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= 003725
(800 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 33/156 (21%), Positives = 65/156 (41%), Gaps = 11/156 (7%)
Query: 354 LSLHGEMTSIGIKTNYVVSVILKCLCQMGKTSEAIKKFKEFKSMGIFLDQVCYNVIMDAL 413
LS + +I ++ L + G EA++ + E + G+ L Q YNV++ +
Sbjct: 12 LSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLL-YV 70
Query: 414 CKLGE----------VEEAVKLFNEMEGRQIVPDVANYTTVIDGYILRGKLVDAIGLFKK 463
C L E + +F +M ++VP+ A +T + + A + K+
Sbjct: 71 CSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQ 130
Query: 464 MREMGHKPDIKAYNVLARGLAQYGSVRDALDCLKYM 499
M+ G +P +++Y G + G A + +M
Sbjct: 131 MKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM 166
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 34/155 (21%), Positives = 60/155 (38%), Gaps = 26/155 (16%)
Query: 206 KCGEVDMVLVLYEEMKSVGFSLNQFTYDIVIKALCKLARFEEAFDVLNEMNKAGVTLHGH 265
K G+V L LY+E + G L+Q+ Y++++ +C LA E A +
Sbjct: 38 KKGDVLEALRLYDEARRNGVQLSQYHYNVLL-YVCSLA--EAATES-------------- 80
Query: 266 NYSTIIQGLCENGRLDVGYDLLLKWSENGIPLNAFAYTAVIREFCQNSRLVEAESVLLRM 325
N L G+D+ + + + N +T R A ++ +M
Sbjct: 81 ---------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQM 131
Query: 326 KQLRVTPDKYVYSALISGYCKCGNIIKALSLHGEM 360
K + P Y + G+C+ G+ KA + M
Sbjct: 132 KAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHM 166
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 34.7 bits (78), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 30/151 (19%), Positives = 60/151 (39%), Gaps = 11/151 (7%)
Query: 354 LSLHGEMTSIGIKTNYVVSVILKCLCQMGKTSEAIKKFKEFKSMGIFLDQVCYNVIMDAL 413
LS + +I ++ L + G EA++ + E + G+ L Q YNV++ +
Sbjct: 12 LSRKAKKKAIQQSPEALLKQKLDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLL-YV 70
Query: 414 CKLGE----------VEEAVKLFNEMEGRQIVPDVANYTTVIDGYILRGKLVDAIGLFKK 463
C L E + +F + ++VP+ A +T + + A K+
Sbjct: 71 CSLAEAATESSPNPGLSRGFDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQ 130
Query: 464 MREMGHKPDIKAYNVLARGLAQYGSVRDALD 494
+ G +P +++Y G + G A +
Sbjct: 131 XKAFGIQPRLRSYGPALFGFCRKGDADKAYE 161
>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha.
pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha
Length = 388
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 53/187 (28%), Positives = 83/187 (44%), Gaps = 40/187 (21%)
Query: 328 LRVTPDKY-VYSALISGYCKCGNIIKALSLHGE-----MTSIGIKTNYVVSVI-LKCLCQ 380
L+ PD Y V S L GN++KAL E + +I + N+ V+ L C+
Sbjct: 128 LQYNPDLYCVRSDL-------GNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFN 180
Query: 381 -MGKTSEAIKKFKEFKSMGIFLDQVCYNVIMDALCKLGEVEEAVKLFNE-----MEGRQI 434
G+ AI F++ + LD +DA LG V + ++F+ + +
Sbjct: 181 AQGEIWLAIHHFEK----AVTLDPN----FLDAYINLGNVLKEARIFDRAVAAYLRALSL 232
Query: 435 VPDVANYTTVIDG-----YILRGKLVDAIGLFKKMREM-GHKPDIKAYNVLARGLAQYGS 488
P+ A V+ G Y +G + AI +++ E+ H PD AY LA L + GS
Sbjct: 233 SPNHA----VVHGNLACVYYEQGLIDLAIDTYRRAIELQPHFPD--AYCNLANALKEKGS 286
Query: 489 VRDALDC 495
V +A DC
Sbjct: 287 VAEAEDC 293
>pdb|2WQB|A Chain A, Structure Of The Tie2 Kinase Domain In Complex With A
Thiazolopyrimidine Inhibitor
Length = 324
Score = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 53/137 (38%), Gaps = 17/137 (12%)
Query: 383 KTSEAIKKFKEFKSMGIFLDQVCYNVIMDALCKLGEVEEAVKLFNEMEGRQIVPDVANYT 442
+ AIK+ KE+ S D + ++ LCKLG + L E R Y
Sbjct: 49 RMDAAIKRMKEYASKD---DHRDFAGELEVLCKLGHHPNIINLLGACEHR-------GYL 98
Query: 443 TVIDGYILRGKLVDAIGLFKKMREMGHKPDIKAYNVLARGLAQYGSVRDALDCLKYM--- 499
+ Y G L+D +K R + P N A L+ + A D + M
Sbjct: 99 YLAIEYAPHGNLLD---FLRKSRVLETDPAFAIANSTASTLSSQQLLHFAADVARGMDYL 155
Query: 500 -KKQGVKPNVITHNMII 515
+KQ + N+ N+++
Sbjct: 156 SQKQFIHRNLAARNILV 172
>pdb|1B02|A Chain A, Crystal Structure Of Thymidylate Synthase A From Bacillus
Subtilis
Length = 279
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 267 YSTIIQGLCENGRLDVGYDLLLKWSENGIPLNAFA 301
Y++II+ + NG D +D+ KW +G P + +
Sbjct: 8 YNSIIKDIINNGISDEEFDVRTKWDSDGTPAHTLS 42
>pdb|1BKO|A Chain A, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BKO|B Chain B, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BKO|C Chain C, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BKO|D Chain D, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BKP|A Chain A, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BKP|B Chain B, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BSF|A Chain A, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BSF|B Chain B, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BSP|A Chain A, Thermostable Thymidylate Synthase A From Bacillus Subtilis
pdb|1BSP|B Chain B, Thermostable Thymidylate Synthase A From Bacillus Subtilis
Length = 278
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 20/35 (57%)
Query: 267 YSTIIQGLCENGRLDVGYDLLLKWSENGIPLNAFA 301
Y++II+ + NG D +D+ KW +G P + +
Sbjct: 7 YNSIIKDIINNGISDEEFDVRTKWDSDGTPAHTLS 41
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
0.324 0.139 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,575,049
Number of Sequences: 62578
Number of extensions: 902655
Number of successful extensions: 2921
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2908
Number of HSP's gapped (non-prelim): 20
length of query: 800
length of database: 14,973,337
effective HSP length: 107
effective length of query: 693
effective length of database: 8,277,491
effective search space: 5736301263
effective search space used: 5736301263
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 55 (25.8 bits)