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= 010205
(515 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 = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 44/176 (25%), Positives = 79/176 (44%), Gaps = 21/176 (11%)
Query: 341 TFHLTVLMLKLWNKDRVNAATNVLKSISSKVMDALDNRPLFIRLKGLDLMRGSKDKARIL 400
+FH+T+L+++L N+D VN T+ L + V + L+ + L + G+ +G +
Sbjct: 43 SFHITLLVMQLLNEDEVNIGTDALLELKPFVEEILEGKHLTLPFHGIGTFQGQVGFVK-- 100
Query: 401 YAPVEEIGDGDR---LLHACQVIIDAFNEAGLVFHRDYNKKLKQLHATLMNIRHKKR--R 455
+ DGD LL + F E G++ K H T M + +
Sbjct: 101 ------LADGDHVSALLEIAETAKRTFQEKGILAGESRTFK---PHLTFMKLSKAPMLWK 151
Query: 456 KGTRRVDYFDARDIFKQFGSKEWGEYLIKEAHLSQRFVYDES-GFYHCCASIPFPE 510
KG R+++ +++QF +GE ++ + L +S G+YHC +SI E
Sbjct: 152 KGVRKIE----PGLYEQFIDHRFGEEILYQIDLCSMLKKKQSNGYYHCESSIVIGE 203
>pdb|1E0Y|A Chain A, Structure Of The D170sT457E DOUBLE MUTANT OF VANILLYL-
Alcohol Oxidase
pdb|1E0Y|B Chain B, Structure Of The D170sT457E DOUBLE MUTANT OF VANILLYL-
Alcohol Oxidase
Length = 560
Score = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 28/129 (21%), Positives = 57/129 (44%), Gaps = 8/129 (6%)
Query: 362 NVLKSISSKVMDALDNRPLFIRLKGLDLMRGSKDKARILYAPVEEIGDGDRLLHACQVII 421
N + + K M + P + LK +D + + A + ++P+ ++ D ++ V
Sbjct: 392 NSVLRVRDKTMQGI---PTYDELKWIDWL---PNGAHLFFSPIAKVSGEDAMMQYA-VTK 444
Query: 422 DAFNEAGLVFHRDYNKKLKQLHATLMNIRHKKRRKGTRRVDYFDARDIFKQFGSKEWGEY 481
EAGL F ++ ++++H + + +KK R+V + R + + WGEY
Sbjct: 445 KRCQEAGLDFIGEFTVGMREMHHIVCIVFNKKDLIQKRKVQWL-MRTLIDDCAANGWGEY 503
Query: 482 LIKEAHLSQ 490
A + Q
Sbjct: 504 RTHLAFMDQ 512
>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 = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 44/94 (46%), Gaps = 9/94 (9%)
Query: 176 QKKFEKEMGVKIILPSSKKEDSIIIEGNSTDSVAKASEKIQAIIAEAVESPSLDYSHFVS 235
++ F+ + VK +LPS +ED E +A+ K+ I+ + P L Y F
Sbjct: 557 KRAFDLNLRVKNMLPSLYREDPEFYENMRIQELAQNIHKL--IVHHNL--PDLMYRAFEV 612
Query: 236 LPLAVHPELVDKLVNFQNTILGIT-DVCLDENVG 268
LP V + FQ + G+T +V LDE VG
Sbjct: 613 LPTMV----MTPYAAFQKELHGMTEEVYLDEMVG 642
>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 = 0.99, Method: Composition-based stats.
Identities = 20/76 (26%), Positives = 34/76 (44%), Gaps = 19/76 (25%)
Query: 170 GKEGSTQKKFEKEMGVKII-------------------LPSSKKEDSIIIEGNSTDSVAK 210
G G+T K EKE KI+ LP + ++ N+ ++V K
Sbjct: 29 GPRGNTLKNIEKECNAKIMIRGKGSVKEGKVGRKDGQMLPGEDEPLHALVTANTMENVKK 88
Query: 211 ASEKIQAIIAEAVESP 226
A E+I+ I+ + +E+P
Sbjct: 89 AVEQIRNILKQGIETP 104
>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 = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 34/142 (23%), Positives = 62/142 (43%), Gaps = 15/142 (10%)
Query: 159 EVGASVIRFIKGKEGSTQKKFEKEMGVKIILPSSKKEDSIIIEGNSTDSVAKASEKIQAI 218
E+ AS+++ ++ + G+ M K L + + + IE KA++K +
Sbjct: 3 EITASLVKELRERTGAGM------MDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNV 56
Query: 219 IAEAVESPSLDYSHFVSLPLAVHPELVDKLVNFQNTILGITDVCLDENVGSKSNEDASDS 278
A+ V +D ++ + L + + V K FQ D LD V K +D
Sbjct: 57 AADGVIKTKIDGNYGIILEVNCQTDFVAKDAGFQ----AFADKVLDAAVAGK----ITDV 108
Query: 279 EEKEQQVDQEHKVAVELNIGDN 300
E + Q ++E +VA+ IG+N
Sbjct: 109 EVLKAQFEEE-RVALVAKIGEN 129
>pdb|3MMP|A Chain A, Structure Of The Qb Replicase, An Rna-Dependent Rna
Polymerase Consisting Of Viral And Host Proteins
pdb|3MMP|C Chain C, Structure Of The Qb Replicase, An Rna-Dependent Rna
Polymerase Consisting Of Viral And Host Proteins
Length = 678
Score = 28.5 bits (62), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 34/142 (23%), Positives = 62/142 (43%), Gaps = 15/142 (10%)
Query: 159 EVGASVIRFIKGKEGSTQKKFEKEMGVKIILPSSKKEDSIIIEGNSTDSVAKASEKIQAI 218
E+ AS+++ ++ + G+ M K L + + + IE KA++K +
Sbjct: 3 EITASLVKELRERTGAGM------MDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNV 56
Query: 219 IAEAVESPSLDYSHFVSLPLAVHPELVDKLVNFQNTILGITDVCLDENVGSKSNEDASDS 278
A+ V +D ++ + L + + V K FQ D LD V K +D
Sbjct: 57 AADGVIKTKIDGNYGIILEVNCQTDFVAKDAGFQ----AFADKVLDAAVAGK----ITDV 108
Query: 279 EEKEQQVDQEHKVAVELNIGDN 300
E + Q ++E +VA+ IG+N
Sbjct: 109 EVLKAQFEEE-RVALVAKIGEN 129
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 0.132 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,282,251
Number of Sequences: 62578
Number of extensions: 580279
Number of successful extensions: 1427
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1420
Number of HSP's gapped (non-prelim): 28
length of query: 515
length of database: 14,973,337
effective HSP length: 103
effective length of query: 412
effective length of database: 8,527,803
effective search space: 3513454836
effective search space used: 3513454836
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: 54 (25.4 bits)