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= psy12707
(245 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KEW|A Chain A, Crystal Structure Of Probable Alanyl-Trna-Synthase From
Clostridium Perfringens
pdb|3KEW|B Chain B, Crystal Structure Of Probable Alanyl-Trna-Synthase From
Clostridium Perfringens
Length = 241
Score = 118 bits (296), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 84/230 (36%), Positives = 123/230 (53%), Gaps = 13/230 (5%)
Query: 11 LKEYKSKVVSCKRNETRPTEYHVRMEDTIFFPTGGGQHCDKGTLGGVEVVDVYRDGDEAV 70
+KE+K +++ K + + +HV ++ T FFP GGGQ D G + G++V+DVY + +
Sbjct: 13 IKEFKGEIIEVKEIDGK---FHVLLDQTAFFPGGGGQMGDLGLIDGIKVLDVYEEEGKVY 69
Query: 71 HVVNKEFQVGELLDMKIDWAHRLDQTQQHTGQHLLSAVIDKMFGYDTESWNCGSDVCDVE 130
HV+ KE + + L ++DW R D QQH GQHLLS +FG +T ++ G ++ V+
Sbjct: 70 HVLEKEPKKLKNLQCELDWERRFDGMQQHLGQHLLSGCFYDLFGANTCGFHLGKEISTVD 129
Query: 131 LATKDKDLTEADIAAIEQECNNKIRQGVKVWASEYQPGDPALKTAHT-RGLPKDHKGSIR 189
+ L E I E+E N I + ++V Y P LK T R LPK + IR
Sbjct: 130 IVG---FLDEKTIREAEKEANRLIFENLEV--KSYAPSKKELKKVKTRRALPKTDE-EIR 183
Query: 190 IVHIDGIDNNMCCGTHVDNISQLQSIKLLKTTRAQKSKSLCIYLYLLGRR 239
IV I G+D N CCG H N LQ IK+ R +K K+ Y+ G R
Sbjct: 184 IVEIVGLDLNACCGVHPRNTRDLQVIKI---RRWEKHKNATRIEYVAGNR 230
>pdb|2E1B|A Chain A, Crystal Structure Of The Alax-M Trans-Editing Enzyme From
Pyrococcus Horikoshii
Length = 216
Score = 93.6 bits (231), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 73/232 (31%), Positives = 110/232 (47%), Gaps = 39/232 (16%)
Query: 4 LCQRNCSLKEYKSKVVSCKRNETRPTEYHVRMEDTIFFPTGGGQHCDKGTLGGVEVVDVY 63
L + LKE K +V+ + N + ++ TIF+PTGGGQ D+GT+ GVEV+DVY
Sbjct: 8 LYYEDAYLKEAKGRVLEIRDNA-------ILLDQTIFYPTGGGQPHDRGTINGVEVLDVY 60
Query: 64 RDGDEAV-HVVN--KEFQVGELLDMKIDWAHRLDQTQQHTGQHLLSAVIDKMFGYDTESW 120
+D + V HVV ++F+VG+ +++KIDW +R + HTG HLL V++++ G +W
Sbjct: 61 KDEEGNVWHVVKEPEKFKVGDEVELKIDWDYRYKLMRIHTGLHLLEHVLNEVLG--EGNW 118
Query: 121 NCGSDVCDVELATKDKDLTEADIAAIEQEC---NNKIRQG--VKVWASEYQPGDPALKTA 175
VE D E EQ N + +G VK+W
Sbjct: 119 QLVGSGMSVEKGRYDIAYPENLNKYKEQIISLFNKYVDEGGEVKIWW------------- 165
Query: 176 HTRGLPKDHKGSIRIVHIDGIDNNMCCGTHVDNISQLQSIKLLKTTRAQKSK 227
+G R I + C GTHV +I ++ IK LK + + K
Sbjct: 166 ---------EGDRRYTQIRDFEVIPCGGTHVKDIKEIGHIKKLKRSSIGRGK 208
>pdb|2ZZF|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain
pdb|2ZZG|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
Oligomerization Domain
pdb|2ZZG|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
Oligomerization Domain
Length = 752
Score = 77.8 bits (190), Expect = 4e-15, Method: Composition-based stats.
Identities = 69/239 (28%), Positives = 111/239 (46%), Gaps = 33/239 (13%)
Query: 11 LKEYKSKVVSCKRNETRPTEYHVRMEDTIFFPTGGGQHCDKGTL----GGVEVVDVYRDG 66
+KE+ +KV+ R + V ++ T F+P GGGQ D G L V+V +V + G
Sbjct: 526 MKEFDAKVL-------RVIKDWVILDATAFYPEGGGQPYDTGVLIVNGREVKVTNVQKVG 578
Query: 67 DEAVHVVNK--EFQVGELLDMKIDWAHRLDQTQQHTGQHLLSAVIDKMFGYDTESWNCGS 124
+H V F+ G ++ KIDW R+ + HTG H+L + ++ G W GS
Sbjct: 579 KVIIHKVEDPGAFKEGMIVHGKIDWKRRIQHMRHHTGTHVLMGALVRVLG--RHVWQAGS 636
Query: 125 DVCDVELATKD----KDLTEADIAAIEQECNNKIRQGVKV-WASEYQPGDPALKTAHTRG 179
+ + A D K ++E ++ IE N + + KV W E+ P TA +
Sbjct: 637 QLT-TDWARLDISHYKRISEEELKEIEMLANRIVMEDRKVTW--EWLP----RTTAEQKY 689
Query: 180 LPKDHKG------SIRIVHIDGIDNNMCCGTHVDNISQLQSIKLLKTTRAQKSKSLCIY 232
+ ++G IR+V I+ D C GTH+ + + IK+L+T R Q I+
Sbjct: 690 GFRLYQGGVVPGREIRVVKIEDWDVQACGGTHLPSTGLVGPIKILRTERIQDGVERIIF 748
>pdb|2ZZE|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain In Lysine-Methylated Form
pdb|2ZZE|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain In Lysine-Methylated Form
Length = 752
Score = 53.5 bits (127), Expect = 1e-07, Method: Composition-based stats.
Identities = 58/220 (26%), Positives = 88/220 (40%), Gaps = 32/220 (14%)
Query: 33 VRMEDTIFFPTGGGQHCDKGTL----GGVEVVDVYRDGDEAVHVVNK--EFQVGELLDMK 86
V ++ T F+P GGGQ D G L V V +V G +H V F G ++
Sbjct: 541 VILDATAFYPEGGGQPYDTGVLIVNGREVXVTNVQXVGXVIIHXVEDPGAFXEGMIVHGX 600
Query: 87 IDWAHRLDQTQQHTGQHLLSAVIDKMFGYDTESWNCGSDVCDVELATKDKDLTEADIAAI 146
IDW R+ + HTG H+L + ++ G W GS +L T D DI+
Sbjct: 601 IDWXRRIQHMRHHTGTHVLMGALVRVLG--RHVWQAGS-----QLTT---DWARLDISHY 650
Query: 147 EQ----------ECNNKIRQGVKVWASEYQPGDPALKTAHTR----GLPKDHKGSIRIVH 192
+ N+I + E+ P A + R G+ + IR+V
Sbjct: 651 XRISEEELXEIEMLANRIVMEDRXVTWEWLPRTTAEQXYGFRLYQGGVVPGRE--IRVVX 708
Query: 193 IDGIDNNMCCGTHVDNISQLQSIKLLKTTRAQKSKSLCIY 232
I+ D GTH+ + + I +L+T R Q I+
Sbjct: 709 IEDWDVQAXGGTHLPSTGLVGPIXILRTERIQDGVERIIF 748
>pdb|2ZTG|A Chain A, Crystal Structure Of Archaeoglobus Fulgidus Alanyl-Trna
Synthetase Lacking The C-Terminal Dimerization Domain In
Complex With Ala-Sa
Length = 739
Score = 47.8 bits (112), Expect = 6e-06, Method: Composition-based stats.
Identities = 56/229 (24%), Positives = 93/229 (40%), Gaps = 29/229 (12%)
Query: 10 SLKEYKSKVVSCKRNETRPTEYHVRMEDTIFFPTGGGQHCDKGTL----GGVEVVDVYRD 65
+L E++++V+ + + V + + F+P GGQ D G L G EVVDV
Sbjct: 513 TLLEFEAEVIGVEGD-------FVILNRSAFYPESGGQDNDVGYLIANGGKFEVVDVLEA 565
Query: 66 GDEAVHVVN-KEFQVGELLDMKIDWAHRLDQTQQHTGQHLLSAVIDKMFGYDTESWNCGS 124
+HVV + +VG + ID R + H+ H+L + K+ G W G+
Sbjct: 566 DGVVLHVVKGAKPEVGTKVKGVIDSDVRWRHXRHHSATHVLLYSLQKVLG--NHVWQAGA 623
Query: 125 ---------DVCDVELATKDKDLTEADIAAIEQECNNKIRQGVKVWASEYQPGDPALKTA 175
DV ++++ +A E N I+ W +
Sbjct: 624 RKEFSKARLDVTHFRRPSEEEIKEIEXLANREILANKPIKWE---WXDRIEAERKFGFRL 680
Query: 176 HTRGLPKDHKGSIRIVHIDGIDNNMCCGTHVDNISQLQSIKLLKTTRAQ 224
+ G+P K IR+V + G D C GTH + ++ +K+LK Q
Sbjct: 681 YQGGVPPGRK--IRVVQV-GDDVQACGGTHCRSTGEIGXLKILKVESIQ 726
>pdb|1V4P|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase From
Pyrococcus Horikoshii Ot3
pdb|1V4P|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase From
Pyrococcus Horikoshii Ot3
pdb|1V4P|C Chain C, Crystal Structure Of Alanyl-Trna Synthetase From
Pyrococcus Horikoshii Ot3
pdb|1WXO|A Chain A, Structure Of Archaeal Trans-Editing Protein Alax In
Complex With Zinc
pdb|1WXO|B Chain B, Structure Of Archaeal Trans-Editing Protein Alax In
Complex With Zinc
pdb|1WXO|C Chain C, Structure Of Archaeal Trans-Editing Protein Alax In
Complex With Zinc
Length = 157
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 69/151 (45%), Gaps = 13/151 (8%)
Query: 95 QTQQHTGQHLLSAVIDKMFGYDTESWNCGSDVCD---VELATKDKDLTEADIAAIEQECN 151
+ + H+ H++ + K+ G + + W + V V + D+ ++ +I IE+ N
Sbjct: 5 EVRTHSALHVVKGAVVKVLGSEAK-WTYSTYVKGNKGVLIVKFDRKPSDEEIREIERLAN 63
Query: 152 NKIRQGVKVWASEYQPGDPALKTA-----HTRGLPKDHKGSIRIVHIDGIDNNMCCGTHV 206
K+++ + E P + A K +P+D + +++V I+ + N C H
Sbjct: 64 EKVKENAPIKIYEL-PREEAEKMFGEDMYDLFPVPEDVR-ILKVVVIEDWNVNACNKEHT 121
Query: 207 DNISQLQSIKLLKTTRAQKSKSLC-IYLYLL 236
++ IK+ K R +KSK L I+ LL
Sbjct: 122 KTTGEIGPIKIRK-VRFRKSKGLLEIHFELL 151
>pdb|1V7O|A Chain A, Alanyl-Trna Synthetase Editing Domain Homologue Protein
From Pyrococcus Horikoshii
pdb|1V7O|B Chain B, Alanyl-Trna Synthetase Editing Domain Homologue Protein
From Pyrococcus Horikoshii
pdb|1WNU|A Chain A, Structure Of Archaeal Trans-Editing Protein Alax In
Complex With L- Serine
pdb|1WNU|B Chain B, Structure Of Archaeal Trans-Editing Protein Alax In
Complex With L- Serine
Length = 165
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 69/151 (45%), Gaps = 13/151 (8%)
Query: 95 QTQQHTGQHLLSAVIDKMFGYDTESWNCGSDVCD---VELATKDKDLTEADIAAIEQECN 151
+ + H+ H++ + K+ G + + W + V V + D+ ++ +I IE+ N
Sbjct: 5 EVRTHSALHVVKGAVVKVLGSEAK-WTYSTYVKGNKGVLIVKFDRKPSDEEIREIERLAN 63
Query: 152 NKIRQGVKVWASEYQPGDPALKTA-----HTRGLPKDHKGSIRIVHIDGIDNNMCCGTHV 206
K+++ + E P + A K +P+D + +++V I+ + N C H
Sbjct: 64 EKVKENAPIKIYEL-PREEAEKXFGEDXYDLFPVPEDVR-ILKVVVIEDWNVNACNKEHT 121
Query: 207 DNISQLQSIKLLKTTRAQKSKSLC-IYLYLL 236
++ IK+ K R +KSK L I+ LL
Sbjct: 122 KTTGEIGPIKIRK-VRFRKSKGLLEIHFELL 151
>pdb|3RHU|A Chain A, Epitope Backbone Grafting By Computational Design For
Improved Presentation Of Linear Epitopes On Scaffold
Proteins
pdb|3RHU|B Chain B, Epitope Backbone Grafting By Computational Design For
Improved Presentation Of Linear Epitopes On Scaffold
Proteins
Length = 160
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 62/144 (43%), Gaps = 12/144 (8%)
Query: 95 QTQQHTGQHLLSAVIDKMFGYDTESWNCGSDVCDVELATKDKDLTEAD---IAAIEQECN 151
+ + H+ H++ + K G D + W + V + K E D IAAIE N
Sbjct: 5 EVRTHSALHVVKGAVVKTAGSDAK-WTTSTYVKGNKGVLIVKAALEPDKWGIAAIEALAN 63
Query: 152 NKIRQGVKVWASEYQPGDPALKT-----AHTRGLPKDHKGSIRIVHIDGIDNNMCCGTHV 206
K+++ + E P + A K +P+D + +++V I+ + N C H
Sbjct: 64 EKVKENAPIKIYEL-PREEAEKMFGEDMYDLFPVPEDVR-ILKVVVIEDWNVNACNKEHT 121
Query: 207 DNISQLQSIKLLKTTRAQKSKSLC 230
++ IK+ K R +KSK L
Sbjct: 122 KTTGEIGPIKIRK-VRFRKSKGLL 144
>pdb|1QF6|A Chain A, Structure Of E. Coli Threonyl-Trna Synthetase Complexed
With Its Cognate Trna
Length = 642
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 57/144 (39%), Gaps = 29/144 (20%)
Query: 90 AHRLDQTQQHTGQHLLSAVIDKMFGYDTESWNCGSDVCDVELATKDKDLTEADIAAIEQE 149
H + Q HT + + VID F YD + D+ LT+ D+ A+E+
Sbjct: 80 GHAIKQLWPHT-KMAIGPVIDNGFYYDVDL---------------DRTLTQEDVEALEKR 123
Query: 150 CNNKIRQGVKVWASEYQPGDPALKTAHTRGLPKDHKGSI---RIVHIDGID-------NN 199
+ + V + + A +T RG + +K SI I H D +
Sbjct: 124 MHELAEKNYDVIKKKVSWHE-ARETFANRG--ESYKVSILDENIAHDDKPGLYFHEEYVD 180
Query: 200 MCCGTHVDNISQLQSIKLLKTTRA 223
MC G HV N+ KL+KT A
Sbjct: 181 MCRGPHVPNMRFCHHFKLMKTAGA 204
>pdb|1NYQ|A Chain A, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With An Analogue Of Threonyl
Adenylate
pdb|1NYQ|B Chain B, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With An Analogue Of Threonyl
Adenylate
pdb|1NYR|A Chain A, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With Atp
pdb|1NYR|B Chain B, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With Atp
Length = 645
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 28/137 (20%), Positives = 59/137 (43%), Gaps = 18/137 (13%)
Query: 98 QHTGQHLLSAVIDKMFG---YDTESWNCGSDVCDVELATKDKDLTEADIAAIEQECNNKI 154
+H+ HL++ I +++G + G D ++ D++++ D IE+ +
Sbjct: 74 RHSTAHLMAHAIKRLYGNVKFGVGPVIEGGFYYDFDI---DQNISSDDFEQIEKTMKQIV 130
Query: 155 RQGVKVW--------ASEYQPGDPALKTAHTRGLPKDHKGSIRIVHIDGIDNNMCCGTHV 206
+ +K+ A E D K +P+D ++ + G ++C G HV
Sbjct: 131 NENMKIERKVVSRDEAKELFSND-EYKLELIDAIPEDENVTL---YSQGDFTDLCRGVHV 186
Query: 207 DNISQLQSIKLLKTTRA 223
+ ++++ KLL T A
Sbjct: 187 PSTAKIKEFKLLSTAGA 203
>pdb|1TJE|A Chain A, Crystal Structure Of The Editing Domain Of Threonyl-Trna
Synthetase
pdb|1TKE|A Chain A, Crystal Structure Of The Editing Domain Of Threonyl-trna
Synthetase Complexed With Serine
pdb|1TKG|A Chain A, Crystal Structure Of The Editing Domain Of Threonyl-Trna
Synthetase Complexed With An Analog Of Seryladenylate
pdb|1TKY|A Chain A, Crystal Structure Of The Editing Domain Of Threonyl-trna
Synthetase Complexed With Seryl-3'-aminoadenosine
Length = 224
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 57/144 (39%), Gaps = 29/144 (20%)
Query: 90 AHRLDQTQQHTGQHLLSAVIDKMFGYDTESWNCGSDVCDVELATKDKDLTEADIAAIEQE 149
H + Q HT + + VID F YD + D+ LT+ D+ A+E+
Sbjct: 80 GHAIKQLWPHT-KMAIGPVIDNGFYYDVDL---------------DRTLTQEDVEALEKR 123
Query: 150 CNNKIRQGVKVWASEYQPGDPALKTAHTRGLPKDHKGSI---RIVHIDGID-------NN 199
+ + V + + A +T RG + +K SI I H D +
Sbjct: 124 MHELAEKNYDVIKKKVSWHE-ARETFANRG--ESYKVSILDENIAHDDKPGLYFHEEYVD 180
Query: 200 MCCGTHVDNISQLQSIKLLKTTRA 223
MC G HV N+ KL+KT A
Sbjct: 181 MCRGPHVPNMRFCHHFKLMKTAGA 204
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
0.319 0.135 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,499,968
Number of Sequences: 62578
Number of extensions: 320543
Number of successful extensions: 607
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 594
Number of HSP's gapped (non-prelim): 14
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)