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= 017090
(377 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VFK|A Chain A, Akap18 Delta Central Domain - Amp
pdb|2VFL|A Chain A, Akap18 Delta Central Domain - Cmp
pdb|2VFY|A Chain A, Akap18 Delta Central Domain
Length = 205
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 44/175 (25%), Positives = 81/175 (46%), Gaps = 20/175 (11%)
Query: 204 TFHLTVLMLKLWNKDRVNAATNVLKSISSKVMDALDNRPLFIRLKGLDLMRGSKDKARIL 263
+FH+T+L+++L N+D VN T+ L + V + L+ + L + G+ +G +
Sbjct: 43 SFHITLLVMQLLNEDEVNIGTDALLELKPFVEEILEGKHLTLPFHGIGTFQGQVGFVK-- 100
Query: 264 YAPVEEIGDGDR---LLHACQVIIDAFNEAGLVFHRDYNKKLKLHATLMNIRHKKR--RK 318
+ DGD LL + F E G++ ++ K H T M + +K
Sbjct: 101 ------LADGDHVSALLEIAETAKRTFQEKGIL--AGESRTFKPHLTFMKLSKAPMLWKK 152
Query: 319 GTRRVDYFDARDIFKQFGSKEWGEYLIKEAHLSQRFVYDES-GFYHCCASIPFPE 372
G R+++ +++QF +GE ++ + L +S G+YHC +SI E
Sbjct: 153 GVRKIE----PGLYEQFIDHRFGEEILYQIDLCSMLKKKQSNGYYHCESSIVIGE 203
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 19/81 (23%)
Query: 28 IRFIKGKEGSTQKKFEKEMGVKII-------------------LPSSKKEDSIIIEGNST 68
+ + G G+T K EKE KI+ LP + ++ N+
Sbjct: 24 VGLLIGPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGRKDGQMLPGEDEPLHALVTANTM 83
Query: 69 DSVAKASEKIQAIIAEAVESP 89
++V KA E+I+ I+ + +E+P
Sbjct: 84 ENVKKAVEQIRNILKQGIETP 104
>pdb|3N75|A Chain A, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3N75|B Chain B, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3N75|C Chain C, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3N75|D Chain D, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3N75|E Chain E, X-Ray Crystal Structure Of The Escherichia Coli Inducible
Lysine Decarboxylase Ldci
pdb|3Q16|A Chain A, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
pdb|3Q16|B Chain B, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
pdb|3Q16|C Chain C, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
pdb|3Q16|D Chain D, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
pdb|3Q16|E Chain E, Linkage Between The Bacterial Acid Stress And Stringent
Responses: The Structure Of The Inducible Lysine
Decarboxylase
Length = 715
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 44/94 (46%), Gaps = 9/94 (9%)
Query: 39 QKKFEKEMGVKIILPSSKKEDSIIIEGNSTDSVAKASEKIQAIIAEAVESPSLDYSHFVS 98
++ F+ + VK +LPS +ED E +A+ K+ I+ + P L Y F
Sbjct: 557 KRAFDLNLRVKNMLPSLYREDPEFYENMRIQELAQNIHKL--IVHHNL--PDLMYRAFEV 612
Query: 99 LPLAVHPELVDKLVNFQNTILGIT-DVCLDENVG 131
LP V + FQ + G+T +V LDE VG
Sbjct: 613 LPTMV----MTPYAAFQKELHGMTEEVYLDEMVG 642
>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I
pdb|3AGQ|A Chain A, Structure Of Viral Polymerase Form Ii
pdb|3AVT|A Chain A, Structure Of Viral Rna Polymerase Complex 1
pdb|3AVU|A Chain A, Structure Of Viral Rna Polymerase Complex 2
pdb|3AVV|A Chain A, Structure Of Viral Rna Polymerase Complex 3
pdb|3AVW|A Chain A, Structure Of Viral Rna Polymerase Complex 4
pdb|3AVX|A Chain A, Structure Of Viral Rna Polymerase Complex 5
pdb|3AVY|A Chain A, Structure Of Viral Rna Polymerase Complex 6
pdb|3VNU|A Chain A, Complex Structure Of Viral Rna Polymerase I
pdb|3VNV|A Chain A, Complex Structure Of Viral Rna Polymerase Ii
pdb|4FWT|A Chain A, Complex Structure Of Viral Rna Polymerase Form Iii
Length = 1289
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 62/142 (43%), Gaps = 15/142 (10%)
Query: 22 QVGASVIRFIKGKEGSTQKKFEKEMGVKIILPSSKKEDSIIIEGNSTDSVAKASEKIQAI 81
++ AS+++ ++ + G+ M K L + + + IE KA++K +
Sbjct: 3 EITASLVKELRERTGAGM------MDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNV 56
Query: 82 IAEAVESPSLDYSHFVSLPLAVHPELVDKLVNFQNTILGITDVCLDENVGSKSNEDASDS 141
A+ V +D ++ + L + + V K FQ D LD V K +D
Sbjct: 57 AADGVIKTKIDGNYGIILEVNCQTDFVAKDAGFQ----AFADKVLDAAVAGK----ITDV 108
Query: 142 EEKEQQVDQEHKVAVELNIGDN 163
E + Q ++E +VA+ IG+N
Sbjct: 109 EVLKAQFEEE-RVALVAKIGEN 129
>pdb|2AAI|B Chain B, Crystallographic Refinement Of Ricin To 2.5 Angstroms
pdb|3RTI|B Chain B, Crystal Structure Of Ricin Bound With Formycin
Monophosphate
pdb|3RTJ|B Chain B, Crystal Structure Of Ricin Bound With Dinucleotide Apg
Length = 262
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 114 FQNTILGITDVCLDENVGSKSNEDASDSEEKEQQ 147
F TI+G+ +CL N G ED S SE+ EQQ
Sbjct: 140 FVTTIVGLYGLCLQANSGQVWIEDCS-SEKAEQQ 172
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
0.318 0.135 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,511,274
Number of Sequences: 62578
Number of extensions: 431556
Number of successful extensions: 1166
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1161
Number of HSP's gapped (non-prelim): 21
length of query: 377
length of database: 14,973,337
effective HSP length: 100
effective length of query: 277
effective length of database: 8,715,537
effective search space: 2414203749
effective search space used: 2414203749
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)