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= 011023
(495 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SS9|A Chain A, Crystal Structural Analysis Of Active Site Mutant Q189e Of
Lgtc
Length = 311
Score = 42.7 bits (99), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 45/189 (23%), Positives = 78/189 (41%), Gaps = 26/189 (13%)
Query: 293 NPRYLSLLNHLRFYIPEIYPQLEKIVFLDDDVVVQKDLTPLFSLDLHGNVNGAVETCLEA 352
N R++S+ + R + E +K+++LD DV+V+ LTPL+ DL N GA C++
Sbjct: 75 NIRHISITTYARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGA---CIDL 131
Query: 353 FHRYYKYLNFSNPIISSKFDPQACGWAFGMNAFDLIAWRKANVTARYHYWQEQNADRTLW 412
F + + ++ A G+ +L WR+ ++ W EQ D +
Sbjct: 132 FVERQEGYKQKIGMADGEYYFNA-----GVLLINLKKWRRHDIFKMSCEWVEQYKDVMQY 186
Query: 413 KLGTLPPALLAFYGLTEPLDRRWHVLGLGYDMNIDNRL---------------IESAAVI 457
+ + L F G + R++ + Y + NR + AV
Sbjct: 187 QDEDILNGL--FKGGVCYANSRFNFMPTNYAF-MANRFASRHTDPLYRDRTNTVMPVAVS 243
Query: 458 HFNGNMKPW 466
H+ G KPW
Sbjct: 244 HYCGPAKPW 252
>pdb|1G9R|A Chain A, Crystal Structure Of Galactosyltransferase Lgtc In Complex
With Mn And Udp-2f-Galactose
pdb|1GA8|A Chain A, Crystal Structure Of Galacosyltransferase Lgtc In Complex
With Donor And Acceptor Sugar Analogs
Length = 311
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 32/53 (60%)
Query: 293 NPRYLSLLNHLRFYIPEIYPQLEKIVFLDDDVVVQKDLTPLFSLDLHGNVNGA 345
N R++S+ + R + E +K+++LD DV+V+ LTPL+ DL N GA
Sbjct: 75 NIRHISITTYARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGA 127
>pdb|2J9R|A Chain A, Thymidine Kinase From B. Anthracis In Complex With Dt
Length = 214
Score = 32.0 bits (71), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 46/103 (44%), Gaps = 5/103 (4%)
Query: 203 SVVVNSTITNADHPKQMVFHIVTNGVTYGAMQAWFLNNDFKGST--IEVQNIEEFSWLNA 260
++V I N + +V H NG+ A+ + FK T ++V I+E + +
Sbjct: 59 AIVFKPCIDNRYSEEDVVSH---NGLKVKAVPVSASKDIFKHITEEMDVIAIDEVQFFDG 115
Query: 261 SYAPIVKQLLNADSRAIYFGEYQDLRVEPKLRNPRYLSLLNHL 303
+V+ L N R I G QD R P + P+ +++ H+
Sbjct: 116 DIVEVVQVLANRGYRVIVAGLDQDFRGLPFGQVPQLMAIAEHV 158
>pdb|2VKD|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp-glc And
Manganese Ion
pdb|2VKD|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp-glc And
Manganese Ion
pdb|2VKD|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp-glc And
Manganese Ion
pdb|2VKH|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp-glc And
Calcium Ion
pdb|2VKH|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp-glc And
Calcium Ion
pdb|2VKH|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp-glc And
Calcium Ion
pdb|2VL8|A Chain A, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp,
Castanospermine And Calcium Ion
pdb|2VL8|B Chain B, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp,
Castanospermine And Calcium Ion
pdb|2VL8|C Chain C, Crystal Structure Of The Catalytic Domain Of Lethal Toxin
From Clostridium Sordellii In Complex With Udp,
Castanospermine And Calcium Ion
Length = 546
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 11/49 (22%)
Query: 256 SWLNASYAPIVKQLLNADSRAIYFGEYQDLRV-----------EPKLRN 293
++L +AP V+ +N +Y G YQDL + EP+LRN
Sbjct: 452 NYLKVGFAPDVRSTINLSGPGVYTGAYQDLLMFKDNSTNIHLLEPELRN 500
>pdb|2QZ9|A Chain A, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
Ii From Vibrio Cholerae
pdb|2QZ9|B Chain B, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
Ii From Vibrio Cholerae
pdb|2QZ9|C Chain C, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
Ii From Vibrio Cholerae
pdb|2R00|A Chain A, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
Ii Complexed With Asa From Vibrio Cholerae
pdb|2R00|B Chain B, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
Ii Complexed With Asa From Vibrio Cholerae
Length = 336
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 13/40 (32%)
Query: 242 FKGSTIEVQNIEEFSW-------------LNASYAPIVKQ 268
F G T+ VQN+EEF W L+A +API +
Sbjct: 48 FNGKTVRVQNVEEFDWSQVHIALFSAGGELSAKWAPIAAE 87
>pdb|2R00|C Chain C, Crystal Structure Of Aspartate Semialdehyde Dehydrogenase
Ii Complexed With Asa From Vibrio Cholerae
Length = 336
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 13/40 (32%)
Query: 242 FKGSTIEVQNIEEFSW-------------LNASYAPIVKQ 268
F G T+ VQN+EEF W L+A +API +
Sbjct: 48 FNGKTVRVQNVEEFDWSQVHIALFSAGGELSAKWAPIAAE 87
>pdb|2JA1|A Chain A, Thymidine Kinase From B. Cereus With Ttp Bound As
Phosphate Donor
Length = 197
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 5/103 (4%)
Query: 203 SVVVNSTITNADHPKQMVFHIVTNGVTYGAMQAWFLNNDFKGST--IEVQNIEEFSWLNA 260
++V I N + +V H NG+ A+ + F+ T ++V I+E + +
Sbjct: 41 AIVFKPCIDNRYSEEDVVSH---NGLKVKAVPVSASKDIFEHITEELDVIAIDEVQFFDG 97
Query: 261 SYAPIVKQLLNADSRAIYFGEYQDLRVEPKLRNPRYLSLLNHL 303
+V+ L N R I G QD R P + P+ +++ H+
Sbjct: 98 DIVEVVQVLANRGYRVIVAGLDQDFRGLPFGQVPQLMAIAEHV 140
>pdb|2EUA|A Chain A, Structure And Mechanism Of Menf, The Menaquinone-Specific
Isochorismate Synthase From Escherichia Coli
pdb|2EUA|B Chain B, Structure And Mechanism Of Menf, The Menaquinone-Specific
Isochorismate Synthase From Escherichia Coli
pdb|3BZM|A Chain A, Crystal Structure Of Open Form Of Menaquinone-Specific
Isochorismate Synthase, Menf
pdb|3BZN|A Chain A, Crystal Structure Of Open Form Of Menaquinone-Specific
Isochorismate Synthase, Menf
Length = 431
Score = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 383 NAFDLIAWRKANVTARYHYWQEQNADRTLWKLGTL 417
+AFD ++W + T YWQ++N D LG +
Sbjct: 36 DAFDALSWLASQQTYPQFYWQQRNGDEEAVVLGAI 70
>pdb|3KN5|A Chain A, Crystal Structure Of The C-Terminal Kinase Domain Of Msk1
In With Amp-Pnp
pdb|3KN5|B Chain B, Crystal Structure Of The C-Terminal Kinase Domain Of Msk1
In With Amp-Pnp
pdb|3KN6|A Chain A, Crystal Structure Of The C-Terminal Kinase Domain Of Msk1
pdb|3KN6|B Chain B, Crystal Structure Of The C-Terminal Kinase Domain Of Msk1
Length = 325
Score = 28.5 bits (62), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 332 PLFSLDLHGNVNGAVETCLEA-FHRYYKY 359
PL + D+ G+ AV TC++A FH + KY
Sbjct: 284 PLMTPDILGSSGAAVHTCVKATFHAFNKY 312
>pdb|3SPD|A Chain A, Crystal Structure Of Aprataxin Ortholog Hnt3 In Complex
With Dna
pdb|3SPD|B Chain B, Crystal Structure Of Aprataxin Ortholog Hnt3 In Complex
With Dna
pdb|3SPD|C Chain C, Crystal Structure Of Aprataxin Ortholog Hnt3 In Complex
With Dna
pdb|3SPD|D Chain D, Crystal Structure Of Aprataxin Ortholog Hnt3 In Complex
With Dna
pdb|3SPL|A Chain A, Crystal Structure Of Aprataxin Ortholog Hnt3 In Complex
With Dna And Amp
pdb|3SPL|B Chain B, Crystal Structure Of Aprataxin Ortholog Hnt3 In Complex
With Dna And Amp
pdb|3SPL|C Chain C, Crystal Structure Of Aprataxin Ortholog Hnt3 In Complex
With Dna And Amp
pdb|3SPL|D Chain D, Crystal Structure Of Aprataxin Ortholog Hnt3 In Complex
With Dna And Amp
Length = 204
Score = 28.5 bits (62), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 26/39 (66%), Gaps = 5/39 (12%)
Query: 296 YLSLLNHLRFYI--PEIYPQLEKIVFLDDDVVVQKDLTP 332
++S ++L+ YI PE Y + +++ DDDVV+ +D+ P
Sbjct: 3 HMSFRDNLKVYIESPESY---KNVIYYDDDVVLVRDMFP 38
>pdb|3SP4|A Chain A, Crystal Structure Of Aprataxin Ortholog Hnt3 From
Schizosaccharomyces Pombe
pdb|3SP4|B Chain B, Crystal Structure Of Aprataxin Ortholog Hnt3 From
Schizosaccharomyces Pombe
Length = 204
Score = 28.5 bits (62), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 26/39 (66%), Gaps = 5/39 (12%)
Query: 296 YLSLLNHLRFYI--PEIYPQLEKIVFLDDDVVVQKDLTP 332
++S ++L+ YI PE Y + +++ DDDVV+ +D+ P
Sbjct: 3 HMSFRDNLKVYIESPESY---KNVIYYDDDVVLVRDMFP 38
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
0.321 0.135 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,318,159
Number of Sequences: 62578
Number of extensions: 580220
Number of successful extensions: 1228
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1222
Number of HSP's gapped (non-prelim): 18
length of query: 495
length of database: 14,973,337
effective HSP length: 103
effective length of query: 392
effective length of database: 8,527,803
effective search space: 3342898776
effective search space used: 3342898776
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)