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= 045469
(938 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IKO|C Chain C, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|F Chain F, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|I Chain I, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
Length = 460
Score = 33.5 bits (75), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 57/123 (46%), Gaps = 17/123 (13%)
Query: 154 DFDAPTREHAHQLP-DDKKQDESLLEDVWTLLRAGRQEEACDLCRSAGQPWRAATLCPFG 212
D D P RE+ + L DK++D + ++ L+ AG +EA + + + LC G
Sbjct: 157 DLDFPLRENTNVLDVKDKEEDHIFFKYIYELILAGAIDEALEEAKLSDNISICMILC--G 214
Query: 213 VIDF-SPSVEALIKNGRSRTLQAIELESGIGHQWRLWKWASYCTSEKIFEQRG-SKFEAA 270
+ ++ +P ++ I N T Q I+ S LW+ Y S +Q G +E A
Sbjct: 215 IQEYLNPVIDTQIAN-EFNTQQGIKKHS-------LWRRTVYSLS----QQAGLDPYERA 262
Query: 271 IYA 273
IY+
Sbjct: 263 IYS 265
>pdb|3JRO|C Chain C, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
Length = 426
Score = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 57/123 (46%), Gaps = 17/123 (13%)
Query: 154 DFDAPTREHAHQLP-DDKKQDESLLEDVWTLLRAGRQEEACDLCRSAGQPWRAATLCPFG 212
D D P RE+ + L DK++D + ++ L+ AG +EA + + + LC G
Sbjct: 159 DLDFPLRENTNVLDVKDKEEDHIFFKYIYELILAGAIDEALEEAKLSDNISICXILC--G 216
Query: 213 VIDF-SPSVEALIKNGRSRTLQAIELESGIGHQWRLWKWASYCTSEKIFEQRG-SKFEAA 270
+ ++ +P ++ I N T Q I+ S LW+ Y S +Q G +E A
Sbjct: 217 IQEYLNPVIDTQIAN-EFNTQQGIKKHS-------LWRRTVYSLS----QQAGLDPYERA 264
Query: 271 IYA 273
IY+
Sbjct: 265 IYS 267
>pdb|3PMC|A Chain A, Crystal Structure Of The Sporulation Inhibitor Pxo2-61
From Bacillus Anthracis
pdb|3PMC|B Chain B, Crystal Structure Of The Sporulation Inhibitor Pxo2-61
From Bacillus Anthracis
Length = 139
Score = 31.2 bits (69), Expect = 2.6, Method: Composition-based stats.
Identities = 15/60 (25%), Positives = 37/60 (61%), Gaps = 1/60 (1%)
Query: 445 KDPFRKDLMDAGDLIIHMYAMFLFSEHHEELVGVYASQLARHRCIDLFVHMMELRLNSSV 504
+DP++++++ G+ ++ + M+L E + + + + ++AR R ID V++ E N++V
Sbjct: 35 RDPYKEEIIKNGEHLLSAFIMYLKEEISLQEIEITSKKIARER-IDAKVNIAEFIHNTNV 93
>pdb|2AJQ|A Chain A, Structure Of Replicative Dna Polymerase Provides Insigts
Into The Mechanisms For Processivity, Frameshifting And
Editing
pdb|2AJQ|F Chain F, Structure Of Replicative Dna Polymerase Provides Insigts
Into The Mechanisms For Processivity, Frameshifting And
Editing
Length = 704
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 36/73 (49%)
Query: 591 LLLRALIHSNILFREFALISMWRVPAMPIGAHELLSFLAEPLKQLSENPDTLEDNVSENL 650
L+L LIHSN+ + L+ ++P G+H L ++ + E D + + E
Sbjct: 92 LVLSRLIHSNLKDTDMGLLRSGKLPGKRFGSHALEAWGYRLGEMKGEYKDDFKRMLEEQG 151
Query: 651 KEFQDWSEYYSCD 663
+E+ D E+++ +
Sbjct: 152 EEYVDGMEWWNFN 164
>pdb|3MP2|A Chain A, Crystal Structure Of Transmissible Gastroenteritis Virus
Papain-Like Protease 1
Length = 211
Score = 30.4 bits (67), Expect = 5.4, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 35/70 (50%), Gaps = 6/70 (8%)
Query: 745 ECLSPDATMCTALMSALYSTLSEEVVLNRELMVNVSISSSNNY-----CIEV-VLRCLAV 798
E + D + +++A +E+VL R + + S NY C++V R L+V
Sbjct: 77 ELMLNDYSTAKIVLAAKCGCGEKEIVLERAVFKLTPLKESFNYGVCGDCMQVNTCRFLSV 136
Query: 799 EGDGLGIHDM 808
EG G+ +HD+
Sbjct: 137 EGSGVFVHDI 146
>pdb|3I0X|A Chain A, Crystal Structure Of Clostridium Acetobutylicum
8-Oxoguanine GlycosylaseLYASE IN COMPLEX WITH DSDNA
CONTAINING ADENINE Opposite To 8-Oxog
Length = 291
Score = 29.6 bits (65), Expect = 8.4, Method: Composition-based stats.
Identities = 39/157 (24%), Positives = 66/157 (42%), Gaps = 11/157 (7%)
Query: 649 NLKEFQD-WSEYYSCDATYRKWLKIELENANVPALELSLE--EKQRAIAAAQETLNMSLI 705
N +EF++ WSEY+ YR + +I+ E + P L+ S++ E R + + +S I
Sbjct: 67 NEEEFKNVWSEYFD---LYRDYGEIKKELSRDPLLKKSVDFGEGIRILRQDPFEILLSFI 123
Query: 706 LLQRKENPWLVSLEDPIYESVEALYLELHATAILCLPS----GECLSPDATMCTALMSAL 761
+ P + + I E LE P+ E D CTA A
Sbjct: 124 ISANNRIPMIKKCINNISEKA-GKKLEYKGKIYYAFPTVDKLHEFTEKDFEECTAGFRAK 182
Query: 762 YSTLSEEVVLNRELMVNVSISSSNNYCIEVVLRCLAV 798
Y + + + N EL + S ++N C E + + + V
Sbjct: 183 YLKDTVDRIYNGELNLEYIKSLNDNECHEELKKFMGV 219
>pdb|3I0W|A Chain A, Crystal Structure Of Clostridium Acetobutylicum
8-Oxoguanine GlycosylaseLYASE IN COMPLEX WITH DSDNA
CONTAINING CYTOSINE Opposite To 8-Oxog
Length = 290
Score = 29.6 bits (65), Expect = 8.4, Method: Composition-based stats.
Identities = 39/157 (24%), Positives = 66/157 (42%), Gaps = 11/157 (7%)
Query: 649 NLKEFQD-WSEYYSCDATYRKWLKIELENANVPALELSLE--EKQRAIAAAQETLNMSLI 705
N +EF++ WSEY+ YR + +I+ E + P L+ S++ E R + + +S I
Sbjct: 67 NEEEFKNVWSEYFD---LYRDYGEIKKELSRDPLLKKSVDFGEGIRILRQDPFEILLSFI 123
Query: 706 LLQRKENPWLVSLEDPIYESVEALYLELHATAILCLPS----GECLSPDATMCTALMSAL 761
+ P + + I E LE P+ E D CTA A
Sbjct: 124 ISANNRIPMIKKCINNISEKA-GKKLEYKGKIYYAFPTVDKLHEFTEKDFEECTAGFRAK 182
Query: 762 YSTLSEEVVLNRELMVNVSISSSNNYCIEVVLRCLAV 798
Y + + + N EL + S ++N C E + + + V
Sbjct: 183 YLKDTVDRIYNGELNLEYIKSLNDNECHEELKKFMGV 219
>pdb|3F10|A Chain A, Crystal Structure Of Clostridium Acetobutylicum
8-Oxoguanine Dna Glycosylase In Complex With
8-Oxoguanosine
Length = 292
Score = 29.6 bits (65), Expect = 8.4, Method: Composition-based stats.
Identities = 39/157 (24%), Positives = 66/157 (42%), Gaps = 11/157 (7%)
Query: 649 NLKEFQD-WSEYYSCDATYRKWLKIELENANVPALELSLE--EKQRAIAAAQETLNMSLI 705
N +EF++ WSEY+ YR + +I+ E + P L+ S++ E R + + +S I
Sbjct: 67 NEEEFKNVWSEYFD---LYRDYGEIKKELSRDPLLKKSVDFGEGIRILRQDPFEILLSFI 123
Query: 706 LLQRKENPWLVSLEDPIYESVEALYLELHATAILCLPS----GECLSPDATMCTALMSAL 761
+ P + + I E LE P+ E D CTA A
Sbjct: 124 ISANNRIPMIKKCINNISEKA-GKKLEYKGKIYYAFPTVDKLHEFTEKDFEECTAGFRAK 182
Query: 762 YSTLSEEVVLNRELMVNVSISSSNNYCIEVVLRCLAV 798
Y + + + N EL + S ++N C E + + + V
Sbjct: 183 YLKDTVDRIYNGELNLEYIKSLNDNECHEELKKFMGV 219
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
0.319 0.134 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,909,772
Number of Sequences: 62578
Number of extensions: 1072500
Number of successful extensions: 2415
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: 2414
Number of HSP's gapped (non-prelim): 11
length of query: 938
length of database: 14,973,337
effective HSP length: 108
effective length of query: 830
effective length of database: 8,214,913
effective search space: 6818377790
effective search space used: 6818377790
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: 56 (26.2 bits)