigor-Like Structures Of Muscle Myosins Reveal Key
Mechanical Elements In The Transduction Pathways Of This
Allosteric Motor
pdb|2OTG|C Chain C, Rigor-Like Structures Of Muscle Myosins Reveal Key
Mechanical Elements In The Transduction Pathways Of This
Allosteric Motor
Length = 157
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 40/94 (42%), Gaps = 5/94 (5%)
Query: 265 KYLHKYLSAKGIVSGNYQDFKRTISSLWFDLYGRGGTSSCSSAFEHVFVGEIKQAGEQEV 324
++L Y G Y D+ + FD G+G S + HV G ++ ++EV
Sbjct: 68 EFLPAYEGLMDCEQGTYADYMEAFKT--FDREGQGFISG--AELRHVLSGLGERLSDEEV 123
Query: 325 SGFHNWLQFCLEEAKGNVDYQGYIFPRRRGQVPD 358
N L E+ +GNV Y+ ++ G PD
Sbjct: 124 DEIIN-LTDLQEDLEGNVKYEEFVKKVMTGPYPD 156
>pdb|3PN7|C Chain C, Visualizing New Hinges And A Potential Major Source Of
Compliance In The Lever Arm Of Myosin
pdb|3PN7|F Chain F, Visualizing New Hinges And A Potential Major Source Of
Compliance In The Lever Arm Of Myosin
pdb|3TS5|C Chain C, Crystal Structure Of A Light Chain Domain Of Scallop
Smooth Muscle Myosin
pdb|3TS5|F Chain F, Crystal Structure Of A Light Chain Domain Of Scallop
Smooth Muscle Myosin
pdb|3TUY|C Chain C, Phosphorylated Light Chain Domain Of Scallop Smooth Muscle
Myosin
pdb|3TUY|F Chain F, Phosphorylated Light Chain Domain Of Scallop Smooth Muscle
Myosin
Length = 156
Score = 28.9 bits (63), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 40/94 (42%), Gaps = 5/94 (5%)
Query: 265 KYLHKYLSAKGIVSGNYQDFKRTISSLWFDLYGRGGTSSCSSAFEHVFVGEIKQAGEQEV 324
++L Y G Y D+ + FD G+G S + HV G ++ ++EV
Sbjct: 67 EFLPAYEGLMDCEQGTYADYMEAFKT--FDREGQGFISG--AELRHVLSGLGERLSDEEV 122
Query: 325 SGFHNWLQFCLEEAKGNVDYQGYIFPRRRGQVPD 358
N L E+ +GNV Y+ ++ G PD
Sbjct: 123 DEIIN-LTDLQEDLEGNVKYEEFVKKVMTGPYPD 155
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
0.315 0.135 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,405,605
Number of Sequences: 62578
Number of extensions: 556327
Number of successful extensions: 818
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 812
Number of HSP's gapped (non-prelim): 11
length of query: 433
length of database: 14,973,337
effective HSP length: 102
effective length of query: 331
effective length of database: 8,590,381
effective search space: 2843416111
effective search space used: 2843416111
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)