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= 047717
(303 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3A4L|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4L|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3AM1|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Anticodon-StemLOOP TRUNCATED TRNA(SEC)
Length = 260
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 46/104 (44%), Gaps = 4/104 (3%)
Query: 70 SVSKDNIIIVDSLNSIKGYRYELWCLARAAGIRYCVLYCDLEEDHCRKWNKERHEKGEAA 129
S K+ +IVD N R +L +A+ Y ++Y D + N ER EK
Sbjct: 68 SALKNYWVIVDDTNYYNSMRRDLINIAKKYNKNYAIIYLKASLDVLIRRNIERGEKIPNE 127
Query: 130 YDDKIFEDLVRRFEKPDRRNRWDSPLFELCPYKDAIENSSAAIL 173
K++E +F++P ++ +WD P + KD N A L
Sbjct: 128 VIKKMYE----KFDEPGKKYKWDEPFLIIDTTKDIDFNEIAKKL 167
>pdb|3ADB|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 1)
pdb|3ADB|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 1)
pdb|3ADC|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 2)
pdb|3ADC|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 2)
pdb|3ADD|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 3)
pdb|3ADD|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 3)
Length = 259
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 45/104 (43%), Gaps = 4/104 (3%)
Query: 70 SVSKDNIIIVDSLNSIKGYRYELWCLARAAGIRYCVLYCDLEEDHCRKWNKERHEKGEAA 129
S K+ +IVD N R +L +A+ Y ++Y D + N ER EK
Sbjct: 75 SALKNYWVIVDDTNYYNSXRRDLINIAKKYNKNYAIIYLKASLDVLIRRNIERGEKIPNE 134
Query: 130 YDDKIFEDLVRRFEKPDRRNRWDSPLFELCPYKDAIENSSAAIL 173
K +E +F++P ++ +WD P + KD N A L
Sbjct: 135 VIKKXYE----KFDEPGKKYKWDEPFLIIDTTKDIDFNEIAKKL 174
>pdb|4AT7|B Chain B, Crystal Structure Of The Nf90-Nf45 Dimerisation Domain
Complex
pdb|4AT8|B Chain B, Crystal Structure Of The Nf90-Nf45 Dimerisation Domain
Complex With Atp
pdb|4AT8|D Chain D, Crystal Structure Of The Nf90-Nf45 Dimerisation Domain
Complex With Atp
pdb|4AT9|B Chain B, Crystal Structure Of The Nf90-Nf45 Dimerisation Domain
Complex With Utp
pdb|4ATB|B Chain B, Crystal Structure Of The Nf90-Nf45 Dimerisation Domain
Complex With Ctp
pdb|4ATB|D Chain D, Crystal Structure Of The Nf90-Nf45 Dimerisation Domain
Complex With Ctp
Length = 383
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 32/65 (49%), Gaps = 9/65 (13%)
Query: 62 VLRSEVDRSVSKDNIIIVDS---------LNSIKGYRYELWCLARAAGIRYCVLYCDLEE 112
V+R E+++ ++ + + + D L ++ R+ W ARA G++ CV+ +
Sbjct: 177 VVREEMEKVLAGETLSVNDPPDVLDRQKCLAALASLRHAKWFQARANGLKSCVIVIRVLR 236
Query: 113 DHCRK 117
D C +
Sbjct: 237 DLCTR 241
>pdb|2F8L|A Chain A, Crystal Structure Of A Putative Class I
S-Adenosylmethionine-Dependent Methyltransferase
(Lmo1582) From Listeria Monocytogenes At 2.20 A
Resolution
Length = 344
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 19/35 (54%)
Query: 176 VAYLTKKVDSKSRDVKILQPTIATQNTRFSEANSL 210
VAYL +KV K ++V IL P T N + N L
Sbjct: 118 VAYLLEKVIQKKKNVSILDPACGTANLLTTVINQL 152
>pdb|3CHJ|A Chain A, Crystal Structure Of Alpha-14 Giardin
pdb|3CHK|A Chain A, Calcium Bound Structure Of Alpha-14 Giardin
pdb|3CHL|A Chain A, Crystal Structure Of Alpha-14 Giardin With Magnesium Bound
Length = 337
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 207 ANSLYELDRATQEVINAVVEAQSKALGGPMNGISLGQGLPNISISRSVGLPELRRLRRTF 266
AN Y++ V+ VVEA + L I I+RS +LR ++RTF
Sbjct: 2 ANKNYQMSTGVTAVVQKVVEACQDE----------SKRLDLIEIARSYPPNQLRNMQRTF 51
Query: 267 IKLTG 271
+TG
Sbjct: 52 QAITG 56
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 0.134 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,614,399
Number of Sequences: 62578
Number of extensions: 290623
Number of successful extensions: 748
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 745
Number of HSP's gapped (non-prelim): 6
length of query: 303
length of database: 14,973,337
effective HSP length: 98
effective length of query: 205
effective length of database: 8,840,693
effective search space: 1812342065
effective search space used: 1812342065
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: 51 (24.3 bits)